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= AMP01_0001_H11
(1332 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 374 e-104
Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 372 e-103
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 328 6e-90
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 310 2e-84
Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 245 5e-65
Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 243 2e-64
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 226 2e-59
Alignment gi|NP_776318.1| beta-2-microglobulin [Bos taurus] 73 6e-13
Alignment gi|NP_001012692.2| major histocompatibility complex, class II, ... 69 1e-11
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 62 1e-09
>ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus]
Length = 255
Score = 374 bits (961), Expect = e-104
Identities = 174/222 (78%), Positives = 199/222 (89%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
MV R L+ GALALT +MS G EDI ADH+ +YG+++Y +YG SGYYTHEFDGDE+FYV
Sbjct: 1 MVLNRALILGALALTTMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLEK+ETVW+LP+FSKF +FDPQGALRNIA K L I+ +RSN+TAA NKVPEVTVFSK
Sbjct: 61 DLEKRETVWRLPVFSKFATFDPQGALRNIATTKHNLEIVIQRSNSTAATNKVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSVTEG SETSFL ++D+SFLKI+YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIKSDYSFLKINYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PSDDD YDCKVEHWGLD+PLLKHWEP+IPAPMSELTETVVCA
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPDIPAPMSELTETVVCA 222
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus]
Length = 255
Score = 372 bits (956), Expect = e-103
Identities = 178/221 (80%), Positives = 194/221 (87%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
MV R L+ G LALT +MS GGEDI ADHV YG+++YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLEKKET WQLPLFS+ SFDPQ ALRNIA+ KL ++ LTK SN+TAA NKVPEVTVFSK
Sbjct: 61 DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSVTEG SETSFL R+D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 713
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVC
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVC 221
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus]
Length = 268
Score = 328 bits (841), Expect = 6e-90
Identities = 154/204 (75%), Positives = 173/204 (84%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
MV R L+ GALALT +MS+ GGEDI ADHV SYG +YQS+G SG YT EFDGDE FYV
Sbjct: 1 MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DL KKETVW+LP+FS+F FDPQ AL IA K L++LTKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV+LGQPNTLICHVD+IFPPVINITWLKNGH+VTEG SETSFL ++DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHW 662
PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus]
Length = 253
Score = 310 bits (794), Expect = 2e-84
Identities = 145/218 (66%), Positives = 173/218 (79%)
Frame = +3
Query: 63 RVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEK 242
+ L+ AL L +MS GGEDI ADHV +YG NVYQ+YG+SG +T EFDGDE FYVDL K
Sbjct: 3 KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62
Query: 243 KETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVI 422
KETVW+LP FS T F+ Q ALRNI + K L+IL K S+ T A +++PEV VF KS V+
Sbjct: 63 KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122
Query: 423 LGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDD 602
LG PNTLIC VD+IFPPVINITW NGH V EG +ET+F ++DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182
Query: 603 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
DFYDC+VEHWGL++PL+KHWEPEIP P SELTETVVCA
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTETVVCA 220
>ref|XP_604082.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 1 [Bos taurus]
Length = 250
Score = 245 bits (626), Expect = 5e-65
Identities = 118/216 (54%), Positives = 149/216 (68%)
Frame = +3
Query: 69 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 248
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 249 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILG 428
VW+LP F F FDPQ L +IA+ K L L KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 429 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 608
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 609 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
YDCKVEHWGLD+PL +HWEP++P + + T T+VCA
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 222
>ref|XP_883292.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 2 [Bos taurus]
Length = 251
Score = 243 bits (620), Expect = 2e-64
Identities = 118/217 (54%), Positives = 150/217 (69%), Gaps = 1/217 (0%)
Frame = +3
Query: 69 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 248
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 249 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVN-KVPEVTVFSKSPVIL 425
VW+LP F F FDPQ L +IA+ K L L KRSN T A N P+V V KS V L
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNGSTPQVAVLPKSHVQL 126
Query: 426 GQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDD 605
G+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DD
Sbjct: 127 GEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDD 186
Query: 606 FYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
FYDCKVEHWGLD+PL +HWEP++P + + T T+VCA
Sbjct: 187 FYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 223
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus]
Length = 253
