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-005388 (1119 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_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 60 1e-10 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 2e-10 Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 55 3e-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 = +3 Query: 198 CHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAE 377 C+ +R ++ Y+G +Y+ + D+ + V + + + W ++ EQ RA Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAY 180 Query: 378 VDTVC---RHNYEISETFLVPRRAEPR--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEV 542 ++ C H Y + + R P+ VT +P+ + L C GFYP + + Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISL 236 Query: 543 RWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 W + GQ++ V P+GD TF+ L P + YTC V+H L P+T+ W Sbjct: 237 TWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295 >ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] Length = 356 Score = 59.7 bits (143), Expect = 1e-10 Identities = 45/174 (25%), Positives = 74/174 (42%), Gaps = 11/174 (6%) Frame = +3 Query: 252 NGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH----------- 398 NG+E+++FD+ +G + R W + D + +++ + C H Sbjct: 136 NGEEFMKFDTKLGTWDGEWPEARTIGSKWMQEPDAVNKEKTFLLYSCPHRLLGHLERGRG 195 Query: 399 NYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAG 578 N E E + +A P T P ++L C FYP +++R+ RNG +G Sbjct: 196 NLEWKEPPSMRMKARPG-------TAP--GFSVLTCIAFSFYPPELQLRFLRNGLAAGSG 246 Query: 579 VVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESA 740 G PNGD +F L Y C V+H L P+TVE + ++S+ Sbjct: 247 ESDIG--PNGDGSFHAWSSLTVKSGDEHHYCCVVQHAGLAQPLTVELESPAKSS 298 >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 = +3 Query: 444 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQ 623 P+V VY N L C V+GF+P +E+ +NG++ A + L + DW+F Sbjct: 25 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82 Query: 624 TMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 +V E P + + Y+CRV+H +L P V+W Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114 >ref|NP_998996.1| CD1 antigen [Sus scrofa] Length = 339 Score = 55.1 bits (131), Expect = 3e-09 Identities = 28/73 (38%), Positives = 39/73 (53%) Frame = +3 Query: 477 PLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQS 656 P H +LVC V+GFYP + V W R+ QE+ G ++PN D T+ V L+ Sbjct: 215 PSPGHLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGE 273 Query: 657 GEVYTCRVEHPSL 695 +CRV+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: 1,166,209 Number of Sequences: 1040 Number of extensions: 32744 Number of successful extensions: 128 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 104 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): 122 length of database: 434,620 effective HSP length: 78 effective length of database: 353,500 effective search space used: 103929000 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-005388 (1119 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, ... 413 e-115 Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 343 2e-94 Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 306 2e-83 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 295 6e-80 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 281 9e-76 Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 267 1e-71 Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 257 1e-68 Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 212 4e-55 Alignment gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] 79 8e-15 Alignment gi|NP_001012399.1| hemochromatosis [Bos taurus] 77 2e-14 >ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus] Length = 266 Score = 413 bits (1062), Expect = e-115 Identities = 198/266 (74%), Positives = 218/266 (81%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L FS G WMAAL +ML+VL PPLA AR+ PHFL K ECHFFNGTERVR LDR+F Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YNG+E+VRFDSD GEFR VTE GRP+A++WNSQKDF+EQKRAEVD VCRHNY E+F V Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQTMVMLETVPQSGEVYTC+V+HP TSP+TVEWRARS+SAQ KMMSG+ Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 IYF+NQKGRP LQPTGLLS Sbjct: 241 FLAVGLFIYFRNQKGRPTLQPTGLLS 266 >ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II, DR beta 5 precursor [Bos taurus] Length = 255 Score = 343 bits (879), Expect = 2e-94 Identities = 167/252 (66%), Positives = 191/252 (75%) Frame = +3 Query: 102 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 281 MAAL ++L+VLS P + AR+T PHF+ K EC F NG ER+R RY YN E V FDS Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60 Query: 282 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVY 461 DVGEF +TE GR A+YWN QKDFMEQ RA+VDT+CR NY+ +FL RR EP VTVY Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120 