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= 038430
(677 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 45/144 (31%), Positives = 63/144 (43%), Gaps = 30/144 (20%)
Query: 317 SFPMSIHGLNRLRTLLID-----DESP-PNSSLDKIPENVGKLMHLKYLNLSELHIERLP 370
+ P SI LNRLR L I E P P +S D E+ G L++L+ L L I LP
Sbjct: 141 ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQG-LVNLQSLRLEWTGIRSLP 199
Query: 371 KTLCELYNL-----------------------QKLDIRGCRNLRELPTGIGKLKNMRSLL 407
++ L NL ++LD+RGC LR P G ++ L+
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI 259
Query: 408 NGLTCSLKYMPIGISKLTSLRTLD 431
+L +P+ I +LT L LD
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLD 283
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 50/185 (27%), Positives = 79/185 (42%), Gaps = 22/185 (11%)
Query: 318 FPMSIHGLNRLRTLLIDDESPPNSSLDKIPENVGKLMHLKYLNLSELHIERLPKTLCELY 377
FP L+ L+ ID + L ++P+ + L+ L L+ + LP ++ L
Sbjct: 96 FPDQAFRLSHLQHXTIDA-----AGLXELPDTXQQFAGLETLTLARNPLRALPASIASLN 150
Query: 378 NLQKLDIRGCRNLRELPTGIGK---------LKNMRSLLNGLTCSLKYMPIGISKLTSLR 428
L++L IR C L ELP + L N++SL T ++ +P I+ L +L+
Sbjct: 151 RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLK 209
Query: 429 TLDKFAVGGGVDGGSTCRLECLKNFQLIRKCGIEGLSNVSHL----DEAERLELKNMENL 484
+L G + L L+ L R C L N + +RL LK+ NL
Sbjct: 210 SLKIRNSPLSALGPAIHHLPKLEELDL-RGC--TALRNYPPIFGGRAPLKRLILKDCSNL 266
Query: 485 LHLYL 489
L L L
Sbjct: 267 LTLPL 271
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 63/148 (42%), Gaps = 14/148 (9%)
Query: 343 LDKIPENVGKLMHLKYLNLSELHIERLPKTLCELYNLQKLDIRGCRN-LRELPTGIGKLK 401
L + P+ +L HL++ + + LP T + L+ L + RN LR LP I L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL--ARNPLRALPASIASLN 150
Query: 402 NMRSLLNGLTCSLKYMPIGISK---------LTSLRTLDKFAVGGGVDGGSTCRLECLKN 452
+R L L +P ++ L +L++L G S L+ LK+
Sbjct: 151 RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKS 210
Query: 453 FQLIRKCGIEGL-SNVSHLDEAERLELK 479
+ IR + L + HL + E L+L+
Sbjct: 211 LK-IRNSPLSALGPAIHHLPKLEELDLR 237
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 54/116 (46%), Gaps = 7/116 (6%)
Query: 287 WLEINSTKESVINAFGGKVRHLGLKFKGGASFPMSIHGLNRLRTLLIDDESPPNSSLDKI 346
W I S S+ N ++ L ++ ++ +IH L +L L + ++L
Sbjct: 192 WTGIRSLPASIANL--QNLKSLKIRNSPLSALGPAIHHLPKLEELDLRG----CTALRNY 245
Query: 347 PENVGKLMHLKYLNLSEL-HIERLPKTLCELYNLQKLDIRGCRNLRELPTGIGKLK 401
P G LK L L + ++ LP + L L+KLD+RGC NL LP+ I +L
Sbjct: 246 PPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLP 301
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 53/93 (56%), Gaps = 12/93 (12%)
Query: 343 LDKIPENV-GKLMHLKYLNLSELHIERLPKTLCE-LYNLQKLDIRGCRNLRELPTGI--- 397
L +P+ V KL +L YLNL+ ++ LPK + + L NL +LD+ L+ LP G+
Sbjct: 121 LQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDL-SYNQLQSLPEGVFDK 179
Query: 398 -GKLKNMRSLLNGLTCSLKYMPIGI-SKLTSLR 428
+LK++R N LK +P G+ +LTSL+
Sbjct: 180 LTQLKDLRLYQN----QLKSVPDGVFDRLTSLQ 208
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 47/191 (24%), Positives = 80/191 (41%), Gaps = 38/191 (19%)
