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= 045318
(1388 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 50.1 bits (118), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 58/215 (26%), Positives = 93/215 (43%), Gaps = 46/215 (21%)
Query: 213 IPIVGMGGLGKTTLAQLVYNDH-MVESHFDLKA-WTCVSDDFDAIKVTKAILRSICMHTD 270
+ I GM G GK+ LA DH ++E F W V + + K L+++C D
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNLCTRLD 207
Query: 271 ADDDLNS-LQVKLKDGLSRKKFL---------LVLDDMWNDNYGDWTSLRLPFVAGASGS 320
D+ + L + +++ R + L L+LDD+W+ W A S
Sbjct: 208 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----WV-----LKAFDSQC 258
Query: 321 KIIVTTRNQSVA-SMMGSVSAYELKKLTDDDCRLVFTQHSLGTKD-------FSNHQH-- 370
+I++TTR++SV S+MG +V + SLG + F N +
Sbjct: 259 QILLTTRDKSVTDSVMGPKY-------------VVPVESSLGKEKGLEILSLFVNMKKAD 305
Query: 371 LKEIGEEILKKCNGLPLAAKTLGGLLRGKSNPFDW 405
L E I+K+C G PL +G LLR N +++
Sbjct: 306 LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEY 340
>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 = 47.4 bits (111), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 58/215 (26%), Positives = 93/215 (43%), Gaps = 46/215 (21%)
Query: 213 IPIVGMGGLGKTTLAQLVYNDH-MVESHFDLKA-WTCVSDDFDAIKVTKAILRSICMHTD 270
+ I GM G GK+ LA DH ++E F W V + + K L+++C D
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK--LQNLCTRLD 213
Query: 271 ADDDLNS-LQVKLKDGLSRKKFL---------LVLDDMWNDNYGDWTSLRLPFVAGASGS 320
D+ + L + +++ R + L L+LDD+W+ W A S
Sbjct: 214 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----WV-----LKAFDSQC 264
Query: 321 KIIVTTRNQSVA-SMMGSVSAYELKKLTDDDCRLVFTQHSLGTKD-------FSNHQH-- 370
+I++TTR++SV S+MG +V + SLG + F N +
Sbjct: 265 QILLTTRDKSVTDSVMGPK-------------YVVPVESSLGKEKGLEILSLFVNMKKAD 311
Query: 371 LKEIGEEILKKCNGLPLAAKTLGGLLRGKSNPFDW 405
L E I+K+C G PL +G LLR N +++
Sbjct: 312 LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEY 346
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 53/206 (25%), Positives = 92/206 (44%), Gaps = 32/206 (15%)
Query: 213 IPIVGMGGLGKTTLAQLVYNDH-MVESHFDLKA-WTCVSDDFDAIKVTKAILRSICMHTD 270
+ I GM G GK+ LA DH ++E F W + + + K L+++CM D
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK--LQNLCMRLD 207
Query: 271 ADD--------DLNSLQVKLKDGLSRK--KFLLVLDDMWNDNYGDWTSLRLPFVAGA--S 318
++ ++ + +L+ + RK + LL+LDD+W+ P+V A +
Sbjct: 208 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-----------PWVLKAFDN 256
Query: 319 GSKIIVTTRNQSVA-SMMGSVSAYELKKLTDDDCRLVFTQHSLGTKDFSNHQHLKEIGEE 377
+I++TTR++SV S+MG ++ + L + K + L
Sbjct: 257 QCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHS 312
Query: 378 ILKKCNGLPLAAKTLGGLLRGKSNPF 403
I+K+C G PL +G LLR N +
Sbjct: 313 IIKECKGSPLVVSLIGALLRDFPNRW 338
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 91/206 (44%), Gaps = 32/206 (15%)
Query: 213 IPIVGMGGLGKTTLAQLVYNDH-MVESHFDLKA-WTCVSDDFDAIKVTKAILRSICMHTD 270
+ I GM G GK+ LA DH ++E F W + + + K L+++CM D
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK--LQNLCMRLD 214
Query: 271 ADD--------DLNSLQVKLKDGLSRK--KFLLVLDDMWNDNYGDWTSLRLPFVAGA--S 318
++ ++ + +L+ + RK + LL+LDD+W+ P+V A +
Sbjct: 215 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-----------PWVLKAFDN 263
Query: 319 GSKIIVTTRNQSVA-SMMGSVSAYELKKLTDDDCRLVFTQHSLGTKDFSNHQHLKEIGEE 377
+I++TT ++SV S+MG ++ + L + K + L
Sbjct: 264 QCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHS 319
Query: 378 ILKKCNGLPLAAKTLGGLLRGKSNPF 403
I+K+C G PL +G LLR N +
Sbjct: 320 IIKECKGSPLVVSLIGALLRDFPNRW 345
>pdb|2XHE|A Chain A, Crystal Structure Of The Unc18-Syntaxin 1 Complex From
Monosiga Brevicollis
Length = 650
Score = 34.3 bits (77), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 35/133 (26%), Positives = 55/133 (41%), Gaps = 20/133 (15%)
Query: 37 DLKKWERILFKIHAVLDDADEKQMTKQSV-----RLWLR----ELKNLAYDVEDILDEFS 87
DL E ++ V DA ++ +Q V +WL+ + + V+ DEF
Sbjct: 248 DLLNIENDIYSYSTV--DAGGREQQRQVVLGEDDDIWLQMRHLHISEVFRKVKSSFDEFC 305
Query: 88 TEALRRQLLEEKQHHETNTSMLRKLIPTCCTNRGPR---------SLAFNSSMRSKIDEI 138
A R Q L + Q E L++++ +R S A N + S ID
Sbjct: 306 VSARRLQGLRDSQQGEGGAGALKQMLKDLPQHREQMQKYSLHLDMSNAINMAFSSTIDSC 365
Query: 139 SSRLQDIVTEKEQ 151
+ Q+IVTE+EQ
Sbjct: 366 TKAEQNIVTEEEQ 378
>pdb|3GTN|A Chain A, Crystal Structure Of Xync From Bacillus Subtilis 168
pdb|3GTN|B Chain B, Crystal Structure Of Xync From Bacillus Subtilis 168
