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= 20060611C-005395
(1743 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] 70 2e-13
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 67 1e-12
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 3e-10
Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 56 2e-09
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 69.7 bits (169), Expect = 2e-13
Identities = 43/162 (26%), Positives = 74/162 (45%), Gaps = 5/162 (3%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYC---RHNYRILDT 440
Y+G +++ + D+ + AV + + W ++ + EQ RA ++ C H Y
Sbjct: 139 YDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAYLEVACVQSLHRYLANGK 197
Query: 441 FLVPRRAEPT--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 614
+ R P VT +P+ + L C GFYP + + W + GQ+++ V
Sbjct: 198 ETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISLTWQQEGQDQSQDVEVVE 253
Query: 615 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
P+GD TF+ L P + Y+C V+H L P+T+ W
Sbjct: 254 TRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 67.0 bits (162), Expect = 1e-12
Identities = 47/167 (28%), Positives = 74/167 (44%), Gaps = 4/167 (2%)
Frame = +3
Query: 273 NGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVP 452
NGEEF++FD+ +G + R W + D + + + + C H R+L
Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPH--RLLGHLERG 193
Query: 453 RR----AEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLI 620
R EP A+ ++L C FYP +++R+ RNG AAG + +
Sbjct: 194 RGNLEWKEPPSMRMKARPGTAPGFSVLTCIAFSFYPPELQLRFLRNGL--AAGSGESDIG 251
Query: 621 PNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 761
PNGD +F L Y C V+H L P+TVE + ++S+
Sbjct: 252 PNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 59.3 bits (142), Expect = 3e-10
Identities = 32/92 (34%), Positives = 48/92 (52%)
Frame = +3
Query: 465 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 644
P V VY N L C V+GF+P +E+ +NG++ A + L + DW+F
Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82
Query: 645 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
+V E P + + YSCRV+H +L P V+W
Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
>ref|NP_998996.1| CD1 antigen [Sus scrofa]
Length = 339
Score = 56.2 bits (134), Expect = 2e-09
Identities = 29/73 (39%), Positives = 39/73 (53%)
Frame = +3
Query: 498 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQS 677
P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+
Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273
Query: 678 GEVYSCRVEHPSL 716
SCRV+H SL
Sbjct: 274 ASGLSCRVKHSSL 286
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: 1,728,995
Number of Sequences: 1040
Number of extensions: 46242
Number of successful extensions: 179
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 143
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): 174
length of database: 434,620
effective HSP length: 82
effective length of database: 349,340
effective search space used: 173971320
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= 20060611C-005395
(1743 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, ... 409 e-114
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 343 2e-94
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 300 2e-81
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 291 1e-78
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 280 2e-75
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 275 1e-73
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 253 4e-67
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 212 7e-55
Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 82 1e-15
Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 77 4e-14
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 409 bits (1052), Expect = e-114
Identities = 196/266 (73%), Positives = 217/266 (81%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L FS G WMAAL VML+VL PPLA AR+ PHFL K ECHFFNGTERVR L+R +
Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YNGEEF+RFDSD GE+RAVTELGRP A+ WNSQKD LEQ+RAEVD CRHNY +++F V
Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR EPTVTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQTMVMLETVPQSGEVY+C+V+HP TSP+TVEWRARS+SAQ KMMSG+
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKGRP LQPTGLLS
Sbjct: 241 FLAVGLFIYFRNQKGRPTLQPTGLLS 266
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 343 bits (880), Expect = 2e-94
Identities = 166/252 (65%), Positives = 194/252 (76%)
Frame = +3
Query: 123 MAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDS 302
MAAL V+L+VLS P + AR+T PHF+H K EC F NG ER+R R YN +E + FDS
Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60
Query: 303 DVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVY 482
DVGE+ A+TELGR DA+ WN QKD +EQ RA+VDT CR NY+ + +FL RR EPTVTVY
Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120
