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= ITT01_0100_B02
(1398 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 352 3e-97
Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 234 2e-61
Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 230 2e-60
Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 220 2e-57
Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 206 3e-53
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 206 5e-53
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 199 3e-51
Alignment gi|XP_608813.2| PREDICTED: similar to serine/threonine protein ... 104 1e-22
Alignment gi|NP_001012692.2| major histocompatibility complex, class II, ... 68 2e-11
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 59 7e-09
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus]
Length = 253
Score = 352 bits (904), Expect = 3e-97
Identities = 173/253 (68%), Positives = 192/253 (75%), Gaps = 1/253 (0%)
Frame = +1
Query: 223 MTILGVPVLGFVITIL-NLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDM 399
M I VP+LG IT+L LQ+SWAI ENHVIIQAEFYL P++S EFMFDFDGDEIFHVDM
Sbjct: 1 MAITRVPILGLFITVLIGLQESWAIKENHVIIQAEFYLKPEESAEFMFDFDGDEIFHVDM 60
Query: 400 EKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKP 579
K+ETVWRL EFGHFASFEAQGALAN+AV KANL+I+IKRS L +KP
Sbjct: 61 GKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSNNTPNTNVPPEVTLLPNKP 120
Query: 580 VELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPS 759
VELGEPN LICFIDKFSPPV++VTWLRNG PVT GV +TVFLPR DHLFRKFHYLPF+P+
Sbjct: 121 VELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFLPRNDHLFRKFHYLPFLPT 180
Query: 760 TEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXX 939
TEDVYDC+VEH GL++PLLKHWE+EA PLPETTEN VCA
Sbjct: 181 TEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTENAVCALGLIVALVGIIAGTIFIIKG 240
Query: 940 XRKGNATERRGPL 978
RK N ERRGPL
Sbjct: 241 VRKANTVERRGPL 253
>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 = 234 bits (596), Expect = 2e-61
Identities = 114/222 (51%), Positives = 152/222 (68%), Gaps = 3/222 (1%)
Frame = +1
Query: 223 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 393
M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V
Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60
Query: 394 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 573
D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRS L
Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPK 120
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
V+LGEPN+LIC +DK PPV+N+TWLRNG PVT+GV ++ F + DHLFRKFHYL F+
Sbjct: 121 SHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFV 180
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCA 879
P +D YDC+VEHWGLD+PL +HWE + T LP+TT VCA
Sbjct: 181 PLVDDFYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 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 = 230 bits (587), Expect = 2e-60
Identities = 114/223 (51%), Positives = 153/223 (68%), Gaps = 4/223 (1%)
Frame = +1
Query: 223 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 393
M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V
Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60
Query: 394 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 573
D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRS +
Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNGSTPQVAVLP 120
Query: 574 KP-VELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPF 750
K V+LGEPN+LIC +DK PPV+N+TWLRNG PVT+GV ++ F + DHLFRKFHYL F
Sbjct: 121 KSHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTF 180
Query: 751 MPSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCA 879
+P +D YDC+VEHWGLD+PL +HWE + T LP+TT VCA
Sbjct: 181 VPLVDDFYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 223
>ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus]
Length = 255
Score = 220 bits (561), Expect = 2e-57
Identities = 112/240 (46%), Positives = 141/240 (58%), Gaps = 1/240 (0%)
Frame = +1
Query: 262 TILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFG 438
T+++ S IV +H+ Y + SG + +FDGDE F+VD+EKRETVWRL F
Sbjct: 16 TMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYVDLEKRETVWRLPVFS 75
Query: 439 HFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFI 618
FA+F+ QGAL NIA K NLEI+I+RS S PV LG+PN LIC +
Sbjct: 76 KFATFDPQGALRNIATTKHNLEIVIQRSNSTAATNKVPEVTVFSKSPVMLGQPNTLICHV 135
Query: 619 DKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWG 798
