BLASTP 2.2.26 [Sep-21-2011]
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000869
(1247 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 46.2 bits (108), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 57/212 (26%), Positives = 92/212 (43%), Gaps = 42/212 (19%)
Query: 1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-------- 52
M G GK+ L E R D FS + I K +K GL++
Sbjct: 155 MAGCGKSVLAAEAVR----DHSLLEGCFSGGVHWVSIGK-----QDKSGLLMKLQNLCMR 205
Query: 53 --QEETESSRASRLHEQ---------LKREEKILIILDNIWKRVDLETVGIPFGDDHRGC 101
QEE+ S R E+ L++ + L+ILD++W L+ C
Sbjct: 206 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQC 258
Query: 102 KLLLTARDRTVLFS-MGSEKNFLVDI-LKEEEAWRLFKLMAGDDVENRELKSTATEVAKA 159
++LLT RD++V S MG + V+ L E+ + L +++ +L + A + K
Sbjct: 259 QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKE 316
Query: 160 CKGLPIALTTIARALRNKSMP-QWKTTLQQLR 190
CKG P+ ++ I LR+ P +W L+QL+
Sbjct: 317 CKGSPLVVSLIGALLRD--FPNRWAYYLRQLQ 346
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 66/127 (51%), Gaps = 16/127 (12%)
Query: 68 LKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDI- 126
L++ + L+ILD++W L+ C++LLT RD++V S+ K ++V +
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPK-YVVPVE 283
Query: 127 --LKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMP-QWK 183
L +E+ + L +++ +L A + K CKG P+ ++ I LR+ P +W+
Sbjct: 284 SSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWE 339
Query: 184 TTLQQLR 190
L+QL+
Sbjct: 340 YYLKQLQ 346
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 66/127 (51%), Gaps = 16/127 (12%)
Query: 68 LKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDI- 126
L++ + L+ILD++W L+ C++LLT RD++V S+ K ++V +
Sbjct: 238 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPK-YVVPVE 289
Query: 127 --LKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMP-QWK 183
L +E+ + L +++ +L A + K CKG P+ ++ I LR+ P +W+
Sbjct: 290 SSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWE 345
Query: 184 TTLQQLR 190
L+QL+
Sbjct: 346 YYLKQLQ 352
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 56/212 (26%), Positives = 91/212 (42%), Gaps = 42/212 (19%)
Query: 1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-------- 52
M G GK+ L E R D FS + I K +K GL++
Sbjct: 162 MAGCGKSVLAAEAVR----DHSLLEGCFSGGVHWVSIGK-----QDKSGLLMKLQNLCMR 212
Query: 53 --QEETESSRASRLHEQ---------LKREEKILIILDNIWKRVDLETVGIPFGDDHRGC 101
QEE+ S R E+ L++ + L+ILD++W L+ C
Sbjct: 213 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQC 265
Query: 102 KLLLTARDRTVLFS-MGSEKNFLVDI-LKEEEAWRLFKLMAGDDVENRELKSTATEVAKA 159
++LLT D++V S MG + V+ L E+ + L +++ +L + A + K
Sbjct: 266 QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKE 323
Query: 160 CKGLPIALTTIARALRNKSMP-QWKTTLQQLR 190
CKG P+ ++ I LR+ P +W L+QL+
Sbjct: 324 CKGSPLVVSLIGALLRD--FPNRWAYYLRQLQ 353
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 37.4 bits (85), Expect = 0.047, Method: Composition-based stats.
