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= psy2945
         (134 letters)

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

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



>pdb|2Y69|F Chain F, Bovine Heart Cytochrome C Oxidase Re-Refined With
           Molecular Oxygen
 pdb|2Y69|S Chain S, Bovine Heart Cytochrome C Oxidase Re-Refined With
           Molecular Oxygen
          Length = 129

 Score = 77.4 bits (189), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 52/81 (64%), Gaps = 2/81 (2%)

Query: 50  ATGLEKRELLAELAGDPDPFNVKIRKRGLGTKTQPTEVPSAFEARIVGCICEEESPSINW 109
           ATGLE+  +LA   G  DP+N+   K   GTK  P  VPS    RIVGCICEE++ ++ W
Sbjct: 44  ATGLEREVMLAARKGQ-DPYNILAPKATSGTKEDPNLVPSITNKRIVGCICEEDNSTVIW 102

Query: 110 MWLYEGKPKRC-MCGHWFKLV 129
            WL++G+ +RC  CG  +KLV
Sbjct: 103 FWLHKGEAQRCPSCGTHYKLV 123


>pdb|1OCC|F Chain F, Structure Of Bovine Heart Cytochrome C Oxidase At The
           Fully Oxidized State
 pdb|1OCC|S Chain S, Structure Of Bovine Heart Cytochrome C Oxidase At The
           Fully Oxidized State
 pdb|2OCC|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|2OCC|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|1OCO|F Chain F, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
           State
 pdb|1OCO|S Chain S, Bovine Heart Cytochrome C Oxidase In Carbon Monoxide-bound
           State
 pdb|1OCR|F Chain F, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
           State
 pdb|1OCR|S Chain S, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
           State
 pdb|1OCZ|F Chain F, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
 pdb|1OCZ|S Chain S, Bovine Heart Cytochrome C Oxidase In Azide-Bound State
 pdb|1V54|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|1V54|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|1V55|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
           State
 pdb|1V55|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Reduced
           State
 pdb|2DYR|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|2DYR|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State
 pdb|2DYS|F Chain F, Bovine Heart Cytochrome C Oxidase Modified By Dccd
 pdb|2DYS|S Chain S, Bovine Heart Cytochrome C Oxidase Modified By Dccd
 pdb|2EIJ|F Chain F, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
           State
 pdb|2EIJ|S Chain S, Bovine Heart Cytochrome C Oxidase In The Fully Reduced
           State
 pdb|2EIK|F Chain F, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Reduced State
 pdb|2EIK|S Chain S, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Reduced State
 pdb|2EIL|F Chain F, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Oxidized State
 pdb|2EIL|S Chain S, Cadmium Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Oxidized State
 pdb|2EIM|F Chain F, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Reduced State
 pdb|2EIM|S Chain S, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Reduced State
 pdb|2EIN|F Chain F, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Oxidized State
 pdb|2EIN|S Chain S, Zinc Ion Binding Structure Of Bovine Heart Cytochrome C
           Oxidase In The Fully Oxidized State
 pdb|2ZXW|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (1-S X-Ray Exposure Dataset)
 pdb|2ZXW|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (1-S X-Ray Exposure Dataset)
 pdb|3ABL|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (15-S X-Ray Exposure Dataset)
 pdb|3ABL|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (15-S X-Ray Exposure Dataset)
 pdb|3ABM|F Chain F, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (200-S X-Ray Exposure Dataset)
 pdb|3ABM|S Chain S, Bovine Heart Cytochrome C Oxidase At The Fully Oxidized
           State (200-S X-Ray Exposure Dataset)
 pdb|3ABK|F Chain F, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
           Reduced State (50k)
 pdb|3ABK|S Chain S, Bovine Heart Cytochrome C Oxidase At The No-Bound Fully
           Reduced State (50k)
 pdb|3AG1|F Chain F, Bovine Heart Cytochrome C Oxidase In The Carbon
           Monoxide-Bou Reduced State At 280 K
 pdb|3AG1|S Chain S, Bovine Heart Cytochrome C Oxidase In The Carbon
           Monoxide-Bou Reduced State At 280 K
 pdb|3AG2|F Chain F, Bovine Heart Cytochrome C Oxidase In The Carbon
           Monoxide-Bou Reduced State At 100 K
 pdb|3AG2|S Chain S, Bovine Heart Cytochrome C Oxidase In The Carbon
           Monoxide-Bou Reduced State At 100 K
 pdb|3AG3|F Chain F, Bovine Heart Cytochrome C Oxidase In The Nitric
           Oxide-Bound Reduced State At 100 K
 pdb|3AG3|S Chain S, Bovine Heart Cytochrome C Oxidase In The Nitric
           Oxide-Bound Reduced State At 100 K
 pdb|3AG4|F Chain F, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
           F Reduced State At 100 K
 pdb|3AG4|S Chain S, Bovine Heart Cytochrome C Oxidase In The Cyanide Ion-Bound
           F Reduced State At 100 K
 pdb|3ASN|F Chain F, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
           State Measured At 1.7470 Angstrom Wavelength
 pdb|3ASN|S Chain S, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
           State Measured At 1.7470 Angstrom Wavelength
 pdb|3ASO|F Chain F, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
           State Measured At 0.9 Angstrom Wavelength
 pdb|3ASO|S Chain S, Bovine Heart Cytochrome C Oxidase In The Fully Oxidized
           State Measured At 0.9 Angstrom Wavelength
 pdb|2YBB|Q Chain Q, Fitted Model For Bovine  Mitochondrial Supercomplex
           I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
          Length = 98

