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-014218
(1073 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] 74 6e-15
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 2e-10
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 59 3e-10
Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 55 2e-09
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 73.9 bits (180), Expect = 6e-15
Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 5/179 (2%)
Frame = +1
Query: 154 CHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAE 333
C+ +R ++ Y+G +Y+ + D+ + V + + + W ++ EQ RA
Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAY 180
Query: 334 VDTVC---RHNYEISETFLVPRRAEPR--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEV 498
++ C H Y + + R P+ VT +P+ + L C GFYP + +
Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISL 236
Query: 499 RWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
W + GQ++ V P+GD TF+ L P + YTC V+H L P+T+ W
Sbjct: 237 TWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 58.9 bits (141), Expect = 2e-10
Identities = 31/92 (33%), Positives = 49/92 (53%)
Frame = +1
Query: 400 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQ 579
P+V VY N L C V+GF+P +E+ +NG++ A + L + DW+F
Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82
Query: 580 TMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
+V E P + + Y+CRV+H +L P V+W
Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 58.5 bits (140), Expect = 3e-10
Identities = 45/175 (25%), Positives = 71/175 (40%), Gaps = 11/175 (6%)
Frame = +1
Query: 208 NGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH----------- 354
NG+E+++FD+ +G + R W + D + +++ + C H
Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHRLLGHLERGRG 195
Query: 355 NYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAG 534
N E E + +A P T P ++L C FYP +++R+ RNG +G
Sbjct: 196 NLEWKEPPSMRMKARPG-------TAP--GFSVLTCIAFSFYPPELQLRFLRNGLAAGSG 246
Query: 535 VVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDSL 699
G PNGD +F L Y C V+H L P+TVE S+
Sbjct: 247 ESDIG--PNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSSM 299
>ref|NP_998996.1| CD1 antigen [Sus scrofa]
Length = 339
Score = 55.5 bits (132), Expect = 2e-09
Identities = 30/87 (34%), Positives = 44/87 (50%), Gaps = 1/87 (1%)
Frame = +1
Query: 433 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQS 612
P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+
Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273
Query: 613 GEVYTCRVEHPSL-TSPVTVEWSERLS 690
+CRV+H SL + + W + S
Sbjct: 274 ASGLSCRVKHSSLGGQDIILYWEQHSS 300
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: 1,084,307
Number of Sequences: 1040
Number of extensions: 30404
Number of successful extensions: 117
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 98
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): 111
length of database: 434,620
effective HSP length: 78
effective length of database: 353,500
effective search space used: 98626500
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-014218
(1073 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, ... 360 1e-99
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 306 1e-83
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 281 8e-76
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 272 3e-73
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 262 4e-70
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 246 2e-65
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 244 1e-64
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 173 2e-43
Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 80 3e-15
Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 78 1e-14
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 360 bits (924), Expect = 1e-99
Identities = 172/224 (76%), Positives = 190/224 (84%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L FS G W+AAL +ML+VL PPLA AR+ PHFL K ECHFFNGTERVR LDR+F
Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YNG+E+VRFDSD GEFR VTE GRP+A++WNSQKDF+EQKRAEVD VCRHNY E+F V
Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDS 696
DWTFQTMVMLETVPQSGEVYTC+V+HP TSP+TVEW R SDS
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRAR-SDS 223
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 306 bits (785), Expect = 1e-83
Identities = 149/213 (69%), Positives = 168/213 (78%)
Frame = +1
Query: 58 VAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 237
+AAL ++L+VLS P + AR+T PHF+ K EC F NG ER+R RY YN E V FDS
Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60
Query: 238 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVY 417
DVGEF +TE GR A+YWN QKDFMEQ RA+VDT+CR NY+ +FL RR EP VTVY
Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120
Query: 418 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLE 597
PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180
Query: 598 TVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDS 696
TVPQSGEVYTC+VEHPS TSP+TVEW + SDS
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQ-SDS 212
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 281 bits (718), Expect = 8e-76
Identities = 133/219 (60%), Positives = 158/219 (72%)
Frame = +1
Query: 19 SSMLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 198
