BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-012763
(1312 letters)
Database: RefSeqSP
1040 sequences; 434,620 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 39 5e-09
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 45 5e-08
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 38 5e-07
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 38.5 bits (88), Expect(2) = 5e-09
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GFIL 776
P+ D TF+ L P + YTC V+H L P+T+ W P ++ I G +L
Sbjct: 256 PSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRWDPPQPPVP--IVGIIVGLVL 313
Query: 777 SLL--CVAAGLFIYSQNQKG 830
L+ V G+ I+ + G
Sbjct: 314 VLVTGAVVTGVVIWRKKCSG 333
Score = 35.8 bits (81), Expect(2) = 5e-09
Identities = 27/129 (20%), Positives = 54/129 (41%), Gaps = 5/129 (3%)
Frame = +2
Query: 194 CHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTD 373
C+ +R ++ Y+G +Y+ + D+ + V + + + W ++ EQ +
Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAY 180
Query: 374 VDTVC---RHNY*IS*TFLVPRRAEPK--VTVYPAKTQPLHHHNLQVCSVTGFYPSHVKV 538
++ C H Y + + R PK VT +P+ + C GFYP + +
Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVTLR----CWALGFYPKEISL 236
Query: 539 RWFQNGRQE 565
W Q G+ +
Sbjct: 237 TWQQEGQDQ 245
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 45.1 bits (105), Expect(2) = 5e-08
Identities = 25/82 (30%), Positives = 41/82 (50%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GFIL 776
PN D +F L Y C V+H L P+T+E +P+ S+ ++ + GF+L
Sbjct: 252 PNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSSMPVVGIMV-GFLL 310
Query: 777 SLLCVAAGLFIYSQNQKGRPAP 842
L+ G ++ + +KG PAP
Sbjct: 311 LLIVAGGGALLWRRMRKGLPAP 332
Score = 25.8 bits (55), Expect(2) = 5e-08
Identities = 23/108 (21%), Positives = 43/108 (39%), Gaps = 5/108 (4%)
Frame = +2
Query: 248 NGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCRHNY*IS*TFLVP 427
NG+E++ F + +G + R W + D + +++T + C H L
Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHRLL---GHLER 192
Query: 428 RRA-----EPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNG 556
R EP A+ ++ C FYP +++R+ +NG
Sbjct: 193 GRGNLEWKEPPSMRMKARPGTAPGFSVLTCIAFSFYPPELQLRFLRNG 240
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 37.7 bits (86), Expect(2) = 5e-07
Identities = 14/39 (35%), Positives = 24/39 (61%)
Frame = +3
Query: 600 NEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEW 716
++DW+F +V E P + + Y+CRV+H L P ++W
Sbjct: 76 SKDWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
Score = 29.6 bits (65), Expect(2) = 5e-07
Identities = 15/45 (33%), Positives = 22/45 (48%)
Frame = +2
Query: 440 PKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNGRQEVAE 574
PKV VY N C V+GF+P +++ +NG + AE
Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE 69
Database: RefSeqSP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 434,620
Number of sequences in database: 1040
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,292,059
Number of Sequences: 1040
Number of extensions: 34182
Number of successful extensions: 110
Number of sequences better than 1.0e-05: 3
Number of HSP's better than 0.0 without gapping: 92
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 109
length of database: 434,620
effective HSP length: 79
effective length of database: 352,460
effective search space used: 125828220
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqBP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-012763
(1312 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 195 2e-84
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 165 3e-73
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 158 5e-65
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 154 8e-63
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 141 9e-59
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 143 3e-57
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 132 4e-49
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 112 4e-40
Alignment gi|NP_001035571.1| major histocompatibility complex, class II, ... 47 9e-10
Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 44 4e-08
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 195 bits (495), Expect(2) = 2e-84
Identities = 90/138 (65%), Positives = 107/138 (77%)
Frame = +2
Query: 158 PHRISCFWGRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWN 337
PH + + G +CHFFN TERVR LDR+FYNG+E+V F SD GEFR VT GRP+ ++WN
Sbjct: 34 PHFLEYYKG--ECHFFNGTERVRFLDRHFYNGEEFVRFDSDWGEFRAVTELGRPAAEHWN 91
Query: 338 SQKDFMEQKQTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGF 517
SQKDF+EQK+ +VD VCRHNY +F V RR EP VTVYPAKTQPL HHNL VCSV GF
Sbjct: 92 SQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTVYPAKTQPLQHHNLLVCSVNGF 151
Query: 518 YPSHVKVRWFQNGRQEVA 571
YP H++VRWF+NG +E A
Sbjct: 152 YPGHIEVRWFRNGHEEEA 169
Score = 137 bits (345), Expect(2) = 2e-84
Identities = 65/91 (71%), Positives = 75/91 (82%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST LI N DWTFQTMVMLET+PQSGEVYTC+V+HP TSP+T+EWRA SDSAQ MMS
Sbjct: 171 VISTGLIQNGDWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL +A GLFIY +NQKGRP P
Sbjct: 231 GVGGFVLGLLFLAVGLFIYFRNQKGRPTLQP 261
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 165 bits (417), Expect(2) = 3e-73
Identities = 82/138 (59%), Positives = 92/138 (66%)
Frame = +2
Query: 158 PHRISCFWGRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWN 337
PH I F G +C F N ER+R RY YN E VHF SDVGEF +T GR +YWN
Sbjct: 23 PHFIHQFKG--ECRFSNGLERMRFFARYIYNTQEDVHFDSDVGEFTALTELGRLDAEYWN 80
Query: 338 SQKDFMEQKQTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGF 517
QKDFMEQ + VDT+CR NY +FL RR EP VTVYPAKTQPL HHNL VCSV GF
