BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-051279
(920 letters)
Database: RefSeqSP
1040 sequences; 434,620 total letters
Searching...done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 60 7e-11
Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 52 2e-08
Alignment gi|NP_998996.1| CD1 antigen [Sus scrofa] 52 3e-08
Alignment gi|NP_998993.1| IgG heavy chain [Sus scrofa] 47 7e-07
>ref|NP_999143.1| beta 2-microglobulin [Sus scrofa]
Length = 118
Score = 60.1 bits (144), Expect = 7e-11
Identities = 37/112 (33%), Positives = 59/112 (52%), Gaps = 1/112 (0%)
Frame = +1
Query: 112 VMLVVLGAPVAEGRDSPLQPTVTISPSKAEALNHH-NPLVCAVTDFYPSQVKVQWFRNGQ 288
V LV+LG G D+ +P S+ A N N L C V+ F+P Q+++ +NG+
Sbjct: 5 VALVLLGLLSLSGLDAVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGE 64
Query: 289 EETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
+ A + L + DW++ +LV E D Y+CRV+H +L P +V+W
Sbjct: 65 KMNAE--QSDLSFSKDWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114
>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
Length = 401
Score = 52.0 bits (123), Expect = 2e-08
Identities = 28/98 (28%), Positives = 44/98 (44%)
Frame = +1
Query: 151 RDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRN 330
R P + VT PS + L C FYP ++ + W + GQ+++ V +
Sbjct: 202 RSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPS 257
Query: 331 GDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
GD T++ L + YTC V+H LQ P+ + W
Sbjct: 258 GDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295
>ref|NP_998996.1| CD1 antigen [Sus scrofa]
Length = 339
Score = 51.6 bits (122), Expect = 3e-08
Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 1/82 (1%)
Frame = +1
Query: 214 HNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVY 393
H LVC V+ FYP + V W R+ QE+ G ++ N D T+ + V L++
Sbjct: 219 HLMLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPNADGTWYLRVTLDVAAGEASGL 277
Query: 394 TCRVEHSSL-QNPILVEWRAQS 456
+CRV+HSSL I++ W S
Sbjct: 278 SCRVKHSSLGGQDIILYWEQHS 299
>ref|NP_998993.1| IgG heavy chain [Sus scrofa]
Length = 474
Score = 47.0 bits (110), Expect = 7e-07
Identities = 31/92 (33%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Frame = +1
Query: 166 QPTVTISPSKAEALNHHNPLV-CAVTDFYPSQVKVQWFRNGQEETAG-VVSTPLIRNGDW 339
+P V P AE L+ V C V FYP + V+W NGQ E G +TP ++ D
Sbjct: 370 EPQVYTLPPPAEELSRSKVTVTCLVIGFYPPDIHVEWKSNGQPEPEGNYRTTPPQQDVDG 429
Query: 340 T---YQVLVMLEMNLQRGDVYTCRVEHSSLQN 426
T Y L + + G+ + C V H +L N
Sbjct: 430 TFFLYSKLAVDKARWDHGETFECAVMHEALHN 461
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: 921,725
Number of Sequences: 1040
Number of extensions: 24856
Number of successful extensions: 95
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 82
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): 92
length of database: 434,620
effective HSP length: 76
effective length of database: 355,580
effective search space used: 81783400
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqBP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-051279
(920 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 201 9e-52
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 191 7e-49
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 165 5e-41
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 148 7e-36
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 147 1e-35
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 143 2e-34
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 143 2e-34
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 141 8e-34
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 69 4e-12
Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 67 3e-11
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 201 bits (510), Expect = 9e-52
Identities = 97/135 (71%), Positives = 109/135 (80%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTISPS+ EALNHHN LVC+VTDFYPSQ+KV+WFRN +EETAGVVSTPLIRNGDWT
Sbjct: 127 VEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIRNGDWT 186
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLEM QRGDVYTC VEH SLQ+PI+VEWRAQSESAQSKMLS
Sbjct: 187 FQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLGLIFLG 246
Query: 523 XXXXXRHRSQKGLVR 567
HRSQKGL+R
Sbjct: 247 LGLIIHHRSQKGLMR 261
Score = 54.7 bits (130), Expect = 1e-07
Identities = 26/36 (72%), Positives = 29/36 (80%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSP 162
MSGMVAL +PRGLWTA + V LV+L P AEGRDSP
