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= psy1673
         (161 letters)

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

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



>pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact
           Activator-Dependent Transcription Initiation Complex
          Length = 1413

 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 24/45 (53%)

Query: 47  GLSLTILTVLWCAMSASKLLVTCFAMSHQQPLVAYPCAILYSVFA 91
           GL  +I+       + SK+L TC+ +   +P V +   I+Y+ FA
Sbjct: 586 GLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFA 630



 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 24/45 (53%)

Query: 112 GLSLTILTVLWCAMSASKLLVTCFAMSHQQPLVAYPCAILYSVFA 156
           GL  +I+       + SK+L TC+ +   +P V +   I+Y+ FA
Sbjct: 586 GLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFA 630


>pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase
 pdb|4IGC|D Chain D, X-ray Crystal Structure Of Escherichia Coli Sigma70
           Holoenzyme
 pdb|4IGC|I Chain I, X-ray Crystal Structure Of Escherichia Coli Sigma70
           Holoenzyme
          Length = 1407

 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 24/45 (53%)

Query: 47  GLSLTILTVLWCAMSASKLLVTCFAMSHQQPLVAYPCAILYSVFA 91
           GL  +I+       + SK+L TC+ +   +P V +   I+Y+ FA
Sbjct: 586 GLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFA 630



 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 24/45 (53%)

Query: 112 GLSLTILTVLWCAMSASKLLVTCFAMSHQQPLVAYPCAILYSVFA 156
           GL  +I+       + SK+L TC+ +   +P V +   I+Y+ FA
Sbjct: 586 GLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFA 630


  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
   0.331    0.137    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,524,865
Number of Sequences: 62578
Number of extensions: 103144
Number of successful extensions: 153
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 149
Number of HSP's gapped (non-prelim): 5
length of query: 161
length of database: 14,973,337
effective HSP length: 91
effective length of query: 70
effective length of database: 9,278,739
effective search space: 649511730
effective search space used: 649511730
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 47 (22.7 bits)