Sbjct: 81 QQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVYPAKTQPLQHHNLLVCSVNGF 140
Query: 518 YPSHVKVRWFQNGRQEVA 571
YP H++VRWF N +E A
Sbjct: 141 YPGHIEVRWFWNSHEEEA 158
Score = 129 bits (325), Expect(2) = 3e-73
Identities = 62/91 (68%), Positives = 74/91 (81%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST LI N DWTFQTMVMLET+PQSGEVYTC+VEHP TSP+T+EWRA SDSAQ +MS
Sbjct: 160 VISTGLIQNGDWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMS 219
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
GI GF+L LL + GLFI+ +++KG PA P
Sbjct: 220 GIGGFVLGLLFLGVGLFIHLRSKKGHPALQP 250
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 158 bits (400), Expect(2) = 5e-65
Identities = 72/126 (57%), Positives = 90/126 (71%)
Frame = +2
Query: 194 CHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTD 373
C+F N TERVR + RY YN +EYV F SD +R +T GRP +YWNSQKDF+EQ + +
Sbjct: 47 CYFTNGTERVRYVTRYIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAE 106
Query: 374 VDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQN 553
DTVCRHNY + RR EP VT+ P++T+ L+HHNL VCSVT FYPS +KVRWF+N
Sbjct: 107 ADTVCRHNYQAELITSLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRN 166
Query: 554 GRQEVA 571
R+E A
Sbjct: 167 DREETA 172
Score = 108 bits (271), Expect(2) = 5e-65
Identities = 51/85 (60%), Positives = 64/85 (75%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQ +VMLE PQ G+VYTC VEHP L SP+ +EWRA S+SAQ M+S
Sbjct: 174 VVSTPLIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLS 233
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKG 830
G+ GF+L L+ + GL I+ ++QKG
Sbjct: 234 GVGGFVLGLIFLGLGLIIHHRSQKG 258
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 154 bits (389), Expect(2) = 8e-63
Identities = 69/126 (54%), Positives = 91/126 (72%)
Frame = +2
Query: 194 CHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTD 373
C+F N TERVR + RY YN +E ++ SDVGE+R VT GR +YWNSQKD +EQ + +
Sbjct: 47 CYFTNGTERVRYVTRYIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAE 106
Query: 374 VDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQN 553
+DTVCRHNY + + R+ EP VT+ ++T+ L+HHNL VCSVT FYP +KVRWFQN
Sbjct: 107 LDTVCRHNYQLEVITSLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQN 166
Query: 554 GRQEVA 571
G++E A
Sbjct: 167 GKEETA 172
Score = 105 bits (263), Expect(2) = 8e-63
Identities = 48/85 (56%), Positives = 64/85 (75%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
+VST LI N DWTFQ +VMLE P+ G+VYTC VEHP L SP+++EWRA S+SAQ M+S
Sbjct: 174 IVSTPLIRNGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLS 233
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKG 830
G+ GF+L L+ + GL + ++QKG
Sbjct: 234 GVGGFVLGLIFLGLGLIVRRRSQKG 258
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 141 bits (356), Expect(2) = 9e-59
Identities = 65/130 (50%), Positives = 86/130 (66%)
Frame = +2
Query: 182 GRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQ 361
G+ +CHF N T++VR LDRY YN +E V F S VGE+R T GRP+ + WN +++
Sbjct: 4 GKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQR 63
Query: 362 KQTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVR 541
+ V C NY + V RR +P VTVYP K++PL HHNL VCSV GFYP H++VR
Sbjct: 64 ARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVR 123
Query: 542 WFQNGRQEVA 571
WF+NG++E A
Sbjct: 124 WFRNGQEEEA 133
Score = 105 bits (261), Expect(2) = 9e-59
Identities = 50/79 (63%), Positives = 58/79 (73%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LIPN DWTFQ MVMLE +PQ GEVY C VEHP TSPVT+EWRA +S+Q+ M+S
Sbjct: 135 VVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEKMLS 194
Query: 756 GI*GFILSLLCVAAGLFIY 812
GI +L LL + GL Y
Sbjct: 195 GIGACVLGLLFLGMGLLFY 213
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 143 bits (361), Expect(2) = 3e-57
Identities = 69/129 (53%), Positives = 88/129 (68%)
Frame = +2
Query: 194 CHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTD 373
C+F N TE VRL+ R YN +E +HF SD+GEF VT GR + WN+QKD + + +
Sbjct: 45 CYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAY 104
Query: 374 VDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQN 553
VDT+CRHNY + F V RR EP VTV PA T+ L+HHNL VCSVT FYP VKV+WF+N
Sbjct: 105 VDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRN 164
Query: 554 GRQEVAEGG 580
+++ A G
Sbjct: 165 QQEQTAGVG 173
Score = 98.2 bits (243), Expect(2) = 3e-57
Identities = 44/76 (57%), Positives = 56/76 (73%)
Frame = +3
Query: 585 TCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI* 764
T L N DWT+Q VMLET+PQ G+VY C V+HP L SP+T+EWRA S+SAQ M SGI
Sbjct: 175 TPLTQNGDWTYQIHVMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGIG 234
Query: 765 GFILSLLCVAAGLFIY 812
GF+L L+ + GLF++
Sbjct: 235 GFVLGLIFLGVGLFVH 250
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 132 bits (333), Expect(2) = 4e-49
Identities = 61/129 (47%), Positives = 84/129 (65%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
DC+F N TE+VR + R+ +N ++Y F SD+G F +T G+P + WN++ D + + +
Sbjct: 40 DCYFTNGTEKVRFVVRFIFNLEDYARFDSDLGMFVALTELGKPDAERWNNRPDILARSRA 99
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
VD +CR NY + F V RR +P+VTVYP KT L H NL +C VTGFYP +KV WF+
Sbjct: 100 SVDMLCRRNYYLGAPFTVGRRVQPEVTVYPEKTPALQHRNLLLCLVTGFYPGDIKVTWFR 159
Query: 551 NGRQEVAEG 577
NG QE EG
Sbjct: 160 NG-QEQREG 167
Score = 81.6 bits (200), Expect(2) = 4e-49
Identities = 43/102 (42%), Positives = 61/102 (59%), Gaps = 3/102 (2%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
++ST LI N DWTFQ VML P+ GEVYTC V+HP L SPV++EWRA S+ + ++S
Sbjct: 168 IMSTGLIRNGDWTFQMTVMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILS 227
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGR---PAPSPRAS*AEVP 872