Query: 462 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLE 641 PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N EE AGV+STGLI NGDWTFQTMVMLE Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180 Query: 642 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 821 TVPQSGEVYTC+VEHPS TSP+TVEWRA+S+SAQ K+MSGI I+ + Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLFIHLR 240 Query: 822 NQKGRPALQPTG 857 ++KG PALQP G Sbjct: 241 SKKGHPALQPIG 252 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 306 bits (783), Expect = 2e-83 Identities = 148/257 (57%), Positives = 179/257 (69%) Frame = +3 Query: 63 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 242 S M+ L RG W A + + LV+LS P A RD+P F+ K C+F NGTERVR + R Sbjct: 2 SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61 Query: 243 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 422 Y YN +EYVRFDSD +R +T GRP A+YWNSQKDF+EQ RAE DTVCRHNY+ Sbjct: 62 YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121 Query: 423 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 602 + RR EP VT+ P++T+ L HHNLLVCSVT FYP ++VRWFRN +EE AGVVST LI Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181 Query: 603 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 782 NGDWTFQ +VMLE PQ G+VYTC VEHPSL SP+ VEWRA+SESAQ KM+SG+ Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241 Query: 783 XXXXXXXXXIYFKNQKG 833 I+ ++QKG Sbjct: 242 LIFLGLGLIIHHRSQKG 258 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 295 bits (754), Expect = 6e-80 Identities = 141/257 (54%), Positives = 180/257 (70%) Frame = +3 Query: 63 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 242 S M+ L RG W AA+ + L VLS P A RD+P + +C+F NGTERVR + R Sbjct: 2 SGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVTR 61 Query: 243 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 422 Y YN +E +DSDVGE+R VT+ GR A+YWNSQKD +EQ RAE+DTVCRHNY++ Sbjct: 62 YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121 Query: 423 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 602 + R+ EP VT+ ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181 Query: 603 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 782 NGDWTFQ +VMLE P+ G+VYTC VEHPSL SP++VEWRA+SESAQ KM+SG+ Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241 Query: 783 XXXXXXXXXIYFKNQKG 833 + ++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 = 281 bits (718), Expect = 9e-76 Identities = 132/193 (68%), Positives = 151/193 (78%) Frame = +3 Query: 186 GKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQ 365 GK+ECHF NGT++VR LDRY YN +E V+FDS VGE+R TE GRP+A+ WN +++ Sbjct: 4 GKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQR 63 Query: 366 KRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVR 545 RA V C NYE + V RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVR Sbjct: 64 ARAAVHAYCASNYEFFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVR 123 Query: 546 WFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRA 725 WFRNGQEE AGVVSTGLIPNGDWTFQ MVMLE VPQ GEVY C VEHPS TSPVTVEWRA Sbjct: 124 WFRNGQEEEAGVVSTGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRA 183 Query: 726 RSESAQGKMMSGI 764 + ES+Q KM+SGI Sbjct: 184 QDESSQEKMLSGI 196 >ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus] Length = 259 Score = 267 bits (682), Expect = 1e-71 Identities = 130/215 (60%), Positives = 156/215 (72%) Frame = +3 Query: 120 MLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFR 299 + +VL P A RD P +F++ K C+F NGTE VRL+ R YN +E + FDSD+GEF Sbjct: 19 VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78 Query: 300 EVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQP 479 VTE GR A+ WN+QKD + + RA VDT+CRHNY+ + F V RR EP VTV PA T+ Sbjct: 79 AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138 Query: 480 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSG 659 L HHNLLVCSVT FYP V+V+WFRN QE+ AGV T L NGDWT+Q VMLETVPQ G Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198 Query: 660 EVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 764 +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 = 257 bits (656), Expect = 1e-68 Identities = 120/246 (48%), Positives = 160/246 (65%) Frame = +3 Query: 99 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 278 W+ + L + RD+P F+ KA+C+F NGTE+VR + R+ +N ++Y RFD Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67 Query: 279 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 458 SD+G F +TE G+P A+ WN++ D + + RA VD +CR NY + F V RR +P VTV Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127 Query: 459 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 638 YP KT LQH NLL+C VTGFYPG ++V WFRNGQE+ G++STGLI NGDWTFQ VML Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187 Query: 639 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 