S M+ L RG W A + + LV+LS P A RD+P F+ K C+F NGTERVR + R
Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61
Query: 199 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 378
Y YN +EYVRFDSD +R +T GRP A+YWNSQKDF+EQ RAE DTVCRHNY+
Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121
Query: 379 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 558
+ RR EP VT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181
Query: 559 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
NGDWTFQ +VMLE PQ G+VYTC VEHPSL SP+ VEW
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEW 220
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 272 bits (696), Expect = 3e-73
Identities = 127/219 (57%), Positives = 160/219 (73%)
Frame = +1
Query: 19 SSMLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 198
S M+ L RG W AA+ + L VLS P A RD+P + +C+F NGTERVR + R
Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61
Query: 199 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 378
Y YN +E +DSDVGE+R VT+ GR A+YWNSQKD +EQ RAE+DTVCRHNY++
Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121
Query: 379 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 558
+ R+ EP VT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI
Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181
Query: 559 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
NGDWTFQ +VMLE P+ G+VYTC VEHPSL SP++VEW
Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEW 220
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 262 bits (669), Expect = 4e-70
Identities = 122/178 (68%), Positives = 138/178 (77%)
Frame = +1
Query: 142 GKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQ 321
GK+ECHF NGT++VR LDRY YN +E V+FDS VGE+R TE GRP+A+ WN +++
Sbjct: 4 GKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQR 63
Query: 322 KRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVR 501
RA V C NYE + V RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVR
Sbjct: 64 ARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVR 123
Query: 502 WFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
WFRNGQEE AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY C VEHPS TSPVTVEW
Sbjct: 124 WFRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEW 181
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 246 bits (629), Expect = 2e-65
Identities = 121/207 (58%), Positives = 147/207 (71%), Gaps = 1/207 (0%)
Frame = +1
Query: 58 VAALTM-MLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 234
VA + M + +VL P A RD P +F++ K C+F NGTE VRL+ R YN +E + FD
Sbjct: 12 VAGMVMAVFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFD 71
Query: 235 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 414
SD+GEF VTE GR A+ WN+QKD + + RA VDT+CRHNY+ + F V RR EP VTV
Sbjct: 72 SDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTV 131
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
PA T+ L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VML
Sbjct: 132 SPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVML 191
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEW 675
ETVPQ G+VY C V+HPSL SP+TVEW
Sbjct: 192 ETVPQLGDVYVCHVDHPSLQSPITVEW 218
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 244 bits (622), Expect = 1e-64
Identities = 111/207 (53%), Positives = 143/207 (69%)
Frame = +1
Query: 55 WVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 234
WV + L + RD+P F+ KA+C+F NGTE+VR + R+ +N ++Y RFD
Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67
Query: 235 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 414
SD+G F +TE G+P A+ WN++ D + + RA VD +CR NY + F V RR +P VTV
Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEW 675
P+ GEVYTC V+HPSL SPV+VEW
Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEW 214
>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 = 173 bits (439), Expect = 2e-43
Identities = 106/232 (45%), Positives = 131/232 (56%), Gaps = 2/232 (0%)
Frame = +1
Query: 7 PLLFSSMLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVR 186
P LF+S + L FS+G W+AAL +M+ LSP L AR+T
Sbjct: 7 PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ--------------------- 44
Query: 187 LLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH--NY 360
Y +V DS + G+P A + D C H
Sbjct: 45 ------YKRTPWVVIDSQISAISH----GKPCALNGYRECDG-----------CFHPIGL 83
Query: 361 EISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVV 540
+ + + ++ EP VTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF GQEE AGV+
Sbjct: 84 KANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVI 143
Query: 541 STGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDS 696
STGLI NGDWTF+T+VMLETV QSGEVYTC++EHPS SP+ EW + SDS
Sbjct: 144 STGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQ-SDS 194
>ref|NP_001012399.1| hemochromatosis [Bos taurus]
Length = 356
Score = 80.1 bits (196), Expect = 3e-15
Identities = 51/174 (29%), Positives = 82/174 (47%), Gaps = 5/174 (2%)
Frame = +1
Query: 196 RYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCR----HNYE 363
+Y Y+G +++ F + ++R + + W K +Q RA +D C H E
Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLE 204
Query: 364 ISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EVAGVV 540
+ L ++ P V V T L L C FYP ++ +RW ++ Q + +