Sbjct: 1 MSGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSP 36
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 191 bits (485), Expect = 7e-49
Identities = 93/134 (69%), Positives = 106/134 (79%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTIS S+ EALNHHN LVC+VTDFYP Q+KV+WF+NG+EETAG+VSTPLIRNGDWT
Sbjct: 127 VEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWT 186
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLEM +RGDVYTC VEH SLQ+PI VEWRAQSESAQSKMLS
Sbjct: 187 FQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLGLIFLG 246
Query: 523 XXXXXRHRSQKGLV 564
R RSQKGLV
Sbjct: 247 LGLIVRRRSQKGLV 260
Score = 59.3 bits (142), Expect = 4e-09
Identities = 31/41 (75%), Positives = 33/41 (80%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPLQPTV 177
MSGMVALR+PRGLWTAA+ V L VL P AEGRDSP Q TV
Sbjct: 1 MSGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSP-QDTV 40
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 165 bits (417), Expect = 5e-41
Identities = 78/107 (72%), Positives = 89/107 (83%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVT+SP+ EALNHHN LVC+VTDFYP QVKV+WFRN QE+TAGV TPL +NGDWT
Sbjct: 125 VEPTVTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWT 184
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
YQ+ VMLE Q GDVY C V+H SLQ+PI VEWRAQSESAQSKM S
Sbjct: 185 YQIHVMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQS 231
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 148 bits (373), Expect = 7e-36
Identities = 69/132 (52%), Positives = 90/132 (68%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVT+ P+K + L HHN LVC+V FYP ++V+WFRNG EE AGV+ST LI+NGDWT
Sbjct: 124 VEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNGDWT 183
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q +VMLE Q G+VYTC+V+H +PI VEWRA+S+SAQSKM+S
Sbjct: 184 FQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLLFLA 243
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 244 VGLFIYFRNQKG 255
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 147 bits (371), Expect = 1e-35
Identities = 68/107 (63%), Positives = 83/107 (77%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
+QPTVT+ P K+ L HHN LVC+V FYP ++V+WFRNGQEE AGVVST LI NGDWT
Sbjct: 88 VQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEEEAGVVSTGLIPNGDWT 147
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
+Q++VMLE+ Q G+VY C VEH S +P+ VEWRAQ ES+Q KMLS
Sbjct: 148 FQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEKMLS 194
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 143 bits (360), Expect = 2e-34
Identities = 64/111 (57%), Positives = 84/111 (75%)
Frame = +1
Query: 151 RDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRN 330
R ++PTVT+ P+K + L HHN LVC+V FYP ++V+WF N EE AGV+ST LI+N
Sbjct: 109 RQRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQN 168
Query: 331 GDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
GDWT+Q +VMLE Q G+VYTC+VEH S +P+ VEWRAQS+SAQ K++S
Sbjct: 169 GDWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMS 219
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 143 bits (360), Expect = 2e-34
Identities = 69/119 (57%), Positives = 85/119 (71%)
Frame = +1
Query: 127 LGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGV 306
LGAP GR +QP VT+ P K AL H N L+C VT FYP +KV WFRNGQE+ G+
Sbjct: 111 LGAPFTVGRR--VQPEVTVYPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGI 168
Query: 307 VSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
+ST LIRNGDWT+Q+ VML M + G+VYTC V+H SL +P+ VEWRAQSE + K+LS
Sbjct: 169 MSTGLIRNGDWTFQMTVMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILS 227
>ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-7 beta chain precursor (MHC class I antigen DRB1*7)
(DR-7) (DR7) [Bos taurus]
Length = 347
Score = 141 bits (355), Expect = 8e-34
Identities = 67/132 (50%), Positives = 90/132 (68%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVT+ P+K + L H++ LVC+V FY V+V+WF GQEE AGV+ST LI+NGDWT
Sbjct: 95 VEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQEEEAGVISTGLIQNGDWT 154
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
++ +VMLE LQ G+VYTC++EH S ++PI EWRAQS+SAQSKM+S
Sbjct: 155 FETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGTGGFALGLLFLV 214
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 215 VGLFTHFRNQKG 226
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus]
Length = 253
Score = 69.3 bits (168), Expect = 4e-12
Identities = 38/122 (31%), Positives = 56/122 (45%), Gaps = 3/122 (2%)