G F++ L+ + ++ + KGR P P A +P
Sbjct: 228 GAAAFLVGLVFFLVEIVVHIRAWKGRVETPLPGNEVPRAVLP 269
>ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-7 beta chain precursor (MHC class I antigen DRB1*7)
(DR-7) (DR7) [Bos taurus]
Length = 347
Score = 112 bits (281), Expect(2) = 4e-40
Identities = 55/91 (60%), Positives = 65/91 (71%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST LI N DWTF+T+VMLET+ QSGEVYTC++EHP SP+ EWRA SDSAQ MMS
Sbjct: 142 VISTGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMS 201
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G GF L LL + GLF + +NQKG P
Sbjct: 202 GTGGFALGLLFLVVGLFTHFRNQKGHSGLQP 232
Score = 71.6 bits (174), Expect(2) = 4e-40
Identities = 31/48 (64%), Positives = 38/48 (79%)
Frame = +2
Query: 428 RRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNGRQEVA 571
++ EP VTVYPAKTQPL H++L VCSV GFY HV+VRWF G++E A
Sbjct: 93 KKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEA 140
>ref|NP_001035571.1| major histocompatibility complex, class II, DM beta-chain,
expressed [Bos taurus]
Length = 262
Score = 46.6 bits (109), Expect(2) = 9e-10
Identities = 25/72 (34%), Positives = 37/72 (51%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GFIL 776
PN DWT+QT+ L T P G+ YTC VEH + +W AQ + +S +
Sbjct: 168 PNGDWTYQTVSHLATTPSFGDTYTCVVEHIGAPELILQDWTPGLLPAQTVKVS------V 221
Query: 777 SLLCVAAGLFIY 812
+L+ + GL I+
Sbjct: 222 ALVTLVLGLIIF 233
Score = 35.4 bits (80), Expect(2) = 9e-10
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Frame = +2
Query: 449 TVYPAKTQPLHHHN--LQVCSVTGFYPSHVKVRWFQNGRQEVAEG 577
TV AKT P + + C V GFYP+ V + W +NG++ + G
Sbjct: 116 TVQVAKTTPFNTRESVMLACYVWGFYPADVAITWRRNGQEVLPHG 160
>ref|NP_001012399.1| hemochromatosis [Bos taurus]
Length = 356
Score = 44.3 bits (103), Expect(2) = 4e-08
Identities = 25/73 (34%), Positives = 39/73 (53%)
Frame = +3
Query: 591 LIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GF 770
++PN D T+Q V L +P + Y+C+VEHP L P+T W S +++G
Sbjct: 264 VLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW---EPSLSGTLVTG---- 316
Query: 771 ILSLLCVAAGLFI 809
ILS + V +F+
Sbjct: 317 ILSGIAVCVIIFL 329
Score = 32.0 bits (71), Expect(2) = 4e-08
Identities = 21/110 (19%), Positives = 42/110 (38%), Gaps = 4/110 (3%)
Frame = +2
Query: 236 RYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCRHNY*IS*T 415
+Y Y+G +++ F + ++R + + W K +Q + +D C
Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQL----L 200
Query: 416 FLVPRRAEPKVTVYPAKTQPLHHHNLQV----CSVTGFYPSHVKVRWFQN 553
L+ P P + HH + C FYP ++ +RW ++
Sbjct: 201 HLLELGRGPLEQQVPPLVKVTHHVTSSLTTLRCRALNFYPQNITIRWLKD 250
Database: RefSeqBP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 16,112,626
Number of sequences in database: 33,508
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,863,746
Number of Sequences: 33508
Number of extensions: 1340487
Number of successful extensions: 4301
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3669
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4295
length of database: 16,112,626
effective HSP length: 104
effective length of database: 12,627,794
effective search space used: 4192427608
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqHP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-012763
(1312 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 185 5e-79
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 181 6e-77
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 179 1e-76
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 179 1e-76
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 176 2e-76
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 172 4e-73
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 157 1e-65
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 179 1e-62
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 154 6e-61
Alignment gi|NP_002111.1| major histocompatibility complex, class II, DO ... 142 8e-54
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 185 bits (469), Expect(2) = 5e-79
Identities = 83/129 (64%), Positives = 101/129 (78%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHFFN TERVRLL+R YN +E V F SDVGE+R VT GRP +YWNSQKD +EQ+
Sbjct: 41 KFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQR 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ VDT CRHNY + +F V RR EPKVTVYP+KTQPL HHNL VCSV+GFYP ++VRW
Sbjct: 101 RAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRW 160
Query: 545 FQNGRQEVA 571
F+NG++E A
Sbjct: 161 FRNGQEEKA 169
Score = 129 bits (324), Expect(2) = 5e-79
Identities = 61/91 (67%), Positives = 74/91 (81%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP +TSP+T+EWRA S+SAQ M+S
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG P
Sbjct: 231 GVGGFVLGLLFLGAGLFIYFRNQKGHSGLQP 261
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 181 bits (459), Expect(2) = 6e-77
Identities = 81/129 (62%), Positives = 100/129 (77%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHFFN TERVR LDRYF+N +E++ F SDVGE+R VT GRP + WNSQKD +EQK
Sbjct: 41 KSECHFFNGTERVRYLDRYFHNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQK 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ VD CRHNY + +F V RR P+VTVYPAKTQPL HHNL VCSV+GFYP ++VRW
Sbjct: 101 RGRVDNYCRHNYGVGESFTVQRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRW 160
Query: 545 FQNGRQEVA 571
F+NG++E A
Sbjct: 161 FRNGQEEKA 169
Score = 126 bits (316), Expect(2) = 6e-77
Identities = 60/91 (65%), Positives = 73/91 (80%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP +TS +T+EWRA S+SAQ M+S
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG P
Sbjct: 231 GVGGFVLGLLFLGAGLFIYFRNQKGHSGLQP 261
>ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 2 [Homo sapiens]
Length = 284
Score = 179 bits (454), Expect(2) = 1e-76
Identities = 81/129 (62%), Positives = 100/129 (77%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHFFN TERVR L R YN +E V F SDVGE+R VT GRP + WNSQKDF+E++
Sbjct: 59 KFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERR 118
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ +VDTVCRHNY + +F V RR P+VTVYPAKTQPL HHNL VCSV+GFYP ++VRW
Sbjct: 119 RAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRW 178
Query: 545 FQNGRQEVA 571
F+NG++E A
Sbjct: 179 FRNGQEEKA 187
Score = 127 bits (318), Expect(2) = 1e-76
Identities = 60/91 (65%), Positives = 73/91 (80%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP + SP+T+EWRA S+SAQ M+S
Sbjct: 189 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 248
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG P
Sbjct: 249 GVGGFVLGLLFLGAGLFIYFRNQKGHSGLQP 279
>ref|XP_945926.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 1 [Homo sapiens]
Length = 266
Score = 179 bits (454), Expect(2) = 1e-76
Identities = 81/129 (62%), Positives = 100/129 (77%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHFFN TERVR L R YN +E V F SDVGE+R VT GRP + WNSQKDF+E++
Sbjct: 41 KFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERR 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ +VDTVCRHNY + +F V RR P+VTVYPAKTQPL HHNL VCSV+GFYP ++VRW
Sbjct: 101 RAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRW 160
Query: 545 FQNGRQEVA 571
F+NG++E A
Sbjct: 161 FRNGQEEKA 169
Score = 127 bits (318), Expect(2) = 1e-76
Identities = 60/91 (65%), Positives = 73/91 (80%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP + SP+T+EWRA S+SAQ M+S
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG P
Sbjct: 231 GVGGFVLGLLFLGAGLFIYFRNQKGHSGLQP 261
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 176 bits (446), Expect(2) = 2e-76
Identities = 79/129 (61%), Positives = 97/129 (75%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+++CHFFN TERVR L R YN +E + F SDVGE+R VT GRP +YWNSQKDF+E +
Sbjct: 41 KYECHFFNGTERVRFLHRDIYNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDR 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ VDT CRHNY + +F V RR EPKVTVYPA+TQ L HHNL VCSV GFYP ++VRW
Sbjct: 101 RAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRW 160
Query: 545 FQNGRQEVA 571
F+N ++E A
Sbjct: 161 FRNSQEEKA 169
Score = 129 bits (324), Expect(2) = 2e-76
Identities = 61/91 (67%), Positives = 74/91 (81%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP +TSP+T+EWRA S+SAQ M+S
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG P
Sbjct: 231 GVGGFVLGLLFLGAGLFIYFKNQKGHSGLHP 261
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 172 bits (436), Expect(2) = 4e-73
Identities = 75/127 (59%), Positives = 98/127 (77%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
+CHF N TERV L RY YN +EY ++SD+GE++ VT GRP +YWNSQKD +E+++
Sbjct: 43 ECHFLNGTERVWNLIRYIYNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRA 102
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
+VDT CR+NY + +F V RR +PKVTVYP+KTQPL HHNL VCSV GFYP ++VRWF+
Sbjct: 103 EVDTYCRYNYGVVESFTVQRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFR 162
Query: 551 NGRQEVA 571
NG++E A
Sbjct: 163 NGQEEKA 169
Score = 122 bits (306), Expect(2) = 4e-73
Identities = 57/91 (62%), Positives = 71/91 (78%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP + SP+T++W A S+SAQ M+S
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + GLFIY +NQKG P
Sbjct: 231 GVGGFVLGLLFLGTGLFIYFRNQKGHSGLQP 261
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 157 bits (398), Expect(2) = 1e-65
Identities = 72/126 (57%), Positives = 92/126 (73%)
Frame = +2
Query: 194 CHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTD 373
C+F N TERVRL+ R YN +E V F SDVGEFR VT G P+ +YWNSQKD +E+K+
Sbjct: 47 CYFTNGTERVRLVSRSIYNREEIVRFDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAA 106
Query: 374 VDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQN 553
VD VCRHNY + + RR EP VT+ P++T+ L+HHNL VCSVT FYP+ +KVRWF+N
Sbjct: 107 VDRVCRHNYQLELRTTLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRN 166
Query: 554 GRQEVA 571
++E A
Sbjct: 167 DQEETA 172
Score = 111 bits (278), Expect(2) = 1e-65
Identities = 53/85 (62%), Positives = 65/85 (76%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQ +VMLE PQ G+VYTC VEHP L SP+T+EWRA S+SAQ M+S
Sbjct: 174 VVSTPLIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLS 233
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKG 830
GI GF+L L+ + GL I+ ++QKG
Sbjct: 234 GIGGFVLGLIFLGLGLIIHHRSQKG 258
>ref|XP_949921.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 3 [Homo sapiens]
Length = 325
Score = 179 bits (454), Expect(2) = 1e-62
Identities = 81/129 (62%), Positives = 100/129 (77%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHFFN TERVR L R YN +E V F SDVGE+R VT GRP + WNSQKDF+E++
Sbjct: 41 KFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERR 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ +VDTVCRHNY + +F V RR P+VTVYPAKTQPL HHNL VCSV+GFYP ++VRW
Sbjct: 101 RAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRW 160
Query: 545 FQNGRQEVA 571
F+NG++E A
Sbjct: 161 FRNGQEEKA 169
Score = 80.1 bits (196), Expect(2) = 1e-62
Identities = 35/47 (74%), Positives = 42/47 (89%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEW 716
VVST LI N DWTFQT+VMLET+P+SGEVYTC+VEHP + SP+T+EW
Sbjct: 171 VVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEW 217
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 154 bits (389), Expect(2) = 6e-61
Identities = 70/132 (53%), Positives = 91/132 (68%)
Frame = +2