D PPV+N+TWLRNG VT GV ET FL + D+ F K +YL F+PS +DVYDC+VEHWG
Sbjct: 136 DNIFPPVINITWLRNGHSVTEGVSETSFLIKSDYSFLKINYLTFLPSDDDVYDCKVEHWG 195
Query: 799 LDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
LD+PLLKHWE + P+ E TE VCA R G + +GPL
Sbjct: 196 LDEPLLKHWEPDIPAPMSELTETVVCALGLTVGLVGIMVGTILIIQGLRSGGPSRHQGPL 255
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus]
Length = 255
Score = 206 bits (525), Expect = 3e-53
Identities = 104/230 (45%), Positives = 131/230 (56%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV I Y S SG++ +FDGDE F+VD+EK+ET W+L F SF+ Q A
Sbjct: 26 IVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYVDLEKKETAWQLPLFSRMLSFDPQLA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIA+ K +++ L K S S PV LG+PN LIC +D PPV+N+
Sbjct: 86 LRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSKSPVMLGQPNTLICHVDNIFPPVINI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWLRNG VT GV ET FL R D+ F K YL F+PS +D+YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFLPSDDDIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VC R G+ + +GPL
Sbjct: 206 PEIPAPMSELTETVVCTLGLTMGLVGITVGTIFIIQGLRSGDPSRHQGPL 255
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus]
Length = 253
Score = 206 bits (523), Expect = 5e-53
Identities = 99/197 (50%), Positives = 121/197 (61%), Gaps = 1/197 (0%)
Frame = +1
Query: 292 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y + SG+F F+FDGDE+F+VD+ K+ETVWRL EF + FE Q A
Sbjct: 24 IVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGKKETVWRLPEFSNITKFEVQSA 83
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NI + K NL+ILIK S V LG PN LIC +D PPV+N+
Sbjct: 84 LRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVVLGIPNTLICQVDNIFPPVINI 143
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TW NG V G+ ET F P+ DH F KF YL F+P+ ED YDC+VEHWGL++PL+KHWE
Sbjct: 144 TWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNEDFYDCRVEHWGLEEPLVKHWE 203
Query: 829 FEARTPLPETTENTVCA 879
E TP E TE VCA
Sbjct: 204 PEIPTPTSELTETVVCA 220
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus]
Length = 268
Score = 199 bits (507), Expect = 3e-51
Identities = 95/179 (53%), Positives = 118/179 (65%), Gaps = 1/179 (0%)
Frame = +1
Query: 292 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV E Y S SG++ +FDGDE+F+VD+ K+ETVWRL F FA F+ Q A
Sbjct: 26 IVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYVDLGKKETVWRLPMFSQFAGFDPQAA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L+ IA K NL++L KRS S PV LG+PN LIC +D PPV+N+
Sbjct: 86 LSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSKSPVMLGQPNTLICHVDNIFPPVINI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHW 825
TWL+NG VT GV ET FLP++DH F K YL F+PS D+YDC+VEHWGLD+PLLKHW
Sbjct: 146 TWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFLPSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|XP_608813.2| PREDICTED: similar to serine/threonine protein phosphatase with
EF-hand motifs 2 isoform b [Bos taurus]
Length = 886
Score = 104 bits (260), Expect = 1e-22
Identities = 46/53 (86%), Positives = 51/53 (96%)
Frame = -2
Query: 167 QPGESANAVPHYHKLCSRVSHIWGNRRGQHIRSAMDKPRPGKTTSVIMVSPLP 9
+PGESANAVPH+HKLCSRVSHIWGNRRGQHIRSAMD+P PG+TT +IMVSPLP
Sbjct: 569 KPGESANAVPHFHKLCSRVSHIWGNRRGQHIRSAMDEPHPGETTFMIMVSPLP 621
>ref|NP_001012692.2| major histocompatibility complex, class II, DM alpha-chain,
expressed [Bos taurus]
Length = 260
Score = 67.8 bits (164), Expect = 2e-11
Identities = 51/200 (25%), Positives = 80/200 (40%), Gaps = 6/200 (3%)
Frame = +1
Query: 295 VENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALA 474
++NH + + + +D D++F D + V RL EF +A G +
Sbjct: 39 LQNHTFLHTMYCQDWSPNVALSESYDEDQLFSFDFSQSIRVPRLPEFADWA--HQHGDTS 96
Query: 475 NIAVDKANLEILIKR-----SXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPV 639
+I DK +I+ + KP+E G+PN L+CFI PP
Sbjct: 97 DIMFDKGFCRAMIEEIGPELEGQIPVSRGFPIVQVFTLKPLEFGKPNTLVCFISNLFPPT 156
Query: 640 VNVTWLRNGSPVTRGVPETVFLPREDHL-FRKFHYLPFMPSTEDVYDCQVEHWGLDKPLL 816
+ V W +PV P F+ D L F+ F YL P+ D++ C V H +
Sbjct: 157 LTVNWQHQSAPVEGAGP--TFVSAVDGLTFQAFSYLNVTPAPSDLFSCIVTHEIDGYTAI 214
Query: 817 KHWEFEARTPLPETTENTVC 876
W + P + EN +C
Sbjct: 215 AFWVPQNALP-SDLLENVLC 233
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 59.3 bits (142), Expect = 7e-09
Identities = 28/86 (32%), Positives = 39/86 (45%)
Frame = +1
Query: 586 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTE 765
L N+L+C + F P + V W RN T GV T + D F+ L P