Frame = +1
Query: 100 AALTVMLVVLGAPVAEGRDSP---LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQ 270
A + VM L + ++P + P VT+ P+K L N L+C + F P + V
Sbjct: 85 ANMAVMKANLDIMIKRSNNTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVT 144
Query: 271 WFRNGQEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRA 450
W RNG+ T GV T + D ++ L DVY C+VEH L P+L W
Sbjct: 145 WLRNGKPVTDGVSQTVFLPRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEY 204
Query: 451 QS 456
++
Sbjct: 205 EA 206
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus]
Length = 255
Score = 66.6 bits (161), Expect = 3e-11
Identities = 30/103 (29%), Positives = 48/103 (46%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 348
P VT+ L N L+C V + +P + + W RNG T GV T + D+++
Sbjct: 113 PEVTVFSKSPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFL 172
Query: 349 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKM 477
+ L D+Y C+VEH L P+L W + + S++
Sbjct: 173 KIKYLAFLPSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSEL 215
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: 34,901,413
Number of Sequences: 33508
Number of extensions: 984106
Number of successful extensions: 4259
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3652
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): 4214
length of database: 16,112,626
effective HSP length: 101
effective length of database: 12,728,318
effective search space used: 2609305190
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqHP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-051279
(920 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 198 6e-51
Alignment gi|XP_947333.1| PREDICTED: similar to HLA class II histocompati... 196 2e-50
Alignment gi|XP_950911.1| PREDICTED: similar to HLA class II histocompati... 171 1e-42
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 167 1e-41
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 163 2e-40
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 154 1e-37
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 152 4e-37
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 152 4e-37
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 152 5e-37
Alignment gi|XP_947031.1| PREDICTED: similar to major histocompatibility ... 152 5e-37
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 198 bits (503), Expect = 6e-51
Identities = 96/134 (71%), Positives = 107/134 (79%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTISPS+ EALNHHN LVC+VTDFYP+Q+KV+WFRN QEETAGVVSTPLIRNGDWT
Sbjct: 127 VEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWT 186
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLEM QRGDVYTC VEH SLQ+PI VEWRAQSESAQSKMLS
Sbjct: 187 FQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLG 246
Query: 523 XXXXXRHRSQKGLV 564
HRSQKGL+
Sbjct: 247 LGLIIHHRSQKGLL 260
>ref|XP_947333.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(W1.1) beta chain precursor (DQB1*0501) isoform 1
[Homo sapiens]
Length = 157
Score = 196 bits (498), Expect = 2e-50
Identities = 95/134 (70%), Positives = 107/134 (79%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTISPS+ EALNHHN L+C+VTDFYPSQ+KV+WFRN QEETAGVVSTPLIRNGDWT
Sbjct: 23 VEPTVTISPSRTEALNHHNLLICSVTDFYPSQIKVRWFRNDQEETAGVVSTPLIRNGDWT 82
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLEM QRGDVYTC VEH SLQ+PI VEWRAQSESAQSKMLS
Sbjct: 83 FQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFVLGLIFLG 142
Query: 523 XXXXXRHRSQKGLV 564
R RS+KGL+
Sbjct: 143 LGLIIRQRSRKGLL 156
>ref|XP_950911.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(W1.1) beta chain precursor (DQB1*0501) isoform 2
[Homo sapiens]
Length = 120
Score = 171 bits (432), Expect = 1e-42
Identities = 77/95 (81%), Positives = 87/95 (91%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTISPS+ EALNHHN L+C+VTDFYPSQ+KV+WFRN QEETAGVVSTPLIRNGDWT
Sbjct: 23 VEPTVTISPSRTEALNHHNLLICSVTDFYPSQIKVRWFRNDQEETAGVVSTPLIRNGDWT 82
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWR 447
+Q+LVMLEM QRGDVYTC VEH SLQ+PI VEWR
Sbjct: 83 FQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWR 117
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 167 bits (422), Expect = 1e-41
Identities = 75/95 (78%), Positives = 87/95 (91%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTISPS+ EALNHHN LVC+VTDFYP+Q+KVQWFRN QEETAGVVST LIRNGDWT
Sbjct: 126 VEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTSLIRNGDWT 185