Score = 226 bits (577), Expect = 2e-59
Identities = 107/178 (60%), Positives = 129/178 (72%)
Frame = +3
Query: 183 SGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSN 362
S + +FDGDE F+VD+ KKETVW+LP F F SF+ QGAL N+AV K L+I+ KRSN
Sbjct: 43 SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102
Query: 363 NTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFL 542
NT N PEVT+ PV LG+PNTLIC +D PPVI++TWL+NG VT+G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162
Query: 543 SRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
RNDH F K YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE VCA
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTENAVCA 220
>ref|NP_776318.1| beta-2-microglobulin [Bos taurus]
Length = 118
Score = 72.8 bits (177), Expect = 6e-13
Identities = 36/101 (35%), Positives = 57/101 (56%)
Frame = +3
Query: 372 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 551
A+ + P++ V+S+ P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AIQRPPKIQVYSRHPPEDGKPNYLNCYVYGFHPPQIEIDLLKNGEKIKSEQSDLSF--SK 77
Query: 552 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 674
D SF +S+ F P+ D Y C+V+H L++P + W+ ++
Sbjct: 78 DWSFYLLSHAEFTPNSKDQYSCRVKHVTLEQPRIVKWDRDL 118
>ref|NP_001012692.2| major histocompatibility complex, class II, DM alpha-chain,
expressed [Bos taurus]
Length = 260
Score = 68.6 bits (166), Expect = 1e-11
Identities = 48/187 (25%), Positives = 81/187 (43%), Gaps = 5/187 (2%)
Frame = +3
Query: 168 QSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGK-----L 332
Q + + + +D D+ F D + V +LP F+ + G +I K +
Sbjct: 51 QDWSPNVALSESYDEDQLFSFDFSQSIRVPRLPEFADWAH--QHGDTSDIMFDKGFCRAM 108
Query: 333 TLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV 512
I + P V VF+ P+ G+PNTL+C + ++FPP + + W ++ +
Sbjct: 109 IEEIGPELEGQIPVSRGFPIVQVFTLKPLEFGKPNTLVCFISNLFPPTLTVNW-QHQSAP 167
Query: 513 TEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSE 692
EG T + + +F SYL P+ D + C V H + W P+ P S+
Sbjct: 168 VEGAGPTFVSAVDGLTFQAFSYLNVTPAPSDLFSCIVTHEIDGYTAIAFWVPQNALP-SD 226
Query: 693 LTETVVC 713
L E V+C
Sbjct: 227 LLENVLC 233
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 62.0 bits (149), Expect = 1e-09
Identities = 31/107 (28%), Positives = 44/107 (41%)
Frame = +3
Query: 387 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 566
P VT+ L N L+C V +P I + W +NG T G T + D +F
Sbjct: 129 PTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWTFQ 188
Query: 567 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETV 707
+ L P D Y C VEH L P+ W + + S++ V
Sbjct: 189 ILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGV 235
Database: RefSeqBP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 16,112,626
Number of sequences in database: 33,508
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 41,503,538
Number of Sequences: 33508
Number of extensions: 996883
Number of successful extensions: 3048
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2748
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): 3040
length of database: 16,112,626
effective HSP length: 105
effective length of database: 12,594,286
effective search space used: 4256868668
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= AMP01_0001_H11
(1332 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 370 e-102
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 237 2e-62
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 236 4e-62
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 101 1e-21
Alignment gi|XP_538853.2| PREDICTED: similar to major histocompatibility ... 77 3e-14
Alignment gi|XP_861572.1| PREDICTED: similar to major histocompatibility ... 72 2e-12
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 67 3e-11
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 67 3e-11
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 65 1e-10
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 64 3e-10
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 370 bits (949), Expect = e-102
Identities = 174/222 (78%), Positives = 195/222 (87%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ RVL+ G L LT +MS GGE+I ADHVA+YG+NVYQSYG SG YTHEFDGDE+FYV
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLEKKETVW+LP+FS F SFDPQGALRN+A+ K LNI+TKRSN TAA N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV+LGQPNTLIC VD+IFPPVIN+TWLKN HSVTEG SETSF ++ DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTETVVCA
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCA 222
>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 = 237 bits (604), Expect = 2e-62
Identities = 110/199 (55%), Positives = 142/199 (71%), Gaps = 7/199 (3%)
Frame = +3
Query: 141 VASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIA 320
+ SYG YQSYGSSG + HEFDG++ F V+L+K++ VW+LP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 321 VGKLTLNILTKRSNNTAAVNKV-------PEVTVFSKSPVILGQPNTLICHVDSIFPPVI 479
V K L++L +RSN T A+N P V V K V LGQPN LIC VD+IFPPVI
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120
Query: 480 NITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 659
NITWL+NG ++EG ++TSF S+ DH F K YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180
Query: 660 WEPEIPAPMSELTETVVCA 716
WEP++P P+ + ET++CA
Sbjct: 181 WEPQVPIPVPDTIETLICA 199
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 236 bits (602), Expect = 4e-62
Identities = 113/184 (61%), Positives = 133/184 (72%)
Frame = +3
