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= 013939
(433 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NVM|B Chain B, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|D Chain D, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|F Chain F, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
pdb|1NVM|H Chain H, Crystal Structure Of A Bifunctional Aldolase-Dehydrogenase
: Sequestering A Reactive And Volatile Intermediate
Length = 312
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 58 NGEMRQQRFVGILNSFDIVAFLAKSDCLEDQDKAMKTPVSQVIVPNNSLLKQVDPGTRLI 117
+G R QR G+ ++ V L K D D + V N +LL+Q PG RLI
Sbjct: 43 DGLARAQRM-GVTTTYAGVEGLIKLPEFADIDFVFDATSASAHVQNEALLRQAKPGIRLI 101
Query: 118 D 118
D
Sbjct: 102 D 102
>pdb|1PNU|N Chain N, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|N Chain N, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|Q Chain Q, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 125
Score = 31.6 bits (70), Expect = 0.79, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 2/84 (2%)
Query: 286 GQFVMGVEDNVTPRSFPDYSANSTLRENNTVNGVGSTRPRKFCSRSIGFNPSSPCLAAS- 344
G+ + G+E + T R PD+ T+R + V TR + F I N S + +
Sbjct: 9 GELLRGIEQDHT-RQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTV 67
Query: 345 RSPSFGTGRSMYRGRSTPLTCKIT 368
R SFG G ++PL ++T
Sbjct: 68 RKISFGEGVERVFPFASPLVNQVT 91
>pdb|1NKW|N Chain N, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|N Chain N, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|N Chain N, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|N Chain N, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|N Chain N, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
pdb|2ZJP|M Chain M, Thiopeptide Antibiotic Nosiheptide Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|2ZJQ|M Chain M, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
pdb|2ZJR|M Chain M, Refined Native Structure Of The Large Ribosomal Subunit
(50s) From Deinococcus Radiodurans
pdb|3CF5|M Chain M, Thiopeptide Antibiotic Thiostrepton Bound To The Large
Ribosomal Subunit Of Deinococcus Radiodurans
pdb|3DLL|M Chain M, The Oxazolidinone Antibiotics Perturb The Ribosomal
Peptidyl-Transferase Center And Effect Trna Positioning
pdb|3PIO|M Chain M, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
pdb|3PIP|M Chain M, Crystal Structure Of The Synergistic Antibiotic Pair
Lankamycin And Lankacidin In Complex With The Large
Ribosomal Subunit
Length = 166
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 2/84 (2%)
Query: 286 GQFVMGVEDNVTPRSFPDYSANSTLRENNTVNGVGSTRPRKFCSRSIGFNPSSPCLAAS- 344
G+ + G+E + T R PD+ T+R + V TR + F I N S + +
Sbjct: 10 GELLRGIEQDHT-RQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTV 68
Query: 345 RSPSFGTGRSMYRGRSTPLTCKIT 368
R SFG G ++PL ++T
Sbjct: 69 RKISFGEGVERVFPFASPLVNQVT 92
>pdb|3IFE|A Chain A, 1.55 Angstrom Resolution Crystal Structure Of Peptidase T
(Pept-1) From Bacillus Anthracis Str. 'ames Ancestor'
Length = 434
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 7/74 (9%)
Query: 58 NGEMRQQRFVGILNSFDIVAFLAKSDCLEDQDKAMKTPVSQ--VIVPNN----SLLKQVD 111
NG++ Q + I+ FD F A+ + +E+ K M+ Q V++ N ++L++++
Sbjct: 294 NGDVEQSKAYYIIRDFDRKNFEARKNTIENIVKQMQEKYGQDAVVLEMNDQYYNMLEKIE 353
Query: 112 PGTRLID-ALEMMK 124
P ++D A E MK
Sbjct: 354 PVREIVDIAYEAMK 367
>pdb|2OMD|A Chain A, Crystal Structure Of Molybdopterin Converting Factor
Subunit 2 (Aq_2181) From Aquifex Aeolicus Vf5
pdb|2OMD|B Chain B, Crystal Structure Of Molybdopterin Converting Factor
Subunit 2 (Aq_2181) From Aquifex Aeolicus Vf5
Length = 154
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 5/54 (9%)
Query: 1 MASVFIYHVVGDLTVGKPELAEF----YETETVEAAIKAIGESTECGIPVWKKK 50
+ VFI+H +G + +G+P + ET +A A+ E T+ +P+WKK+
Sbjct: 80 VKEVFIHHRLGLVKIGEPSFLVLAVGGHREETFKACRYAVDE-TKKRVPIWKKE 132
>pdb|3T4N|C Chain C, Structure Of The Regulatory Fragment Of Saccharomyces
Cerevisiae Ampk In Complex With Adp
pdb|3TDH|C Chain C, Structure Of The Regulatory Fragment Of Sccharomyces
Cerevisiae Ampk In Complex With Amp
pdb|3TE5|C Chain C, Structure Of The Regulatory Fragment Of Sacchromyces
Cerevisiae Ampk In Complex With Nadh
Length = 323
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 12/97 (12%)
Query: 30 EAAIKAIGESTECGIPVWKKKTHVGIIENGEMRQQRFVGILNSFDIVAFLAKSDCLEDQD 89
EA +K + ES IP+ I ++ E ++ V +L + I+ F+A +C E
Sbjct: 135 EACLKML-ESRSGRIPL--------IDQDEETHREIVVSVLTQYRILKFVAL-NCRETH- 183
Query: 90 KAMKTPVSQVIVPNNSLLKQVDPGTRLIDALEMMKQG 126
+K P+ + + +K T +ID ++M+ QG
Sbjct: 184 -FLKIPIGDLNIITQDNMKSCQMTTPVIDVIQMLTQG 219
>pdb|2QLV|C Chain C, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
pdb|2QLV|F Chain F, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
Length = 315
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 46/97 (47%), Gaps = 12/97 (12%)
Query: 30 EAAIKAIGESTECGIPVWKKKTHVGIIENGEMRQQRFVGILNSFDIVAFLAKSDCLEDQD 89
EA +K + ES IP+ I ++ E ++ V +L + I+ F+A +C E
Sbjct: 128 EACLKML-ESRSGRIPL--------IDQDEETHREIVVSVLTQYRILKFVAL-NCRETH- 176
Query: 90 KAMKTPVSQVIVPNNSLLKQVDPGTRLIDALEMMKQG 126
+K P+ + + +K T +ID ++M+ QG
Sbjct: 177 -FLKIPIGDLNIITQDNMKSCQMTTPVIDVIQMLTQG 212
>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 = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
>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 = 7.9, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 101 VPNNSLLKQVDPGTRLIDALEMMKQGVRRLLVPKSVVWKGMSKR 144
+P+ +L Q PG +A+E+M+Q +L W GMS +
Sbjct: 822 LPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSYQ 865
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
0.317 0.131 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,261,298
Number of Sequences: 62578
Number of extensions: 403206
Number of successful extensions: 858
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: 846
Number of HSP's gapped (non-prelim): 18
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
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: 53 (25.0 bits)