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWR 447
+Q+LVMLE+ QRGD+YTC+VEH SLQ+PI VEWR
Sbjct: 186 FQILVMLEITPQRGDIYTCQVEHPSLQSPITVEWR 220
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 163 bits (413), Expect = 2e-40
Identities = 78/119 (65%), Positives = 95/119 (79%)
Frame = +1
Query: 127 LGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGV 306
LG P+ R +QP V +SPSK L HHN LVC VTDFYP ++V+WF NGQEETAGV
Sbjct: 112 LGGPMTLQRR--VQPRVNVSPSKKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGV 169
Query: 307 VSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
VST LIRNGDWT+Q+LVMLEM Q+GDVYTC+VEH+SL +P+ VEW+AQS+SA+SK L+
Sbjct: 170 VSTNLIRNGDWTFQILVMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 154 bits (388), Expect = 1e-37
Identities = 74/132 (56%), Positives = 93/132 (70%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++P VT+ PSK + L HHN LVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NGDWT
Sbjct: 124 VEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWT 183
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE + G+VYTC+VEH S+ +P+ VEWRA+SESAQSKMLS
Sbjct: 184 FQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLG 243
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 244 AGLFIYFRNQKG 255
>ref|XP_945926.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 1 [Homo sapiens]
Length = 266
Score = 152 bits (384), Expect = 4e-37
Identities = 73/132 (55%), Positives = 92/132 (69%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
+ P VT+ P+K + L HHN LVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NGDWT
Sbjct: 124 VHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWT 183
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE + G+VYTC+VEH S+ +P+ VEWRA+SESAQSKMLS
Sbjct: 184 FQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLG 243
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 244 AGLFIYFRNQKG 255
>ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 2 [Homo sapiens]
Length = 284
Score = 152 bits (384), Expect = 4e-37
Identities = 73/132 (55%), Positives = 92/132 (69%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
+ P VT+ P+K + L HHN LVC+V+ FYP ++V+WFRNGQEE AGVVST LI+NGDWT
Sbjct: 142 VHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWT 201
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE + G+VYTC+VEH S+ +P+ VEWRA+SESAQSKMLS
Sbjct: 202 FQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLG 261
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 262 AGLFIYFRNQKG 273
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 152 bits (383), Expect = 5e-37
Identities = 73/132 (55%), Positives = 91/132 (68%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
+QP VT+ PSK + L HHN LVC+V FYP ++V+WFRNGQEE AGVVST LI+NGDWT
Sbjct: 124 VQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWT 183
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE + G+VYTC+VEH S+ +P+ V+W A+SESAQSKMLS
Sbjct: 184 FQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLLFLG 243
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 244 TGLFIYFRNQKG 255
>ref|XP_947031.1| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 4 precursor [Homo sapiens]
Length = 185
Score = 152 bits (383), Expect = 5e-37
Identities = 73/132 (55%), Positives = 91/132 (68%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
+QP VT+ PSK + L HHN LVC+V FYP ++V+WFRNGQEE AGVVST LI+NGDWT
Sbjct: 43 VQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWT 102
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE + G+VYTC+VEH S+ +P+ V+W A+SESAQSKMLS
Sbjct: 103 FQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLLFLG 162
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 163 TGLFIYFRNQKG 174
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: 39,766,466
Number of Sequences: 39411
Number of extensions: 1166105
Number of successful extensions: 5188
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4247
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): 5138
length of database: 17,774,539
effective HSP length: 102
effective length of database: 13,754,617
effective search space used: 2805941868
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqCP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-051279
(920 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 193 2e-49
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 159 3e-39
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 151 1e-36