Query: 483 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 662
PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180
Query: 663 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 842
TVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ K+MSGI I+ +
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLFIHLR 240
Query: 843 NQKGRPALQPTG 878
++KG PALQP G
Sbjct: 241 SKKGHPALQPIG 252
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 300 bits (768), Expect = 2e-81
Identities = 149/257 (57%), Positives = 179/257 (69%)
Frame = +3
Query: 84 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLER 263
S M+ L RG W A + V LV+LS P A RD+P F+ K C+F NGTERVR + R
Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61
Query: 264 QYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTF 443
YN EE++RFDSD YRA+T LGRPDA+ WNSQKD LEQ RAE DT CRHNY+
Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121
Query: 444 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 623
+ RR EPTVT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181
Query: 624 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 803
NGDWTFQ +VMLE PQ G+VY+C VEHPSL SP+ VEWRA+SESAQ KM+SG+
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241
Query: 804 XXXXXXXXXIYFKNQKG 854
I+ ++QKG
Sbjct: 242 LIFLGLGLIIHHRSQKG 258
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 291 bits (745), Expect = 1e-78
Identities = 144/257 (56%), Positives = 181/257 (70%)
Frame = +3
Query: 84 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLER 263
S M+ L RG W AA+ V L VLS P A RD+P + +C+F NGTERVR + R
Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61
Query: 264 QYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTF 443
YN EE +DSDVGEYRAVT+LGR A+ WNSQKD+LEQ RAE+DT CRHNY++
Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121
Query: 444 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 623
+ R+ EPTVT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI
Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181
Query: 624 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 803
NGDWTFQ +VMLE P+ G+VY+C VEHPSL SP++VEWRA+SESAQ KM+SG+
Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241
Query: 804 XXXXXXXXXIYFKNQKG 854
+ ++QKG
Sbjct: 242 LIFLGLGLIVRRRSQKG 258
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 280 bits (717), Expect = 2e-75
Identities = 133/192 (69%), Positives = 151/192 (78%)
Frame = +3
Query: 210 KFECHFFNGTERVRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQR 389
K ECHF NGT++VR L+R YN EE ++FDS VGEYRA TE+GRP A+ WN L++
Sbjct: 5 KSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRA 64
Query: 390 RAEVDTYCRHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRW 569
RA V YC NY + V RR +PTVTVYP K++PL HHNLLVCSV GFYPGH+EVRW
Sbjct: 65 RAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRW 124
Query: 570 FRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRAR 749
FRNGQEE AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY+C VEHPS TSPVTVEWRA+
Sbjct: 125 FRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQ 184
Query: 750 SESAQGKMMSGI 785
ES+Q KM+SGI
Sbjct: 185 DESSQEKMLSGI 196
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 275 bits (702), Expect = 1e-73
Identities = 137/215 (63%), Positives = 159/215 (73%)
Frame = +3
Query: 141 MLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDSDVGEYR 320
+ +VL P A RD P +F++ K C+F NGTE VRL+ RQ YN EE L FDSD+GE+
Sbjct: 19 VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78
Query: 321 AVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVYPAKTQP 500
AVTELGR A+ WN+QKDLL + RA VDT CRHNY+ F V RR EPTVTV PA T+
Sbjct: 79 AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138
Query: 501 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 680
L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VMLETVPQ G
Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198
Query: 681 EVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 785
+VY C V+HPSL SP+TVEWRA+SESAQ KM SGI
Sbjct: 199 DVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGI 233
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 253 bits (645), Expect = 4e-67
Identities = 121/246 (49%), Positives = 161/246 (65%)
Frame = +3
Query: 120 WMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFD 299
W+ + L + RD+P F+ K +C+F NGTE+VR + R +N E++ RFD
Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67
Query: 300 SDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTV 479
SD+G + A+TELG+PDA+ WN++ D+L + RA VD CR NY + F V RR +P VTV
Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127
Query: 480 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 659
YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187
Query: 660 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 839
