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= 015456
(406 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 312 KTVPVAPFTINYSGALFRQYPGPWQVMLKQ 341
K +P ++ GAL R +P W+ LKQ
Sbjct: 321 KECKGSPLVVSLIGALLRDFPNRWEYYLKQ 350
>pdb|1CF8|H Chain H, Convergence Of Catalytic Antibody And Terpene Cyclase
Mechanisms: Polyene Cyclization Directed By
Carbocation-pi Interactions
Length = 218
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 4/95 (4%)
Query: 313 TVPVAPFTINYSGALFRQYPG---PWQVMLK-QADSSYACVAESETRFTLSETKEELLRV 368
TV T Y+ RQ+PG W ++ D+ Y +S T +K +
Sbjct: 23 TVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISITRDTSKNQFFLQ 82
Query: 369 LGLQEEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
L E ++ + GY N+ +W + + +S+A
Sbjct: 83 LNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAA 117
>pdb|3OHN|A Chain A, Crystal Structure Of The Fimd Translocation Domain
pdb|3OHN|B Chain B, Crystal Structure Of The Fimd Translocation Domain
Length = 558
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 17/63 (26%)
Query: 310 YSKTVPVAPFTIN--YSGALFRQYPGPWQVMLKQADSS-------YACV----AESETRF 356
Y+ TVP PFTIN Y+ G QV +K+AD S Y+ V E TR+
Sbjct: 153 YNSTVPPGPFTINDIYAAG----NSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRY 208
Query: 357 TLS 359
+++
Sbjct: 209 SIT 211
>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 = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 312 KTVPVAPFTINYSGALFRQYPGPWQVMLKQ 341
K +P ++ GAL R +P W+ LKQ
Sbjct: 315 KECKGSPLVVSLIGALLRDFPNRWEYYLKQ 344
>pdb|1HQ4|B Chain B, Structure Of Native Catalytic Antibody Ha5-19a4
pdb|1HQ4|D Chain D, Structure Of Native Catalytic Antibody Ha5-19a4
Length = 218
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 39/95 (41%), Gaps = 4/95 (4%)
Query: 313 TVPVAPFTINYSGALFRQYPGP---WQVMLK-QADSSYACVAESETRFTLSETKEELLRV 368
TV T Y+ RQ+PG W ++ D+ Y +S T +K +
Sbjct: 23 TVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISITRDTSKNQFFLQ 82
Query: 369 LGLQEEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
L E ++ + GY N+ +W + + +S+A
Sbjct: 83 LNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAA 117
>pdb|3RFZ|B Chain B, Crystal Structure Of The Fimd Usher Bound To Its Cognate
Fimc:fimh Substrate
pdb|3RFZ|E Chain E, Crystal Structure Of The Fimd Usher Bound To Its Cognate
Fimc:fimh Substrate
Length = 843
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 31/63 (49%), Gaps = 17/63 (26%)
Query: 310 YSKTVPVAPFTIN--YSGALFRQYPGPWQVMLKQADSS-------YACV----AESETRF 356
Y+ TVP PFTIN Y+ G QV +K+AD S Y+ V E TR+
Sbjct: 276 YNSTVPPGPFTINDIYAAG----NSGDLQVTIKEADGSTQIFTVPYSSVPLLQREGHTRY 331
Query: 357 TLS 359
+++
Sbjct: 332 SIT 334
>pdb|2ODR|B Chain B, Methanococcus Maripaludis Phosphoseryl-Trna Synthetase
Length = 648
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 358 LSETKEELLRVLGLQ-EEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
LS+ K + LG++ E SLQ + GYK T +D+ LE+S+A
Sbjct: 125 LSDEKISQIEKLGIKVSEHKESLQKILHGYKKGTLDGDDLVLEISNA 171
>pdb|2ODR|A Chain A, Methanococcus Maripaludis Phosphoseryl-Trna Synthetase
Length = 665
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 358 LSETKEELLRVLGLQ-EEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
LS+ K + LG++ E SLQ + GYK T +D+ LE+S+A
Sbjct: 125 LSDEKISQIEKLGIKVSEHKESLQKILHGYKKGTLDGDDLVLEISNA 171
>pdb|2ODR|C Chain C, Methanococcus Maripaludis Phosphoseryl-Trna Synthetase
Length = 701
Score = 28.5 bits (62), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 358 LSETKEELLRVLGLQ-EEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
LS+ K + LG++ E SLQ + GYK T +D+ LE+S+A
Sbjct: 125 LSDEKISQIEKLGIKVSEHKESLQKILHGYKKGTLDGDDLVLEISNA 171
>pdb|2ODR|D Chain D, Methanococcus Maripaludis Phosphoseryl-Trna Synthetase
Length = 685
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 358 LSETKEELLRVLGLQ-EEEGSSLQFLRRGYKNATWWEEDVDLELSSA 403
LS+ K + LG++ E SLQ + GYK T +D+ LE+S+A
Sbjct: 125 LSDEKISQIEKLGIKVSEHKESLQKILHGYKKGTLDGDDLVLEISNA 171
>pdb|2JC3|A Chain A, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|B Chain B, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|C Chain C, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|D Chain D, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|E Chain E, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|F Chain F, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|G Chain G, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
pdb|2JC3|H Chain H, Structure Of O-acetylserine Sulfhydrylase B From
Salmonella Typhimurium
Length = 303
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%), Gaps = 7/49 (14%)
Query: 362 KEELLRVLGLQEEEGSSLQFLRR-------GYKNATWWEEDVDLELSSA 403
+E+ + ++GLQ EEGSS+ +RR G NA+ +E +D+ + A
Sbjct: 189 QEKPVTIVGLQPEEGSSIPGIRRWPAEYMPGIFNASLVDEVLDIHQNDA 237
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
0.319 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,845,982
Number of Sequences: 62578
Number of extensions: 422614
Number of successful extensions: 840
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 833
Number of HSP's gapped (non-prelim): 18
length of query: 406
length of database: 14,973,337
effective HSP length: 101
effective length of query: 305
effective length of database: 8,652,959
effective search space: 2639152495
effective search space used: 2639152495
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: 53 (25.0 bits)