Query: 47 KNFLILNDVWDGDYNKWAPFFLCLNHGLHGSKILVTTRNELVA-RMMGSTNIIFIEQ-LT 104
++ LIL+DVWD W L + +IL+TTR++ V +MG +++ +E L
Sbjct: 237 RSLLILDDVWD----PWV-----LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLG 287
Query: 105 EE---ECWSLFKRLAFFGCSFEDCERLEPIGQKIARKCKGLPIAAKVIGNLLRS------ 155
E E SLF + E L I ++CKG P+ +IG LLR
Sbjct: 288 REKGLEILSLFVNMKK--------EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWA 339
Query: 156 ----KSTIKDWQRILDSEMWKAEEIGKGLLTPXXXXXXXXXXXXMVKRFFSYCAVFPKDY 211
+ K ++RI S + E + + + +K +++ ++ KD
Sbjct: 340 YYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED------IKDYYTDLSILQKDV 393
Query: 212 NMYKEELISLW 222
+ + L LW
Sbjct: 394 KVPTKVLCVLW 404
>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 = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 78/191 (40%), Gaps = 38/191 (19%)
Query: 47 KNFLILNDVWDGDYNKWAPFFLCLNHGLHGSKILVTTRNELVA-RMMGSTNIIFIEQ-LT 104
++ LIL+DVWD W L +IL+TTR++ V +MG ++ +E L
Sbjct: 237 RSLLILDDVWDS----WV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLG 287
Query: 105 EE---ECWSLFKRLAFFGCSFEDCERLEPIGQKIARKCKGLPIAAKVIGNLLRS------ 155
+E E SLF + L I ++CKG P+ +IG LLR
Sbjct: 288 KEKGLEILSLFVNMKKAD--------LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWE 339
Query: 156 ----KSTIKDWQRILDSEMWKAEEIGKGLLTPXXXXXXXXXXXXMVKRFFSYCAVFPKDY 211
+ K ++RI S + E + + + +K +++ ++ KD
Sbjct: 340 YYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED------IKDYYTDLSILQKDV 393
Query: 212 NMYKEELISLW 222
+ + L LW
Sbjct: 394 KVPTKVLCILW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.6 bits (83), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 79/191 (41%), Gaps = 38/191 (19%)
Query: 47 KNFLILNDVWDGDYNKWAPFFLCLNHGLHGSKILVTTRNELVA-RMMGSTNIIFIEQ-LT 104
++ LIL+DVWD W L + +IL+TT ++ V +MG +++ +E L
Sbjct: 244 RSLLILDDVWD----PWV-----LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLG 294
Query: 105 EE---ECWSLFKRLAFFGCSFEDCERLEPIGQKIARKCKGLPIAAKVIGNLLRS------ 155
E E SLF + E L I ++CKG P+ +IG LLR
Sbjct: 295 REKGLEILSLFVNMKK--------EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWA 346
Query: 156 ----KSTIKDWQRILDSEMWKAEEIGKGLLTPXXXXXXXXXXXXMVKRFFSYCAVFPKDY 211
+ K ++RI S + E + + + +K +++ ++ KD
Sbjct: 347 YYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED------IKDYYTDLSILQKDV 400
Query: 212 NMYKEELISLW 222
+ + L LW
Sbjct: 401 KVPTKVLCVLW 411
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 36.2 bits (82), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 59/113 (52%), Gaps = 15/113 (13%)
Query: 322 IHGLNRLRTLLIDDESPPNSSLDKIPENV-GKLMHLKYLNLSELHIERLPKTLCE-LYNL 379
+HGL R R L IP N+ + +L +L L +IE +P L + L NL
Sbjct: 122 LHGLKRFRFT--------TRRLTHIPANLLTDMRNLSHLEL-RANIEEMPSHLFDDLENL 172
Query: 380 QKLDIRGCRNLRELPTGI-GKLKNMRSLLNGLTCSLKYMPIGI-SKLTSLRTL 430
+ ++ G LR++P GI GK+ ++ LN + LK +P GI +LTSL+ +
Sbjct: 173 ESIEF-GSNKLRQMPRGIFGKMPKLKQ-LNLASNQLKSVPDGIFDRLTSLQKI 223
>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 = 35.4 bits (80), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 78/191 (40%), Gaps = 38/191 (19%)