P+ GEVY+C V+HPSL SPV+VEWRA+SE + K++SG ++
Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247
Query: 840 KNQKGR 857
+ KGR
Sbjct: 248 RAWKGR 253
>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 = 212 bits (540), Expect = 7e-55
Identities = 129/280 (46%), Positives = 161/280 (57%), Gaps = 2/280 (0%)
Frame = +3
Query: 48 LPAPFTHCPLLFSSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHF 227
L +PF P LF+S + L FS+G WMAAL VM+ LSP L AR+T
Sbjct: 2 LSSPF---PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ------------- 44
Query: 228 FNGTERVRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDT 407
Y ++ DS + A++ G+P A + + D
Sbjct: 45 --------------YKRTPWVVIDSQIS---AISH-GKPCALNGYRECD----------- 75
Query: 408 YCRH--NYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNG 581
C H + + ++ EPTVTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF G
Sbjct: 76 GCFHPIGLKANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKG 135
Query: 582 QEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 761
QEE AGV+STGLI NGDWTF+T+VMLETV QSGEVY+C++EHPS SP+ EWRA+S+SA
Sbjct: 136 QEEEAGVISTGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSA 195
Query: 762 QGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGL 881
Q KMMSG +F+NQKG LQPTG+
Sbjct: 196 QSKMMSGTGGFALGLLFLVVGLFTHFRNQKGHSGLQPTGI 235
>ref|NP_001012399.1| hemochromatosis [Bos taurus]
Length = 356
Score = 82.4 bits (202), Expect = 1e-15
Identities = 53/176 (30%), Positives = 84/176 (47%), Gaps = 4/176 (2%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNY-RILDTFL 446
Y+G++ L F + ++RA + +W K +Q RA +D C +L+
Sbjct: 148 YDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLELGR 207
Query: 447 VP--RRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EAAGVVSTGL 617
P ++ P V V T L L C FYP ++ +RW ++ Q +A + +
Sbjct: 208 GPLEQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIKPEDV 264
Query: 618 IPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 785
+PNGD T+Q V L +P + YSC+VEHP L P+T W S G +++GI
Sbjct: 265 LPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW---EPSLSGTLVTGI 317
>ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus]
Length = 299
Score = 77.0 bits (188), Expect = 4e-14
Identities = 44/166 (26%), Positives = 82/166 (49%), Gaps = 3/166 (1%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCR---HNYRILDT 440
Y+G++F++FD ++ + + + + W ++ +++ +A ++ C Y
Sbjct: 136 YDGQDFIKFDKEIPAWVPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSR 195
Query: 441 FLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLI 620
+ R+ P+V+V P H L C FYP + + W R G + A ++
Sbjct: 196 THLDRQESPSVSV-TGHAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDVL 252
Query: 621 PNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 758
P+G+ T+Q+ V++ P+ YSC VEH SLT P+TV W R ++
Sbjct: 253 PSGNGTYQSWVVVGVPPEDQAPYSCHVEHRSLTRPLTVPWDPRQQA 298
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: 65,044,908
Number of Sequences: 33508
Number of extensions: 1826023
Number of successful extensions: 6696
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5525
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): 6652
length of database: 16,112,626
effective HSP length: 107
effective length of database: 12,527,270
effective search space used: 5925398710
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= 20060611C-005395
(1743 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... 395 e-110
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 327 2e-89
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 275 8e-74
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 259 6e-69
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 75 2e-13
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 69 1e-11
Alignment gi|NP_001018646.1| MHC class Ib [Canis familiaris] 67 6e-11
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 66 1e-10
Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] 65 2e-10
Alignment gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] 65 3e-10
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 395 bits (1015), Expect = e-110
Identities = 188/266 (70%), Positives = 214/266 (80%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ LCF G WM AL ++L+VL+PP A ARDTPPHFL + K EC+F NGTERVR +ER
Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
+N EEF+RFDSDVGE+RAVTELGRP A+ WN QK++LEQ RA VDTYCRHNY ++++F V
Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR EPTVTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQ +VMLE VPQSGEVY+C+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI
Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKG LQPTGLLS
Sbjct: 241 FLAVGLFIYFRNQKGHSGLQPTGLLS 266
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 327 bits (839), Expect = 2e-89
Identities = 160/267 (59%), Positives = 194/267 (72%)
Frame = +3