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 137 1e-32
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 68 1e-11
Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 65 1e-10
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 62 1e-09
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 60 2e-09
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 58 1e-08
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 58 1e-08
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 193 bits (491), Expect = 2e-49
Identities = 93/132 (70%), Positives = 104/132 (78%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVTI PSK E LNHHN LVC+VTDFYP Q+KV+WFRN QE+TAGVVSTPLIRNGDWT
Sbjct: 127 VEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWT 186
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLEM QRGDVYTC VEH+SLQ+PI V+WRAQSESAQSKMLS
Sbjct: 187 FQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLGLIFLG 246
Query: 523 XXXXXRHRSQKG 558
RHRSQKG
Sbjct: 247 LGLIIRHRSQKG 258
Score = 52.8 bits (125), Expect = 5e-07
Identities = 24/36 (66%), Positives = 29/36 (80%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSP 162
MSG + L +PRG WTAA+ ++LVVL PVAEGRDSP
Sbjct: 1 MSGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSP 36
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 159 bits (403), Expect = 3e-39
Identities = 76/132 (57%), Positives = 94/132 (71%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVT+ P+K + L HHN LVC+V FYP ++V+W RNGQEE AGVVST LIRNGDWT
Sbjct: 124 VEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWT 183
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q+LVMLE+ Q G+VYTC+VEH SL +P+ VEWRAQS+SAQSKMLS
Sbjct: 184 FQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLLFLA 243
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 244 VGLFIYFRNQKG 255
>ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
1 [Canis familiaris]
Length = 270
Score = 151 bits (381), Expect = 1e-36
Identities = 75/146 (51%), Positives = 93/146 (63%)
Frame = +1
Query: 127 LGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGV 306
LGAP GR +QP VT+ P + ++ HHN L+C+VT FYP +K++WFRNGQEE GV
Sbjct: 111 LGAPFTVGRK--VQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGV 168
Query: 307 VSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSX 486
+ST LIRNGDWT+Q +VMLEM + GDVYTC V H SL +P+ VEWRAQS + KMLS
Sbjct: 169 MSTGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSG 228
Query: 487 XXXXXXXXXXXXXXXXXRHRSQKGLV 564
R+QKG V
Sbjct: 229 IAAFLLGLIFLLVGTVICLRAQKGYV 254
>ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
2 [Canis familiaris]
Length = 228
Score = 137 bits (346), Expect = 1e-32
Identities = 62/106 (58%), Positives = 78/106 (73%)
Frame = +1
Query: 127 LGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGV 306
LGAP GR +QP VT+ P + ++ HHN L+C+VT FYP +K++WFRNGQEE GV
Sbjct: 111 LGAPFTVGRK--VQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGV 168
Query: 307 VSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
+ST LIRNGDWT+Q +VMLEM + GDVYTC V H SL +P+ VEW
Sbjct: 169 MSTGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214
>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 = 68.2 bits (165), Expect = 1e-11
Identities = 33/99 (33%), Positives = 46/99 (46%)
Frame = +1
Query: 157 SPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGD 336
SPL P V + P L N L+C V + +P + + W RNGQ + GV T D
Sbjct: 86 SPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPD 145
Query: 337 WTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQ 453
++ L D+Y C+VEH L+ P+L W Q
Sbjct: 146 HLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWEPQ 184
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 64.7 bits (156), Expect = 1e-10
Identities = 30/103 (29%), Positives = 46/103 (44%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 348
P VT+ L N L+C V + +P + V W +N T GV T GD ++
Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172
Query: 349 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKM 477
+ L D+Y C+VEH L P+L W + + S++
Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSEL 215
>ref|XP_849737.1| PREDICTED: similar to HLA class II histocompatibility antigen, DM
beta chain precursor (MHC class II antigen DMB) [Canis
familiaris]
Length = 263
Score = 61.6 bits (148), Expect = 1e-09
Identities = 32/93 (34%), Positives = 44/93 (47%), Gaps = 1/93 (1%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIR-NGDWTY 345