Sbjct: 205 LGRGPL-EQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIK 260
Query: 541 STGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDSLV 702
++PNGD T+Q V L +P + Y+C+VEHP L P+T W LS +LV
Sbjct: 261 PEDVLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATWEPSLSGTLV 314
>ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus]
Length = 299
Score = 78.2 bits (191), Expect = 1e-14
Identities = 54/208 (25%), Positives = 95/208 (45%), Gaps = 4/208 (1%)
Frame = +1
Query: 73 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 252
+ + LS + +D F G C N E Y Y+G ++++FD ++ +
Sbjct: 93 IFMETLSDIMDYYKDREGSHTFQGAFGCELRNN-ESSGAFWGYAYDGQDFIKFDKEIPAW 151
Query: 253 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYEISETFLVPRRAEPRVTVYP 420
+ + + + W ++ ++++ +A ++ C R S T L R+ P V+V
Sbjct: 152 VPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHL-DRQESPSVSV-T 209
Query: 421 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLET 600
P H L C FYP + + W R G + A ++P+G+ T+Q+ V++
Sbjct: 210 GHAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDVLPSGNGTYQSWVVVGV 267
Query: 601 VPQSGEVYTCRVEHPSLTSPVTVEWSER 684
P+ Y+C VEH SLT P+TV W R
Sbjct: 268 PPEDQAPYSCHVEHRSLTRPLTVPWDPR 295
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: 41,386,274
Number of Sequences: 33508
Number of extensions: 1220339
Number of successful extensions: 4650
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3869
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): 4607
length of database: 16,112,626
effective HSP length: 103
effective length of database: 12,661,302
effective search space used: 3215970708
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-014218
(1073 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 347 1e-95
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 339 3e-93
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 334 9e-92
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 332 4e-91
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 328 4e-90
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 326 2e-89
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 305 4e-83
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 282 4e-76
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 281 9e-76
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 280 1e-75
>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 = 347 bits (889), Expect = 1e-95
Identities = 188/330 (56%), Positives = 223/330 (67%), Gaps = 6/330 (1%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G +AALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDSLVPQAPRRGCAXXXXX 744
DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWSE+LSD + ++G
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQLSDFINFSPTKKG------- 233
Query: 745 XXXXXXXXXXXAACSPVLQLR*RGSPVTPCAR----NALMGYRHPVIVSPNTDAPRGGNS 912
P ++ P+ C+ +A + PVI+S NT P G +
Sbjct: 234 -----------TVLIPECRVSPLPHPIFICSMFSSPSAQVTEGSPVILSRNTCTPWGRSH 282
Query: 913 T*QAAWRMSLFS--AVSQVMVALWPLASVP 996
QA + L + +SQV + P A P
Sbjct: 283 ACQAGEAVPLLNLPMMSQVRITCCPWAPGP 312
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 339 bits (869), Expect = 3e-93
Identities = 162/220 (73%), Positives = 184/220 (83%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G + ALT+ L+VLS PLALA DT P FL+ K ECHFFNGTERVRLL+R
Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +E VRFDSDVGE+R VTE GRP A+YWNSQKD +EQ+RA VDT CRHNY + E+F V
Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR EP+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEW R
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAR 220
>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 = 334 bits (856), Expect = 9e-92
Identities = 162/220 (73%), Positives = 181/220 (82%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G +AALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEW R
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRAR 220
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 332 bits (850), Expect = 4e-91
Identities = 159/220 (72%), Positives = 181/220 (82%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G +AALT+ L+VLS LA A DT P FL L K+ECHFFNGTERVR LDRYF
Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
+N +E++RFDSDVGE+R VTE GRP A+ WNSQKD +EQKR VD CRHNY + E+F V
Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TS +TVEW R
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRAR 220
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 328 bits (842), Expect = 4e-90
Identities = 157/217 (72%), Positives = 178/217 (82%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G ++A LT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R
Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +E +RFDSDVGE+R VTE GRP A+YWNSQKDF+E +RA VDT CRHNY + E+F V
Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEW
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEW 217
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 326 bits (835), Expect = 2e-89
Identities = 154/220 (70%), Positives = 180/220 (81%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L G +AALT+ L VLS PLALA DT P FL K ECHF NGTERV L RY
Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +EY R++SD+GE++ VTE GRP A+YWNSQKD +E++RAEVDT CR+NY + E+F V
Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV+WS R
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSAR 220
>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 = 305 bits (781), Expect = 4e-83
Identities = 143/185 (77%), Positives = 158/185 (85%)
Frame = +1
Query: 130 FLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKD 309
FL K ECHFFNGTERVR L R YN +E VRFDSDVGE+R VTE GRP A+ WNSQKD
Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113
Query: 310 FMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 489
F+E++RAEVDTVCRHNY + E+F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG
Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173
Query: 490 VEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTV 669
+EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV
Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233
Query: 670 EWSER 684
EW R
Sbjct: 234 EWRAR 238
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 282 bits (721), Expect = 4e-76
Identities = 135/212 (63%), Positives = 161/212 (75%)
Frame = +1
Query: 49 GFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVR 228
GFW AA+T+MLV+LS P+A ARD P FL K C+F NGTERVR + RY YN +EY R
Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71
Query: 229 FDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRV 408
FDSDVGEF+ VTE GR S + WN+ KDF+EQ+RA VD VCRHNYE + R+ EP V
Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130
Query: 409 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMV 588
T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190
Query: 589 MLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
MLE PQ G++YTC+VEHPSL SP+TVEW R
Sbjct: 191 MLEITPQRGDIYTCQVEHPSLQSPITVEWRPR 222
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 281 bits (718), Expect = 9e-76
Identities = 132/209 (63%), Positives = 158/209 (75%)
Frame = +1
Query: 49 GFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVR 228
G A +T+ML +LS P+A RD+P F++ K C+F NGTERVRL+ R YN +E VR
Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71
Query: 229 FDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRV 408
FDSDVGEFR VT G P+A+YWNSQKD +E+KRA VD VCRHNY++ + RR EP V
Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131
Query: 409 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMV 588
T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V
Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191
Query: 589 MLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
MLE PQ G+VYTC VEHPSL SP+TVEW
Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEW 220
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 280 bits (716), Expect = 1e-75
Identities = 134/211 (63%), Positives = 160/211 (75%)
Frame = +1
Query: 64 ALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDV 243
ALT +L+VL + R TP ++LF G+ EC+ FNGT+R L+RY YN +E+ RFDSDV
Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYIYNREEFARFDSDV 71
Query: 244 GEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPA 423
GEFR VTE GRP+A+YWNSQKD +E+KRA D +CRHNYE+ + RR +PRV V P+
Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131
Query: 424 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETV 603
K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE
Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191
Query: 604 PQSGEVYTCRVEHPSLTSPVTVEWSERLSDS 696
PQ G+VYTC+VEH SL SPVTVEW + SDS
Sbjct: 192 PQQGDVYTCQVEHTSLDSPVTVEWKAQ-SDS 221
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: 47,303,666
Number of Sequences: 39411
Number of extensions: 1455139
Number of successful extensions: 6237
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4789
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): 6178
length of database: 17,774,539
effective HSP length: 103
effective length of database: 13,715,206
effective search space used: 3483662324
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-014218
(1073 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 [... 329 3e-90
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 286 2e-77
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 262 5e-70
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 246 4e-65
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 79 1e-14
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 76 5e-14
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 70 3e-12
Alignment gi|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] 68 1e-11
Alignment gi|NP_001030080.1| hypothetical protein LOC547343 [Mus musculus] 68 1e-11
Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 68 2e-11
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 329 bits (843), Expect = 3e-90
Identities = 151/206 (73%), Positives = 176/206 (85%)
Frame = +1
Query: 58 VAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 237
VAA+ ++L VLSPP+AL RD+ P FL K+ECHF+NGT+RVR L RYFYN +E +RFDS
Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69
Query: 238 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVY 417
DVGEFR VTE GRP A+ WNSQ + +++KRA VDT CRHNYEI + FLVPRR EP VTVY
Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129
Query: 418 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLE 597
P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE
Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189
Query: 598 TVPQSGEVYTCRVEHPSLTSPVTVEW 675
TVPQSGEVYTC+VEHPSLT PVTVEW
Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEW 215
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 286 bits (733), Expect = 2e-77
Identities = 136/220 (61%), Positives = 169/220 (76%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ L RG VAA+ + L++L+PP+ L RD P FL KAECH+FNG ERV + R+
Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
YN +E+ RF+SD G+F VTE GRP +Y N+QKD ++ RA VD CR+NY++ + F++
Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
+AEP+VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N
Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSER 684
DWT+QT+VMLE VP+ GEVYTC+VEHPSLTSPVTVEW R
Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRAR 219
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 262 bits (669), Expect = 5e-70
Identities = 124/207 (59%), Positives = 152/207 (73%), Gaps = 1/207 (0%)
Frame = +1
Query: 58 VAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 237
++A ++L+VLS P D+ HF++ EC+F NGT+R+R + RY YN +EYVR+DS
Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69
Query: 238 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAE-PRVTV 414
DVGE R VTE GRP A+YWNSQ + +E+ RAE+DTVCRHNYE ET RR E P V +
Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML
Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEW 675
E P+ GEVYTC VEHPSL SP+TVEW
Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEW 216
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 246 bits (627), Expect = 4e-65
Identities = 113/210 (53%), Positives = 146/210 (69%)
Frame = +1
Query: 46 RGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYV 225
R WV AL + L+ L + RD+P +F+ KA+C+F NGTE+V LL R+ +N +EY+
Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64
Query: 226 RFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPR 405
FDSD+G F +TE G P A WN + D +E RA V+ VCR Y++ F V R P
Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124
Query: 406 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTM 585
VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT
Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184
Query: 586 VMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
VMLE +P+ G++Y+C VEHP L PV+V W
Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 78.6 bits (192), Expect = 1e-14
Identities = 54/177 (30%), Positives = 78/177 (44%), Gaps = 15/177 (8%)
Frame = +1
Query: 205 YNGDEYVRFDSDVG-----EFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEIS 369
+N D +D DVG EF ++ + N Q+ + + + + H
Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFW 105
Query: 370 ETFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ-------- 519
+ L R P V V A+T P +L C V GFYP V + W +NGQ
Sbjct: 106 DV-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162
Query: 520 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLS 690
E+ A PNGDWT+QT+ L P G+VYTC V+H + P+ +W+ LS
Sbjct: 163 EKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLS 212
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 76.3 bits (186), Expect = 5e-14
Identities = 53/177 (29%), Positives = 79/177 (44%), Gaps = 15/177 (8%)
Frame = +1
Query: 205 YNGDEYVRFDSDVG-----EFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEIS 369
+N D +D DVG EF + + ++ N ++ +++ + + H
Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFW 105
Query: 370 ETFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ-------- 519
L R P V V A+T P +L C V GFYP V + W +NGQ
Sbjct: 106 NA-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162
Query: 520 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLS 690
E+ A PNGDWT+QT+ L P G+VYTC V+H + P+ +W+ LS
Sbjct: 163 EKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLS 212
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 70.5 bits (171), Expect = 3e-12
Identities = 46/165 (27%), Positives = 71/165 (43%), Gaps = 4/165 (2%)
Frame = +1
Query: 205 YNGDEYVRFDSDVGE-FREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEI--SET 375
++GDE D D E + EFG+ ++ F Q + V +HN + +
Sbjct: 53 FDGDELFYVDLDKKETVWMLPEFGQLAS--------FDPQGGLQNIAVVKHNLGVLTKRS 104
Query: 376 FLVPRRAE-PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGL 552
P E P+ TV+P L N L+C V +P + + W RN + GV T
Sbjct: 105 NSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSF 164
Query: 553 IPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERL 687
N D++F + L +P ++Y C+VEH L PV W +
Sbjct: 165 FVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEI 209
>ref|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus]
Length = 307
Score = 68.2 bits (165), Expect = 1e-11
Identities = 43/207 (20%), Positives = 90/207 (43%), Gaps = 6/207 (2%)
Frame = +1
Query: 73 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 252
+ LV L + +DT F G C N + RY Y+G++++ F+ ++ +
Sbjct: 91 IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149
Query: 253 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH------NYEISETFLVPRRAEPRVTV 414
+ + W ++K ++++ +A ++ C NY S R +P
Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECPEMLKRYLNYSRSHL----DRIDPPTVT 205
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
++ P + + C GFYP + + W +++A G+ PNG+ T+ + +
Sbjct: 206 ITSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEV 263