Query: 84 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLER 263
S + LC RGFW AA+ ++LVVLS P+A RD+P F+ K EC+F NGTERVRLL +
Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61
Query: 264 QYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTF 443
YN EEF+RFDSDVGE+RAVTELGRPDA+ WN QKD +++ RAE+DT CRHNY +
Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121
Query: 444 LVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 623
+ RR EPTVT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI
Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181
Query: 624 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 803
NGDWTFQ +VMLE PQ G+VY+C VEH SL SP+TV+WRA+SESAQ KM+SGI
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241
Query: 804 XXXXXXXXXIYFKNQKGRPALQPTGLL 884
I ++QKG P GLL
Sbjct: 242 LIFLGLGLIIRHRSQKGSRGSPPAGLL 268
>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 = 275 bits (704), Expect = 8e-74
Identities = 134/253 (52%), Positives = 171/253 (67%)
Frame = +3
Query: 120 WMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFD 299
WM AL V + L + RD+P F+ K +C+F NGTE+V+ + R +N EE+ RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 300 SDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTV 479
S VG + A+TELG+PDA+ WNSQ +LE+ RA VD CRHNY + F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 480 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 659
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 660 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 839
E P+ G+VY+C V HPSL SPV+VEWRA+S + KM+SGI I
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247
Query: 840 KNQKGRPALQPTG 878
+ QKG Q +G
Sbjct: 248 RAQKGYVETQFSG 260
>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 = 259 bits (662), Expect = 6e-69
Identities = 120/207 (57%), Positives = 152/207 (73%)
Frame = +3
Query: 120 WMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFD 299
WM AL V + L + RD+P F+ K +C+F NGTE+V+ + R +N EE+ RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 300 SDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTV 479
S VG + A+TELG+PDA+ WNSQ +LE+ RA VD CRHNY + F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 480 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 659
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 660 ETVPQSGEVYSCRVEHPSLTSPVTVEW 740
E P+ G+VY+C V HPSL SPV+VEW
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEW 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 = 75.5 bits (184), Expect = 2e-13
Identities = 43/130 (33%), Positives = 63/130 (48%), Gaps = 1/130 (0%)
Frame = +3
Query: 354 DWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSV 533
D+ +Q++ L QR + C + + L R PTV V + + +L C V
Sbjct: 78 DYLNQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYV 137
Query: 534 TGFYPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYSCRVEHP 710
GFYP V + W +NGQ + + + PNGDWT+QT+ L T P + Y+C VEH
Sbjct: 138 WGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHI 197
Query: 711 SLTSPVTVEW 740
PV +W
Sbjct: 198 GAPEPVCEDW 207
>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 = 68.9 bits (167), Expect = 1e-11
Identities = 45/177 (25%), Positives = 86/177 (48%), Gaps = 7/177 (3%)
Frame = +3
Query: 261 RQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCR---HNYRI 431
R Y+G F+ F+ ++ + K W +++ +++ +A ++ C Y
Sbjct: 136 RYAYDGRNFIEFNKEIPAWVPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLE 195
Query: 432 LDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGVV 605
+ R+ P+V++ T + L C V+GFYP +++ W + + QE +G
Sbjct: 196 YGKTYLDRQEPPSVSITSHGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG-- 251
Query: 606 STGLIPNGDWTFQTMVMLETVPQ--SGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 770
L+P+G+ T+Q V++ PQ + YSC V+H SL+ P+TV W R + + +
Sbjct: 252 -GALLPSGNNTYQAWVVMSASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307
>ref|NP_001018646.1| MHC class Ib [Canis familiaris]
Length = 381
Score = 67.0 bits (162), Expect = 6e-11
Identities = 43/177 (24%), Positives = 79/177 (44%), Gaps = 6/177 (3%)
Frame = +3
Query: 246 VRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYC---- 413
+R +R Y+G +++ D+ + + + + W++ + E R+ ++ C
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAAT-VAENRKNFLEGRCLEWL 198
Query: 414 -RHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQE 587
RH +T +RA+P T +P+ H + L C GFYP + + W R+G++
Sbjct: 199 RRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGED 253
Query: 588 EAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 758
+ P GD TFQ + + Y+C + H SLT P+T+ W +S
Sbjct: 254 QTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQS 310
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 65.9 bits (159), Expect = 1e-10
Identities = 43/158 (27%), Positives = 67/158 (42%), Gaps = 1/158 (0%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGE-YRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFL 446