818 P+ GEVYTC V+HPSL SPV+VEWRA+SE + K++SG ++ Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247 Query: 819 KNQKGR 836 + KGR Sbjct: 248 RAWKGR 253 >ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen, DRB1-7 beta chain precursor (MHC class I antigen DRB1*7) (DR-7) (DR7) [Bos taurus] Length = 347 Score = 212 bits (540), Expect = 4e-55 Identities = 125/272 (45%), Positives = 153/272 (56%), Gaps = 2/272 (0%) Frame = +3 Query: 51 PLLFSSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVR 230 P LF+S + L FS+G WMAAL +M+ LSP L AR+T Sbjct: 7 PFLFASTVCLYFSKGSWMAALLVMMG-LSPLLTWARETQ--------------------- 44 Query: 231 LLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH--NY 404 Y +V DS + G+P A + D C H Sbjct: 45 ------YKRTPWVVIDSQISAISH----GKPCALNGYRECDG-----------CFHPIGL 83 Query: 405 EISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVV 584 + + + ++ EP VTVYPAKTQPLQH++LLVCSV GFY GHVEVRWF GQEE AGV+ Sbjct: 84 KANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVI 143 Query: 585 STGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 764 STGLI NGDWTF+T+VMLETV QSGEVYTC++EHPS SP+ EWRA+S+SAQ KMMSG Sbjct: 144 STGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGT 203 Query: 765 XXXXXXXXXXXXXXXIYFKNQKGRPALQPTGL 860 +F+NQKG LQPTG+ Sbjct: 204 GGFALGLLFLVVGLFTHFRNQKGHSGLQPTGI 235 >ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus] Length = 299 Score = 78.6 bits (192), Expect = 8e-15 Identities = 54/211 (25%), Positives = 97/211 (45%), Gaps = 4/211 (1%) Frame = +3 Query: 117 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 296 + + LS + +D F G C N E Y Y+G ++++FD ++ + Sbjct: 93 IFMETLSDIMDYYKDREGSHTFQGAFGCELRNN-ESSGAFWGYAYDGQDFIKFDKEIPAW 151 Query: 297 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYEISETFLVPRRAEPRVTVYP 464 + + + + W ++ ++++ +A ++ C R S T L R+ P V+V Sbjct: 152 VPLDPAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHL-DRQESPSVSV-T 209 Query: 465 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLET 644 P H L C FYP + + W R G + A ++P+G+ T+Q+ V++ Sbjct: 210 GHAAP-GHKRTLKCLAYDFYPRSIGLHWTRAGDAQEAES-GGDVLPSGNGTYQSWVVVGV 267 Query: 645 VPQSGEVYTCRVEHPSLTSPVTVEWRARSES 737 P+ Y+C VEH SLT P+TV W R ++ Sbjct: 268 PPEDQAPYSCHVEHRSLTRPLTVPWDPRQQA 298 >ref|NP_001012399.1| hemochromatosis [Bos taurus] Length = 356 Score = 77.4 bits (189), Expect = 2e-14 Identities = 51/180 (28%), Positives = 84/180 (46%), Gaps = 5/180 (2%) Frame = +3 Query: 240 RYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCR----HNYE 407 +Y Y+G +++ F + ++R + + W K +Q RA +D C H E Sbjct: 145 KYGYDGQDHLEFRPETLDWRAAEPRAQVTKLEWEVNKIRAKQNRAYLDRDCPEQLLHLLE 204 Query: 408 ISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQE-EVAGVV 584 + L ++ P V V T L L C FYP ++ +RW ++ Q + + Sbjct: 205 LGRGPL-EQQVPPLVKVTHHVTSSL---TTLRCRALNFYPQNITIRWLKDKQFLDAKEIK 260 Query: 585 STGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 764 ++PNGD T+Q V L +P + Y+C+VEHP L P+T W S G +++GI Sbjct: 261 PEDVLPNGDGTYQAWVALAMLPGEEQRYSCQVEHPGLDQPLTATW---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: 44,551,578 Number of Sequences: 33508 Number of extensions: 1331583 Number of successful extensions: 5327 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4355 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): 5270 length of database: 16,112,626 effective HSP length: 103 effective length of database: 12,661,302 effective search space used: 3405890238 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-005388 (1119 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... 389 e-108 Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 340 2e-93 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 282 4e-76 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 266 3e-71 Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 73 4e-13 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 72 1e-12 Alignment gi|NP_001018646.1| MHC class Ib [Canis familiaris] 70 3e-12 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|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] 68 1e-11 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 389 bits (998), Expect = e-108 Identities = 185/266 (69%), Positives = 211/266 (79%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ LCF G WM AL ++L+VL+PP A ARDTPPHFL + K+EC+F NGTERVR ++RY Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 +N +E+VRFDSDVGEFR VTE GRP A+ WN QK+ +EQ+RA VDT CRHNY + E+F V Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQ +VMLE VPQSGEVYTC+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 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 = 340 bits (871), Expect = 2e-93 Identities = 165/267 (61%), Positives = 195/267 (73%) Frame = +3 Query: 63 SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDR 242 