Sbjct: 141 LNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIRNGDWTFQILVMLEMTPQRG 200
Query: 766 DVYDCQVEHWGLDKPLLKHWEFEART 843
DVY C VEH L P++ W ++ +
Sbjct: 201 DVYTCHVEHPSLQSPIMVEWRAQSES 226
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: 52,048,103
Number of Sequences: 33508
Number of extensions: 1447931
Number of successful extensions: 4946
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4248
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): 4926
length of database: 16,112,626
effective HSP length: 105
effective length of database: 12,594,286
effective search space used: 4533942960
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= ITT01_0100_B02
(1398 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 370 e-102
Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 222 8e-58
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 207 2e-53
Alignment gi|XP_851506.1| PREDICTED: similar to zinc finger protein 124 [... 88 2e-17
Alignment gi|XP_538853.2| PREDICTED: similar to major histocompatibility ... 80 5e-15
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 78 2e-14
Alignment gi|XP_861572.1| PREDICTED: similar to major histocompatibility ... 64 5e-10
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 60 5e-09
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 59 1e-08
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 55 2e-07
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 370 bits (949), Expect = e-102
Identities = 182/254 (71%), Positives = 197/254 (77%), Gaps = 2/254 (0%)
Frame = +1
Query: 223 MTILGVPVLGFVIT--ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 396
MTI GVPVLGF I ++ Q+SWA+ E HVIIQAEFYL+PD SGEFMFDFDGDEIFHVD
Sbjct: 1 MTISGVPVLGFFIMAFLMGPQESWAVKEEHVIIQAEFYLTPDPSGEFMFDFDGDEIFHVD 60
Query: 397 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDK 576
MEK+ETVWRLEEFG FASFEAQGALANIAVDKANL+ +IKRS LS+
Sbjct: 61 MEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNTNVPPEVTVLSNT 120
Query: 577 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMP 756
PVELGEPNILICFIDKFSPPV+NVTWLRNG+PVT GV ET+FLPREDHLFRKFHYLPF+P
Sbjct: 121 PVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPREDHLFRKFHYLPFLP 180
Query: 757 STEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXX 936
S EDVYDC+VEHWGLD+PLLKHWEFE TPLPETTEN VCA
Sbjct: 181 SAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTENVVCALGLIVGLVGIITGTIFIIK 240
Query: 937 XXRKGNATERRGPL 978
RK A ERRGPL
Sbjct: 241 GMRKVKAGERRGPL 254
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 222 bits (565), Expect = 8e-58
Identities = 116/255 (45%), Positives = 144/255 (56%), Gaps = 3/255 (1%)
Frame = +1
Query: 223 MTILGVPVLGFVITILNLQKSWA--IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHV 393
M + V +LG +I + + S IV +HV Y S SG++ +FDGDE F+V
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 394 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 573
D+EK+ETVWRL F F SF+ QGAL N+A+ K NL I+ KRS S
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
PV LG+PN LIC +D PPV+NVTWL+N VT GV ET F + DH F K YL F+
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXX 933
PS ED+YDC+VEHWGLD+PLLKHWE E TP+ E TE VCA
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240
Query: 934 XXXRKGNATERRGPL 978
R G + +GPL
Sbjct: 241 QGLRSGGTSRHQGPL 255
>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 = 207 bits (528), Expect = 2e-53
Identities = 94/192 (48%), Positives = 131/192 (68%), Gaps = 7/192 (3%)
Frame = +1
Query: 325 FYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLE 504
FY S SG+F +FDG+++F V+++KR+ VWRL EFG+ A F+ Q LA+IAV KA+L+
Sbjct: 8 FYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIAVIKAHLD 67
Query: 505 ILIKRSXXXXXXXXXXXXXXLSDKP-------VELGEPNILICFIDKFSPPVVNVTWLRN 663
+L++RS L + VELG+PN+LIC +D PPV+N+TWLRN
Sbjct: 68 VLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRN 127
Query: 664 GSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEART 843
G ++ GV +T F + DHLFRKF YL F+PS ED+YDC+VEHWGL++PLL+HWE +
Sbjct: 128 GQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWEPQVPI 187
Query: 844 PLPETTENTVCA 879
P+P+T E +CA
Sbjct: 188 PVPDTIETLICA 199
>ref|XP_851506.1| PREDICTED: similar to zinc finger protein 124 [Canis familiaris]
Length = 265
Score = 87.8 bits (216), Expect = 2e-17
Identities = 43/50 (86%), Positives = 43/50 (86%)
Frame = -2
Query: 158 ESANAVPHYHKLCSRVSHIWGNRRGQHIRSAMDKPRPGKTTSVIMVSPLP 9
ESANAVPHYH RVSHIWGNRRGQHI SAMDKPRPG TT VIMVSPLP
