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= 004552
(745 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HR0|A Chain A, Crystal Structure Of Homo Sapiens Conserved Oligomeric
Golgi Subunit 4
pdb|3HR0|B Chain B, Crystal Structure Of Homo Sapiens Conserved Oligomeric
Golgi Subunit 4
Length = 263
Score = 216 bits (549), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 103/239 (43%), Positives = 160/239 (66%), Gaps = 5/239 (2%)
Query: 512 ALNNMDVSSEYVLKLKHEIEEQCAEVFPTPADRE----KVKSCLSELGDLSKMFKQILNM 567
LNN++V SE + LK +E C ++F E K SCLS+L +S F+ +L
Sbjct: 25 TLNNVEVCSENISTLKKTLESDCTKLFSQGIGGEQAQAKFDSCLSDLAAVSNKFRDLLQE 84
Query: 568 GMEQLVAT-VTPRIRPVLDSVATISYELSEAEYADNEVNDPWVQRLLHAVETNAAWLQPL 626
G+ +L +T + P+++P ++S ++S+ + E E+ D E NDPWVQ+ + +E A +
Sbjct: 85 GLTELNSTAIKPQVQPWINSFFSVSHNIEEEEFNDYEANDPWVQQFILNLEQQMAEFKAS 144
Query: 627 MTANNYDSFVHLIIDFIVKRLEVIMMQKKFSQLGGLQLDRDTRASVSHFSSMTQRTVRDK 686
++ YDS L+ + LE ++++ F++LGGLQ D++ R+ +++ +++T T+RDK
Sbjct: 145 LSPVIYDSLTGLMTSLVAVELEKVVLKSTFNRLGGLQFDKELRSLIAYLTTVTTWTIRDK 204
Query: 687 FARLTQMATILNLEKVSEILDFWGENSGPMTWRLTPAEVRRVLGLRVDFKPEAIALLKL 745
FARL+QMATILNLE+V+EILD+WG NSGP+TWRLTPAEVR+VL LR+DF+ E I L+L
Sbjct: 205 FARLSQMATILNLERVTEILDYWGPNSGPLTWRLTPAEVRQVLALRIDFRSEDIKRLRL 263
>pdb|1GPD|G Chain G, Studies Of Asymmetry In The Three-Dimensional Structure Of
Lobster D- Glyceraldehyde-3-Phosphate Dehydrogenase
pdb|1GPD|R Chain R, Studies Of Asymmetry In The Three-Dimensional Structure Of
Lobster D- Glyceraldehyde-3-Phosphate Dehydrogenase
Length = 334
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 249 VELMEQSQDQNQVNFVGCLTNLFKDIVLAIEENDEILRGLCGEDGIVYAICELQEECDS 307
V L + S+D V+ C TN + + EN EI+ GL V+A+ Q+ D
Sbjct: 132 VNLEKYSKDMTVVSNASCTTNCLAPVAKVLHENFEIVEGLM---TTVHAVTATQKTVDG 187
>pdb|4GPD|1 Chain 1, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|2 Chain 2, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|3 Chain 3, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
pdb|4GPD|4 Chain 4, The Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate
Dehydrogenase At 3.0 Angstroms Resolution
Length = 333
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 249 VELMEQSQDQNQVNFVGCLTNLFKDIVLAIEENDEILRGLCGEDGIVYAICELQEECDS 307
V L + S+D V+ C TN + + EN EI+ GL V+A+ Q+ D
Sbjct: 131 VNLEKYSKDMTVVSNASCTTNCLAPVAKVLHENFEIVEGLM---TTVHAVTATQKTVDG 186
>pdb|1TIL|B Chain B, Crystal Structures Of The Adp And Atp Bound Forms Of The
Bacillus Anti-Sigma Factor Spoiiab In Complex With The
Anti-Anti-Sigma Spoiiaa:poised For Phosphorylation
Complex With Atp, Crystal Form Ii
pdb|1TIL|D Chain D, Crystal Structures Of The Adp And Atp Bound Forms Of The
Bacillus Anti-Sigma Factor Spoiiab In Complex With The
Anti-Anti-Sigma Spoiiaa:poised For Phosphorylation
Complex With Atp, Crystal Form Ii
