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= psy14635
         (162 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3B8C|A Chain A, Crystal Structure Of A Plasma Membrane Proton Pump
 pdb|3B8C|B Chain B, Crystal Structure Of A Plasma Membrane Proton Pump
          Length = 885

 Score = 27.3 bits (59), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 4/57 (7%)

Query: 25  CTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVY 81
            + IVL + GLS+I+S+V  S A F      +    ++ + + I I+F   ++ L++
Sbjct: 615 ASDIVLTEPGLSVIISAVLTSRAIFQR----MKNYTIYAVSITIRIVFGFMLIALIW 667


>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 = 26.9 bits (58), Expect = 5.0,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.0,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.0,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.3,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.3,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.3,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>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 = 26.9 bits (58), Expect = 5.4,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>pdb|2HQG|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
           Of The Putative Proton Relay Pathway
          Length = 1053

 Score = 26.9 bits (58), Expect = 5.4,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>pdb|2HQF|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
           Of The Putative Proton Relay Pathway
          Length = 1053

 Score = 26.9 bits (58), Expect = 5.5,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>pdb|2HQD|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
           Of The Putative Proton Relay Pathway
          Length = 1053

 Score = 26.9 bits (58), Expect = 5.6,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


>pdb|2HQC|A Chain A, Conformation Of The Acrb Multidrug Efflux Pump In Mutants
           Of The Putative Proton Relay Pathway
          Length = 1053

 Score = 26.9 bits (58), Expect = 5.6,   Method: Composition-based stats.
 Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)

Query: 34  GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI 84
           G++++LS+V   +AFF  S   I   R F++ +   +  ++ V L++ PA+
Sbjct: 444 GIAMVLSAVFVPMAFFGGSTGAI--YRQFSITIVSAMALSVLVALILTPAL 492


  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
   0.328    0.138    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,548,812
Number of Sequences: 62578
Number of extensions: 101597
Number of successful extensions: 309
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 309
Number of HSP's gapped (non-prelim): 13
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 47 (22.7 bits)