++G+E D + E + E GR + + + +A +DT + + +T
Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108
Query: 447 VPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 626
P VTV L N+L+C + F P + V W RNG GV T +P
Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165
Query: 627 GDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
D F+ L +P + +VY C+VEH L P+ W
Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203
>ref|NP_001014767.1| MHC class I DLA-88 [Canis familiaris]
Length = 361
Score = 65.5 bits (158), Expect = 2e-10
Identities = 46/182 (25%), Positives = 75/182 (41%), Gaps = 6/182 (3%)
Frame = +3
Query: 213 FECHFFNGTERVRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRR 392
+ C G +R + Y+G +++ + D+ + A + + W + E R
Sbjct: 123 YGCDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAA-GTAEHDR 181
Query: 393 AEVDTYC-----RHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNL-LVCSVTGFYPGH 554
++T C R+ +T L RAEP T P+ H + L C GFYP
Sbjct: 182 NYLETTCVEWLRRYLEMGKETLL---RAEPPST--RVTRHPISDHEVTLRCWALGFYPAE 236
Query: 555 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTV 734
+ + W R+G+++ P GD TFQ + + Y+C V+H L PVT
Sbjct: 237 ITLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTR 296
Query: 735 EW 740
W
Sbjct: 297 RW 298
>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris]
Length = 381
Score = 64.7 bits (156), Expect = 3e-10
Identities = 42/177 (23%), Positives = 78/177 (44%), Gaps = 6/177 (3%)
Frame = +3
Query: 246 VRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYC---- 413
+R +R Y+G +++ D+ + + + + W++ + E R+ ++ C
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAAT-VAENRKNFLEGRCLEWL 198
Query: 414 -RHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQE 587
RH +T +RA+P T +P+ H + L C GFYP + + W R+G++
Sbjct: 199 RRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGED 253
Query: 588 EAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 758
+ P GD TFQ + + Y+C + H SL P+T+ W +S
Sbjct: 254 QTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEPPPQS 310
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: 76,433,582
Number of Sequences: 33732
Number of extensions: 2136821
Number of successful extensions: 7757
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 6301
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): 7735
length of database: 19,266,565
effective HSP length: 108
effective length of database: 15,623,509
effective search space used: 7374296248
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= 20060611C-005395
(1743 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 ... 398 e-111
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 384 e-106
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 383 e-106
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 382 e-106
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 375 e-104
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 352 4e-97
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 337 2e-92
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 301 2e-81
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 279 6e-75
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 275 7e-74
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 398 bits (1022), Expect = e-111
Identities = 197/266 (74%), Positives = 216/266 (81%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G M ALTV L+VLS PLALA DT P FL LKFECHFFNGTERVRLLER
Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EE +RFDSDVGEYRAVTELGRPDA+ WNSQKDLLEQRRA VDTYCRHNY + ++F V
Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR EP VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKG LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266
>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 = 384 bits (986), Expect = e-106
Identities = 191/266 (71%), Positives = 210/266 (78%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G MAALTV L+VLS PLALA DT P FL KFECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EE +RFDSDVGEYRAVTELGRP A+ WNSQKD LE+RRAEVDT CRHNY + ++F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKG LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 383 bits (983), Expect = e-106
Identities = 189/266 (71%), Positives = 209/266 (78%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G +MA LTV L+VLS PLALA DT P FL K+ECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EE LRFDSDVGEYRAVTELGRPDA+ WNSQKD LE RRA VDTYCRHNY + ++F V
Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR EP VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRA+SESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYFKNQKG L PTGL+S
Sbjct: 241 FLGAGLFIYFKNQKGHSGLHPTGLVS 266
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 382 bits (980), Expect = e-106