Sbjct: 82 ESANAVPHYH----RVSHIWGNRRGQHIWSAMDKPRPGNTTFVIMVSPLP 127
>ref|XP_538853.2| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 1 [Canis familiaris]
Length = 265
Score = 80.1 bits (196), Expect = 5e-15
Identities = 53/199 (26%), Positives = 88/199 (44%), Gaps = 5/199 (2%)
Frame = +1
Query: 295 VENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALA 474
++NH + + + S + +DGD++F + + V RL EF +A + G +
Sbjct: 45 LQNHTFLHTMYCQNWSPSIGLLEAYDGDQLFSFNFSQNTRVPRLPEFADWA--QKSGDMP 102
Query: 475 NIAVDKANLEILI-----KRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPV 639
I+ DKA + +I K + KP+E G+PN+L+CFI PP
Sbjct: 103 TISFDKAFCQAMIEEIGPKLEGQIPVSRGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPT 162
Query: 640 VNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLK 819
+ V W + PV G+ T + F+ F YL F P+ D++ C V H + +
Sbjct: 163 LTVNWWHHLDPV-EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIA 221
Query: 820 HWEFEARTPLPETTENTVC 876
+W P + EN +C
Sbjct: 222 YWVPHDALP-SDLLENVLC 239
>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 = 78.2 bits (191), Expect = 2e-14
Identities = 38/89 (42%), Positives = 63/89 (70%), Gaps = 1/89 (1%)
Frame = +1
Query: 259 ITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 435
+++L+ ++ AI +H+ FY S SG+F +FDG+++F V+++KR+ VWRL EF
Sbjct: 1 MSLLSPHETGAIEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEF 60
Query: 436 GHFASFEAQGALANIAVDKANLEILIKRS 522
G+ A F+ Q LA+IAV KA+L++L++RS
Sbjct: 61 GNLAHFDPQNGLASIAVIKAHLDVLVERS 89
>ref|XP_861572.1| PREDICTED: similar to major histocompatibility complex, class II,
DM alpha precursor isoform 2 [Canis familiaris]
Length = 170
Score = 63.5 bits (153), Expect = 5e-10
Identities = 33/101 (32%), Positives = 50/101 (49%)
Frame = +1
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
KP+E G+PN+L+CFI PP + V W + PV G+ T + F+ F YL F
Sbjct: 46 KPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV-EGIGPTFVSAVDGFSFQAFSYLNFT 104
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVC 876
P+ D++ C V H + + +W P + EN +C
Sbjct: 105 PAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDLLENVLC 144
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 60.1 bits (144), Expect = 5e-09
Identities = 30/88 (34%), Positives = 43/88 (48%)
Frame = +1
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
K L N+L+C ++ F P + V WLRNG GV T + D F+ L +
Sbjct: 134 KTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQILVMLEIV 193
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHWEFEA 837
P + +VY CQVEH L P+ W ++
Sbjct: 194 PQSGEVYTCQVEHPSLTSPVTVEWRAQS 221
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 58.5 bits (140), Expect = 1e-08
Identities = 28/86 (32%), Positives = 38/86 (44%)
Frame = +1
Query: 586 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTE 765
L N+L+C + F P + V W RN T GV T + D F+ L P
Sbjct: 141 LNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQILVMLEMTPQRG 200
Query: 766 DVYDCQVEHWGLDKPLLKHWEFEART 843
DVY C VEH L P+ W ++ +
Sbjct: 201 DVYTCHVEHASLQSPITVQWRAQSES 226
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 54.7 bits (130), Expect = 2e-07
Identities = 26/87 (29%), Positives = 44/87 (50%)
Frame = +1
Query: 568 SDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLP 747
S P E G+PN L C++ F PP + + L+NG + + F +D F +
Sbjct: 38 SRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SKDWTFYLLVHTE 95
Query: 748 FMPSTEDVYDCQVEHWGLDKPLLKHWE 828
F P+ +D + C+V+H L +P + W+
Sbjct: 96 FTPNEQDEFSCRVKHVTLSEPQIVKWD 122
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: 61,106,420
Number of Sequences: 33732
Number of extensions: 1696663
Number of successful extensions: 5583
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4694
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): 5564
length of database: 19,266,565
effective HSP length: 107
effective length of database: 15,657,241
effective search space used: 5605292278
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= ITT01_0100_B02
(1398 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] 72 3e-14
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 59 4e-10
Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 50 1e-07
Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 44 7e-06
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]
Length = 260
Score = 72.0 bits (175), Expect = 3e-14
Identities = 49/175 (28%), Positives = 79/175 (45%), Gaps = 5/175 (2%)
Frame = +1