S + LC RGFW AA+ M+LVVLS P+A RD+P F+F KAEC+F NGTERVRLL + Sbjct: 2 SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61 Query: 243 YFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETF 422 Y YN +E+VRFDSDVGEFR VTE GRP A+YWN QKD M++ RAE+DTVCRHNY E Sbjct: 62 YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121 Query: 423 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIP 602 + RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181 Query: 603 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 782 NGDWTFQ +VMLE PQ G+VYTC VEH SL SP+TV+WRA+SESAQ KM+SGI Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241 Query: 783 XXXXXXXXXIYFKNQKGRPALQPTGLL 863 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 = 282 bits (722), Expect = 4e-76 Identities = 133/253 (52%), Positives = 171/253 (67%) Frame = +3 Query: 99 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 278 WM AL + + L + RD+P F+ KA+C+F NGTE+V+ + R+ +N +EY RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 279 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 458 S VG F +TE G+P A+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 459 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 638 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 639 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 818 E P+ G+VYTC V HPSL SPV+VEWRA+S + KM+SGI I Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247 Query: 819 KNQKGRPALQPTG 857 + 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 = 266 bits (680), Expect = 3e-71 Identities = 119/207 (57%), Positives = 152/207 (73%) Frame = +3 Query: 99 WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFD 278 WM AL + + L + RD+P F+ KA+C+F NGTE+V+ + R+ +N +EY RFD Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67 Query: 279 SDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTV 458 S VG F +TE G+P A+ WNSQ +E+ RA VD +CRHNYE+ F V R+ +P VTV Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127 Query: 459 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 638 YP +T +QHHNLL+CSVTGFYPG ++++WFRNGQEE GV+STGLI NGDWTFQTMVML Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187 Query: 639 ETVPQSGEVYTCRVEHPSLTSPVTVEW 719 E P+ G+VYTC V HPSL SPV+VEW Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEW 214 >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 = 73.2 bits (178), Expect = 4e-13 Identities = 53/219 (24%), Positives = 103/219 (47%), Gaps = 8/219 (3%) Frame = +3 Query: 117 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 296 + +V L + +D F G C N RY Y+G ++ F+ ++ + Sbjct: 96 IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154 Query: 297 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYEISETFLVPRRAEPRVTVYP 464 + K W +++ ++++ +A ++ C + E +T+L R+ P V++ Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYL-DRQEPPSVSITS 213 Query: 465 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEVAGVVSTGLIPNGDWTFQTMVML 638 T + L C V+GFYP +++ W + + QE +G L+P+G+ T+Q V++ Sbjct: 214 HGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVM 268 Query: 639 ETVPQ--SGEVYTCRVEHPSLTSPVTVEWRARSESAQGK 749 PQ + Y+C V+H SL+ P+TV W R + + + Sbjct: 269 SASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307 >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 = 72.0 bits (175), Expect = 1e-12 Identities = 40/127 (31%), Positives = 61/127 (48%), Gaps = 1/127 (0%) Frame = +3 Query: 342 SQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGF 521 +Q++++ Q+ + C + + L R P V V + + +L C V GF Sbjct: 81 NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140 Query: 522 YPGHVEVRWFRNGQEEVAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLT 698 YP V + W +NGQ + + + PNGDWT+QT+ L T P + YTC VEH Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200 Query: 699 SPVTVEW 719 PV +W Sbjct: 201 EPVCEDW 207 >ref|NP_001018646.1| MHC class Ib [Canis familiaris] Length = 381 Score = 70.5 bits (171), Expect = 3e-12 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 7/178 (3%) Frame = +3 Query: 225 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNS------QKDFMEQKRAEVDT 386 +R R+ Y+G +Y+ D+ + + + + W++ +K+F+E + E Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197 Query: 387 VCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 563 + RH ET +RA+P T +P+ H + L C GFYP + + W R+G+ Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252 Query: 564 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 737 ++ P GD TFQ + + YTC + H SLT P+T+ W +S Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQS 310 >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 = +3 Query: 249 YNGDEYVRFDSDVGE-FREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFL 425 ++GDE D + E + EFGR ++ + +A +DT+ + + T Sbjct: 51 FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108 