Query: 165 YQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNI 344
Y + SG + +FDGDE F+VD+EKKETVW+L F +F SF+ QGAL NIAV K L+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 345 LTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGF 524
+ KRSN+T N PEVTV S +PV LG+PN LIC +D PPVIN+TWL+NG+ VT G
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157
Query: 525 SETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 704
SET FL R DH F K YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTEN 217
Query: 705 VVCA 716
VVCA
Sbjct: 218 VVCA 221
>ref|XP_532104.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 10 [Canis familiaris]
Length = 142
Score = 101 bits (252), Expect = 1e-21
Identities = 52/108 (48%), Positives = 70/108 (64%)
Frame = +3
Query: 126 IAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGA 305
I ADH+ SYG YQSYGSSG + HEFDG++ F V+L+K++ VW+LP F FDPQ
Sbjct: 12 IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71
Query: 306 LRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLIC 449
L +IAV K L++L +RSN T A+N+ P+V + + TLIC
Sbjct: 72 LASIAVIKAHLDVLVERSNRTRAINE-PQVPIPVPDTI-----ETLIC 113
>ref|XP_538853.2| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 1 [Canis familiaris]
Length = 265
Score = 77.4 bits (189), Expect = 3e-14
Identities = 52/187 (27%), Positives = 83/187 (44%), Gaps = 5/187 (2%)
Frame = +3
Query: 168 QSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGK-----L 332
Q++ S +DGD+ F + + V +LP F+ + G + I+ K +
Sbjct: 57 QNWSPSIGLLEAYDGDQLFSFNFSQNTRVPRLPEFADWAQ--KSGDMPTISFDKAFCQAM 114
Query: 333 TLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV 512
I K P V VF+ P+ G+PN L+C + ++FPP + + W + V
Sbjct: 115 IEEIGPKLEGQIPVSRGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV 174
Query: 513 TEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSE 692
EG T + + SF SYL F P+ D + C V H + + +W P P S+
Sbjct: 175 -EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SD 232
Query: 693 LTETVVC 713
L E V+C
Sbjct: 233 LLENVLC 239
>ref|XP_861572.1| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 2 [Canis familiaris]
Length = 170
Score = 71.6 bits (174), Expect = 2e-12
Identities = 40/126 (31%), Positives = 62/126 (49%)
Frame = +3
Query: 336 LNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVT 515
L++L + A P V VF+ P+ G+PN L+C + ++FPP + + W + V
Sbjct: 21 LHLLWLLPYSRTAPEGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV- 79
Query: 516 EGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 695
EG T + + SF SYL F P+ D + C V H + + +W P P S+L
Sbjct: 80 EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDL 138
Query: 696 TETVVC 713
E V+C
Sbjct: 139 LENVLC 144
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 67.4 bits (163), Expect = 3e-11
Identities = 36/114 (31%), Positives = 59/114 (51%)
Frame = +3
Query: 324 GKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG 503
G L L ++ + AV P++ V+S+ P G+PN L C+V PP I I LKNG
Sbjct: 11 GFLALLLILLAACRLDAVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 504 HSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 665
+ ++ SF D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 71 KEMKAEQTDLSF--SKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris]
Length = 125
Score = 67.4 bits (163), Expect = 3e-11
Identities = 36/114 (31%), Positives = 59/114 (51%)
Frame = +3
Query: 324 GKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG 503
G L L ++ + AV P++ V+S+ P G+PN L C+V PP I I LKNG
Sbjct: 11 GFLALLLILLAACRLDAVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 504 HSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 665
+ ++ SF D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 71 KEMKAEQTDLSF--SKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 65.5 bits (158), Expect = 1e-10
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +3
Query: 387 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 566
P VT+F +L N L+C V +P I + W +N T G T + D +F
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188
Query: 567 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 695
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 64.3 bits (155), Expect = 3e-10
Identities = 30/103 (29%), Positives = 47/103 (45%)
Frame = +3
Query: 387 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 566
P VTV+ L N L+C V+ +P I + WL+NG G T + D +F
Sbjct: 126 PTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQ 185
Query: 567 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 695
+ L +P + Y C+VEH L P+ W + + S++
Sbjct: 186 ILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKM 228
Database: RefSeqCP
Posted date: Aug 1, 2006 9:25 PM
Number of letters in database: 19,266,565
Number of sequences in database: 33,732
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,734,091
Number of Sequences: 33732
Number of extensions: 1173761
Number of successful extensions: 3531
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3072
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): 3516
length of database: 19,266,565
effective HSP length: 106
effective length of database: 15,690,973
effective search space used: 5287857901
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 RefSeqSP
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= AMP01_0001_H11
(1332 letters)
Database: RefSeqSP
1040 sequences; 434,620 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] 80 1e-16