Query: 176 FWGRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFM 355
F GR +C+ FN T+R L+RY YN +E+ F SDVGEFR VT GRP+ +YWNSQKD +
Sbjct: 38 FQGRQECYAFNGTQR--FLERYIYNREEFARFDSDVGEFRAVTELGRPAAEYWNSQKDIL 95
Query: 356 EQKQTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVK 535
E+K+ D +CRHNY + + RR +P+V V P+K PL HHNL VC VT FYP ++
Sbjct: 96 EEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPSKKGPLQHHNLLVCHVTDFYPGSIQ 155
Query: 536 VRWFQNGRQEVA 571
VRWF NG++E A
Sbjct: 156 VRWFLNGQEETA 167
Score = 99.8 bits (247), Expect(2) = 6e-61
Identities = 46/84 (54%), Positives = 62/84 (73%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQ +VMLE PQ G+VYTC+VEH L SPVT+EW+A SDSA+ ++
Sbjct: 169 VVSTNLIRNGDWTFQILVMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228
Query: 756 GI*GFILSLLCVAAGLFIYSQNQK 827
G GF+L L+ G+F++ +++K
Sbjct: 229 GAGGFVLGLIICGVGIFMHRRSKK 252
>ref|NP_002111.1| major histocompatibility complex, class II, DO beta precursor [Homo
sapiens]
Length = 273
Score = 142 bits (358), Expect(2) = 8e-54
Identities = 64/127 (50%), Positives = 88/127 (69%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
DC+F N TE+V+ + R+ +N +EYV F SDVG F +T G+P + WNS+ D +E+ +
Sbjct: 40 DCYFTNGTEKVQFVVRFIFNLEEYVRFDSDVGMFVALTKLGQPDAEQWNSRLDLLERSRQ 99
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
VD VCRHNY + F V R+ +P+VTVYP +T LH HNL CSVTGFYP +K++WF
Sbjct: 100 AVDGVCRHNYRLGAPFTVGRKVQPEVTVYPERTPLLHQHNLLHCSVTGFYPGDIKIKWFL 159
Query: 551 NGRQEVA 571
NG++E A
Sbjct: 160 NGQEERA 166
Score = 87.8 bits (216), Expect(2) = 8e-54
Identities = 44/85 (51%), Positives = 58/85 (68%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST I N DWTFQT+VMLE P+ G VYTC V+H L SPV++EWRA S+ + M+S
Sbjct: 168 VMSTGPIRNGDWTFQTVVMLEMTPELGHVYTCLVDHSSLLSPVSVEWRAQSEYSWRKMLS 227
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKG 830
GI F+L L+ + G+ I + QKG
Sbjct: 228 GIAAFLLGLIFLLVGIVIQLRAQKG 252
Database: RefSeqHP
Posted date: Aug 2, 2006 12:57 AM
Number of letters in database: 17,774,539
Number of sequences in database: 39,411
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 55,527,120
Number of Sequences: 39411
Number of extensions: 1566241
Number of successful extensions: 5296
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4375
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 5280
length of database: 17,774,539
effective HSP length: 105
effective length of database: 13,636,384
effective search space used: 4513643104
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqCP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-012763
(1312 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 168 5e-77
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 162 3e-66
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 141 9e-55
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 141 3e-48
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 46 3e-08
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 39 4e-06
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 39 4e-06
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 37 4e-06
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 168 bits (426), Expect(3) = 5e-77
Identities = 75/129 (58%), Positives = 95/129 (73%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +C+F N TERVR ++RY +N +E+V F SDVGEFR VT GRP + WN QK+ +EQ+
Sbjct: 41 KSECYFTNGTERVRFVERYIHNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQE 100
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ VDT CRHNY + +F V RR EP VTVYP KTQ L HHNL VCSV GFYP H++VRW
Sbjct: 101 RATVDTYCRHNYGVIESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRW 160
Query: 545 FQNGRQEVA 571
+NG++E A
Sbjct: 161 LRNGQEEEA 169
Score = 130 bits (327), Expect(3) = 5e-77
Identities = 64/91 (70%), Positives = 72/91 (79%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQ +VMLE +PQSGEVYTC+VEHP LTSPVT+EWRA SDSAQ M+S
Sbjct: 171 VVSTGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLS 230
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
GI GF+L LL +A GLFIY +NQKG P
Sbjct: 231 GIGGFVLGLLFLAVGLFIYFRNQKGHSGLQP 261
Score = 30.0 bits (66), Expect(3) = 5e-77
Identities = 15/42 (35%), Positives = 18/42 (42%)
Frame = +1
Query: 64 MLHLCFS*GFWXXXXXXXXXXXXXXXXXXRDTPPHFLFLGKA 189
M+ LCF G W RDTPPHFL + K+
Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKS 42
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 162 bits (409), Expect(3) = 3e-66
Identities = 73/132 (55%), Positives = 96/132 (72%)
Frame = +2
Query: 176 FWGRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFM 355
F + +C+F N TERVRLL +Y YN +E+V F SDVGEFR VT GRP +YWN QKD M
Sbjct: 41 FQYKAECYFTNGTERVRLLTKYIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEM 100
Query: 356 EQKQTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVK 535
++ + ++DTVCRHNY + RR EP VT++P+KT+ L+HHNL VCSVT FYP +K
Sbjct: 101 DRVRAELDTVCRHNYGREELTTLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIK 160
Query: 536 VRWFQNGRQEVA 571
VRWF+N +++ A
Sbjct: 161 VRWFRNDQEQTA 172
Score = 106 bits (265), Expect(3) = 3e-66
Identities = 52/91 (57%), Positives = 64/91 (70%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
VVST LI N DWTFQ +VMLE PQ G+VYTC VEH L SP+T++WRA S+SAQ M+S
Sbjct: 174 VVSTPLIRNGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLS 233
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
GI GF+L L+ + GL I ++QKG P
Sbjct: 234 GIGGFVLGLIFLGLGLIIRHRSQKGSRGSPP 264
Score = 24.3 bits (51), Expect(3) = 3e-66
Identities = 12/39 (30%), Positives = 14/39 (35%)
Frame = +1
Query: 73 LCFS*GFWXXXXXXXXXXXXXXXXXXRDTPPHFLFLGKA 189
LC GFW RD+P F+F KA
Sbjct: 7 LCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKA 45
>ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
1 [Canis familiaris]
Length = 270
Score = 141 bits (355), Expect(2) = 9e-55
Identities = 59/125 (47%), Positives = 86/125 (68%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
DC+F N TE+V+ + R+ +N +EY F S VG F +T G+P + WNSQ +E+ +
Sbjct: 40 DCYFINGTEKVQFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRA 99
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
VD +CRHNY + F V R+ +P+VTVYP +T + HHNL +CSVTGFYP +K++WF+
Sbjct: 100 SVDLLCRHNYELGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFR 159
Query: 551 NGRQE 565
NG++E
Sbjct: 160 NGQEE 164
Score = 92.4 bits (228), Expect(2) = 9e-55
Identities = 47/85 (55%), Positives = 58/85 (68%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST LI N DWTFQTMVMLE P+ G+VYTC V HP L SPV++EWRA S + M+S
Sbjct: 168 VMSTGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLS 227
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKG 830
GI F+L L+ + G I + QKG
Sbjct: 228 GIAAFLLGLIFLLVGTVICLRAQKG 252
>ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
2 [Canis familiaris]
Length = 228
Score = 141 bits (355), Expect(2) = 3e-48
Identities = 59/125 (47%), Positives = 86/125 (68%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
DC+F N TE+V+ + R+ +N +EY F S VG F +T G+P + WNSQ +E+ +
Sbjct: 40 DCYFINGTEKVQFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRA 99
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
VD +CRHNY + F V R+ +P+VTVYP +T + HHNL +CSVTGFYP +K++WF+
Sbjct: 100 SVDLLCRHNYELGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFR 159
Query: 551 NGRQE 565
NG++E
Sbjct: 160 NGQEE 164
Score = 70.5 bits (171), Expect(2) = 3e-48
Identities = 32/47 (68%), Positives = 37/47 (78%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEW 716
V+ST LI N DWTFQTMVMLE P+ G+VYTC V HP L SPV++EW
Sbjct: 168 VMSTGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214
>ref|XP_849737.1| PREDICTED: similar to HLA class II histocompatibility antigen, DM
beta chain precursor (MHC class II antigen DMB) [Canis
familiaris]
Length = 263
Score = 46.2 bits (108), Expect(2) = 3e-08
Identities = 27/78 (34%), Positives = 36/78 (46%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GFIL 776
PN DWT+QT+ L T P + YTC VEH PV +W P S + + G L
Sbjct: 168 PNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAPEPVCEDW-TPGLSPMQTVKVSVSGVTL 226
Query: 777 SLLCVAAGLFIYSQNQKG 830
L + L + S + G
Sbjct: 227 GLGFIIFSLGLLSWRRAG 244
Score = 31.2 bits (69), Expect(2) = 3e-08
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Frame = +2
Query: 449 TVYPAKTQPLHHHN--LQVCSVTGFYPSHVKVRWFQNGR 559
TV AK+ P + + C V GFYP+ V + W +NG+
Sbjct: 116 TVQVAKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQ 154
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 38.9 bits (89), Expect(2) = 4e-06
Identities = 17/51 (33%), Positives = 28/51 (54%)
Frame = +3
Query: 564 KWRRVVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEW 716
K + T L ++DWTF +V E P + ++CRV+H L+ P ++W
Sbjct: 71 KEMKAEQTDLSFSKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121
Score = 31.2 bits (69), Expect(2) = 4e-06
Identities = 14/45 (31%), Positives = 23/45 (51%)
Frame = +2
Query: 440 PKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNGRQEVAE 574
PK+ VY N C V+GF+P +++ +NG++ AE
Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAE 76
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris]
Length = 125
Score = 38.9 bits (89), Expect(2) = 4e-06
Identities = 17/51 (33%), Positives = 28/51 (54%)
Frame = +3
Query: 564 KWRRVVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEW 716
K + T L ++DWTF +V E P + ++CRV+H L+ P ++W
Sbjct: 71 KEMKAEQTDLSFSKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121
Score = 31.2 bits (69), Expect(2) = 4e-06
Identities = 14/45 (31%), Positives = 23/45 (51%)
Frame = +2
Query: 440 PKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNGRQEVAE 574
PK+ VY N C V+GF+P +++ +NG++ AE
Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAE 76
>ref|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein precursor
(Zn-alpha-2-glycoprotein) (Zn-alpha-2-GP) [Canis
familiaris]
Length = 315
Score = 37.0 bits (84), Expect(2) = 4e-06
Identities = 27/119 (22%), Positives = 54/119 (45%), Gaps = 4/119 (3%)
Frame = +2
Query: 236 RYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCR---HNY*I 406
RY Y+G ++ F+ ++ + + K W +++ ++++ + ++ C Y
Sbjct: 136 RYAYDGRNFIEFNKEIPAWVPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLE 195
Query: 407 S*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ-NGRQEVAEGG 580
+ R+ P V++ T P L+ C V+GFYP + + W Q + QE GG
Sbjct: 196 YGKTYLDRQEPPSVSITSHGT-PEGIQTLK-CWVSGFYPQEIDLHWIQADDTQETKSGG 252
Score = 32.7 bits (73), Expect(2) = 4e-06
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Frame = +3
Query: 591 LIPNEDWTFQTMVMLETIPQ--SGEVYTCRVEHPILTSPVTMEW 716
L+P+ + T+Q V++ PQ + Y+C V+H L+ P+T+ W
Sbjct: 254 LLPSGNNTYQAWVVMSASPQDLASFSYSCLVKHSSLSQPLTVLW 297
Database: RefSeqCP
Posted date: Aug 1, 2006 9:25 PM
Number of letters in database: 19,266,565
Number of sequences in database: 33,732
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 57,405,125
Number of Sequences: 33732
Number of extensions: 1575312
Number of successful extensions: 4937
Number of sequences better than 1.0e-05: 8
Number of HSP's better than 0.0 without gapping: 4150
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4932
length of database: 19,266,565
effective HSP length: 106
effective length of database: 15,690,973
effective search space used: 5178021090
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqMP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-012763