Query: 426 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPN 605 P VTV L N+L+C + F P + V W RNG GV T +P Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165 Query: 606 GDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 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 = +3 Query: 198 CHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAE 377 C G +R + Y+G +Y+ + D+ + + + + W + E R Sbjct: 125 CDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAAGT-AEHDRNY 183 Query: 378 VDTVC----RHNYEISETFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYPGHV 536 ++T C R E+ + L+ RAEP RVT +P H L C GFYP + Sbjct: 184 LETTCVEWLRRYLEMGKETLL--RAEPPSTRVTRHPIS----DHEVTLRCWALGFYPAEI 237 Query: 537 EVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVE 716 + W R+G+++ P GD TFQ + + YTC V+H L PVT Sbjct: 238 TLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTRR 297 Query: 717 W 719 W Sbjct: 298 W 298 >ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris] Length = 381 Score = 68.2 bits (165), Expect = 1e-11 Identities = 46/178 (25%), Positives = 80/178 (44%), Gaps = 7/178 (3%) Frame = +3 Query: 225 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNS------QKDFMEQKRAEVDT 386 +R R+ Y+G +Y+ D+ + + + + W++ +K+F+E + E Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197 Query: 387 VCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 563 + RH ET +RA+P T +P+ H + L C GFYP + + W R+G+ Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252 Query: 564 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 737 ++ P GD TFQ + + YTC + H SL P+T+ W +S Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEPPPQS 310 Database: RefSeqCP Posted date: Aug 1, 2006 9:25 PM Number of letters in database: 19,266,565 Number of sequences in database: 33,732 Lambda K H 0.318 0.134 0.401 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 52,279,488 Number of Sequences: 33732 Number of extensions: 1559644 Number of successful extensions: 6344 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5056 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): 6290 length of database: 19,266,565 effective HSP length: 104 effective length of database: 15,758,437 effective search space used: 4223261116 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-005388 (1119 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 ... 386 e-107 Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 381 e-106 Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 378 e-105 Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 375 e-104 Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 370 e-103 Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 351 7e-97 Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 334 7e-92 Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 306 2e-83 Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 293 2e-79 Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 285 6e-77 >ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor [Homo sapiens] Length = 266 Score = 386 bits (992), Expect = e-107 Identities = 188/266 (70%), Positives = 212/266 (79%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G M ALT+ L+VLS PLALA DT P FL+ K ECHFFNGTERVRLL+R Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +E VRFDSDVGE+R VTE GRP A+YWNSQKD +EQ+RA VDT CRHNY + E+F V Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR EP+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 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 = 381 bits (979), Expect = e-106 Identities = 188/266 (70%), Positives = 209/266 (78%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G MAALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 IYF+NQKG LQPTG LS Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266 >ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor [Homo sapiens] Length = 266 Score = 378 bits (970), Expect = e-105 Identities = 184/266 (69%), Positives = 209/266 (78%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G +AALT+ L+VLS LA A DT P FL L K+ECHFFNGTERVR LDRYF Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 +N +E++RFDSDVGE+R VTE GRP A+ WNSQKD +EQKR VD CRHNY + E+F V Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQT+VMLETVP+SGEVYTC+VEHPS+TS +TVEWRARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 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 = 375 bits (963), Expect = e-104 Identities = 183/266 (68%), Positives = 207/266 (77%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G +MA LT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +E +RFDSDVGE+R VTE GRP A+YWNSQKDF+E +RA VDT CRHNY + E+F V Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRA+SESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 IYFKNQKG L PTGL+S Sbjct: 241 FLGAGLFIYFKNQKGHSGLHPTGLVS 