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= 034107
         (103 letters)

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

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



>pdb|2G2X|A Chain A, X-ray Crystal Structure Protein Q88ch6 From Pseudomonas
           Putida. Northeast Structural Genomics Consortium Target
           Ppr72.
 pdb|2G2X|B Chain B, X-ray Crystal Structure Protein Q88ch6 From Pseudomonas
           Putida. Northeast Structural Genomics Consortium Target
           Ppr72.
 pdb|2G2X|C Chain C, X-ray Crystal Structure Protein Q88ch6 From Pseudomonas
           Putida. Northeast Structural Genomics Consortium Target
           Ppr72
          Length = 157

 Score = 26.6 bits (57), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 11/87 (12%)

Query: 20  LAKVTRRVSDTPIVAYTKQKASDAAYVSHKLLKSTGKAAWIAGTTFLILVVPLIIEMDR- 78
           +A++TR        AY    A D     H    +T K  W A     +   P ++E+ R 
Sbjct: 62  IARITR-------AAYPDPTALDPESHYHDAKATTDKNPWSAVDVAHVQTFPRVLELGRL 114

Query: 79  EQQFNELEM---QQQSLLGAPPLAPAQ 102
           +QQ   +E+   Q+ S L   P+ P Q
Sbjct: 115 KQQAGLVELPLVQKGSRLSVXPVTPEQ 141


  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
   0.314    0.128    0.352 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,738,959
Number of Sequences: 62578
Number of extensions: 87393
Number of successful extensions: 172
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 169
Number of HSP's gapped (non-prelim): 7
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 45 (21.9 bits)