pdb|1TIL|F Chain F, Crystal Structures Of The Adp And Atp Bound Forms Of The
Bacillus Anti-Sigma Factor Spoiiab In Complex With The
Anti-Anti-Sigma Spoiiaa:poised For Phosphorylation
Complex With Atp, Crystal Form Ii
Length = 119
Score = 29.6 bits (65), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 529 EIEEQCAEVFPTPADREKVKSC-------LSELGDLSKMFKQILNMGMEQLVATVTPRIR 581
E+ EQ +V A R V + S LG + +KQI N+G + +V V+P ++
Sbjct: 32 ELREQVTDVLENRAIRHIVLNLGQLTFMDASGLGVILGRYKQIKNVGGQMVVCAVSPAVK 91
Query: 582 PVLD 585
+ D
Sbjct: 92 RLFD 95
>pdb|1SZJ|G Chain G, Structure Of Holo-Glyceraldehyde-3-Phosphate-Dehydrogenase
From Palinurus Versicolor Refined 2.0 Angstrom
Resolution
pdb|1SZJ|R Chain R, Structure Of Holo-Glyceraldehyde-3-Phosphate-Dehydrogenase
From Palinurus Versicolor Refined 2.0 Angstrom
Resolution
pdb|1CRW|G Chain G, Crystal Structure Of Apo-Glyceraldehyde-3-Phosphate
Dehydrogenase From Palinurus Versicolor At 2.0a
Resolution
pdb|1CRW|R Chain R, Crystal Structure Of Apo-Glyceraldehyde-3-Phosphate
Dehydrogenase From Palinurus Versicolor At 2.0a
Resolution
Length = 333
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 249 VELMEQSQDQNQVNFVGCLTNLFKDIVLAIEENDEILRGLCGEDGIVYAICELQEECDS 307
V L + S+D V+ C TN + + EN EI+ GL V+A+ Q+ D
Sbjct: 131 VNLEKYSKDMKVVSNASCTTNCLAPVAKVLHENFEIVEGLM---TTVHAVTATQKTVDG 186
>pdb|1IHX|A Chain A, Crystal Structure Of Two D-Glyceraldehyde-3-Phosphate
Dehydrogenase Complexes: A Case Of Asymmetry
pdb|1IHX|B Chain B, Crystal Structure Of Two D-Glyceraldehyde-3-Phosphate
Dehydrogenase Complexes: A Case Of Asymmetry
pdb|1IHX|C Chain C, Crystal Structure Of Two D-Glyceraldehyde-3-Phosphate
Dehydrogenase Complexes: A Case Of Asymmetry
pdb|1IHX|D Chain D, Crystal Structure Of Two D-Glyceraldehyde-3-Phosphate
Dehydrogenase Complexes: A Case Of Asymmetry
pdb|1IHY|A Chain A, Gapdh Complexed With Adp-Ribose
pdb|1IHY|B Chain B, Gapdh Complexed With Adp-Ribose
pdb|1IHY|C Chain C, Gapdh Complexed With Adp-Ribose
pdb|1IHY|D Chain D, Gapdh Complexed With Adp-Ribose
Length = 333
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 249 VELMEQSQDQNQVNFVGCLTNLFKDIVLAIEENDEILRGLCGEDGIVYAICELQEECDS 307
V L + S+D V+ C TN + + EN EI+ GL V+A+ Q+ D
Sbjct: 131 VNLEKYSKDMKVVSNASCTTNCLAPVAKVLHENFEIVEGLM---TTVHAVTATQKTVDG 186
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
0.318 0.134 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,035,980
Number of Sequences: 62578
Number of extensions: 734891
Number of successful extensions: 1977
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1968
Number of HSP's gapped (non-prelim): 16
length of query: 745
length of database: 14,973,337
effective HSP length: 106
effective length of query: 639
effective length of database: 8,340,069
effective search space: 5329304091
effective search space used: 5329304091
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)