266 >ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor [Homo sapiens] Length = 266 Score = 370 bits (951), Expect = e-103 Identities = 179/266 (67%), Positives = 207/266 (77%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G MAALT+ L VLS PLALA DT P FL K ECHF NGTERV L RY Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +EY R++SD+GE++ VTE GRP A+YWNSQKD +E++RAEVDT CR+NY + E+F V Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV+W ARSESAQ KM+SG+ Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240 Query: 789 XXXXXXXIYFKNQKGRPALQPTGLLS 866 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 = 351 bits (900), Expect = 7e-97 Identities = 168/231 (72%), Positives = 186/231 (80%) Frame = +3 Query: 174 FLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKD 353 FL K ECHFFNGTERVR L R YN +E VRFDSDVGE+R VTE GRP A+ WNSQKD Sbjct: 54 FLKQDKFECHFFNGTERVRYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKD 113 Query: 354 FMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 533 F+E++RAEVDTVCRHNY + E+F V RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG Sbjct: 114 FLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 173 Query: 534 VEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTV 713 +EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV Sbjct: 174 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 233 Query: 714 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 866 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 = 334 bits (857), Expect = 7e-92 Identities = 162/217 (74%), Positives = 180/217 (82%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L G MAALT+ L+VLS PLALA DT P FL K ECHFFNGTERVR L R Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +E VRFDSDVGE+R VTE GRP A+ WNSQKDF+E++RAEVDTVCRHNY + E+F V Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTV 120 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 RR P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 DWTFQT+VMLETVP+SGEVYTC+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 = 306 bits (784), Expect = 2e-83 Identities = 148/247 (59%), Positives = 179/247 (72%) Frame = +3 Query: 93 GFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVR 272 G A +T+ML +LS P+A RD+P F++ K C+F NGTERVRL+ R YN +E VR Sbjct: 12 GLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVR 71 Query: 273 FDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRV 452 FDSDVGEFR VT G P+A+YWNSQKD +E+KRA VD VCRHNY++ + RR EP V Sbjct: 72 FDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTV 131 Query: 453 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMV 632 T+ P++T+ L HHNLLVCSVT FYP ++VRWFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 132 TISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILV 191 Query: 633 MLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXI 812 MLE PQ G+VYTC VEHPSL SP+TVEWRA+SESAQ KM+SGI I Sbjct: 192 MLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLII 251 Query: 813 YFKNQKG 833 + ++QKG Sbjct: 252 HHRSQKG 258 >ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor [Homo sapiens] Length = 258 Score = 293 bits (749), Expect = 2e-79 Identities = 137/218 (62%), Positives = 168/218 (77%) Frame = +3 Query: 108 ALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDV 287 ALT +L+VL + R TP ++LF G+ EC+ FNGT+R L+RY YN +E+ RFDSDV Sbjct: 14 ALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQR--FLERYIYNREEFARFDSDV 71 Query: 288 GEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVYPA 467 GEFR VTE GRP+A+YWNSQKD +E+KRA D +CRHNYE+ + RR +PRV V P+ Sbjct: 72 GEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNVSPS 131 Query: 468 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLETV 647 K PLQHHNLLVC VT FYPG ++VRWF NGQEE AGVVST LI NGDWTFQ +VMLE Sbjct: 132 KKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVSTNLIRNGDWTFQILVMLEMT 191 Query: 648 PQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSG 761 PQ G+VYTC+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 = 285 bits (728), Expect = 6e-77 Identities = 137/218 (62%), Positives = 163/218 (74%) Frame = +3 Query: 93 GFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVR 272 GFW AA+T+MLV+LS P+A ARD P FL K C+F NGTERVR + RY YN +EY R Sbjct: 12 GFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVARYIYNREEYGR 71 Query: 273 FDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRV 452 FDSDVGEF+ VTE GR S + WN+ KDF+EQ+RA VD VCRHNYE + R+ EP V Sbjct: 72 FDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTV 130 Query: 453 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMV 632 T+ P++T+ L HHNLLVCSVT FYP ++V+WFRN QEE AGVVST LI NGDWTFQ +V Sbjct: 131 TISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWTFQILV 190 Query: 633 MLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQG 746 MLE PQ G++YTC+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: 50,852,582 Number of Sequences: 39411 Number of extensions: 1570082 Number of successful extensions: 6953 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5311 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): 6907 length of database: 17,774,539 effective HSP length: 103 effective length of database: 13,715,206 effective search space used: 3689390414 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-005388 (1119 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 [... 