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 73 2e-14
Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 51 5e-08
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 45 5e-06
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]
Length = 260
Score = 79.7 bits (195), Expect = 1e-16
Identities = 59/212 (27%), Positives = 92/212 (43%), Gaps = 10/212 (4%)
Frame = +3
Query: 108 ACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTS 287
A G D +H Y + G + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYCQDGNPEVGL-SEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 288 --------FDPQGALRNIA--VGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPN 437
F +G R + VG L +P VF+ P+ G+PN
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLF-------EGKIPVSRGLPIAEVFTLKPLEFGKPN 143
Query: 438 TLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDC 617
TL+C V ++FPP + +TW ++ + EG T + +D SF SYL F P+ D + C
Sbjct: 144 TLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSC 202
Query: 618 KVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 713
V H + +W P+ P S+L E V+C
Sbjct: 203 VVTHELDGYVAISYWVPQNALP-SDLLENVLC 233
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 72.8 bits (177), Expect = 2e-14
Identities = 39/98 (39%), Positives = 54/98 (55%)
Frame = +3
Query: 372 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 551
AV + P+V V+S+ P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 552 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 665
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 51.2 bits (121), Expect = 5e-08
Identities = 24/80 (30%), Positives = 37/80 (46%)
Frame = +3
Query: 438 TLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDC 617
TL C +P I++TW + G ++ D +F K + L P ++ Y C
Sbjct: 221 TLRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTC 280
Query: 618 KVEHWGLDKPLLKHWEPEIP 677
V+H GL +PL W+P P
Sbjct: 281 HVQHEGLQEPLTLRWDPPQP 300
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 44.7 bits (104), Expect = 5e-06
Identities = 30/85 (35%), Positives = 41/85 (48%)
Frame = +3
Query: 435 NTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYD 614
+ L C S +PP + + +L+NG + G E+ D SF S LT D+ Y
Sbjct: 218 SVLTCIAFSFYPPELQLRFLRNG--LAAGSGESDIGPNGDGSFHAWSSLTVKSGDEHHYC 275
Query: 615 CKVEHWGLDKPLLKHWEPEIPAPMS 689
C V+H GL +PL E E PA S
Sbjct: 276 CVVQHAGLAQPLTV--ELESPAKSS 298
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: 1,119,257
Number of Sequences: 1040
Number of extensions: 26255
Number of successful extensions: 65
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 60
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): 62
length of database: 434,620
effective HSP length: 80
effective length of database: 351,420
effective search space used: 127565460
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= AMP01_0001_H11
(1332 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 378 e-105
Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 378 e-105
Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 378 e-105
Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 378 e-105
Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 375 e-104
Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 367 e-101
Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 357 1e-98
Alignment gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati... 357 1e-98
Alignment gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati... 357 1e-98
Alignment gi|XP_941255.1| PREDICTED: similar to HLA class II histocompati... 357 1e-98
>ref|XP_949974.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform
10 [Homo sapiens]
Length = 255
Score = 378 bits (970), Expect = e-105
Identities = 180/222 (81%), Positives = 197/222 (88%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_949973.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 9
[Homo sapiens]
Length = 255
Score = 378 bits (970), Expect = e-105
Identities = 180/222 (81%), Positives = 197/222 (88%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_949971.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 8
[Homo sapiens]
Length = 255
Score = 378 bits (970), Expect = e-105
Identities = 180/222 (81%), Positives = 197/222 (88%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_945969.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 1
[Homo sapiens]
Length = 255
Score = 378 bits (970), Expect = e-105
Identities = 180/222 (81%), Positives = 197/222 (88%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PSDD+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 222
>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
sapiens]
Length = 255
Score = 375 bits (964), Expect = e-104
Identities = 177/222 (79%), Positives = 197/222 (88%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + L+ GALALTAVMS CGGEDI ADHVASYG+N YQS+G SG YTHEFDGDE+FYV
Sbjct: 1 MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE KETVWQLP+FSKF SFDPQ ALRN+AVGK TL + ++SN+TAA N+VPEVTVFSK
Sbjct: 61 DLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
PV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 FPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET+VCA
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCA 222
>ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor
[Homo sapiens]
Length = 255
Score = 367 bits (941), Expect = e-101
