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= psy16040
(358 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YVY|A Chain A, Crystal Strucutre Of Anaerobiospirillum Succiniciproducens
Phosphoenolpyruvate Carboxykinase
pdb|1YVY|B Chain B, Crystal Strucutre Of Anaerobiospirillum Succiniciproducens
Phosphoenolpyruvate Carboxykinase
pdb|1YTM|A Chain A, Crystal Structure Of Phosphoenolpyruvate Carboxykinase Of
Anaerobiospirillum Succiniciproducens Complexed With
Atp, Oxalate, Magnesium And Manganese Ions
pdb|1YTM|B Chain B, Crystal Structure Of Phosphoenolpyruvate Carboxykinase Of
Anaerobiospirillum Succiniciproducens Complexed With
Atp, Oxalate, Magnesium And Manganese Ions
Length = 532
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 274 LFLFTGNCYAKIKEETTRLQDKIVEALGLNPVDKEVVVLYKGEKEHASEEFSETHRVIEV 333
+F F G CYAK+ + + I A+ N + + V V G+ + A + +E RV
Sbjct: 272 VFNFEGGCYAKVINLSKENEPDIWGAIKRNALLENVTVDANGKVDFADKSVTENTRV--- 328
Query: 334 EGERPPWFSKNLLQKTTQKPS 354
P + KN+++ ++ P+
Sbjct: 329 --SYPIFHIKNIVKPVSKAPA 347
>pdb|2Y69|K Chain K, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
pdb|2Y69|X Chain X, Bovine Heart Cytochrome C Oxidase Re-Refined With
Molecular Oxygen
Length = 80
Score = 29.3 bits (64), Expect = 3.2, Method: Composition-based stats.
Identities = 23/88 (26%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 77 PVTKLSLKELFDTSILWAVPKKVEDAHAENRPDSLQHMCKMIDVSSDQVPNAMFSNSSLF 136
P+ K +L L SI AV +++ H + PD D+ NA+ ++ + F
Sbjct: 3 PLAKNALSRLRVQSIQQAVARQI---HQKRAPDF-----------HDKYGNAVLASGATF 48
Query: 137 FISDFNVAVTQISSVLTPKPVTKLSLKE 164
++ + TQI P PV +++ KE
Sbjct: 49 CVAVWVYMATQIGIEWNPSPVGRVTPKE 76
>pdb|3IRS|A Chain A, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3IRS|B Chain B, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3IRS|C Chain C, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|A Chain A, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|B Chain B, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|C Chain C, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|D Chain D, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|E Chain E, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|F Chain F, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|G Chain G, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|H Chain H, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|I Chain I, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|J Chain J, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|K Chain K, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
pdb|3K4W|L Chain L, Crystal Structure Of Uncharacterized Tim-Barrel Protein
Bb4693 From Bordetella Bronchiseptica
Length = 291
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 18/98 (18%)
Query: 27 LGFQPPPPIEVTSMEVCYQRNWHKQAVTSVIIGLDFNVAVTQNSSVLTPKPVTKLSLKEL 86
LGF+P P E S+E+ ++ G++ V V +NSSVL S+
Sbjct: 36 LGFEPAPSAEEKSLELMFEE--------MAAAGIEQGVCVGRNSSVLG-------SVSNA 80
Query: 87 FDTSILWAVPKK---VEDAHAENRPDSLQHMCKMIDVS 121
++ A P K V A R +++ M +++D+
Sbjct: 81 DVAAVAKAYPDKFHPVGSIEAATRKEAMAQMQEILDLG 118
>pdb|1GC5|A Chain A, Crystal Structure Of A Novel Adp-Dependent Glucokinase
From Thermococcus Litoralis
Length = 467
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 60/134 (44%), Gaps = 8/134 (5%)
Query: 194 QVWKMLMPRTDLTVCNTCGYTH--HSKTLCGKYYSLSISRVKCSFPSLLKVM---YPYGL 248
QV+ + PR + + N Y + + + + V+ + S L+V+ YP G
Sbjct: 194 QVFDVQAPRENRFIANADDYNARVYMRREFREGFEEITRNVELAIISGLQVLKEYYPDGT 253
Query: 249 TTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKIKEETTRLQDKIVEALGLNPVDKE 308
T D+ +S ++ R + + F +T N +++E L K ++GLN V+
Sbjct: 254 TYKDVLDRVESHLNILNRYNVKSHFEFAYTAN--RRVREALVELLPKFT-SVGLNEVELA 310
Query: 309 VVVLYKGEKEHASE 322
++ G++E A E
Sbjct: 311 SIMEIIGDEELAKE 324
>pdb|3NOC|A Chain A, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOC|B Chain B, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOC|C Chain C, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOG|A Chain A, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOG|B Chain B, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
pdb|3NOG|C Chain C, Designed Ankyrin Repeat Protein (Darpin) Binders To Acrb:
Plasticity Of The Interface
Length = 1049
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|1OY6|A Chain A, Structural Basis Of The Multiple Binding Capacity Of The
Acrb Multidrug Efflux Pump
pdb|1OY8|A Chain A, Structural Basis Of Multiple Drug Binding Capacity Of The
Acrb Multidrug Efflux Pump
pdb|1OY9|A Chain A, Structural Basis Of Multiple Drug Binding Capacity Of The
Acrb Multidrug Efflux Pump
pdb|1OYD|A Chain A, Structural Basis Of Multiple Binding Capacity Of The Acrb
Multidrug Efflux Pump
pdb|1OYE|A Chain A, Structural Basis Of Multiple Binding Capacity Of The Acrb
Multidrug Efflux Pump
pdb|2I6W|A Chain A, Crystal Structure Of The Multidrug Efflux Transporter Acrb
pdb|2RDD|A Chain A, X-Ray Crystal Structure Of Acrb In Complex With A Novel
Transmembrane Helix.
