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-005392 (1101 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 9e-14 Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 60 7e-11 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 60 7e-11 Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 56 1e-09 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 70.1 bits (170), Expect = 9e-14 Identities = 42/162 (25%), Positives = 76/162 (46%), Gaps = 5/162 (3%) Frame = +1 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYC---RHNYRTSDT 414 Y+G +++ + D+ + AV + + + ++ + EQ RA ++ C H Y + Sbjct: 139 YDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAYLEVACVQSLHRYLANGK 197 Query: 415 FLVPRRAEPR--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 588 + R P+ VT +P+ + L C GFYP + + W + GQ+++ V Sbjct: 198 ETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISLTWQQEGQDQSQDVEVVE 253 Query: 589 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 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 = 60.5 bits (145), Expect = 7e-11 Identities = 45/168 (26%), Positives = 72/168 (42%), Gaps = 5/168 (2%) Frame = +1 Query: 247 NGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVP 426 NGEEF++FD+ +G + R + + D + + + + C H L Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHRLLGH---LER 192 Query: 427 RRA-----EPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 591 R EP A+ ++L C FYP +++R+ RNG AAG + + Sbjct: 193 GRGNLEWKEPPSMRMKARPGTAPGFSVLTCIAFSFYPPELQLRFLRNGL--AAGSGESDI 250 Query: 592 IPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESA 735 PNGD +F L Y C V+H L P+TVE + ++S+ Sbjct: 251 GPNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 60.5 bits (145), Expect = 7e-11 Identities = 32/92 (34%), Positives = 49/92 (53%) Frame = +1 Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618 P+V VY N L C V+GF+P +E+ +NG++ A + L + DW+F Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82 Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 +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 = 1e-09 Identities = 29/73 (39%), Positives = 39/73 (53%) Frame = +1 Query: 472 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQS 651 P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+ Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273 Query: 652 GEVYSCRVEHPSL 690 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: 1,151,540 Number of Sequences: 1040 Number of extensions: 31573 Number of successful extensions: 123 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 102 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): 117 length of database: 434,620 effective HSP length: 78 effective length of database: 353,500 effective search space used: 101808000 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-005392 (1101 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, ... 402 e-112 Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 332 3e-91 Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 295 3e-80 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 284 8e-77 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 279 3e-75 Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 268 4e-72 Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 251 7e-67 Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 213 2e-55 Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 78 1e-14 Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 74 2e-13 >ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus] Length = 266 Score = 402 bits (1032), Expect = e-112 Identities = 194/266 (72%), Positives = 216/266 (81%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L FS G WMAAL VML+VL PPLA AR+ PHFL K ECHFFNGTE+VR L+R + Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YNGEEFVRFDSD GE+RAVTELGRP A+++NSQKD LEQ+RAEVD CRHNY ++F V Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQTMVMLETVPQSGEVY+C+V+HP TSP+TVEWRARS+SAQ KMMSG+ Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 332 bits (851), Expect = 3e-91 Identities = 163/252 (64%), Positives = 191/252 (75%) Frame = +1 Query: 97 MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276 MAAL V+L+VLS P + AR+T PHF+ K EC F NG E++R R YN +E V FDS Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60 Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVY 456 DVGE+ A+TELGR DA+ +N QKD +EQ RA+VDT CR NY+ +FL RR EP VTVY Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120 Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636 PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180 Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816 TVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ K+MSGI I+ + Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLFIHLR 240 Query: 817 NQKGRPALQPTG 852 ++KG PALQP G Sbjct: 241 SKKGHPALQPIG 252 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 295 bits (756), Expect = 3e-80 Identities = 147/257 (57%), Positives = 178/257 (69%) Frame = +1 Query: 58 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237 S M+ L RG W A + V LV+LS P A