 Score = 76.3 bits (186), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 39/81 (48%), Positives = 52/81 (64%), Gaps = 2/81 (2%)

Query: 50  ATGLEKRELLAELAGDPDPFNVKIRKRGLGTKTQPTEVPSAFEARIVGCICEEESPSINW 109
           ATGLE+  +LA   G  DP+N+   K   GTK  P  VPS    RIVGCICEE++ ++ W
Sbjct: 13  ATGLEREVMLAARKGQ-DPYNILAPKATSGTKEDPNLVPSITNKRIVGCICEEDNSTVIW 71

Query: 110 MWLYEGKPKRC-MCGHWFKLV 129
            WL++G+ +RC  CG  +KLV
Sbjct: 72  FWLHKGEAQRCPSCGTHYKLV 92


>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
          Resolution
 pdb|2XOK|B Chain B, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
          Resolution
 pdb|2XOK|C Chain C, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
          Resolution
          Length = 545

 Score = 28.1 bits (61), Expect = 1.4,   Method: Composition-based stats.
 Identities = 13/23 (56%), Positives = 14/23 (60%)

Query: 75 KRGLGTKTQPTEVPSAFEARIVG 97
          +R   TK QPTEV S  E RI G
Sbjct: 33 RRLASTKAQPTEVSSILEERIKG 55


>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|B Chain B, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|C Chain C, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|J Chain J, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|K Chain K, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|L Chain L, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|S Chain S, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|T Chain T, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
 pdb|3OFN|U Chain U, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-N67i
          Length = 510

 Score = 27.3 bits (59), Expect = 2.7,   Method: Composition-based stats.
 Identities = 12/18 (66%), Positives = 12/18 (66%)

Query: 80 TKTQPTEVPSAFEARIVG 97
          TK QPTEV S  E RI G
Sbjct: 3  TKAQPTEVSSILEERIKG 20


>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|B Chain B, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|C Chain C, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|J Chain J, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|K Chain K, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|L Chain L, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|S Chain S, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|T Chain T, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
 pdb|3OEE|U Chain U, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Alpha-F405s
          Length = 510

 Score = 27.3 bits (59), Expect = 2.7,   Method: Composition-based stats.
 Identities = 12/18 (66%), Positives = 12/18 (66%)

Query: 80 TKTQPTEVPSAFEARIVG 97
          TK QPTEV S  E RI G
Sbjct: 3  TKAQPTEVSSILEERIKG 20


>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|B Chain B, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|C Chain C, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|J Chain J, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|K Chain K, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|L Chain L, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|S Chain S, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|T Chain T, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|2HLD|U Chain U, Crystal Structure Of Yeast Mitochondrial F1-Atpase
 pdb|3FKS|A Chain A, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|B Chain B, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|C Chain C, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|J Chain J, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|K Chain K, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|L Chain L, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|S Chain S, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|T Chain T, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|3FKS|U Chain U, Yeast F1 Atpase In The Absence Of Bound Nucleotides
 pdb|2WPD|A Chain A, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp
          Synthase
 pdb|2WPD|B Chain B, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp
          Synthase
 pdb|2WPD|C Chain C, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp
          Synthase
 pdb|3OE7|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|B Chain B, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|C Chain C, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|J Chain J, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|K Chain K, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|L Chain L, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|S Chain S, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|T Chain T, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OE7|U Chain U, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Gamma-I270t
 pdb|3OEH|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|B Chain B, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|C Chain C, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|J Chain J, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|K Chain K, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|L Chain L, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|S Chain S, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|T Chain T, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3OEH|U Chain U, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
          Beta-V279f
 pdb|3ZRY|A Chain A, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
          Yeast F-Atp Synthase
 pdb|3ZRY|B Chain B, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
          Yeast F-Atp Synthase
 pdb|3ZRY|C Chain C, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
          Yeast F-Atp Synthase
 pdb|3ZIA|A Chain A, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
 pdb|3ZIA|B Chain B, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
 pdb|3ZIA|C Chain C, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
 pdb|3ZIA|K Chain K, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
 pdb|3ZIA|L Chain L, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
 pdb|3ZIA|M Chain M, The Structure Of F1-atpase From Saccharomyces Cerevisiae
          Inhibited By Its Regulatory Protein If1
          Length = 510

 Score = 27.3 bits (59), Expect = 2.7,   Method: Composition-based stats.
 Identities = 12/18 (66%), Positives = 12/18 (66%)

Query: 80 TKTQPTEVPSAFEARIVG 97
          TK QPTEV S  E RI G
Sbjct: 3  TKAQPTEVSSILEERIKG 20


>pdb|1UUN|A Chain A, Main Porin From Mycobacteria Smegmatis (Mspa)
 pdb|1UUN|B Chain B, Main Porin From Mycobacteria Smegmatis (Mspa)
          Length = 184

 Score = 25.4 bits (54), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 15  RYLARSVTATGNSFSTCAQRWNKN 38
           R  AR + +TG+S +T  + WN N
Sbjct: 161 RPFARLIASTGDSVTTYGEPWNMN 184


  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    0.135    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,827,016
Number of Sequences: 62578
Number of extensions: 135955
Number of successful extensions: 203
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 195
Number of HSP's gapped (non-prelim): 8
length of query: 134
length of database: 14,973,337
effective HSP length: 88
effective length of query: 46
effective length of database: 9,466,473
effective search space: 435457758
effective search space used: 435457758
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)