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= psy2242
         (246 letters)

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

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



>pdb|2GMH|A Chain A, Structure Of Porcine Electron Transfer Flavoprotein-
           Ubiquinone Oxidoreductase In Complexed With Ubiquinone
 pdb|2GMH|B Chain B, Structure Of Porcine Electron Transfer Flavoprotein-
           Ubiquinone Oxidoreductase In Complexed With Ubiquinone
 pdb|2GMJ|A Chain A, Structure Of Porcine Electron Transfer Flavoprotein-
           Ubiquinone Oxidoreductase
 pdb|2GMJ|B Chain B, Structure Of Porcine Electron Transfer Flavoprotein-
           Ubiquinone Oxidoreductase
          Length = 584

 Score =  271 bits (693), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 153/318 (48%), Positives = 181/318 (56%), Gaps = 76/318 (23%)

Query: 5   DFNTYGGSFLYHLNEPSPLVAVGFVVGLDYTNPYLSPFKEFQRFKTHPAVRPVFEGGKRI 64
           D +TYGGSFLYHLNE  PL+A+GFVVGLDY NPYLSPF+EFQR+K HP+++P  EGGKRI
Sbjct: 267 DRHTYGGSFLYHLNEGEPLLALGFVVGLDYQNPYLSPFREFQRWKHHPSIKPTLEGGKRI 326

Query: 65  AYGARALNEGGLQAIPRLTFPGGCLVGCTAGFLNVPKIKGTHNAMKSGMXXXXXXXXXXX 124
           AYGARALNEGG Q+IP+LTFPGG L+GC+ GF+NVPKIKGTH AMKSG            
Sbjct: 327 AYGARALNEGGFQSIPKLTFPGGLLIGCSPGFMNVPKIKGTHTAMKSGTLAAESIFNQLT 386

Query: 125 XXGDEVST-GLEPKSYEDKIKSS---------------------------------WIYK 150
               +  T GL    YED +K+S                                 WI++
Sbjct: 387 SENLQSKTIGLHVTEYEDNLKNSWVWKELYSVRNIRPSCHGILGVYGGMIYTGIFYWIFR 446

Query: 151 ---------------ELKEVRNCRPSFHSK------LGLWGGLAYSGASIMMKGIEPWTF 189
                          +LK  ++C P  + K        L   +A SG +         T 
Sbjct: 447 GMEPWTLKHKGSDSDQLKPAKDCTPIEYPKPDGQISFDLLSSVALSGTNHEHDQPAHLTL 506

Query: 190 KWNSV---------------------YEYVPLEDGSGERLQINAQNCIHCKTCDIKDPTQ 228
           K +SV                     YE+VPLE G G RLQINAQNC+HCKTCDIKDP+Q
Sbjct: 507 KDDSVPVNRNLSIYDGPEQRFCPAGVYEFVPLEQGDGFRLQINAQNCVHCKTCDIKDPSQ 566

Query: 229 NINWVVPEGGGGPAYNGM 246
           NINWVVPEGGGGPAYNGM
Sbjct: 567 NINWVVPEGGGGPAYNGM 584


  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    0.140    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,438,985
Number of Sequences: 62578
Number of extensions: 356803
Number of successful extensions: 670
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 3
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)