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= psy6109
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W5J|A Chain A, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|B Chain B, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|C Chain C, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|D Chain D, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|E Chain E, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|F Chain F, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|G Chain G, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|H Chain H, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|I Chain I, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|J Chain J, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|K Chain K, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|L Chain L, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|M Chain M, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
pdb|2W5J|V Chain V, Structure Of The C14-Rotor Ring Of The Proton
Translocating Chloroplast Atp Synthase
Length = 78
Score = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+ AGLAVG + + G G V G A+QP ++ ++L L F E L +YGL+V
Sbjct: 10 IAAGLAVGLASIGPGVGQGTAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTIYGLVV 69
Query: 186 AIYL 189
A+ L
Sbjct: 70 ALAL 73
>pdb|3V3C|A Chain A, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|B Chain B, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|C Chain C, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|D Chain D, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|E Chain E, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|F Chain F, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|G Chain G, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|H Chain H, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|I Chain I, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|J Chain J, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|K Chain K, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|L Chain L, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|M Chain M, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
pdb|3V3C|N Chain N, Crystal Structure Of Chloroplast Atp Synthase C-ring From
Pisum Sativum
Length = 79
Score = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 130 LGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIV 185
+ AGLAVG + + G G V G A+QP ++ ++L L F E L +YGL+V
Sbjct: 9 IAAGLAVGLASIGPGVGQGTAAGQAVEGIARQPEAEDKIRGTLLLSLAFMEALTIYGLVV 68
Query: 186 AIYL 189
A+ L
Sbjct: 69 ALAL 72
>pdb|2BL2|A Chain A, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|B Chain B, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|C Chain C, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|D Chain D, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|E Chain E, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|F Chain F, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|G Chain G, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|H Chain H, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|I Chain I, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2BL2|J Chain J, The Membrane Rotor Of The V-Type Atpase From Enterococcus
Hirae
pdb|2CYD|A Chain A, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|B Chain B, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|C Chain C, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|D Chain D, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|E Chain E, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|F Chain F, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|G Chain G, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|H Chain H, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|I Chain I, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2CYD|J Chain J, Crystal Structure Of Lithium Bound Rotor Ring Of The
V-Atpase From Enterococcus Hirae
pdb|2DB4|A Chain A, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|B Chain B, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|C Chain C, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|D Chain D, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|E Chain E, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|F Chain F, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|G Chain G, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|H Chain H, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|I Chain I, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|2DB4|J Chain J, Crystal Structure Of Rotor Ring With Dccd Of The V- Atpase
From Enterococcus Hirae
pdb|3AOU|A Chain A, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|B Chain B, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|C Chain C, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|D Chain D, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|E Chain E, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|F Chain F, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|G Chain G, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|H Chain H, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|I Chain I, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
pdb|3AOU|J Chain J, Structure Of The Na+ Unbound Rotor Ring Modified With N,N
F- Dicyclohexylcarbodiimide Of The Na+-Transporting
V-Atpase
Length = 156
Score = 30.8 bits (68), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 39/83 (46%)
Query: 107 WCISRPLGLNLRKAKHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQQPRLFV 166
+ I+ + +NL G LGA L + F+GL +G A G V AG++ A++P
Sbjct: 70 FVIAFLIFINLGSDMSVVQGLNFLGASLPIAFTGLFSGIAQGKVAAAGIQILAKKPEHAT 129
Query: 167 GMILILIFAEVLGLYGLIVAIYL 189
I+ E + G +++ L
Sbjct: 130 KGIIFAAMVETYAILGFVISFLL 152
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%)
Query: 138 FSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVLGLYGLIVAIYLYTK 192
FSG+ + +G+ G+A T QP F +++ + GLYG ++A ++
Sbjct: 25 FSGIGSAKGVGMTGEAAAALTTSQPEKFGQALILQLLPGTQGLYGFVIAFLIFIN 79
>pdb|3MML|B Chain B, Allophanate Hydrolase Complex From Mycobacterium
Smegmatis, Msmeg0435- Msmeg0436
pdb|3MML|D Chain D, Allophanate Hydrolase Complex From Mycobacterium
Smegmatis, Msmeg0435- Msmeg0436
pdb|3MML|F Chain F, Allophanate Hydrolase Complex From Mycobacterium
Smegmatis, Msmeg0435- Msmeg0436
pdb|3MML|H Chain H, Allophanate Hydrolase Complex From Mycobacterium
Smegmatis, Msmeg0435- Msmeg0436
Length = 228
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 129 HLGAGLAVGFSGLAAGFAIGIVGDAGVRGTAQ-QPRLFVGMILILIFAEVLGLY 181
H G VGF G A GFA + GDA ++ + +PR V + + E G+Y
Sbjct: 134 HTGTPWRVGFCGFAPGFAYLVDGDARLQVPRRAEPRTSVPAGAVALAGEFSGVY 187
>pdb|3FRK|A Chain A, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
pdb|3FRK|B Chain B, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
Length = 373
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 43/92 (46%), Gaps = 9/92 (9%)
Query: 69 LRQQSIADQLAEVSPTCPTRKTLRLGLNLGAPPDPFEPWCISRPLGLNLRKAKHAALGFI 128
+R +I L E + T T+ + + L G P D E I++ NL+ + AA
Sbjct: 107 IRTYNIDPSLIESAITEKTKAIIAVHL-YGQPADMDEIKRIAKKY--NLKLIEDAAQAHG 163
Query: 129 HLGAGLAVGFSGLAAGFA------IGIVGDAG 154
L G+ VG G AAGF+ +G +GD G
Sbjct: 164 SLYKGMKVGSLGDAAGFSFYPAKNLGSLGDGG 195
>pdb|2WIE|A Chain A, High-Resolution Structure Of The Rotor Ring From A Proton
Dependent Atp Synthase
pdb|2WIE|B Chain B, High-Resolution Structure Of The Rotor Ring From A Proton
Dependent Atp Synthase
pdb|2WIE|C Chain C, High-Resolution Structure Of The Rotor Ring From A Proton
Dependent Atp Synthase
pdb|2WIE|D Chain D, High-Resolution Structure Of The Rotor Ring From A Proton
Dependent Atp Synthase
pdb|2WIE|E Chain E, High-Resolution Structure Of The Rotor Ring From A Proton
Dependent Atp Synthase
pdb|2XQS|A Chain A, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQS|B Chain B, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQS|C Chain C, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQS|D Chain D, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQS|E Chain E, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQU|A Chain A, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQU|B Chain B, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQU|C Chain C, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQU|D Chain D, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQU|E Chain E, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQT|A Chain A, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQT|B Chain B, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQT|C Chain C, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQT|D Chain D, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
pdb|2XQT|E Chain E, Microscopic Rotary Mechanism Of Ion Translocation In The
Fo Complex Of Atp Synthases
Length = 82
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 136 VGFSGLAAGFAIGIVGDAGVRGTAQQP----RLFVGMILILIFAEVLGLYGLIVAIYL 189
VG + G G V G A+QP ++ ++L L F E L +YGL+VA+ L
Sbjct: 18 VGIGSIGPGLGQGQAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTIYGLVVALVL 75
>pdb|3GVC|A Chain A, Crystal Structure Of Probable Short-Chain Dehydrogenase-
Reductase From Mycobacterium Tuberculosis
pdb|3GVC|B Chain B, Crystal Structure Of Probable Short-Chain Dehydrogenase-
Reductase From Mycobacterium Tuberculosis
pdb|3GVC|C Chain C, Crystal Structure Of Probable Short-Chain Dehydrogenase-
Reductase From Mycobacterium Tuberculosis
pdb|3GVC|D Chain D, Crystal Structure Of Probable Short-Chain Dehydrogenase-
Reductase From Mycobacterium Tuberculosis
Length = 277
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 110 SRPLGLNLRKA----KHAALGFIHLGAGLAVGFSGLAAGFAIGIVGDAGV 155
R + +NLR A KHAA I G G V S LA A+G G G+
Sbjct: 128 DRVIAINLRGAWLCTKHAAPRMIERGGGAIVNLSSLAGQVAVGGTGAYGM 177
>pdb|4AIV|A Chain A, Crystal Structure Of Putative Nadh-Dependent Nitrite
Reductase Small Subunit From Mycobacterium Tuberculosis
Length = 119
Score = 26.9 bits (58), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 111 RPLGLNLRKAKHAALGFIHLGAGLAVG----FSGLAAGFAIGIVGDAGVRGTAQQPRL 164
R +G+ L AL + G+ AVG FSG AA + GIVGD G R Q P L
Sbjct: 23 RGVGVLLDDGSQVALFRLDDGSVHAVGNVDPFSG-AAVMSRGIVGDRGGRAMVQSPIL 79
>pdb|4HSR|A Chain A, Crystal Structure Of A Class Iii Engineered Cephalosporin
Acylase
pdb|4HST|A Chain A, Crystal Structure Of A Double Mutant Of A Class Iii
Engineered Cephalosporin Acylase
Length = 229
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 3/22 (13%)
Query: 97 LGAPPDPFEPW---CISRPLGL 115
LGA P+P+EPW + R LGL
Sbjct: 142 LGAEPEPWEPWHSIAVMRRLGL 163
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
0.321 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,412,791
Number of Sequences: 62578
Number of extensions: 211766
Number of successful extensions: 421
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 402
Number of HSP's gapped (non-prelim): 23
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
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: 49 (23.5 bits)