PTV ++ S L C V FYP+ V + W +NGQ + + + + NGDWTY
Sbjct: 115 PTVQVAKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTY 174
Query: 346 QVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
Q + L D YTC VEH P+ +W
Sbjct: 175 QTVSHLATTPSYEDTYTCVVEHIGAPEPVCEDW 207
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 60.5 bits (145), Expect = 2e-09
Identities = 31/92 (33%), Positives = 41/92 (44%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 348
P VT+ + L N L+C + F P + V W RNG T GV T + D ++
Sbjct: 112 PEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPREDHLFR 171
Query: 349 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
L DVY C+VEH L P+L W
Sbjct: 172 KFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 57.8 bits (138), Expect = 1e-08
Identities = 33/113 (29%), Positives = 57/113 (50%)
Frame = +1
Query: 106 LTVMLVVLGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNG 285
L ++L++L A + P P + + N L C V+ F+P ++++ +NG
Sbjct: 13 LALLLILLAACRLDAVQHP--PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 286 QEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
+E A T L + DWT+ +LV E D ++CRV+H +L P +V+W
Sbjct: 71 KEMKAE--QTDLSFSKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris]
Length = 125
Score = 57.8 bits (138), Expect = 1e-08
Identities = 33/113 (29%), Positives = 57/113 (50%)
Frame = +1
Query: 106 LTVMLVVLGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNG 285
L ++L++L A + P P + + N L C V+ F+P ++++ +NG
Sbjct: 13 LALLLILLAACRLDAVQHP--PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 286 QEETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEW 444
+E A T L + DWT+ +LV E D ++CRV+H +L P +V+W
Sbjct: 71 KEMKAE--QTDLSFSKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121
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: 40,910,342
Number of Sequences: 33732
Number of extensions: 1154300
Number of successful extensions: 5196
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4344
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): 5157
length of database: 19,266,565
effective HSP length: 103
effective length of database: 15,792,169
effective search space used: 3205810307
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
Search to RefSeqMP
BLASTX 2.2.10 [Oct-19-2004]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20060611S-051279
(920 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 180 2e-45
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 155 6e-38
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 148 9e-36
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 134 1e-31
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 68 2e-11
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 65 8e-11
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 65 1e-10
Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 65 1e-10
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 61 2e-09
Alignment gi|NP_034510.2| histocompatibility 2, D region locus 1 [Mus mus... 57 4e-08
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 180 bits (457), Expect = 2e-45
Identities = 89/131 (67%), Positives = 99/131 (75%)
Frame = +1
Query: 166 QPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTY 345
QP V IS S+ EALNHHN LVC+VTDFYP+Q+KV+WFRNGQEET GV ST LIRNGDWT+
Sbjct: 124 QPNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTF 183
Query: 346 QVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXXX 525
QVLVMLEM +RG+VYTC VEH SL++PI VEWRAQSESA SKMLS
Sbjct: 184 QVLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGL 243
Query: 526 XXXXRHRSQKG 558
RHRSQKG
Sbjct: 244 GLFIRHRSQKG 254
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 155 bits (392), Expect = 6e-38
Identities = 72/132 (54%), Positives = 93/132 (70%)
Frame = +1
Query: 163 LQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWT 342
++PTVT+ P+K + L HHN LVC+V+DFYP ++V+WFRNG+EE G+VST L+RNGDWT
Sbjct: 122 VEPTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWT 181
Query: 343 YQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSXXXXXXXXXXXXX 522
+Q LVMLE Q G+VYTC+VEH SL +P+ VEW+AQS SAQ+KMLS
Sbjct: 182 FQTLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLR 241
Query: 523 XXXXXRHRSQKG 558
R+QKG
Sbjct: 242 AGLFIYFRNQKG 253
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 148 bits (373), Expect = 9e-36
Identities = 67/106 (63%), Positives = 85/106 (80%)
Frame = +1
Query: 166 QPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTY 345