Identities = 188/266 (70%), Positives = 210/266 (78%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G +AALTV L+VLS LA A DT P FL L K ECHFFNGTERVR L+R +
Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
+N EEFLRFDSDVGEYRAVTELGRP A+ WNSQKDLLEQ+R VD YCRHNY + ++F V
Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQT+VMLETVP+SGEVY+C+VEHPS+TS +TVEWRARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKG LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 375 bits (963), Expect = e-104
Identities = 184/266 (69%), Positives = 210/266 (78%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G MAALTV L VLS PLALA DT P FL K ECHF NGTERV L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EE+ R++SD+GEY+AVTELGRPDA+ WNSQKDLLE+RRAEVDTYCR+NY ++++F V
Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR +P VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV+W ARSESAQ KM+SG+
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240
Query: 810 XXXXXXXIYFKNQKGRPALQPTGLLS 887
IYF+NQKG LQPTGLLS
Sbjct: 241 FLGTGLFIYFRNQKGHSGLQPTGLLS 266
>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 = 352 bits (904), Expect = 4e-97
Identities = 170/231 (73%), Positives = 187/231 (80%)
Frame = +3
Query: 195 FLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKD 374
FL KFECHFFNGTERVR L R YN EE +RFDSDVGEYRAVTELGRP A+ WNSQKD
Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113
Query: 375 LLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGH 554
LE+RRAEVDT CRHNY + ++F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG
Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173
Query: 555 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTV 734
+EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV
Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233
Query: 735 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 887
EWRARSESAQ KM+SG+ IYF+NQKG LQPTG LS
Sbjct: 234 EWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFRNQKGHSGLQPTGFLS 284
>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 = 337 bits (864), Expect = 2e-92
Identities = 165/217 (76%), Positives = 181/217 (83%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L G MAALTV L+VLS PLALA DT P FL KFECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EE +RFDSDVGEYRAVTELGRP A+ WNSQKD LE+RRAEVDT CRHNY + ++F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEW
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEW 217
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 301 bits (770), Expect = 2e-81
Identities = 147/247 (59%), Positives = 180/247 (72%)
Frame = +3
Query: 114 GFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLR 293
G A +T+ML +LS P+A RD+P F++ K C+F NGTERVRL+ R YN EE +R
Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71
Query: 294 FDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTV 473
FDSDVGE+RAVT LG P A+ WNSQKD+LE++RA VD CRHNY++ + RR EPTV
Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131
Query: 474 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 653
T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191
Query: 654 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXI 833
MLE PQ G+VY+C VEHPSL SP+TVEWRA+SESAQ KM+SGI I
Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLII 251
Query: 834 YFKNQKG 854
+ ++QKG
Sbjct: 252 HHRSQKG 258
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 279 bits (713), Expect = 6e-75
Identities = 136/218 (62%), Positives = 161/218 (73%)
Frame = +3
Query: 114 GFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLR 293
GFW AA+TVMLV+LS P+A ARD P FL K C+F NGTERVR + R YN EE+ R
Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71
Query: 294 FDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTV 473
FDSDVGE++AVTELGR +DWN+ KD LEQ RA VD CRHNY + R+ EPTV
Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130
Query: 474 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 653
T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190
Query: 654 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQG 767
MLE PQ G++Y+C+VEHPSL SP+TVEWR R G
Sbjct: 191 MLEITPQRGDIYTCQVEHPSLQSPITVEWRPRGPPPAG 228
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 275 bits (704), Expect = 7e-74
Identities = 134/218 (61%), Positives = 163/218 (74%)
Frame = +3
Query: 129 ALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDSDV 308
ALT +L+VL + R TP ++L + EC+ FNGT+R LER YN EEF RFDSDV
Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYIYNREEFARFDSDV 71
Query: 309 GEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVYPA 488
GE+RAVTELGRP A+ WNSQKD+LE++RA D CRHNY + + RR +P V V P+
Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131
Query: 489 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 668
K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE
Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191
Query: 669 PQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSG 782
PQ G+VY+C+VEH SL SPVTVEW+A+S+SA+ K ++G
Sbjct: 192 PQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLTG 229
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: 73,810,859
Number of Sequences: 39411
Number of extensions: 2123918
Number of successful extensions: 8441
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 6532
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): 8378
length of database: 17,774,539
effective HSP length: 107
effective length of database: 13,557,562
effective search space used: 6412726826
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= 20060611C-005395
(1743 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 [... 381 e-105
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 304 2e-82
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 281 1e-75
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 259 5e-69
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 77 4e-14
Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 74 4e-13
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 72 2e-12
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 70 7e-12
Alignment gi|NP_032233.1| histocompatibility 2, T region locus 24 [Mus mu... 65 2e-10
Alignment gi|NP_034319.1| Fc receptor, IgG, alpha chain transporter [Mus ... 65 2e-10
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 381 bits (979), Expect = e-105
Identities = 177/255 (69%), Positives = 211/255 (82%)
Frame = +3
Query: 123 MAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDS 302
+AA+ ++L VLSPP+AL RD+ P FL K ECHF+NGT+RVR L+R +YN EE LRFDS
Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69
Query: 303 DVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPTVTVY 482
DVGE+RAVTELGRPDA++WNSQ ++L+++RA VDTYCRHNY I D FLVPRR EPTVTVY
Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129
Query: 483 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 662
P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE
Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189
Query: 663 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 842
TVPQSGEVY+C+VEHPSLT PVTVEW+A+S SAQ KM+SG+ IYF+
Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLFIYFR 249
Query: 843 NQKGRPALQPTGLLS 887
NQKG+ LQPTGLLS
Sbjct: 250 NQKGQSGLQPTGLLS 264
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 304 bits (779), Expect = 2e-82
Identities = 149/252 (59%), Positives = 184/252 (73%)
Frame = +3
Query: 90 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQY 269
M+ L RG +AA+ + L++L+PP+ L RD P FL LK ECH+FNG ERV + R
Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
YN EEF RF+SD G++ AVTELGRP + N+QKD+L+ RA VD CR+NY ++D F++
Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119
Query: 450 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 629
+AEP VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N
Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179
Query: 630 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 809
DWT+QT+VMLE VP+ GEVY+C+VEHPSLTSPVTVEWRARS SAQ K++SG+
Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLF 239
Query: 810 XXXXXXXIYFKN 845
Y +N
Sbjct: 240 ILAVGLFFYLRN 251
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 281 bits (720), Expect = 1e-75
Identities = 141/255 (55%), Positives = 176/255 (69%), Gaps = 1/255 (0%)
Frame = +3
Query: 123 MAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFLRFDS 302
++A V+L+VLS P D+ HF++ EC+F NGT+R+R + R YN EE++R+DS
Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69
Query: 303 DVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAE-PTVTV 479
DVGE+RAVTELGRPDA+ WNSQ ++LE+ RAE+DT CRHNY +T RR E P V +
Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129
Query: 480 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 659
++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML
Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189
Query: 660 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 839
E P+ GEVY+C VEHPSL SP+TVEWRA+SESA KM+SGI I
Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249
Query: 840 KNQKGRPALQPTGLL 884
++QKG P GLL
Sbjct: 250 RSQKGPRGPPPAGLL 264
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 259 bits (663), Expect = 5e-69
Identities = 129/254 (50%), Positives = 164/254 (64%)
Frame = +3
Query: 111 RGFWMAALTVMLVVLSPPLALARDTPPHFLHLLKFECHFFNGTERVRLLERQYYNGEEFL 290
R W+ AL V L+ L + RD+P +F+ K +C+F NGTE+V LL R +N EE+L
Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64
Query: 291 RFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVPRRAEPT 470
FDSD+G + A+TELG PDA WN + DLLE RA V+ CR Y++ F V R P
Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124
Query: 471 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 650
VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT
Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184
Query: 651 VMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 830
VMLE +P+ G++YSC VEHP L PV+V W A+SE + K++SG
Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244
Query: 831 IYFKNQKGRPALQP 872
I+ K QK QP
Sbjct: 245 IHLKAQKASVETQP 258
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 77.4 bits (189), Expect = 4e-14
Identities = 51/166 (30%), Positives = 77/166 (46%), Gaps = 9/166 (5%)
Frame = +3
Query: 270 YNGEEFLRFDSDVG-----EYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRIL 434
+N + +D DVG E+ ++ L + N Q+ L+ + + + H
Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFW 105
Query: 435 DTFLVPRRAEPTVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 602
D L R P+V V A+T P +L C V GFYP V + W +NGQ +
Sbjct: 106 DV-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162
Query: 603 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
T PNGDWT+QT+ L P G+VY+C V+H + P+ +W
Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus]
Length = 341
Score = 74.3 bits (181), Expect = 4e-13
Identities = 45/152 (29%), Positives = 73/152 (48%), Gaps = 6/152 (3%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFL- 446
Y+G++F+ F+ D + A+ + + W + L+ ++ ++ C L FL
Sbjct: 132 YDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEEC---IAWLKRFLE 188
Query: 447 -----VPRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVST 611
+ R P V +T P C GFYP + + W +NG+E A V
Sbjct: 189 YGRDTLERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVDYG 246
Query: 612 GLIPNGDWTFQTMVMLETVPQSGEVYSCRVEH 707
G++P+GD T+QT + + PQS +VYSC VEH
Sbjct: 247 GVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 71.6 bits (174), Expect = 2e-12
Identities = 49/166 (29%), Positives = 77/166 (46%), Gaps = 9/166 (5%)
Frame = +3
Query: 270 YNGEEFLRFDSDVG-----EYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRIL 434
+N + +D DVG E+ + ++ N ++ LL++ + + H
Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFW 105
Query: 435 DTFLVPRRAEPTVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 602
+ L R P+V V A+T P +L C V GFYP V + W +NGQ +
Sbjct: 106 NA-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162
Query: 603 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
T PNGDWT+QT+ L P G+VY+C V+H + P+ +W
Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 70.1 bits (170), Expect = 7e-12
Identities = 31/92 (33%), Positives = 44/92 (47%)
Frame = +3
Query: 465 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 644
P TV+P L N L+C V +P + + W RN + A GV T N D++F
Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173
Query: 645 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
+ L +P ++Y C+VEH L PV W
Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205
>ref|NP_032233.1| histocompatibility 2, T region locus 24 [Mus musculus]
Length = 388
Score = 65.5 bits (158), Expect = 2e-10
Identities = 41/162 (25%), Positives = 71/162 (43%), Gaps = 5/162 (3%)
Frame = +3
Query: 270 YNGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLV 449
Y+G ++L D +Y A T + + W + + LE+ + ++ C L +L
Sbjct: 140 YDGSDYLTLDLGSMQYIAATFIAGYTKRKWENNEYWLEKEKTYLEKEC---ILWLQRYLT 196
Query: 450 P-----RRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 614
R +P T + +P ++ L C GFYP + + W NG+E
Sbjct: 197 MGGKNFTRTDPPKTTVTHQFKPKENVTLR-CWALGFYPADITLTWQLNGEELTQDTELVE 255
Query: 615 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 740
P+GD TFQ + + Y+C V+H +LT P+ ++W
Sbjct: 256 TRPSGDGTFQKWAAVVVPSGEEQRYTCHVQHEALTQPLVLKW 297
>ref|NP_034319.1| Fc receptor, IgG, alpha chain transporter [Mus musculus]
Length = 365
Score = 65.5 bits (158), Expect = 2e-10
Identities = 49/167 (29%), Positives = 73/167 (43%), Gaps = 4/167 (2%)
Frame = +3
Query: 273 NGEEFLRFDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYCRHNYRILDTFLVP 452
NGEEF++F+ +G + A W Q D + + C R+L
Sbjct: 136 NGEEFMKFNPRIGNWTGEWPETEIVANLWMKQPDAARKESEFLLNSCPE--RLLGHLERG 193
Query: 453 RR----AEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLI 620
RR EP A+ ++L C+ FYP ++ R+ RNG +G STG
Sbjct: 194 RRNLEWKEPPSMRLKARPGN-SGSSVLTCAAFSFYPPELKFRFLRNGLASGSGNCSTG-- 250
Query: 621 PNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 761
PNGD +F +LE Y C+VEH L P+TV+ + + S+
Sbjct: 251 PNGDGSFHAWSLLEVKRGDEHHYQCQVEHEGLAQPLTVDLDSSARSS 297
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: 87,418,583
Number of Sequences: 45328
Number of extensions: 2438438
Number of successful extensions: 9293
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 7390
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): 9239
length of database: 21,768,885
effective HSP length: 109
effective length of database: 16,828,133
effective search space used: 7926050643
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)