Query: 367 FDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKR-----SXXX 531
+DGD++F + + V RL EF +A + + A I DK +I++
Sbjct: 63 YDGDQLFSFNFSQNIRVPRLPEFADWAH-QIEDTPA-IFFDKGFCREMIEKVGPLFEGKI 120
Query: 532 XXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPR 711
+ KP+E G+PN L+CF+ PP + VTW + +PV G+ T
Sbjct: 121 PVSRGLPIAEVFTLKPLEFGKPNTLVCFVSNLFPPALTVTWEHHSAPV-EGIGPTFVSAT 179
Query: 712 EDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVC 876
+D F+ F YL F P+ D++ C V H + +W + P + EN +C
Sbjct: 180 DDLSFQAFSYLNFTPTPSDLFSCVVTHELDGYVAISYWVPQNALP-SDLLENVLC 233
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 58.5 bits (140), Expect = 4e-10
Identities = 29/87 (33%), Positives = 44/87 (50%)
Frame = +1
Query: 568 SDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLP 747
S P E G+PN L C++ F PP + + L+NG + + F +D F +
Sbjct: 31 SRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFYLLVHTE 88
Query: 748 FMPSTEDVYDCQVEHWGLDKPLLKHWE 828
F P+ D Y C+V+H LDKP + W+
Sbjct: 89 FTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 50.1 bits (118), Expect = 1e-07
Identities = 27/83 (32%), Positives = 40/83 (48%)
Frame = +1
Query: 604 LICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQ 783
L C+ F P +++TW + G ++ V P D FRK+ L P E Y C
Sbjct: 222 LRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCH 281
Query: 784 VEHWGLDKPLLKHWEFEARTPLP 852
V+H GL +PL W+ + P+P
Sbjct: 282 VQHEGLQEPLTLRWD-PPQPPVP 303
>ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa]
Length = 356
Score = 44.3 bits (103), Expect = 7e-06
Identities = 27/85 (31%), Positives = 40/85 (47%)
Frame = +1
Query: 598 NILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYD 777
++L C F PP + + +LRNG + G E+ P D F + L E Y
Sbjct: 218 SVLTCIAFSFYPPELQLRFLRNG--LAAGSGESDIGPNGDGSFHAWSSLTVKSGDEHHYC 275
Query: 778 CQVEHWGLDKPLLKHWEFEARTPLP 852
C V+H GL +PL E A++ +P
Sbjct: 276 CVVQHAGLAQPLTVELESPAKSSMP 300
Database: RefSeqSP
Posted date: Aug 1, 2006 7:14 PM
Number of letters in database: 434,620
Number of sequences in database: 1040
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,396,914
Number of Sequences: 1040
Number of extensions: 38037
Number of successful extensions: 137
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 115
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): 134
length of database: 434,620
effective HSP length: 80
effective length of database: 351,420
effective search space used: 135296700
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= ITT01_0100_B02
(1398 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_061984.2| major histocompatibility complex, class II, DR ... 370 e-102
Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 240 2e-63
Alignment gi|NP_002110.1| major histocompatibility complex, class II, DO ... 229 3e-60
Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 212 5e-55
Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 211 1e-54
Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 211 1e-54
Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 211 1e-54
Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 211 1e-54
Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 207 2e-53
Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 200 2e-51
>ref|NP_061984.2| major histocompatibility complex, class II, DR alpha precursor
[Homo sapiens]
Length = 254
Score = 370 bits (949), Expect = e-102
Identities = 181/254 (71%), Positives = 198/254 (77%), Gaps = 2/254 (0%)
Frame = +1
Query: 223 MTILGVPVLGFVI--TILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 396
M I GVPVLGF I +++ Q+SWAI E HVIIQAEFYL+PD+SGEFMFDFDGDEIFHVD
Sbjct: 1 MAISGVPVLGFFIIAVLMSAQESWAIKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVD 60
Query: 397 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDK 576
M K+ETVWRLEEFG FASFEAQGALANIAVDKANLEI+ KRS L++
Sbjct: 61 MAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTPITNVPPEVTVLTNS 120
Query: 577 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMP 756
PVEL EPN+LICFIDKF+PPVVNVTWLRNG PVT GV ETVFLPREDHLFRKFHYLPF+P
Sbjct: 121 PVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLP 180
Query: 757 STEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXX 936
STEDVYDC+VEHWGLD+PLLKHWEF+A +PLPETTEN VCA
Sbjct: 181 STEDVYDCRVEHWGLDEPLLKHWEFDAPSPLPETTENVVCALGLTVGLVGIIIGTIFIIK 240
Query: 937 XXRKGNATERRGPL 978
RK NA ERRGPL
Sbjct: 241 GLRKSNAAERRGPL 254
>ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor
[Homo sapiens]