Identities = 175/222 (78%), Positives = 192/222 (86%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + L+ GALALT VMS CGGEDI ADHVAS G+N+YQ YG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALLLGALALTTVMSPCGGEDIVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DLE+KET W+ P FSKF FDPQGALRN+AV K LNI+ KR N+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETAWRWPEFSKFGGFDPQGALRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSK 120
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPNTLIC VD+IFPPV+NITWL NG SVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSADEIYDCKVEHWGLDQPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_941306.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 10 [Homo
sapiens]
Length = 254
Score = 357 bits (916), Expect = 1e-98
Identities = 175/222 (78%), Positives = 190/222 (85%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DL +KETVW LP+ +F FDPQ AL NIAV K LN L KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 221
>ref|XP_941305.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 9 [Homo
sapiens]
Length = 254
Score = 357 bits (916), Expect = 1e-98
Identities = 175/222 (78%), Positives = 190/222 (85%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DL +KETVW LP+ +F FDPQ AL NIAV K LN L KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 221
>ref|XP_941304.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 8 [Homo
sapiens]
Length = 254
Score = 357 bits (916), Expect = 1e-98
Identities = 175/222 (78%), Positives = 190/222 (85%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DL +KETVW LP+ +F FDPQ AL NIAV K LN L KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 221
>ref|XP_941255.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 1 [Homo
sapiens]
Length = 254
Score = 357 bits (916), Expect = 1e-98
Identities = 175/222 (78%), Positives = 190/222 (85%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 230
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYV 60
Query: 231 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 410
DL +KETVW LP+ +F FDPQ AL NIAV K LN L KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLGRKETVWCLPVLRQFR-FDPQFALTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSK 119
Query: 411 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 590
SPV LGQPN LIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLT L
Sbjct: 120 SPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLL 179
Query: 591 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
PS ++ YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSAEESYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 221
Database: RefSeqHP
Posted date: Aug 2, 2006 12:57 AM
Number of letters in database: 17,774,539
Number of sequences in database: 39,411
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 46,847,053
Number of Sequences: 39411
Number of extensions: 1155087
Number of successful extensions: 3524
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3021
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): 3499
length of database: 17,774,539
effective HSP length: 105
effective length of database: 13,636,384
effective search space used: 4609097792
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= AMP01_0001_H11
(1332 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 327 2e-89
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 236 3e-62
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 232 8e-61
Alignment gi|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus ... 84 3e-16
Alignment gi|NP_033865.2| beta-2-microglobulin [Mus musculus] 70 5e-12
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 68 2e-11
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 65 2e-10
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 64 3e-10
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 64 5e-10
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 60 4e-09
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 327 bits (837), Expect = 2e-89
Identities = 156/223 (69%), Positives = 179/223 (80%), Gaps = 1/223 (0%)
Frame = +3
Query: 51 MVPGRVLMWGALALTAVMSACGGED-IAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFY 227
M R L+ G LALT ++S CGGED I ADHV +YG++VYQS G G YT EFDGDE FY
Sbjct: 1 MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 228 VDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFS 407
VDL+KKETVW LP F + SFDPQG L+NIAV K L +LTKRSN+T A N+ P+ TVF
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 408 KSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTF 587
KSPV+LGQPNTLIC VD+IFPPVINITWL+N SV +G ETSF D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 588 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
+PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTETVVCA
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCA 223
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 236 bits (603), Expect = 3e-62
Identities = 112/210 (53%), Positives = 147/210 (70%)
Frame = +3
Query: 84 LALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQL 263
L + + +S G I ADH+ SYG YQSY +SG +THEFDG++ F VDL+ +E VW+L
Sbjct: 12 LTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71
Query: 264 PLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTL 443
P F F D Q L +I++ K L+IL +RSN T AV+ P VTV K+ V LG+PN L
Sbjct: 72 PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131