Identities = 35/121 (28%), Positives = 60/121 (49%), Gaps = 7/121 (5%)
Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
G++ +K +D Q + P + L NLQ L LD + +++ + L NL+ LS + +
Sbjct: 105 GLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQV 163
Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI 488
L L L+KL L + K+ I+P ++SL L E+++ N + D P + T
Sbjct: 164 SDL-TPLANLSKLTTLKADDN-KISDISP--LASLPNLIEVHLKNNQI--SDVSPLANTS 217
Query: 489 N 489
N
Sbjct: 218 N 218
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 37.0 bits (84), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 60/114 (52%), Gaps = 9/114 (7%)
Query: 367 FTGMKKLKVVDFC-----RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL 421
F G+++L+ +DF +M FS+ S+ +L+ L + + I L +LE+L
Sbjct: 416 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD-ISHTHTRVAFNGIFNGLSSLEVL 474
Query: 422 SFSGSGIVK--LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
+G+ + LP+ +L L LDLS C +L+ ++P +SL L+ L MS+
Sbjct: 475 KMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH 527
Score = 30.8 bits (68), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 144 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 182
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 37.0 bits (84), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 57/117 (48%), Gaps = 6/117 (5%)
Query: 361 NVPEKFFTGMKKLKVVDFC---RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKN 417
++P F + L+ +D R+++ S + + L+NL+ L L C L D+ + L
Sbjct: 121 SIPSYAFNRVPSLRRLDLGELKRLEYIS-EAAFEGLVNLRYLNLGMCNLKDIPNLTALVR 179
Query: 418 LEILSFSGSGI-VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
LE L SG+ + + P LT LR L L + ++ I N L LEEL +S+
Sbjct: 180 LEELELSGNRLDLIRPGSFQGLTSLRKLWLMHA-QVATIERNAFDDLKSLEELNLSH 235
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 36.6 bits (83), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 57/117 (48%), Gaps = 6/117 (5%)
Query: 361 NVPEKFFTGMKKLKVVDFC---RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKN 417
++P F + L+ +D R+++ S + + L+NL+ L L C L D+ + L
Sbjct: 121 SIPSYAFNRVPSLRRLDLGELKRLEYIS-EAAFEGLVNLRYLNLGMCNLKDIPNLTALVR 179
Query: 418 LEILSFSGSGI-VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
LE L SG+ + + P LT LR L L + ++ I N L LEEL +S+
Sbjct: 180 LEELELSGNRLDLIRPGSFQGLTSLRKLWLMHA-QVATIERNAFDDLKSLEELNLSH 235
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 36.6 bits (83), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 60/114 (52%), Gaps = 9/114 (7%)
Query: 367 FTGMKKLKVVDFC-----RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL 421
F G+++L+ +DF +M FS+ S+ +L+ L + + I L +LE+L
Sbjct: 392 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD-ISHTHTRVAFNGIFNGLSSLEVL 450
Query: 422 SFSGSGIVK--LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
+G+ + LP+ +L L LDLS C +L+ ++P +SL L+ L MS+
Sbjct: 451 KMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH 503
Score = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 60/114 (52%), Gaps = 9/114 (7%)
Query: 367 FTGMKKLKVVDFC-----RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL 421
F G+++L+ +DF +M FS+ S+ +L+ L + + I L +LE+L
Sbjct: 97 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD-ISHTHTRVAFNGIFNGLSSLEVL 155
Query: 422 SFSGSGIVK--LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
+G+ + LP+ +L L LDLS C +L+ ++P +SL L+ L MS+
Sbjct: 156 KMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH 208
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 35.4 bits (80), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 60/114 (52%), Gaps = 9/114 (7%)
Query: 367 FTGMKKLKVVDFC-----RMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL 421
F G+++L+ +DF +M FS+ S+ +L+ L + + I L +LE+L
Sbjct: 392 FLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD-ISHTHTRVAFNGIFNGLSSLEVL 450
Query: 422 SFSGSGIVK--LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
+G+ + LP+ +L L LDLS C +L+ ++P +SL L+ L M++
Sbjct: 451 KMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMAS 503
Score = 30.4 bits (67), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 194 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 251
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 252 SNLAP--LSGLTKLTELKL 268
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 194 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 251
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 252 SNLAP--LSGLTKLTELKL 268
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 193 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 250
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 251 SNLAP--LSGLTKLTELKL 267
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 198 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 255
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 256 SNLAP--LSGLTKLTELKL 272
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 193 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 250
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 251 SNLAP--LSGLTKLTELKL 267
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 35.0 bits (79), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 194 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 251
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 252 SNLAP--LSGLTKLTELKL 268
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 35.0 bits (79), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL 452
L NL++L + D+ +G L NL+ LS +G+ + + L LT L LDL+N ++
Sbjct: 197 LTNLESLIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANN-QI 254
Query: 453 KVIAPNVISSLIRLEELYM 471
+AP +S L +L EL +
Sbjct: 255 SNLAP--LSGLTKLTELKL 271
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 34.3 bits (77), Expect = 0.41, Method: Composition-based stats.
Identities = 51/184 (27%), Positives = 83/184 (45%), Gaps = 32/184 (17%)
Query: 290 VRAVAISIACRDQ-NALVVRN-EEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLE 347
+RA+ SIA ++ L +R E+ E P+ A S S H+ L L+ +LE
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLA-------STDASGEHQGLVNLQSLRLE 191
Query: 348 FLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQC--- 404
+ + S +S+ ++ LK + +L P+I HL L+ L L C
Sbjct: 192 WTGIRSLPASI---------ANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTAL 242
Query: 405 -----ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNV 459
I G A + +L IL S ++ LP ++ +LT+L LDL C L + P++
Sbjct: 243 RNYPPIFGGRAPLKRL----ILK-DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRL-PSL 296
Query: 460 ISSL 463
I+ L
Sbjct: 297 IAQL 300
Score = 33.5 bits (75), Expect = 0.67, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 2/83 (2%)
Query: 393 LLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFK 451
L+NLQ+L L+ + + A I L+NL+ L S + L + L KL LDL C
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 452 LKVIAPNVISSLIRLEELYMSNC 474
L+ P + L+ L + +C
Sbjct: 242 LRNYPP-IFGGRAPLKRLILKDC 263
>pdb|1URJ|A Chain A, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
pdb|1URJ|B Chain B, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
Length = 1136
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 816 TRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGT 861
TR + CP+ +V +AS L H E + CE+L+ IIS+GG
Sbjct: 1021 TRKFVLACPRAGFVCAASSLGGGAH----ESSLCEQLRGIISEGGA 1062
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 34.3 bits (77), Expect = 0.49, Method: Composition-based stats.