(1312 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 176 4e-76
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 143 3e-61
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 143 1e-59
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 131 1e-48
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 49 9e-10
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 47 8e-09
Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 43 4e-07
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 40 8e-07
Alignment gi|XP_919400.1| PREDICTED: similar to histocompatibility 2, T r... 37 1e-06
Alignment gi|XP_928251.1| PREDICTED: similar to histocompatibility 2, T r... 37 1e-06
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 176 bits (445), Expect(2) = 4e-76
Identities = 78/127 (61%), Positives = 97/127 (76%)
Frame = +2
Query: 185 RHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQK 364
+ +CHF+N T+RVR L RYFYN +E + F SDVGEFR VT GRP + WNSQ + +++K
Sbjct: 39 KSECHFYNGTQRVRFLKRYFYNLEENLRFDSDVGEFRAVTELGRPDAENWNSQPEILDEK 98
Query: 365 QTDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRW 544
+ VDT CRHNY I FLVPRR EP VTVYP KTQPL HHNL VCSV+ FYP +++VRW
Sbjct: 99 RAAVDTYCRHNYEIFDNFLVPRRVEPTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRW 158
Query: 545 FQNGRQE 565
F+NG++E
Sbjct: 159 FRNGKEE 165
Score = 129 bits (323), Expect(2) = 4e-76
Identities = 60/91 (65%), Positives = 74/91 (81%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
+VST L+ N DWTFQT+VMLET+PQSGEVYTC+VEHP LT PVT+EW+A S SAQ+ M+S
Sbjct: 169 IVSTGLVRNGDWTFQTLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLS 228
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G+ GF+L LL + AGLFIY +NQKG+ P
Sbjct: 229 GVGGFVLGLLFLRAGLFIYFRNQKGQSGLQP 259
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 143 bits (361), Expect(2) = 3e-61
Identities = 66/125 (52%), Positives = 88/125 (70%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
+CH+FN ERV + R+ YN +E+ F+SD G+F VT GRP +Y N+QKD ++ +
Sbjct: 43 ECHYFNGKERVWSVTRFIYNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRA 102
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
VD CR+NY + F++ +AEPKVTVYPAKTQPL HHNL VCSV FYP ++VRWF+
Sbjct: 103 SVDR-CRNNYDLVDIFMLNLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFR 161
Query: 551 NGRQE 565
NG +E
Sbjct: 162 NGEEE 166
Score = 112 bits (279), Expect(2) = 3e-61
Identities = 53/91 (58%), Positives = 68/91 (74%)
Frame = +3
Query: 549 RMADKKWRRVVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPS 728
R +++ VVST LI N DWT+QT+VMLE +P+ GEVYTC+VEHP LTSPVT+EWRA S
Sbjct: 161 RNGEEEKTGVVSTGLIQNRDWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARS 220
Query: 729 DSAQDMMMSGI*GFILSLLCVAAGLFIYSQN 821
SAQ+ ++SG+ G L L +A GLF Y +N
Sbjct: 221 TSAQNKLLSGVMGMALGLFILAVGLFFYLRN 251
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 143 bits (361), Expect(2) = 1e-59
Identities = 68/136 (50%), Positives = 93/136 (68%), Gaps = 1/136 (0%)
Frame = +2
Query: 161 HRISCFWGRHDCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNS 340
H + F G +C+F N T+R+R + RY YN +EYV + SDVGE R VT GRP +YWNS
Sbjct: 33 HFVYQFMG--ECYFTNGTQRIRYVTRYIYNREEYVRYDSDVGEHRAVTELGRPDAEYWNS 90
Query: 341 QKDFMEQKQTDVDTVCRHNY*IS*TFLVPRRAE-PKVTVYPAKTQPLHHHNLQVCSVTGF 517
Q + +E+ + ++DTVCRHNY T RR E P V + ++T+ L+HHN VCSVT F
Sbjct: 91 QPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVISLSRTEALNHHNTLVCSVTDF 150
Query: 518 YPSHVKVRWFQNGRQE 565
YP+ +KVRWF+NG++E
Sbjct: 151 YPTQIKVRWFRNGQEE 166
Score = 106 bits (265), Expect(2) = 1e-59
Identities = 52/91 (57%), Positives = 64/91 (70%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V ST LI N DWTFQ +VMLE P+ GEVYTC VEHP L SP+T+EWRA S+SA M+S
Sbjct: 170 VSSTQLIRNGDWTFQVLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLS 229
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
GI G +L ++ + GLFI ++QKG P P
Sbjct: 230 GIGGCVLGVIFLGLGLFIRHRSQKGPRGPPP 260
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 131 bits (330), Expect(2) = 1e-48
Identities = 59/125 (47%), Positives = 80/125 (64%)
Frame = +2
Query: 191 DCHFFNRTERVRLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQT 370
DC+F N TE+V LL R+ +N +EY+HF SD+G F +T G P WN + D +E +
Sbjct: 40 DCYFTNGTEKVHLLVRFIFNLEEYLHFDSDLGMFVALTELGEPDADQWNKRLDLLETSRA 99
Query: 371 DVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQ 550
V+ VCR Y + F V R P+VTVYP +T L HNL +CSVTGFYP + V+WF+
Sbjct: 100 AVNMVCRQKYKLGAPFTVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFR 159
Query: 551 NGRQE 565
NG++E
Sbjct: 160 NGQEE 164
Score = 81.6 bits (200), Expect(2) = 1e-48
Identities = 40/91 (43%), Positives = 57/91 (62%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMS 755
V+ST L+ N DWTFQT VMLE IP+ G++Y+C VEHP L PV++ W A S+ + ++S
Sbjct: 168 VMSTGLVRNGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILS 227
Query: 756 GI*GFILSLLCVAAGLFIYSQNQKGRPAPSP 848
G F+L L+ G+ I+ + QK P
Sbjct: 228 GAAVFLLGLIVFLVGVVIHLKAQKASVETQP 258
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 48.9 bits (115), Expect(2) = 9e-10
Identities = 26/87 (29%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWR---APSDSAQDMMMSGI*G 767
PN DWT+QT+ L P G+VYTC V+H + P+ +W +P + + + + G
Sbjct: 168 PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLSPIQTVKVSVSAATLG 227
Query: 768 FILSLLCVAAGLFIYSQNQKGRPAPSP 848
+ CV G F + ++ P P
Sbjct: 228 LGFIIFCV--GFFRWRKSHSSSYTPLP 252
Score = 33.5 bits (75), Expect(2) = 9e-10
Identities = 29/112 (25%), Positives = 45/112 (40%), Gaps = 7/112 (6%)
Frame = +2
Query: 245 YNGDEYVHFHSDVG-----EFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCRHNY*IS 409