pdb|3D9B|A Chain A, Symmetric Structure Of E. Coli Acrb
pdb|2W1B|A Chain A, The Structure Of The Efflux Pump Acrb In Complex With Bile
Acid
Length = 1049
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|1T9T|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
pdb|1T9U|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
pdb|1T9V|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
pdb|1T9W|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
pdb|1T9X|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
pdb|1T9Y|A Chain A, Structural Basis Of Multidrug Transport By The Acrb
Multidrug Efflux Pump
Length = 1049
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2HQF|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
Of The Putative Proton Relay Pathway
Length = 1053
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|4DX6|A Chain A, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|B Chain B, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX6|C Chain C, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
Length = 1057
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2HQD|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
Of The Putative Proton Relay Pathway
Length = 1053
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2HQC|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
Of The Putative Proton Relay Pathway
Length = 1053
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2J8S|A Chain A, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|2J8S|B Chain B, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
pdb|2J8S|C Chain C, Drug Export Pathway Of Multidrug Exporter Acrb Revealed By
Darpin Inhibitors
Length = 1055
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2GIF|A Chain A, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2GIF|B Chain B, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2GIF|C Chain C, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|A Chain A, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|B Chain B, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|C Chain C, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|D Chain D, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|E Chain E, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|2HRT|F Chain F, Asymmetric Structure Of Trimeric Acrb From Escherichia
Coli
pdb|4DX5|A Chain A, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX5|B Chain B, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX5|C Chain C, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|A Chain A, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|B Chain B, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
pdb|4DX7|C Chain C, Transport Of Drugs By The Multidrug Transporter Acrb
Involves An Access And A Deep Binding Pocket That Are
Separated By A Switch-Loop
Length = 1057
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|1IWG|A Chain A, Crystal Structure Of Bacterial Multidrug Efflux
Transporter Acrb
pdb|2DHH|A Chain A, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DHH|B Chain B, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DHH|C Chain C, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DR6|A Chain A, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DR6|B Chain B, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DR6|C Chain C, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DRD|A Chain A, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DRD|B Chain B, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|2DRD|C Chain C, Crystal Structure Of A Multidrug Transporter Reveal A
Functionally Rotating Mechanism
pdb|3AOA|A Chain A, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOA|B Chain B, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOA|C Chain C, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOB|A Chain A, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOB|B Chain B, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOB|C Chain C, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOC|A Chain A, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOC|B Chain B, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOC|C Chain C, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOD|A Chain A, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOD|B Chain B, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
pdb|3AOD|C Chain C, Structures Of The Multidrug Exporter Acrb Reveal A
Proximal Multisite Drug-Binding Pocket
Length = 1053
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
>pdb|2HQG|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
Of The Putative Proton Relay Pathway
Length = 1053
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 229 ISRVKCSFPSLLKVMYPYGLTTNLEKDKYQSCDIVIQRNCIYNTILFLFTGNCYAKI 285
+++++ FPS LK++YPY T ++ ++ +++ + +++LF N A +
Sbjct: 310 LAKMEPFFPSGLKIVYPYDTTPFVKISIHEVVKTLVEAIILVFLVMYLFLQNFRATL 366
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 0.132 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,240,157
Number of Sequences: 62578
Number of extensions: 389630
Number of successful extensions: 912
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 900
Number of HSP's gapped (non-prelim): 19
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
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: 52 (24.6 bits)