RD+P F+ K C+F NGTE+VR + R Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61 Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417 YN EE+VRFDSD YRA+T LGRPDA+ +NSQKD LEQ RAE DT CRHNY+ Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121 Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597 + RR EP VT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181 Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777 NGDWTFQ +VMLE PQ G+VY+C VEHPSL SP+ VEWRA+SESAQ KM+SG+ Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241 Query: 778 XXXXXXXXXIYFKNQKG 828 I+ ++QKG Sbjct: 242 LIFLGLGLIIHHRSQKG 258 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 284 bits (727), Expect = 8e-77 Identities = 141/257 (54%), Positives = 179/257 (69%) Frame = +1 Query: 58 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237 S M+ L RG W AA+ V L VLS P A RD+P + +C+F NGTE+VR + R Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61 Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417 YN EE +DSDVGEYRAVT+LGR A+ +NSQKD+LEQ RAE+DT CRHNY+ Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121 Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597 + R+ EP VT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181 Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777 NGDWTFQ +VMLE P+ G+VY+C VEHPSL SP++VEWRA+SESAQ KM+SG+ Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241 Query: 778 XXXXXXXXXIYFKNQKG 828 + ++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 = 279 bits (713), Expect = 3e-75 Identities = 134/193 (69%), Positives = 151/193 (78%) Frame = +1 Query: 181 GKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQ 360 GK ECHF NGT+QVR L+R YN EE V+FDS VGEYRA TE+GRP A+ +N L++ Sbjct: 4 GKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQR 63 Query: 361 RRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVR 540 RA V YC NY + V RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVR Sbjct: 64 ARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVR 123 Query: 541 WFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRA 720 WFRNGQEE AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY+C VEHPS TSPVTVEWRA Sbjct: 124 WFRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRA 183 Query: 721 RSESAQGKMMSGI 759 + ES+Q KM+SGI Sbjct: 184 QDESSQEKMLSGI 196 >ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus] Length = 259 Score = 268 bits (686), Expect = 4e-72 Identities = 134/215 (62%), Positives = 159/215 (73%) Frame = +1 Query: 115 MLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYR 294 + +VL P A RD P +F++ K C+F NGTE VRL+ RQ YN EE + FDSD+GE+ Sbjct: 19 VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78 Query: 295 AVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQP 474 AVTELGR A+ +N+QKDLL + RA VDT CRHNY+ + F V RR EP VTV PA T+ Sbjct: 79 AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138 Query: 475 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 654 L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VMLETVPQ G Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198 Query: 655 EVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759 +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 = 251 bits (641), Expect = 7e-67 Identities = 120/246 (48%), Positives = 160/246 (65%) Frame = +1 Query: 94 WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273 W+ + L + RD+P F+ K +C+F NGTE+VR + R +N E++ RFD Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67 Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453 SD+G + A+TELG+PDA+ +N++ D+L + RA VD CR NY F V RR +P VTV Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127 Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633 YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187 Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813 P+ GEVY+C V+HPSL SPV+VEWRA+SE + K++SG ++ Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247 Query: 814 KNQKGR 831 + 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 = 213 bits (543), Expect = 2e-55 Identities = 127/272 (46%), Positives = 157/272 (57%), Gaps = 2/272 (0%) Frame = +1 Query: 46 PLLFSSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVR 225 P LF+S + L FS+G WMAAL VM+ LSP L AR+T Sbjct: 7 PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ--------------------- 44 Query: 226 LLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRH--NY 399 Y +V DS + A++ G+P A N + D C H Sbjct: 45 ------YKRTPWVVIDSQIS---AISH-GKPCALNGYRECD-----------GCFHPIGL 83 Query: 400 RTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVV 579 + + + ++ EP VTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF GQEE AGV+ Sbjct: 84 KANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVI 143 Query: 580 STGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759 STGLI NGDWTF+T+VMLETV QSGEVY+C++EHPS SP+ EWRA+S+SAQ KMMSG Sbjct: 144 STGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGT 203 Query: 760 XXXXXXXXXXXXXXXIYFKNQKGRPALQPTGL 855 +F+NQKG LQPTG+ Sbjct: 204 GGFALGLLFLVVGLFTHFRNQKGHSGLQPTGI 235 >ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] Length = 299 Score = 77.8 bits (190), Expect = 1e-14 Identities = 52/210 (24%), Positives = 94/210 (44%), Gaps = 3/210 (1%) Frame = +1 Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291 + + LS + +D F G F C N E Y+G++F++FD ++ + Sbjct: 93 IFMETLSDIMDYYKDREGSHTFQGAFGCELRNN-ESSGAFWGYAYDGQDFIKFDKEIPAW 151 Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCR---HNYRTSDTFLVPRRAEPRVTVYPA 462 + + + + ++ +++ +A ++ C Y + R+ P V+V Sbjct: 152 VPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHLDRQESPSVSV-TG 210 Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 642 P H L C FYP + + W R G + A ++P+G+ T+Q+ V++ Sbjct: 211 HAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDVLPSGNGTYQSWVVVGVP 268 Query: 643 PQSGEVYSCRVEHPSLTSPVTVEWRARSES 732 P+ YSC VEH SLT P+TV W R ++ Sbjct: 269 PEDQAPYSCHVEHRSLTRPLTVPWDPRQQA 298 >ref|NP_001012399.1| hemochromatosis [Bos taurus] Length = 356 Score = 73.9 bits (180), Expect = 2e-13 Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 4/176 (2%) Frame = +1 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRH---NYRTSDT 414 Y+G++ + F + ++RA + + K +Q RA +D C + Sbjct: 148 YDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLELGR 207 Query: 415 FLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EAAGVVSTGL 591 + ++ P V V T L L C FYP ++ +RW ++ Q +A + + Sbjct: 208 GPLEQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIKPEDV 264 Query: 592 IPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759 +PNGD T+Q V L +P + YSC+VEHP L P+T W S G +++GI Sbjct: 265 LPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW---EPSLSGTLVTGI 317 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: 43,989,244 Number of Sequences: 33508 Number of extensions: 1288079 Number of successful extensions: 5252 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4436 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): 5211 length of database: 16,112,626 effective HSP length: 103 effective length of database: 12,661,302 effective search space used: 3329922426 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-005392 (1101 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... 386 e-107 Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 325 4e-89 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 275 7e-74 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 258 6e-69 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 74 3e-13 Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 71 2e-12 Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 69 1e-11 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 66 5e-11 Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] 66 7e-11 Alignment gi|NP_001014401.1| MHC class I DLA-12 [Canis familiaris] 66 7e-11 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 386 bits (991), Expect = e-107 Identities = 186/266 (69%), Positives = 212/266 (79%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ LCF G WM AL ++L+VL+PP A ARDTPPHFL + K EC+F NGTE+VR +ER Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 +N EEFVRFDSDVGE+RAVTELGRP A+++N QK++LEQ RA VDTYCRHNY ++F V Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQ +VMLE VPQSGEVY+C+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 325 bits (834), Expect = 4e-89 Identities = 159/267 (59%), Positives = 194/267 (72%) Frame = +1 Query: 58 SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237 S + LC RGFW AA+ ++LVVLS P+A RD+P F+F K EC+F NGTE+VRLL + Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61 Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417 YN EEFVRFDSDVGE+RAVTELGRPDA+ +N QKD +++ RAE+DT CRHNY + Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121 Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597 + RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181 Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777 NGDWTFQ +VMLE PQ G+VY+C VEH SL SP+TV+WRA+SESAQ KM+SGI Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241 Query: 778 XXXXXXXXXIYFKNQKGRPALQPTGLL 858 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 (702), Expect = 7e-74 Identities = 133/253 (52%), Positives = 170/253 (67%) Frame = +1 Query: 94 WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273 WM AL V + L + RD+P F+ K +C+F NGTE+V+ + R +N EE+ RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453 S VG + A+TELG+PDA+ +NSQ +LE+ RA VD CRHNY F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813 E P+ G+VY+C V HPSL SPV+VEWRA+S + KM+SGI I Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247 Query: 814 KNQKGRPALQPTG 852 + 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 = 258 bits (660), Expect = 6e-69 Identities = 119/207 (57%), Positives = 151/207 (72%) Frame = +1 Query: 94 WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273 WM AL V + L + RD+P F+ K +C+F NGTE+V+ + R +N EE+ RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453 S VG + A+TELG+PDA+ +NSQ +LE+ RA VD CRHNY F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEW 714 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 = 73.6 bits (179), Expect = 3e-13 Identities = 42/130 (32%), Positives = 63/130 (48%), Gaps = 1/130 (0%) Frame = +1 Query: 328 NYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSV 507 +Y +Q++ L QR + C + ++ L R P V V + + +L C V Sbjct: 78 DYLNQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYV 137 Query: 508 TGFYPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYSCRVEHP 684 GFYP V + W +NGQ + + + PNGDWT+QT+ L T P + Y+C VEH Sbjct: 138 WGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHI 197 Query: 685 SLTSPVTVEW 714 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 = 71.2 bits (173), Expect = 2e-12 Identities = 52/218 (23%), Positives = 97/218 (44%), Gaps = 7/218 (3%) Frame = +1 Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291 + +V L + +D F G F C N R Y+G F+ F+ ++ + Sbjct: 96 IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154 Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCR---HNYRTSDTFLVPRRAEPRVTVYPA 462 K + +++ +++ +A ++ C Y + R+ P V++ Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYLDRQEPPSVSITSH 214 Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636 T + L C V+GFYP +++ W + + QE +G L+P+G+ T+Q V++ Sbjct: 215 GTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVMS 269 Query: 637 TVPQ--SGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 744 PQ + YSC V+H SL+ P+TV W R + + + Sbjct: 270 ASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 68.6 bits (166), Expect = 1e-11 Identities = 44/158 (27%), Positives = 67/158 (42%), Gaps = 1/158 (0%) Frame = +1 Query: 244 YNGEEFVRFDSDVGE-YRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFL 420 ++G+E D + E + E GR + + +A +DT + + T +T Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108 Query: 421 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 600 P VTV L N+L+C + F P + V W RNG GV T +P Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165 Query: 601 GDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 D F+ L +P + +VY C+VEH L P+ W Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203 >ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO alpha chain precursor (MHC class II antigen DOA) (MHC DZ alpha) (MHC DN-alpha) isoform 11 [Canis familiaris] Length = 227 Score = 66.2 bits (160), Expect = 5e-11 Identities = 32/92 (34%), Positives = 44/92 (47%) Frame = +1 Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618 PRV V P L N+L+C V +P + + W RNGQ + GV T D F+ Sbjct: 90 PRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPDHLFR 149 Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 L VP + ++Y C+VEH L P+ W Sbjct: 150 KFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHW 181 >ref|NP_001014767.1| MHC class I DLA-88 [Canis familiaris] Length = 361 Score = 65.9 bits (159), Expect = 7e-11 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 8/184 (4%) Frame = +1 Query: 187 FECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRR 366 + C G +R + Y+G +++ + D+ + A + + + + E R Sbjct: 123 YGCDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAA-GTAEHDR 181 Query: 367 AEVDTYC-----RHNYRTSDTFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYP 522 ++T C R+ +T L RAEP RVT +P H L C GFYP Sbjct: 182 NYLETTCVEWLRRYLEMGKETLL---RAEPPSTRVTRHPIS----DHEVTLRCWALGFYP 234 Query: 523 GHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPV 702 + + W R+G+++ P GD TFQ + + Y+C V+H L PV Sbjct: 235 AEITLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPV 294 Query: 703 TVEW 714 T W Sbjct: 295 TRRW 298 >ref|NP_001014401.1| MHC class I DLA-12 [Canis familiaris] Length = 358 Score = 65.9 bits (159), Expect = 7e-11 Identities = 49/188 (26%), Positives = 76/188 (40%), Gaps = 8/188 (4%) Frame = +1 Query: 175 FLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLL 354 F F C G +R + Y+G +++ + D+ + A + + + D Sbjct: 116 FQWMFGCDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADAAAQITRRKREAAGDAG 175 Query: 355 EQRRAEVDTYC-----RHNYRTSDTFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVT 510 R ++T C R+ +T L RAEP RVT +P H L C Sbjct: 176 HLRNY-LETTCVEWLRRYLEMGKETLL---RAEPPSTRVTRHPVS----DHEVTLRCWAL 227 Query: 511 GFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSL 690 GFYP + + W R+G+++ P GD TFQ + + Y+C V+H L Sbjct: 228 GFYPAEITLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGL 287 Query: 691 TSPVTVEW 714 PVT W Sbjct: 288 VEPVTRRW 295 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: 51,629,847 Number of Sequences: 33732 Number of extensions: 1501026 Number of successful extensions: 6050 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4980 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): 6027 length of database: 19,266,565 effective HSP length: 104 effective length of database: 15,758,437 effective search space used: 4128710494 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-005392 (1101 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 ... 