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= 043713
         (190 letters)

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

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



>pdb|2WSS|S Chain S, The Structure Of The Membrane Extrinsic Region Of Bovine
           Atp Synthase
 pdb|2WSS|W Chain W, The Structure Of The Membrane Extrinsic Region Of Bovine
           Atp Synthase
          Length = 190

 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 58/185 (31%), Positives = 88/185 (47%), Gaps = 7/185 (3%)

Query: 2   PLALFGGSGNYASALYIAAVKTNALEKVESEIL---DLVEASKKADTYFQFTKDLSVPAE 58
           P+ ++G  G YA+ALY AA K N LE+VE E+L    +++  K A +        SV   
Sbjct: 8   PVQIYGIEGRYATALYSAASKQNKLEQVEKELLRVGQILKEPKXAASLLNPYVKRSV--- 64

Query: 59  TRVNAINEICTQAKFSDVTKHFLVVLAENGRLRNLDTIAKRFVELTMAHKGEVKVTVTSV 118
            +V ++++   + KFS +T + + +LAENGRL N   +   F      H+GEV  TVT+ 
Sbjct: 65  -KVKSLSDXTAKEKFSPLTSNLINLLAENGRLTNTPAVISAFSTXXSVHRGEVPCTVTTA 123

Query: 119 IXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXDPSILGGLVVEFGQKVFDMSIKSRARQME 178
                                          DPSI GG +V  G+K  D S K++ +++ 
Sbjct: 124 SALDETTLTELKTVLKSFLSKGQVLKLEVKIDPSIXGGXIVRIGEKYVDXSAKTKIQKLS 183

Query: 179 RFLRE 183
           R  RE
Sbjct: 184 RAXRE 188


>pdb|2BO5|A Chain A, Bovine Oligomycin Sensitivity Conferral Protein N-Terminal
           Domain
 pdb|2JMX|A Chain A, Oscp-Nt (1-120) In Complex With N-Terminal (1-25) Alpha
           Subunit From F1-Atpase
 pdb|4B2Q|W Chain W, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
           Subtomogram Average
 pdb|4B2Q|WW Chain w, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
           Subtomogram Average
          Length = 120

 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 42/117 (35%), Positives = 66/117 (56%), Gaps = 7/117 (5%)

Query: 2   PLALFGGSGNYASALYIAAVKTNALEKVESEIL---DLVEASKKADTYFQFTKDLSVPAE 58
           P+ ++G  G YA+ALY AA K N LE+VE E+L    +++  K A +        SV   
Sbjct: 8   PVQIYGIEGRYATALYSAASKQNKLEQVEKELLRVGQILKEPKMAASLLNPYVKRSV--- 64

Query: 59  TRVNAINEICTQAKFSDVTKHFLVVLAENGRLRNLDTIAKRFVELTMAHKGEVKVTV 115
            +V +++++  + KFS +T + + +LAENGRL N   +   F  +   H+GEV  TV
Sbjct: 65  -KVKSLSDMTAKEKFSPLTSNLINLLAENGRLTNTPAVISAFSTMMSVHRGEVPCTV 120


>pdb|2A7U|B Chain B, Nmr Solution Structure Of The E.Coli F-Atpase Delta
           Subunit N-Terminal Domain In Complex With Alpha Subunit
           N-Terminal 22 Residues
 pdb|1ABV|A Chain A, N-Terminal Domain Of The Delta Subunit Of The F1f0-Atp
           Synthase From Escherichia Coli, Nmr, Minimized Average
           Structure
          Length = 134

 Score = 30.8 bits (68), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 27/108 (25%), Positives = 52/108 (48%), Gaps = 7/108 (6%)

Query: 12  YASALYIAAVKTNALEKVESEILDLVEASKKADTYFQFTKDLS--VPAETRVNAINEICT 69
           YA A +  AV+  ++E+ +  +    E +K      Q  + LS  +  ET   +   +C 
Sbjct: 10  YAKAAFDFAVEHQSVERWQDMLAFAAEVTKNE----QMAELLSGALAPETLAESFIAVCG 65

Query: 70  QAKFSDVTKHFLVVLAENGRLRNLDTIAKRFVELTMAHKGEVKVTVTS 117
           + +  +  ++ + V+AENGRL  L  + ++F+ L    +   +V V S
Sbjct: 66  E-QLDENGQNLIRVMAENGRLNALPDVLEQFIHLRAVSEATAEVDVIS 112


  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
   0.320    0.135    0.367 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,007,392
Number of Sequences: 62578
Number of extensions: 115386
Number of successful extensions: 344
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 337
Number of HSP's gapped (non-prelim): 7
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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: 48 (23.1 bits)