+N D + DVG EF ++ + N Q+ + + Q + H
Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFW 105
Query: 410 *TFLVPRRAEPKVTVYPAKTQPLHHHN--LQVCSVTGFYPSHVKVRWFQNGR 559
L R P V V A+T P + + C V GFYP+ V + W +NG+
Sbjct: 106 -DVLTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQ 154
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 47.0 bits (110), Expect(2) = 8e-09
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 3/85 (3%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWR---APSDSAQDMMMSGI*G 767
PN DWT+QT+ L P G+VYTC V+H + P+ +W +P + + + + G
Sbjct: 168 PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLSPIQTVKVSVSAATLG 227
Query: 768 FILSLLCVAAGLFIYSQNQKGRPAP 842
+ CV G F + ++ P
Sbjct: 228 LGFIIFCV--GFFRWRKSHSSSYTP 250
Score = 32.3 bits (72), Expect(2) = 8e-09
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Frame = +2
Query: 419 LVPRRAEPKVTVYPAKTQPLHHHN--LQVCSVTGFYPSHVKVRWFQNGR 559
L R P V V A+T P + + C V GFYP+ V + W +NG+
Sbjct: 108 LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQ 154
>ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus]
Length = 341
Score = 42.7 bits (99), Expect(2) = 4e-07
Identities = 25/80 (31%), Positives = 45/80 (56%), Gaps = 1/80 (1%)
Frame = +3
Query: 591 LIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQDMMMSGI*GF 770
++P+ D T+QT + + PQS +VY+C VEH M AP +S + +S I G
Sbjct: 248 VLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH----CGRQMVLEAPRESGDILRVSTISGT 303
Query: 771 ILSLLCVA-AGLFIYSQNQK 827
+ ++ +A G+ I+ ++Q+
Sbjct: 304 TILIIALAGVGVLIWRRSQE 323
Score = 30.8 bits (68), Expect(2) = 4e-07
Identities = 28/135 (20%), Positives = 55/135 (40%), Gaps = 19/135 (14%)
Frame = +2
Query: 236 RYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNS-------QKDFMEQK---------Q 367
+Y Y+G +++ F+ D + + + + W + QK+++E++ +
Sbjct: 129 QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLE 188
Query: 368 TDVDTVCRHNY*IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWF 547
DT+ R + + T + P +T + C GFYP + + W
Sbjct: 189 YGRDTLERTEHPVVRT--TRKETFPGITTF-------------FCRAHGFYPPEISMTWM 233
Query: 548 QNGR---QEVAEGGL 583
+NG QEV GG+
Sbjct: 234 KNGEEIAQEVDYGGV 248
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 40.4 bits (93), Expect(2) = 8e-07
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 5/96 (5%)
Frame = +3
Query: 576 VVSTCLIPNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWR----APSDSAQD 743
V T N D++F + L IP ++Y C+VEH L PV W AP +
Sbjct: 159 VYETSFFVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTE 218
Query: 744 MMMSGI*GFILSLLCVAAG-LFIYSQNQKGRPAPSP 848
++ + G + L+ + G +FI + G + P
Sbjct: 219 TVVCAL-GLSVGLVGIVVGTIFIIQGLRSGGTSRHP 253
Score = 32.0 bits (71), Expect(2) = 8e-07
Identities = 14/46 (30%), Positives = 23/46 (50%)
Frame = +2
Query: 440 PKVTVYPAKTQPLHHHNLQVCSVTGFYPSHVKVRWFQNGRQEVAEG 577
P+ TV+P L N +C V +P + + W +N + VA+G
Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSK-SVADG 158
>ref|XP_919400.1| PREDICTED: similar to histocompatibility 2, T region locus 3
isoform 1 [Mus musculus]
Length = 381
Score = 36.6 bits (83), Expect(2) = 1e-06
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQD-MMMSGI*GFI 773
P D TFQ L + YTC V H L P+T+ W P S + + + G +
Sbjct: 258 PAGDGTFQKWAALVVPSGEEQKYTCHVYHKGLPEPLTLRWEPPQSSMPNRTTVRALLGAM 317
Query: 774 LSLLCVAAGLFIYSQNQKG 830
+ L ++ G+ ++ + G
Sbjct: 318 IILGFMSGGVMMWMRKNNG 336
Score = 35.0 bits (79), Expect(2) = 1e-06
Identities = 24/122 (19%), Positives = 51/122 (41%), Gaps = 5/122 (4%)
Frame = +2
Query: 224 RLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCRHNY* 403
R +++ Y+G +Y+ + D+ + + W Q + E ++T ++ C+ +
Sbjct: 134 RAYEQHGYDGRDYIALNEDLKTWTAADMAAEITRSKWE-QAGYTELRRTYLEGPCKDSL- 191
Query: 404 IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQV-----CSVTGFYPSHVKVRWFQNGRQEV 568
+ R + + P KT HH + C GFYP+ + + W NG + +
Sbjct: 192 ---FRYLKNRKKTQECADPPKTHVTHHPRPEGYVTLRCWALGFYPADITLTWQLNGEELI 248
Query: 569 AE 574
+
Sbjct: 249 QD 250
>ref|XP_928251.1| PREDICTED: similar to histocompatibility 2, T region locus 3
isoform 3 [Mus musculus]
Length = 292
Score = 36.6 bits (83), Expect(2) = 1e-06
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 1/79 (1%)
Frame = +3
Query: 597 PNEDWTFQTMVMLETIPQSGEVYTCRVEHPILTSPVTMEWRAPSDSAQD-MMMSGI*GFI 773
P D TFQ L + YTC V H L P+T+ W P S + + + G +
Sbjct: 169 PAGDGTFQKWAALVVPSGEEQKYTCHVYHKGLPEPLTLRWEPPQSSMPNRTTVRALLGAM 228
Query: 774 LSLLCVAAGLFIYSQNQKG 830
+ L ++ G+ ++ + G
Sbjct: 229 IILGFMSGGVMMWMRKNNG 247
Score = 35.0 bits (79), Expect(2) = 1e-06
Identities = 24/122 (19%), Positives = 51/122 (41%), Gaps = 5/122 (4%)
Frame = +2
Query: 224 RLLDRYFYNGDEYVHFHSDVGEFREVT*FGRPSTKYWNSQKDFMEQKQTDVDTVCRHNY* 403
R +++ Y+G +Y+ + D+ + + W Q + E ++T ++ C+ +
Sbjct: 45 RAYEQHGYDGRDYIALNEDLKTWTAADMAAEITRSKWE-QAGYTELRRTYLEGPCKDSL- 102
Query: 404 IS*TFLVPRRAEPKVTVYPAKTQPLHHHNLQV-----CSVTGFYPSHVKVRWFQNGRQEV 568
+ R + + P KT HH + C GFYP+ + + W NG + +
Sbjct: 103 ---FRYLKNRKKTQECADPPKTHVTHHPRPEGYVTLRCWALGFYPADITLTWQLNGEELI 159
Query: 569 AE 574
+
Sbjct: 160 QD 161
Database: RefSeqMP
Posted date: Aug 2, 2006 12:58 AM
Number of letters in database: 21,768,885
Number of sequences in database: 45,328
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 65,492,916
Number of Sequences: 45328
Number of extensions: 1785337
Number of successful extensions: 5827
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4841
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 5813
length of database: 21,768,885
effective HSP length: 106
effective length of database: 16,964,117
effective search space used: 5598158610
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)