pdb|3KL0|A Chain A, Crystal Structure Of The Glucuronoxylan Xylanohydrolase
Xync From Bacillus Subtilis
pdb|3KL0|B Chain B, Crystal Structure Of The Glucuronoxylan Xylanohydrolase
Xync From Bacillus Subtilis
pdb|3KL0|C Chain C, Crystal Structure Of The Glucuronoxylan Xylanohydrolase
Xync From Bacillus Subtilis
pdb|3KL0|D Chain D, Crystal Structure Of The Glucuronoxylan Xylanohydrolase
Xync From Bacillus Subtilis
pdb|3KL3|A Chain A, Crystal Structure Of Ligand Bound Xync
pdb|3KL3|B Chain B, Crystal Structure Of Ligand Bound Xync
pdb|3KL3|C Chain C, Crystal Structure Of Ligand Bound Xync
pdb|3KL3|D Chain D, Crystal Structure Of Ligand Bound Xync
pdb|3KL5|A Chain A, Structure Analysis Of A Xylanase From Glycosyl Hydrolase
Family Thirty: Carbohydrate Ligand Complexes Reveal This
Family Of Enzymes Unique Mechanism Of Substrate
Specificity And Recognition
pdb|3KL5|B Chain B, Structure Analysis Of A Xylanase From Glycosyl Hydrolase
Family Thirty: Carbohydrate Ligand Complexes Reveal This
Family Of Enzymes Unique Mechanism Of Substrate
Specificity And Recognition
pdb|3KL5|C Chain C, Structure Analysis Of A Xylanase From Glycosyl Hydrolase
Family Thirty: Carbohydrate Ligand Complexes Reveal This
Family Of Enzymes Unique Mechanism Of Substrate
Specificity And Recognition
pdb|3KL5|D Chain D, Structure Analysis Of A Xylanase From Glycosyl Hydrolase
Family Thirty: Carbohydrate Ligand Complexes Reveal This
Family Of Enzymes Unique Mechanism Of Substrate
Specificity And Recognition
Length = 401
Score = 31.2 bits (69), Expect = 4.8, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 753 IRGYGGANFPIWLGDSTFSNLE 774
IRG+GG N P W GD T + E
Sbjct: 16 IRGFGGMNHPAWAGDLTAAQRE 37
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 30.8 bits (68), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 39/144 (27%), Positives = 61/144 (42%), Gaps = 16/144 (11%)
Query: 1013 LVKLPQTXXXXXXXRQLKISECHSMKSLPEALMHNDNAPLESLNVVDCNSLT--YIARVQ 1070
L LP + R+L I C + LPE L D A E +V+ SL +
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTD-ASGEHQGLVNLQSLRLEWTGIRS 197
Query: 1071 LPPSLKLLHIQSCHDLRTL-IDEDQISGMKKDGDIPSGSSSYTCLLERLHIEDCPSLTSL 1129
LP S I + +L++L I +S + + + LE L + C +L +
Sbjct: 198 LPAS-----IANLQNLKSLKIRNSPLSAL-------GPAIHHLPKLEELDLRGCTALRNY 245
Query: 1130 FSLKGLPATLEDIKVKNCSKLLFL 1153
+ G A L+ + +K+CS LL L
Sbjct: 246 PPIFGGRAPLKRLILKDCSNLLTL 269
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 110 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 169
Query: 631 M 631
+
Sbjct: 170 L 170
>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 = 30.0 bits (66), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 111 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 170
Query: 631 M 631
+
Sbjct: 171 L 171
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.0 bits (66), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 110 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 169
Query: 631 M 631
+
Sbjct: 170 L 170
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.0 bits (66), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 111 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 170
Query: 631 M 631
+
Sbjct: 171 L 171
>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 = 30.0 bits (66), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 109 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168
Query: 631 M 631
+
Sbjct: 169 L 169
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.0 bits (66), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 574 EYNICKISN-TIGDLKHLRHLDLSETLIET--LPESVNTLYNLHTLLLESCSRLKKLCAD 630
E N+ + N IG LK L+ L+++ LI++ LPE + L NL L L S C D
Sbjct: 109 ETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168
Query: 631 M 631
+
Sbjct: 169 L 169
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
0.320 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,273,854
Number of Sequences: 62578
Number of extensions: 1609512
Number of successful extensions: 3468
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 3452
Number of HSP's gapped (non-prelim): 52
length of query: 1388
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1277
effective length of database: 8,027,179
effective search space: 10250707583
effective search space used: 10250707583
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.9 bits)