372 e-103 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 305 6e-83 Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 288 5e-78 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 259 5e-69 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 76 6e-14 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 74 3e-13 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 70 4e-12 Alignment gi|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] 68 2e-11 Alignment gi|NP_001030080.1| hypothetical protein LOC547343 [Mus musculus] 68 2e-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 = 372 bits (954), Expect = e-103 Identities = 174/255 (68%), Positives = 206/255 (80%) Frame = +3 Query: 102 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 281 +AA+ ++L VLSPP+AL RD+ P FL K+ECHF+NGT+RVR L RYFYN +E +RFDS Sbjct: 10 VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEENLRFDS 69 Query: 282 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPRVTVY 461 DVGEFR VTE GRP A+ WNSQ + +++KRA VDT CRHNYEI + FLVPRR EP VTVY Sbjct: 70 DVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTVY 129 Query: 462 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVMLE 641 P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE G+VSTGL+ NGDWTFQT+VMLE Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189 Query: 642 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 821 TVPQSGEVYTC+VEHPSLT PVTVEW+A+S SAQ KM+SG+ IYF+ Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLFIYFR 249 Query: 822 NQKGRPALQPTGLLS 866 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 = 305 bits (781), Expect = 6e-83 Identities = 146/252 (57%), Positives = 184/252 (73%) Frame = +3 Query: 69 MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYF 248 M+ L RG +AA+ + L++L+PP+ L RD P FL KAECH+FNG ERV + R+ Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60 Query: 249 YNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLV 428 YN +E+ RF+SD G+F VTE GRP +Y N+QKD ++ RA VD CR+NY++ + F++ Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119 Query: 429 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNG 608 +AEP+VTVYPAKTQPL+HHNLLVCSV FYPG +EVRWFRNG+EE GVVSTGLI N Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179 Query: 609 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 788 DWT+QT+VMLE VP+ GEVYTC+VEHPSLTSPVTVEWRARS SAQ K++SG+ Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLF 239 Query: 789 XXXXXXXIYFKN 824 Y +N Sbjct: 240 ILAVGLFFYLRN 251 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 288 bits (738), Expect = 5e-78 Identities = 143/255 (56%), Positives = 175/255 (68%), Gaps = 1/255 (0%) Frame = +3 Query: 102 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDS 281 ++A ++L+VLS P D+ HF++ EC+F NGT+R+R + RY YN +EYVR+DS Sbjct: 10 LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69 Query: 282 DVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAE-PRVTV 458 DVGE R VTE GRP A+YWNSQ + +E+ RAE+DTVCRHNYE ET RR E P V + Sbjct: 70 DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129 Query: 459 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 638 ++T+ L HHN LVCSVT FYP ++VRWFRNGQEE GV ST LI NGDWTFQ +VML Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189 Query: 639 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 818 E P+ GEVYTC VEHPSL SP+TVEWRA+SESA KM+SGI I Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249 Query: 819 KNQKGRPALQPTGLL 863 ++QKG P GLL Sbjct: 250 RSQKGPRGPPPAGLL 264 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 259 bits (661), Expect = 5e-69 Identities = 124/254 (48%), Positives = 163/254 (64%) Frame = +3 Query: 90 RGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYV 269 R W+ AL + L+ L + RD+P +F+ KA+C+F NGTE+V LL R+ +N +EY+ Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64 Query: 270 RFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEISETFLVPRRAEPR 449 FDSD+G F +TE G P A WN + D +E RA V+ VCR Y++ F V R P Sbjct: 65 HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124 Query: 450 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTM 629 VTVYP +T LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184 Query: 630 VMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 809 VMLE +P+ G++Y+C VEHP L PV+V W A+SE + K++SG Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244 Query: 810 IYFKNQKGRPALQP 851 I+ K QK QP Sbjct: 245 IHLKAQKASVETQP 258 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 76.3 bits (186), Expect = 6e-14 Identities = 52/172 (30%), Positives = 75/172 (43%), Gaps = 15/172 (8%) Frame = +3 Query: 249 YNGDEYVRFDSDVG-----EFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEIS 413 +N D +D DVG EF ++ + N Q+ + + + + H Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFW 105 Query: 414 ETFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ-------- 563 + L R P V V A+T P +L C V GFYP V + W +NGQ Sbjct: 106 DV-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162 Query: 564 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 E+ A PNGDWT+QT+ L P G+VYTC V+H + P+ +W Sbjct: 163 EKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 73.9 bits (180), Expect = 3e-13 Identities = 51/172 (29%), Positives = 76/172 (44%), Gaps = 15/172 (8%) Frame = +3 Query: 249 YNGDEYVRFDSDVG-----EFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEIS 413 +N D +D DVG EF + + ++ N ++ +++ + + H Sbjct: 46 FNKDLLACWDPDVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFW 105 Query: 414 ETFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ-------- 563 L R P V V A+T P +L C V GFYP V + W +NGQ Sbjct: 106 NA-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162 Query: 564 EEVAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 E+ A PNGDWT+QT+ L P G+VYTC V+H + P+ +W Sbjct: 163 EKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 70.1 bits (170), Expect = 4e-12 Identities = 46/161 (28%), Positives = 70/161 (43%), Gaps = 4/161 (2%) Frame = +3 Query: 249 YNGDEYVRFDSDVGE-FREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRHNYEI--SET 419 ++GDE D D E + EFG+ ++ F Q + V +HN + + Sbjct: 53 FDGDELFYVDLDKKETVWMLPEFGQLAS--------FDPQGGLQNIAVVKHNLGVLTKRS 104 Query: 420 FLVPRRAE-PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGL 596 P E P+ TV+P L N L+C V +P + + W RN + GV T Sbjct: 105 NSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSF 164 Query: 597 IPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 N D++F + L +P ++Y C+VEH L PV W Sbjct: 165 FVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205 >ref|NP_038506.1| alpha-2-glycoprotein 1, zinc [Mus musculus] Length = 307 Score = 68.2 bits (165), Expect = 2e-11 Identities = 43/207 (20%), Positives = 90/207 (43%), Gaps = 6/207 (2%) Frame = +3 Query: 117 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRLLDRYFYNGDEYVRFDSDVGEF 296 + LV L + +DT F G C N + RY Y+G++++ F+ ++ + Sbjct: 91 IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149 Query: 297 REVTEFGRPSAKYWNSQKDFMEQKRAEVDTVCRH------NYEISETFLVPRRAEPRVTV 458 + + W ++K ++++ +A ++ C NY S R +P Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECPEMLKRYLNYSRSHL----DRIDPPTVT 205 Query: 459 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVSTGLIPNGDWTFQTMVML 638 ++ P + + C GFYP + + W +++A G+ PNG+ T+ + + Sbjct: 206 ITSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEV 263 Query: 639 ETVPQSGEVYTCRVEHPSLTSPVTVEW 719 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 = 2e-11 Identities = 46/170 (27%), Positives = 72/170 (42%), Gaps = 5/170 (2%) Frame = +3 Query: 225 VRLLDRYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC---- 392 +R +Y Y+G +Y+ + D+ + + + + W Q E+KRA ++ C Sbjct: 134 LRGYQQYAYDGCDYIALNEDLKTWTAADTAAQITRRKWE-QAGAAERKRAYLEGTCVEWL 192 Query: 393 -RHNYEISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEE 569 RH +ET L + VT +P + L C GFYP + + W NG+E Sbjct: 193 LRHLKNGNETLLRTDSPKAHVTHHPRSKGEVT----LRCWALGFYPADITLTWQLNGEEL 248 Query: 570 VAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 719 + 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 = +3 Query: 240 RYFYNGDEYVRFDSDVGEFREVTEFGRPSAKYWNSQKDFMEQKRAEVDTVC----RHNYE 407 +Y Y+G +++ F+ D + + + + W + ++ ++ ++ C + E Sbjct: 129 QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLE 188 Query: 408 ISETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEVAGVVS 587 L R P V +T P C GFYP + + W +NG+E V Sbjct: 189 YGRDTL-ERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVDY 245 Query: 588 TGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEH 686 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: 59,789,155 Number of Sequences: 45328 Number of extensions: 1768981 Number of successful extensions: 7453 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 5880 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): 7407 length of database: 21,768,885 effective HSP length: 105 effective length of database: 17,009,445 effective search space used: 4541521815 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)