Query: 444 ICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKV 623
IC VD IFPPVIN+TWL+N +T+G ++TSF S+ +H F K YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191
Query: 624 EHWGLDKPLLKHWEPEIPAPMSELTETVVC 713
EHWGLD PLL+HWEP++ P + TET++C
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTTETLIC 221
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 232 bits (591), Expect = 8e-61
Identities = 107/177 (60%), Positives = 131/177 (74%)
Frame = +3
Query: 186 GYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNN 365
G + +FDGDE F+VD+EK ET+W+L F+KF SF+ QGAL NIAV K L+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 366 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 545
T N PEVTV S+SPV LG+PN LIC +D PPV+N+TW +NG VTEG SET FL
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164
Query: 546 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
R+DH F K YLTFLPS DDFYDC+V+HWGL++PL KHWE E + E TE VVCA
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTENVVCA 221
>ref|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus musculus]
Length = 261
Score = 84.0 bits (206), Expect = 3e-16
Identities = 55/175 (31%), Positives = 80/175 (45%), Gaps = 5/175 (2%)
Frame = +3
Query: 204 FDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGK-----LTLNILTKRSNNT 368
+D DE F D + V QLP F+++ QG IA K L + K
Sbjct: 63 YDEDELFSFDFSQNTRVPQLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREVSPKLEGQI 120
Query: 369 AAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSR 548
+P VF+ P+ G+PNTL+C + ++FPP + + W + V EG S TS +
Sbjct: 121 PVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAV 179
Query: 549 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 713
+ +F SYL F P D Y C V H + +W P+ P S+L E +C
Sbjct: 180 DGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLENALC 233
>ref|NP_033865.2| beta-2-microglobulin [Mus musculus]
Length = 119
Score = 70.1 bits (170), Expect = 5e-12
Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)
Frame = +3
Query: 372 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTE-GFSETSFLSR 548
A+ K P++ V+S+ P G+PN L C+V PP I I LKNG + + S+ SF
Sbjct: 20 AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSF--S 77
Query: 549 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 674
D SF +++ F P++ D Y C+V+H + +P +W+ ++
Sbjct: 78 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 67.8 bits (164), Expect = 2e-11
Identities = 34/99 (34%), Positives = 47/99 (47%)
Frame = +3
Query: 366 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 545
T N PEVTV+ + +L Q N L+C V +P I++ W +NG G T +
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175
Query: 546 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 662
D +F L +P D Y C VEH GL +P+ W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 64.7 bits (156), Expect = 2e-10
Identities = 39/127 (30%), Positives = 60/127 (47%), Gaps = 1/127 (0%)
Frame = +3
Query: 339 NILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-T 515
N LT R+ + P V V +P +P L C+V +P + ITW+KNG V +
Sbjct: 106 NALTHRT-------RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPS 158
Query: 516 EGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 695
E + D ++ +SYL PS D Y C V+H G +P+ W P + +P+ +
Sbjct: 159 HSNKEKTAQPNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGL-SPIQTV 217
Query: 696 TETVVCA 716
+V A
Sbjct: 218 KVSVSAA 224
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 64.3 bits (155), Expect = 3e-10
Identities = 35/113 (30%), Positives = 55/113 (48%), Gaps = 1/113 (0%)
Frame = +3
Query: 381 KVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-TEGFSETSFLSRNDH 557
+ P V V +P +P L C+V +P + ITW+KNG V + E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 558 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 716
++ +SYL PS D Y C V+H G +P+ W P + +P+ + +V A
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGL-SPIQTVKVSVSAA 224
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 63.5 bits (153), Expect = 5e-10
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +3
Query: 387 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 566
P V + L NTL+C V +P I + W +NG T G S T + D +F
Sbjct: 125 PNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQ 184
Query: 567 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 695
+ L P + Y C VEH L P+ W + + S++
Sbjct: 185 VLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKM 227
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 60.5 bits (145), Expect = 4e-09
Identities = 29/108 (26%), Positives = 47/108 (43%)
Frame = +3
Query: 387 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 566
P+VTV+ L N L+C V +P I + W +NG G T + D ++
Sbjct: 125 PKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQ 184
Query: 567 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVV 710
+ L +P + Y C+VEH L P+ W + ++L V+
Sbjct: 185 TLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVM 232
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: 56,079,230
Number of Sequences: 45328
Number of extensions: 1347076
Number of successful extensions: 4073
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3663
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): 4060
length of database: 21,768,885
effective HSP length: 107
effective length of database: 16,918,789
effective search space used: 5684713104
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)