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEW 675
E PQ + + C ++H + ++V+W
Sbjct: 264 EVSPQDIDPFFCLIDHRGFSQSLSVQW 290
>ref|NP_001030080.1| hypothetical protein LOC547343 [Mus musculus]
Length = 362
Score = 68.2 bits (165), Expect = 1e-11
Identities = 46/170 (27%), Positives = 72/170 (42%), Gaps = 5/170 (2%)
Frame = +1
Query: 181 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC---- 348
+R +Y Y+G +Y+ + D+ + + + + W Q E+KRA ++ C
Sbjct: 134 LRGYQQYAYDGCDYIALNEDLKTWTAADTAAQITRRKWE-QAGAAERKRAYLEGTCVEWL 192
Query: 349 -RHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEE 525
RH +ET L + VT +P + L C GFYP + + W NG+E
Sbjct: 193 LRHLKNGNETLLRTDSPKAHVTHHPRSKGEVT----LRCWALGFYPADITLTWQLNGEEL 248
Query: 526 VAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
+ P GD TFQ + + YTC V H L P+T+ W
Sbjct: 249 TQDMELVETRPAGDGTFQKWAAVVVPLGKEQNYTCHVHHEGLPEPLTLRW 298
>ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus]
Length = 341
Score = 67.8 bits (164), Expect = 2e-11
Identities = 40/153 (26%), Positives = 71/153 (46%), Gaps = 4/153 (2%)
Frame = +1
Query: 196 RYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYE 363
+Y Y+G +++ F+ D + + + + W + ++ ++ ++ C + E
Sbjct: 129 QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLE 188
Query: 364 ISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVS 543
L R P V +T P C GFYP + + W +NG+E V
Sbjct: 189 YGRDTL-ERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVDY 245
Query: 544 TGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEH 642
G++P+GD T+QT + + PQS +VY+C VEH
Sbjct: 246 GGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278
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: 55,540,094
Number of Sequences: 45328
Number of extensions: 1625576
Number of successful extensions: 6503
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5219
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): 6458
length of database: 21,768,885
effective HSP length: 105
effective length of database: 17,009,445
effective search space used: 4286380140
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-014218
(1073 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... 341 6e-94
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 310 2e-84
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 268 7e-72
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 265 7e-71
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 74 2e-13
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 74 2e-13
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 70 4e-12
Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] 70 5e-12
Alignment gi|NP_001018646.1| MHC class Ib [Canis familiaris] 70 5e-12
Alignment gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] 67 2e-11
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 341 bits (875), Expect = 6e-94
Identities = 161/224 (71%), Positives = 185/224 (82%)
Frame = +1
Query: 25 MLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 204
M+ LCF G W+ AL ++L+VL+PP A ARDTPPHFL + K+EC+F NGTERVR ++RY
Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60
Query: 205 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 384
+N +E+VRFDSDVGEFR VTE GRP A+ WN QK+ +EQ+RA VDT CRHNY + E+F V
Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120
Query: 385 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 564
RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180
Query: 565 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWSERLSDS 696
DWTFQ +VMLE VPQSGEVYTC+VEHPSLTSPVTVEW + SDS
Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQ-SDS 223
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 310 bits (794), Expect = 2e-84
Identities = 145/219 (66%), Positives = 171/219 (78%)
Frame = +1
Query: 19 SSMLHLCFSRGFWVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 198
S + LC RGFW AA+ M+LVVLS P+A RD+P F+F KAEC+F NGTERVRLL +
Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61
Query: 199 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 378
Y YN +E+VRFDSDVGEFR VTE GRP A+YWN QKD M++ RAE+DTVCRHNY E
Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121
Query: 379 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 558
+ RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI
Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181
Query: 559 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
NGDWTFQ +VMLE PQ G+VYTC VEH SL SP+TV+W
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQW 220
>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 = 268 bits (685), Expect = 7e-72
Identities = 120/209 (57%), Positives = 154/209 (73%)
Frame = +1
Query: 55 WVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 234
W+ AL + + L + RD+P F+ KA+C+F NGTE+V+ + R+ +N +EY RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 235 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 414
S VG F +TE G+P A+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEWSE 681
E P+ G+VYTC V HPSL SPV+VEWSE
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWSE 216
>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 = 265 bits (676), Expect = 7e-71
Identities = 118/207 (57%), Positives = 152/207 (73%)
Frame = +1