394 e-110 Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 382 e-106 Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 379 e-105 Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 376 e-104 Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 369 e-102 Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 350 1e-96 Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 335 5e-92 Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 294 8e-80 Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 282 4e-76 Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 271 7e-73 >ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor [Homo sapiens] Length = 266 Score = 394 bits (1012), Expect = e-110 Identities = 195/266 (73%), Positives = 216/266 (81%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G M ALTV L+VLS PLALA DT P FL+ KFECHFFNGTE+VRLLER Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EE VRFDSDVGEYRAVTELGRPDA+ +NSQKDLLEQRRA VDTYCRHNY ++F V Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR EP+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 382 bits (980), Expect = e-106 Identities = 190/266 (71%), Positives = 210/266 (78%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G MAALTV L+VLS PLALA DT P FL KFECHFFNGTE+VR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EE VRFDSDVGEYRAVTELGRP A+++NSQKD LE+RRAEVDT CRHNY ++F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 379 bits (972), Expect = e-105 Identities = 186/266 (69%), Positives = 209/266 (78%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G +MA LTV L+VLS PLALA DT P FL K+ECHFFNGTE+VR L R Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EE +RFDSDVGEYRAVTELGRPDA+ +NSQKD LE RRA VDTYCRHNY ++F V Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRA+SESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 376 bits (965), Expect = e-104 Identities = 185/266 (69%), Positives = 211/266 (79%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G +AALTV L+VLS LA A DT P FL L K ECHFFNGTE+VR L+R + Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 +N EEF+RFDSDVGEYRAVTELGRP A+++NSQKDLLEQ+R VD YCRHNY ++F V Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQT+VMLETVP+SGEVY+C+VEHPS+TS +TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 369 bits (947), Expect = e-102 Identities = 182/266 (68%), Positives = 209/266 (78%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G MAALTV L VLS PLALA DT P FL K ECHF NGTE+V L R Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EE+ R++SD+GEY+AVTELGRPDA+ +NSQKDLLE+RRAEVDTYCR+NY ++F V Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV+W ARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240 Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 350 bits (898), Expect = 1e-96 Identities = 169/231 (73%), Positives = 187/231 (80%) Frame = +1 Query: 169 FLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKD 348 FL KFECHFFNGTE+VR L R YN EE VRFDSDVGEYRAVTELGRP A+++NSQKD Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113 Query: 349 LLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 528 LE+RRAEVDT CRHNY ++F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173 Query: 529 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTV 708 +EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233 Query: 709 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 861 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 = 335 bits (858), Expect = 5e-92 Identities = 164/217 (75%), Positives = 181/217 (83%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L G MAALTV L+VLS PLALA DT P FL KFECHFFNGTE+VR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EE VRFDSDVGEYRAVTELGRP A+++NSQKD LE+RRAEVDT CRHNY ++F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 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 = 294 bits (753), Expect = 8e-80 Identities = 145/247 (58%), Positives = 178/247 (72%) Frame = +1 Query: 88 GFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVR 267 G A +T+ML +LS P+A RD+P F++ K C+F NGTE+VRL+ R YN EE VR Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71 Query: 268 FDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRV 447 FDSDVGE+RAVT LG P A+ +NSQKD+LE++RA VD CRHNY+ + RR EP V Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131 Query: 448 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 627 T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191 Query: 628 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXI 807 MLE PQ G+VY+C VEHPSL SP+TVEWRA+SESAQ KM+SGI I Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLII 251 Query: 808 YFKNQKG 828 + ++QKG Sbjct: 252 HHRSQKG 258 >ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor [Homo sapiens] Length = 258 Score = 282 bits (721), Expect = 4e-76 Identities = 136/218 (62%), Positives = 165/218 (75%) Frame = +1 Query: 103 ALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDV 282 ALT +L+VL + R TP ++LF G+ EC+ FNGT+ R LER YN EEF RFDSDV Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQ--RFLERYIYNREEFARFDSDV 71 Query: 283 GEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPA 462 GE+RAVTELGRP A+ +NSQKD+LE++RA D CRHNY + RR +PRV V P+ Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131 Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETV 642 K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191 Query: 643 PQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSG 756 PQ G+VY+C+VEH SL SPVTVEW+A+S+SA+ K ++G Sbjct: 192 PQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLTG 229 >ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo sapiens] Length = 231 Score = 271 bits (693), Expect = 7e-73 Identities = 132/218 (60%), Positives = 160/218 (73%) Frame = +1 Query: 88 GFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVR 267 GFW AA+TVMLV+LS P+A ARD P FL K C+F NGTE+VR + R YN EE+ R Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71 Query: 268 FDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRV 447 FDSDVGE++AVTELGR +++N+ KD LEQ RA VD CRHNY + R+ EP V Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130 Query: 448 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 627 T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190 Query: 628 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQG 741 MLE PQ G++Y+C+VEHPSL SP+TVEWR R G Sbjct: 191 MLEITPQRGDIYTCQVEHPSLQSPITVEWRPRGPPPAG 228 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: 50,170,276 Number of Sequences: 39411 Number of extensions: 1515545 Number of successful extensions: 6678 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5212 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): 6586 length of database: 17,774,539 effective HSP length: 103 effective length of database: 13,715,206 effective search space used: 3607099178 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-005392 (1101 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 [... 370 e-102 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 298 5e-81 Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 279 4e-75 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 257 2e-68 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 77 4e-14 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 73 6e-13 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 71 2e-12 Alignment gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ... 70 4e-12 Alignment gi|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] 67 4e-11 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 66 7e-11 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 370 bits (950), Expect = e-102 Identities = 173/255 (67%), Positives = 209/255 (81%) Frame = +1 Query: 97 MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276 +AA+ ++L VLSPP+AL RD+ P FL K ECHF+NGT++VR L+R +YN EE +RFDS Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69 Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVY 456 DVGE+RAVTELGRPDA+N+NSQ ++L+++RA VDTYCRHNY D FLVPRR EP VTVY Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129 Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636 P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189 Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816 TVPQSGEVY+C+VEHPSLT PVTVEW+A+S SAQ KM+SG+ IYF+ Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLFIYFR 249 Query: 817 NQKGRPALQPTGLLS 861 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 = 298 bits (764), Expect = 5e-81 Identities = 147/252 (58%), Positives = 182/252 (72%) Frame = +1 Query: 64 MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243 M+ L RG +AA+ + L++L+PP+ L RD P FL K ECH+FNG E+V + R Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423 YN EEF RF+SD G++ AVTELGRP + N+QKD+L+ RA VD CR+NY D F++ Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119 Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603 +AEP+VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179 Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783 DWT+QT+VMLE VP+ GEVY+C+VEHPSLTSPVTVEWRARS SAQ K++SG+ Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLF 239 Query: 784 XXXXXXXIYFKN 819 Y +N Sbjct: 240 ILAVGLFFYLRN 251 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 279 bits (713), Expect = 4e-75 Identities = 140/255 (54%), Positives = 176/255 (69%), Gaps = 1/255 (0%) Frame = +1 Query: 97 MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276 ++A V+L+VLS P D+ HF++ EC+F NGT+++R + R YN EE+VR+DS Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69 Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAE-PRVTV 453 DVGE+RAVTELGRPDA+ +NSQ ++LE+ RAE+DT CRHNY +T RR E P V + Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129 Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633 ++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189 Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813 E P+ GEVY+C VEHPSL SP+TVEWRA+SESA KM+SGI I Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249 Query: 814 KNQKGRPALQPTGLL 858 ++QKG P GLL Sbjct: 250 RSQKGPRGPPPAGLL 264 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 257 bits (656), Expect = 2e-68 Identities = 127/254 (50%), Positives = 163/254 (64%) Frame = +1 Query: 85 RGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFV 264 R W+ AL V L+ L + RD+P +F+ K +C+F NGTE+V LL R +N EE++ Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64 