Length = 260
Score = 240 bits (612), Expect = 2e-63
Identities = 116/205 (56%), Positives = 143/205 (69%)
Frame = +1
Query: 265 ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 444
+L+L+ + AI +HV A F + +GEFMF+FD DE+F+VD++K+ETVW LEEFG
Sbjct: 23 LLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFEFDEDEMFYVDLDKKETVWHLEEFGQA 82
Query: 445 ASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDK 624
SFEAQG LANIA+ NL LI+RS +PVELG+PN LIC IDK
Sbjct: 83 FSFEAQGGLANIAILNNNLNTLIQRSNHTQATNDPPEVTVFPKEPVELGQPNTLICHIDK 142
Query: 625 FSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLD 804
F PPV+NVTWL NG VT GV E++FLPR D+ F KFHYL F+PS ED YDC+VEHWGLD
Sbjct: 143 FFPPVLNVTWLCNGELVTEGVAESLFLPRTDYSFHKFHYLTFVPSAEDFYDCRVEHWGLD 202
Query: 805 KPLLKHWEFEARTPLPETTENTVCA 879
+PLLKHWE + +PETTE +CA
Sbjct: 203 QPLLKHWEAQEPIQMPETTETVLCA 227
>ref|NP_002110.1| major histocompatibility complex, class II, DO alpha precursor
[Homo sapiens]
Length = 250
Score = 229 bits (585), Expect = 3e-60
Identities = 113/215 (52%), Positives = 143/215 (66%), Gaps = 3/215 (1%)
Frame = +1
Query: 244 VLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 414
VLGF ++T+L+ Q++ A +H+ FY S SG+F +FD +++F VD++K E
Sbjct: 8 VLGFHTLMTLLSPQEAGATKADHMGSYGPAFYQSYGASGQFTHEFDEEQLFSVDLKKSEA 67
Query: 415 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGE 594
VWRL EFG FA F+ QG LA IA KA+L+IL++RS L VELG+
Sbjct: 68 VWRLPEFGDFARFDPQGGLAGIAAIKAHLDILVERSNRSRAINVPPRVTVLPKSRVELGQ 127
Query: 595 PNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVY 774
PNILIC +D PPV+N+TWLRNG VT GV +T F + DHLFRKFHYLPF+PS EDVY
Sbjct: 128 PNILICIVDNIFPPVINITWLRNGQTVTEGVAQTSFYSQPDHLFRKFHYLPFVPSAEDVY 187
Query: 775 DCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCA 879
DCQVEHWGLD PLL+HWE + P P+ E VCA
Sbjct: 188 DCQVEHWGLDAPLLRHWELQVPIPPPDAMETLVCA 222
>ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor
[Homo sapiens]
Length = 255
Score = 212 bits (540), Expect = 5e-55
Identities = 106/230 (46%), Positives = 130/230 (56%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVI-IQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y SG++ +FDGDE F+VD+E++ET WR EF F F+ QGA
Sbjct: 26 IVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L N+AV K NL I+IKR S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDQPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLMGIVVGTVFIIQGLRSVGASRHQGPL 255
>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 = 211 bits (537), Expect = 1e-54
Identities = 108/230 (46%), Positives = 132/230 (57%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A
Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255
>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 = 211 bits (537), Expect = 1e-54
Identities = 108/230 (46%), Positives = 132/230 (57%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A
Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255
>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 = 211 bits (537), Expect = 1e-54
Identities = 108/230 (46%), Positives = 132/230 (57%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A
Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255
>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 = 211 bits (537), Expect = 1e-54
Identities = 108/230 (46%), Positives = 132/230 (57%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A
Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255
>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
sapiens]
Length = 255
Score = 207 bits (527), Expect = 2e-53
Identities = 100/197 (50%), Positives = 125/197 (63%), Gaps = 1/197 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV FY S SG++ +FDGDE F+VD+E +ETVW+L F F SF+ Q A
Sbjct: 26 IVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSA 85
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L N+AV K LE ++++S S PV LG+PN LIC +D PPVVN+
Sbjct: 86 LRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSKFPVTLGQPNTLICLVDNIFPPVVNI 145
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE
Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDEPLLKHWE 205
Query: 829 FEARTPLPETTENTVCA 879
E P+ E TE VCA
Sbjct: 206 PEIPAPMSELTETLVCA 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 = 200 bits (509), Expect = 2e-51
Identities = 108/230 (46%), Positives = 127/230 (55%), Gaps = 1/230 (0%)
Frame = +1
Query: 292 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 468
IV +HV Y S SG++ +FDGDE F+VD+ ++ETVW L F F+ Q A
Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQFR-FDPQFA 84
Query: 469 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 648
L NIAV K NL LIKRS S PV LG+PNILIC +D PPVVN+
Sbjct: 85 LTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNI 144
Query: 649 TWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 828
TWL NG VT GV ET FL + DH F K YL +PS E+ YDC+VEHWGLDKPLLKHWE
Sbjct: 145 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204
Query: 829 FEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 978
E P+ E TE VCA R A+ +GPL
Sbjct: 205 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVFIIRGLRSVGASRHQGPL 254
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: 58,871,251
Number of Sequences: 39411
Number of extensions: 1685115
Number of successful extensions: 5858
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4865
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): 5826
length of database: 17,774,539
effective HSP length: 106
effective length of database: 13,596,973
effective search space used: 4881313307
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= ITT01_0100_B02
(1398 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 328 8e-90
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 219 4e-57
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 215 1e-55
Alignment gi|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus ... 79 2e-14
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 58 3e-08
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 58 3e-08
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 57 4e-08
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 57 4e-08
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 57 6e-08
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 56 8e-08
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 328 bits (841), Expect = 8e-90
Identities = 157/239 (65%), Positives = 176/239 (73%)
Frame = +1
Query: 253 FVITILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEE 432
F+ +++ QKSWAI E H IIQAEFYL PDK GEFMFDFDGDEIFHVD+EK ET+WRLEE
Sbjct: 13 FIAVLMSSQKSWAIKEEHTIIQAEFYLLPDKRGEFMFDFDGDEIFHVDIEKSETIWRLEE 72
Query: 433 FGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILIC 612
F FASFEAQGALANIAVDKANL+++ +RS LS PV LGEPNILIC
Sbjct: 73 FAKFASFEAQGALANIAVDKANLDVMKERSNNTPDANVAPEVTVLSRSPVNLGEPNILIC 132
Query: 613 FIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEH 792
FIDKFSPPVVNVTW RNG PVT GV ETVFLPR+DHLFRKFHYL F+PST+D YDC+V+H
Sbjct: 133 FIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPRDDHLFRKFHYLTFLPSTDDFYDCEVDH 192
Query: 793 WGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERR 969
WGL++PL KHWEFE +T LPETTEN VCA +K N ERR
Sbjct: 193 WGLEEPLRKHWEFEEKTLLPETTENVVCALGLFVGLVGIVVGIILIMKGIKKRNVVERR 251
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 219 bits (559), Expect = 4e-57
Identities = 107/214 (50%), Positives = 142/214 (66%), Gaps = 1/214 (0%)
Frame = +1
Query: 238 VPVLGFVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 414
VPVL V++ L+ + AI +H+ FY S D SG+F +FDG++IF VD++ E
Sbjct: 8 VPVLLTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEV 67
Query: 415 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGE 594
VWRL EFG FA + Q L +I++ KA+L+IL++RS L VELG+
Sbjct: 68 VWRLPEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGK 127
Query: 595 PNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTEDVY 774
PN+LIC +D PPV+NVTWLRN P+T+GV +T F + +H FRKFHYL F+PS EDVY
Sbjct: 128 PNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVY 187
Query: 775 DCQVEHWGLDKPLLKHWEFEARTPLPETTENTVC 876
DC+VEHWGLD PLL+HWE + TP P+TTE +C
Sbjct: 188 DCKVEHWGLDTPLLQHWEPQVLTPPPDTTETLIC 221
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 215 bits (547), Expect = 1e-55
Identities = 110/256 (42%), Positives = 142/256 (55%), Gaps = 1/256 (0%)
Frame = +1
Query: 214 KEKMTILGVPVLGFVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFH 390
+ + ILGV L ++++ + I +HV Y SP G++ F+FDGDE+F+
Sbjct: 3 RSRALILGVLALTTMLSLCGGEDD--IEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 391 VDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLS 570
VD++K+ETVW L EFG ASF+ QG L NIAV K NL +L KRS
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 571 DKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPF 750
PV LG+PN LICF+D PPV+N+TWLRN V GV ET F D+ F K YL F
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 751 MPSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVCAXXXXXXXXXXXXXXXXX 930