Query: 47 KNFLILNDVWDGDYNKWAPFFLCLNHGLHGSKILVTTRNELVA-RMMGSTNIIFIEQ-LT 104
++ LIL+DVWD W L +IL+TTR++ V +MG ++ +E L
Sbjct: 243 RSLLILDDVWDS----WV-----LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLG 293
Query: 105 EE---ECWSLFKRLAFFGCSFEDCERLEPIGQKIARKCKGLPIAAKVIGNLLRS------ 155
+E E SLF + L I ++CKG P+ +IG LLR
Sbjct: 294 KEKGLEILSLFVNMKK--------ADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWE 345
Query: 156 ----KSTIKDWQRILDSEMWKAEEIGKGLLTPXXXXXXXXXXXXMVKRFFSYCAVFPKDY 211
+ K ++RI S + E + + + +K +++ ++ KD
Sbjct: 346 YYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED------IKDYYTDLSILQKDV 399
Query: 212 NMYKEELISLW 222
+ + L LW
Sbjct: 400 KVPTKVLCILW 410
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 35.0 bits (79), Expect = 0.13, Method: Composition-based stats.
Identities = 32/95 (33%), Positives = 50/95 (52%), Gaps = 12/95 (12%)
Query: 341 SSLDKIPENV-GKLMHLKYLNLSELHIERLPKTLCE-LYNLQKLDIRGCRNLRELPTGI- 397
+ L +P V KL L YLNLS ++ LP + + L L++L + L+ LP G+
Sbjct: 62 NKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-NTNQLQSLPDGVF 120
Query: 398 ---GKLKNMRSLLNGLTCSLKYMPIGI-SKLTSLR 428
+LK++R N LK +P G+ +LTSL+
Sbjct: 121 DKLTQLKDLRLYQN----QLKSVPDGVFDRLTSLQ 151
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 369 LPKTLCELYNLQKLDIRGCRNLRELPTGIGKLKNMRSLLNGLTCSLKYMPIGI-SKLTSL 427
LP EL NL LD+ C+ + PT L +++ +LN + LK +P GI +LTSL
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGIFDRLTSL 520
Query: 428 RTL 430
+ +
Sbjct: 521 QKI 523
>pdb|1VLU|A Chain A, Crystal Structure Of Gamma-Glutamyl Phosphate Reductase
(Yor323c) From Saccharomyces Cerevisiae At 2.40 A
Resolution
pdb|1VLU|B Chain B, Crystal Structure Of Gamma-Glutamyl Phosphate Reductase
(Yor323c) From Saccharomyces Cerevisiae At 2.40 A
Resolution
Length = 468
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 384 IRGCRNLRELPTGIGKLKNMRSLLNGLTCSLKYMPIGI 421
++G +++ EL +GK+K R L +GLT P+G+
Sbjct: 92 LQGIKDVAELEDPVGKVKXARELDDGLTLYQVTAPVGV 129
>pdb|3CYV|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Shigella Flexineri: New Insights Into Its Catalytic
Mechanism
Length = 354
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 544 DEQLLEALQPPLNVEKLWILFNGGNILPKWLTSLTNLSDLKLVFCENCE 592
D L L+ P++V +W++ G LP++ + D + C+N E
Sbjct: 7 DRYLRALLRQPVDVTPVWMMRQAGRYLPEYKATRAQAGDF-MSLCKNAE 54
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
0.322 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,702,321
Number of Sequences: 62578
Number of extensions: 606471
Number of successful extensions: 1259
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1242
Number of HSP's gapped (non-prelim): 29
length of query: 677
length of database: 14,973,337
effective HSP length: 105
effective length of query: 572
effective length of database: 8,402,647
effective search space: 4806314084
effective search space used: 4806314084
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: 55 (25.8 bits)