+P VT+ P+K + L HHN LVC+V DFYP ++V+WFRNG+EE GVVST LI+N DWTY
Sbjct: 124 EPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTY 183
Query: 346 QVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
Q LVMLEM + G+VYTC+VEH SL +P+ VEWRA+S SAQ+K+LS
Sbjct: 184 QTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLS 229
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 134 bits (338), Expect = 1e-31
Identities = 64/119 (53%), Positives = 81/119 (68%)
Frame = +1
Query: 127 LGAPVAEGRDSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGV 306
LGAP R+ P P VT+ P + L HN L+C+VT FYP + V+WFRNGQEE +GV
Sbjct: 111 LGAPFTVERNVP--PEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGV 168
Query: 307 VSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLS 483
+ST L+RNGDWT+Q VMLEM + GD+Y+C VEH L P+ V W AQSE + K+LS
Sbjct: 169 MSTGLVRNGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILS 227
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 67.8 bits (164), Expect = 2e-11
Identities = 30/103 (29%), Positives = 48/103 (46%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 348
P T+ P L N L+C V + +P + + W RN + GV T N D+++
Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173
Query: 349 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKM 477
L L D+Y C+VEH L+ P+L W + + S++
Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSEL 216
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 65.5 bits (158), Expect = 8e-11
Identities = 33/95 (34%), Positives = 42/95 (44%)
Frame = +1
Query: 169 PTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 348
P VT+ P L N L+C V D +P + V W RN Q T GV T + ++
Sbjct: 113 PRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFR 172
Query: 349 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQ 453
L DVY C+VEH L P+L W Q
Sbjct: 173 KFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHWEPQ 207
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus]
Length = 261
Score = 64.7 bits (156), Expect = 1e-10
Identities = 34/82 (41%), Positives = 42/82 (51%), Gaps = 8/82 (9%)
Frame = +1
Query: 223 LVCAVTDFYPSQVKVQWFRNGQ--------EETAGVVSTPLIRNGDWTYQVLVMLEMNLQ 378
L C V FYP+ V + W +NGQ E+TA NGDWTYQ + L +
Sbjct: 133 LACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQP-------NGDWTYQTVSYLALTPS 185
Query: 379 RGDVYTCRVEHSSLQNPILVEW 444
GDVYTC V+HS PI +W
Sbjct: 186 YGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
Length = 261
Score = 64.7 bits (156), Expect = 1e-10
Identities = 34/82 (41%), Positives = 42/82 (51%), Gaps = 8/82 (9%)
Frame = +1
Query: 223 LVCAVTDFYPSQVKVQWFRNGQ--------EETAGVVSTPLIRNGDWTYQVLVMLEMNLQ 378
L C V FYP+ V + W +NGQ E+TA NGDWTYQ + L +
Sbjct: 133 LACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQP-------NGDWTYQTVSYLALTPS 185
Query: 379 RGDVYTCRVEHSSLQNPILVEW 444
GDVYTC V+HS PI +W
Sbjct: 186 YGDVYTCVVQHSGTSEPIRGDW 207
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 60.8 bits (146), Expect = 2e-09
Identities = 31/103 (30%), Positives = 46/103 (44%)
Frame = +1
Query: 154 DSPLQPTVTISPSKAEALNHHNPLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNG 333
D+ + P VT+ L N L+C + F P V V WFRNG+ T GV T +
Sbjct: 107 DANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPRD 166
Query: 334 DWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSES 462
D ++ L D Y C V+H L+ P+ W + ++
Sbjct: 167 DHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKT 209
>ref|NP_034510.2| histocompatibility 2, D region locus 1 [Mus musculus]
Length = 365
Score = 56.6 bits (135), Expect = 4e-08
Identities = 30/101 (29%), Positives = 45/101 (44%), Gaps = 5/101 (4%)
Frame = +1
Query: 187 PSKAEALNHHNP-----LVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQV 351
P KA +H P L C FYP+ + + W NG+E T + GD T+Q
Sbjct: 208 PPKAHVTHHRRPEGDVTLRCWALGFYPADITLTWQLNGEELTQEMELVETRPAGDGTFQK 267
Query: 352 LVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSK 474
+ + L + YTC VEH L P+ + W + + +K
Sbjct: 268 WASVVVPLGKEQKYTCHVEHEGLPEPLTLRWGKEEPPSSTK 308
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: 46,864,216
Number of Sequences: 45328
Number of extensions: 1314289
Number of successful extensions: 5869
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 4762
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): 5795
length of database: 21,768,885
effective HSP length: 103
effective length of database: 17,100,101
effective search space used: 3471320503
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)