+PS +D+YDC+VEHWGL++P+LKHWE E P+ E TE VCA
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240
Query: 931 XXXXRKGNATERRGPL 978
R G + GPL
Sbjct: 241 IQGLRSGGTSRHPGPL 256
>ref|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus musculus]
Length = 261
Score = 78.6 bits (192), Expect = 2e-14
Identities = 62/230 (26%), Positives = 94/230 (40%), Gaps = 16/230 (6%)
Frame = +1
Query: 235 GVPVLGFVITILNLQKSWAIVE-----------NHVIIQAEFYLSPDKSGEFMFDFDGDE 381
G +L + + L SWA++E NH F + +D DE
Sbjct: 8 GAVLLRLLRLLWLLPHSWAVLEASTPVLWDDPQNHTFRHTLFCQDGIPNIGLSETYDEDE 67
Query: 382 IFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILI-----KRSXXXXXXXX 546
+F D + V +L +F +A + QG + IA DK+ E+L+ K
Sbjct: 68 LFSFDFSQNTRVPQLPDFAEWA--QGQGDASAIAFDKSFCEMLMREVSPKLEGQIPVSRG 125
Query: 547 XXXXXXLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLF 726
+ KP+E G+PN L+CFI PP + V W + +PV G T + F
Sbjct: 126 LPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAVDGLTF 184
Query: 727 RKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEARTPLPETTENTVC 876
+ F YL F P D+Y C V H + +W + P + EN +C
Sbjct: 185 QAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLENALC 233
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 57.8 bits (138), Expect = 3e-08
Identities = 28/86 (32%), Positives = 38/86 (44%)
Frame = +1
Query: 586 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTE 765
L N L+C + F P + V W RNG T GV T + D F+ L P
Sbjct: 137 LNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEMTPRRG 196
Query: 766 DVYDCQVEHWGLDKPLLKHWEFEART 843
+VY C VEH L P+ W ++ +
Sbjct: 197 EVYTCHVEHPSLKSPITVEWRAQSES 222
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 57.8 bits (138), Expect = 3e-08
Identities = 28/88 (31%), Positives = 42/88 (47%)
Frame = +1
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
K L N+L+C + F P + V W RNG G+ T + D F+ L +
Sbjct: 132 KTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLETV 191
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHWEFEA 837
P + +VY CQVEH L P+ W+ ++
Sbjct: 192 PQSGEVYTCQVEHPSLTDPVTVEWKAQS 219
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 57.4 bits (137), Expect = 4e-08
Identities = 29/84 (34%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Frame = +1
Query: 577 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPV-TRGVPETVFLPREDHLFRKFHYLPFM 753
P EP +L C++ F P V +TW++NG V + E P D ++ YL
Sbjct: 124 PFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALT 183
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHW 825
PS DVY C V+H G +P+ W
Sbjct: 184 PSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 57.4 bits (137), Expect = 4e-08
Identities = 29/84 (34%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Frame = +1
Query: 577 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPV-TRGVPETVFLPREDHLFRKFHYLPFM 753
P EP +L C++ F P V +TW++NG V + E P D ++ YL
Sbjct: 124 PFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALT 183
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHW 825
PS DVY C V+H G +P+ W
Sbjct: 184 PSYGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 56.6 bits (135), Expect = 6e-08
Identities = 28/84 (33%), Positives = 38/84 (45%)
Frame = +1
Query: 574 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFM 753
K L N+L+C + F P + V W RNG GV T + D ++ L +
Sbjct: 133 KTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQTLVMLEMV 192
Query: 754 PSTEDVYDCQVEHWGLDKPLLKHW 825
P +VY CQVEH L P+ W
Sbjct: 193 PRGGEVYTCQVEHPSLTSPVTVEW 216
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 56.2 bits (134), Expect = 8e-08
Identities = 28/80 (35%), Positives = 40/80 (50%)
Frame = +1
Query: 586 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVPETVFLPREDHLFRKFHYLPFMPSTE 765
L + N+L+C + F P ++V W RNG GV T + D F+ L +P
Sbjct: 135 LQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTTVMLEMIPELG 194
Query: 766 DVYDCQVEHWGLDKPLLKHW 825
D+Y C VEH GL +P+ W
Sbjct: 195 DIYSCLVEHPGLLRPVSVAW 214
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: 69,976,705
Number of Sequences: 45328
Number of extensions: 1939466
Number of successful extensions: 6578
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 5411
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): 6567
length of database: 21,768,885
effective HSP length: 107
effective length of database: 16,918,789
effective search space used: 6056926462
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)