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= psy10641
         (97 letters)

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

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



>pdb|3GAA|A Chain A, The Crystal Structure Of The Protein With Unknown Function
           From Thermoplasma Acidophilum
 pdb|3GAA|B Chain B, The Crystal Structure Of The Protein With Unknown Function
           From Thermoplasma Acidophilum
 pdb|3GAA|C Chain C, The Crystal Structure Of The Protein With Unknown Function
           From Thermoplasma Acidophilum
 pdb|3GAA|D Chain D, The Crystal Structure Of The Protein With Unknown Function
           From Thermoplasma Acidophilum
 pdb|3GAA|E Chain E, The Crystal Structure Of The Protein With Unknown Function
           From Thermoplasma Acidophilum
          Length = 252

 Score = 27.7 bits (60), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 36/63 (57%), Gaps = 5/63 (7%)

Query: 36  IDQCYV-DLSTFSFL-KTQEEASIPRRIASLTEDVNRQ---KEREAVLQERFGALDAQLK 90
           +++C V  ++  SF+  T  +   P  + S+ E +N+    K +  +L+E+  ALD Q+K
Sbjct: 172 LNECLVRKITGLSFITPTSVDIPDPGAVLSIIEAINKAYNLKIKTDLLEEQVKALDEQIK 231

Query: 91  QLE 93
           ++E
Sbjct: 232 KIE 234


>pdb|3EWK|A Chain A, Structure Of The Redox Sensor Domain Of Methylococcus
           Capsulatus (Bath) Mmos
          Length = 227

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 3/57 (5%)

Query: 40  YVDLSTFSFLKTQEEASIPRRIASLTEDVNRQKEREAVLQERFGALDAQLKQLELGD 96
           +VD +    +   + A  PR+  S+  D+  QKE EA L     A+DA  + + L D
Sbjct: 75  WVDSTIVPLM---DNAGKPRQYISIRRDITAQKEAEAQLARLKQAMDANSEMILLTD 128


  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    0.366 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,235,725
Number of Sequences: 62578
Number of extensions: 63384
Number of successful extensions: 242
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 239
Number of HSP's gapped (non-prelim): 5
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
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: 45 (21.9 bits)