Identities = 31/107 (28%), Positives = 54/107 (50%), Gaps = 9/107 (8%)
Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
G++ +K +D Q + P + L NLQ L LD + +++ + L NL+ LS + +
Sbjct: 111 GLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNNQV 169
Query: 429 VKLP--EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
L L +LT LR D K+ I+P ++SL L E+++ +
Sbjct: 170 NDLTPLANLSKLTTLRADD----NKISDISP--LASLPNLIEVHLKD 210
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 31.2 bits (69), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 64/150 (42%), Gaps = 16/150 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ ++L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVG 531
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 64/150 (42%), Gaps = 16/150 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ ++L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVG 531
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 64/150 (42%), Gaps = 16/150 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ ++L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVG 531
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 43/152 (28%), Positives = 64/152 (42%), Gaps = 16/152 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ ++L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVGEA 533
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP 206
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 43/152 (28%), Positives = 64/152 (42%), Gaps = 16/152 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ ++L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVGEA 533
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP 206
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 412 IGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELY 470
IG + L IL+ + I +P+E+G L L LDLS+ KL P +S+L L E+
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 707
Query: 471 MSN 473
+SN
Sbjct: 708 LSN 710
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 158
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 412 IGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELY 470
IG + L IL+ + I +P+E+G L L LDLS+ KL P +S+L L E+
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 710
Query: 471 MSN 473
+SN
Sbjct: 711 LSN 713
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 160
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 159
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 63/150 (42%), Gaps = 16/150 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 114
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ + L LP L
Sbjct: 115 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENL 174
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVG 531
TL + + +P+GFF L F G
Sbjct: 175 DTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 159
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.4 bits (67), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 412 IGKLKNLEILSFSGSGI--VKLPEELGQLTKLRHLDLSN 448
IG LK L+ L+ + + I KLPE LT L HLDLS+
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSS 160
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 30.4 bits (67), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 43/152 (28%), Positives = 63/152 (41%), Gaps = 16/152 (10%)
Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKV 454
L L LD+C L + + G L L L S + + LP LGQ L L LD+S +L
Sbjct: 58 LTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLP-LLGQTLPALTVLDVS-FNRLTS 115
Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETINSRLDELMHLP--------RL 501
+ + L L+ELY+ ++ G P E ++ + L LP L
Sbjct: 116 LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENL 175
Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVGEA 533
TL + + +P+GFF L F G
Sbjct: 176 DTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP 207
>pdb|1V73|A Chain A, Crystal Structure Of Cold-Active Protein-Tyrosine
Phosphatase Of A Psychrophile Shewanella Sp
Length = 342
Score = 30.0 bits (66), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 655 ICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCL 691
IC +RL S +L+ R EHCG L L S K +
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQI 62
>pdb|2ZBM|A Chain A, Crystal Structure Of I115m Mutant Cold-Active Protein
Tyrosine Phosphatase
Length = 336
Score = 30.0 bits (66), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 655 ICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCL 691
IC +RL S +L+ R EHCG L L S K +
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQI 62
>pdb|2Z72|A Chain A, New Structure Of Cold-Active Protein Tyrosine Phosphatase
At 1.1 Angstrom
Length = 342
Score = 30.0 bits (66), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 655 ICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCL 691
IC +RL S +L+ R EHCG L L S K +
Sbjct: 26 ICDNRLKTTSIEKLQVNRPEHCGDLPETKLSSEIKQI 62
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 29.6 bits (65), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 1/71 (1%)
Query: 375 VVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPE 433
+D +Q F++ +I L L L+ L ++ A I L NL +L S + + LP
Sbjct: 228 ALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPA 287
Query: 434 ELGQLTKLRHL 444
ELG +L++
Sbjct: 288 ELGSCFQLKYF 298
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,200,229
Number of Sequences: 62578
Number of extensions: 1392107
Number of successful extensions: 3168
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 3113
Number of HSP's gapped (non-prelim): 109
length of query: 1247
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1137
effective length of database: 8,089,757
effective search space: 9198053709
effective search space used: 9198053709
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)