Query: 265 RFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPR 444 FDSD+G + A+TELG PDA +N + DLLE RA V+ CR Y+ F V R P Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124 Query: 445 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 624 VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184 Query: 625 VMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 804 VMLE +P+ G++YSC VEHP L PV+V W A+SE + K++SG Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244 Query: 805 IYFKNQKGRPALQP 846 I+ K QK QP Sbjct: 245 IHLKAQKASVETQP 258 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 76.6 bits (187), Expect = 4e-14 Identities = 67/225 (29%), Positives = 98/225 (43%), Gaps = 19/225 (8%) Frame = +1 Query: 97 MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFN-------GTEQVRLLERQY---Y 246 MAAL ++L+VLS H + G F H + GT Q + Y + Sbjct: 1 MAALWLLLLVLSL----------HCMGAGGFVAHVESTCVLNDAGTPQ----DFTYCVSF 46 Query: 247 NGEEFVRFDSDVG-----EYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSD 411 N + +D DVG E+ ++ L + N Q+ L+ + + + H D Sbjct: 47 NKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFWD 106 Query: 412 TFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVV 579 L R P V V A+T P +L C V GFYP V + W +NGQ + Sbjct: 107 V-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKE 163 Query: 580 STGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 T PNGDWT+QT+ L P G+VY+C V+H + P+ +W Sbjct: 164 KTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 72.8 bits (177), Expect = 6e-13 Identities = 53/166 (31%), Positives = 79/166 (47%), Gaps = 9/166 (5%) Frame = +1 Query: 244 YNGEEFVRFDSDVGEYRAVTELG--RPDAKNYN---SQKDLLEQRRAEVDTYCRHNYRTS 408 +N + +D DVG+ E G P A+N++ ++++ L QR C + + Sbjct: 46 FNKDLLACWDPDVGKI-VPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPF 104 Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 576 L R P V V A+T P +L C V GFYP V + W +NGQ + Sbjct: 105 WNALTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162 Query: 577 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 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 = 70.9 bits (172), Expect = 2e-12 Identities = 31/92 (33%), Positives = 45/92 (48%) Frame = +1 Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618 P+ TV+P L N L+C V +P + + W RN + A GV T N D++F Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173 Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 + L +P ++Y C+VEH L PV W Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205 >ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus] Length = 341 Score = 70.1 bits (170), Expect = 4e-12 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 5/151 (3%) Frame = +1 Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYC-----RHNYRTS 408 Y+G++F+ F+ D + A+ + + + + L+ ++ ++ C R Sbjct: 132 YDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLEYGR 191 Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 588 DT + R P V +T P C GFYP + + W +NG+E A V G Sbjct: 192 DT--LERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVDYGG 247 Query: 589 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEH 681 ++P+GD T+QT + + PQS +VYSC VEH Sbjct: 248 VLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278 >ref|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] Length = 307 Score = 66.6 bits (161), Expect = 4e-11 Identities = 44/207 (21%), Positives = 87/207 (42%), Gaps = 6/207 (2%) Frame = +1 Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291 + LV L + +DT F G F C N + R Y+GE+F+ F+ ++ + Sbjct: 91 IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149 Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRH------NYRTSDTFLVPRRAEPRVTV 453 + + ++K +++ +A ++ C NY S R +P Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECPEMLKRYLNYSRSHL----DRIDPPTVT 205 Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633 ++ P + + C GFYP + + W ++ A G+ PNG+ T+ + + Sbjct: 206 ITSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEV 263 Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEW 714 E PQ + + C ++H + ++V+W Sbjct: 264 EVSPQDIDPFFCLIDHRGFSQSLSVQW 290 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 65.9 bits (159), Expect = 7e-11 Identities = 33/92 (35%), Positives = 44/92 (47%) Frame = +1 Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618 PRVTV P L N+L+C V +P + V W RN Q GV T + F+ Sbjct: 113 PRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFR 172 Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714 L VP + +VY C+VEH L +P+ W Sbjct: 173 KFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHW 204 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: 58,936,844 Number of Sequences: 45328 Number of extensions: 1708497 Number of successful extensions: 7270 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5787 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): 7216 length of database: 21,768,885 effective HSP length: 105 effective length of database: 17,009,445 effective search space used: 4439465145 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)