Query: 55 WVAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 234
W+ AL + + L + RD+P F+ KA+C+F NGTE+V+ + R+ +N +EY RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 235 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 414
S VG F +TE G+P A+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 415 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 594
YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187
Query: 595 ETVPQSGEVYTCRVEHPSLTSPVTVEW 675
E P+ G+VYTC 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 = 74.3 bits (181), Expect = 2e-13
Identities = 42/132 (31%), Positives = 64/132 (48%), Gaps = 1/132 (0%)
Frame = +1
Query: 298 SQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGF 477
+Q++++ Q+ + C + + L R P V V + + +L C V GF
Sbjct: 81 NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140
Query: 478 YPGHVEVRWFRNGQEEVAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLT 654
YP V + W +NGQ + + + PNGDWT+QT+ L T P + YTC VEH
Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200
Query: 655 SPVTVEWSERLS 690
PV +W+ LS
Sbjct: 201 EPVCEDWTPGLS 212
>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 = 74.3 bits (181), Expect = 2e-13
Identities = 53/212 (25%), Positives = 101/212 (47%), Gaps = 8/212 (3%)
Frame = +1
Query: 73 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 252
+ +V L + +D F G C N RY Y+G ++ F+ ++ +
Sbjct: 96 IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154
Query: 253 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYEISETFLVPRRAEPRVTVYP 420
+ K W +++ ++++ +A ++ C + E +T+L R+ P V++
Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYL-DRQEPPSVSITS 213
Query: 421 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEVAGVVSTGLIPNGDWTFQTMVML 594
T + L C V+GFYP +++ W + + QE +G L+P+G+ T+Q V++
Sbjct: 214 HGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVM 268
Query: 595 ETVPQ--SGEVYTCRVEHPSLTSPVTVEWSER 684
PQ + Y+C V+H SL+ P+TV W +R
Sbjct: 269 SASPQDLASFSYSCLVKHSSLSQPLTVLWDKR 300
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 70.1 bits (170), Expect = 4e-12
Identities = 45/158 (28%), Positives = 68/158 (43%), Gaps = 1/158 (0%)
Frame = +1
Query: 205 YNGDEYVRFDSDVGE-FREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFL 381
++GDE D + E + EFGR ++ + +A +DT+ + + T
Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108
Query: 382 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPN 561
P VTV L N+L+C + F P + V W RNG GV T +P
Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165
Query: 562 GDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
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 = 69.7 bits (169), Expect = 5e-12
Identities = 49/181 (27%), Positives = 76/181 (41%), Gaps = 7/181 (3%)
Frame = +1
Query: 154 CHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAE 333
C G +R + Y+G +Y+ + D+ + + + + W + E R
Sbjct: 125 CDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAAGT-AEHDRNY 183
Query: 334 VDTVC----RHNYEISETFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYPGHV 492
++T C R E+ + L+ RAEP RVT +P H L C GFYP +
Sbjct: 184 LETTCVEWLRRYLEMGKETLL--RAEPPSTRVTRHPIS----DHEVTLRCWALGFYPAEI 237
Query: 493 EVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVE 672
+ W R+G+++ P GD TFQ + + YTC V+H L PVT
Sbjct: 238 TLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTRR 297
Query: 673 W 675
W
Sbjct: 298 W 298
>ref|NP_001018646.1| MHC class Ib [Canis familiaris]
Length = 381
Score = 69.7 bits (169), Expect = 5e-12
Identities = 46/172 (26%), Positives = 79/172 (45%), Gaps = 7/172 (4%)
Frame = +1
Query: 181 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNS------QKDFMEQKRAEVDT 342
+R R+ Y+G +Y+ D+ + + + + W++ +K+F+E + E
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197
Query: 343 VCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 519
+ RH ET +RA+P T +P+ H + L C GFYP + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252
Query: 520 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
++ P GD TFQ + + YTC + H SLT P+T+ W
Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRW 304
>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris]
Length = 381
Score = 67.4 bits (163), Expect = 2e-11
Identities = 45/172 (26%), Positives = 78/172 (45%), Gaps = 7/172 (4%)
Frame = +1
Query: 181 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNS------QKDFMEQKRAEVDT 342
+R R+ Y+G +Y+ D+ + + + + W++ +K+F+E + E
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197
Query: 343 VCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 519
+ RH ET +RA+P T +P+ H + L C GFYP + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252
Query: 520 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 675
++ P GD TFQ + + YTC + H SL P+T+ W
Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRW 304
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: 48,509,394
Number of Sequences: 33732
Number of extensions: 1431627
Number of successful extensions: 5676
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4518
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): 5634
length of database: 19,266,565
effective HSP length: 104
effective length of database: 15,758,437
effective search space used: 3986884561
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)