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= 044922
         (684 letters)

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

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



>pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna
           Polymerase- Includes Complete Structure With Side-Chains
           (Except For Disordered Regions)-Further Refined From
           Original Deposition-Contains Additional Sequence
           Information
          Length = 1265

 Score = 30.8 bits (68), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 19/71 (26%), Positives = 38/71 (53%), Gaps = 10/71 (14%)

Query: 466 SCGVMMSIVATASDLMQDFKTGYLTLSSPRSM--FLSQV---IGTALGCFITPLVFWIFY 520
            CGV ++       +++ ++ G++ L++P +   F+  V   IGT L  F T L   +++
Sbjct: 75  RCGVEVT-----RSIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLFATELEQVLYF 129

Query: 521 KAYPLGDPEGS 531
             Y + DP+G+
Sbjct: 130 NKYIVLDPKGA 140


>pdb|1ZYO|A Chain A, Crystal Structure Of The Serine Protease Domain Of
           Sesbania Mosaic Virus Polyprotein
          Length = 191

 Score = 29.6 bits (65), Expect = 6.0,   Method: Composition-based stats.
 Identities = 18/57 (31%), Positives = 26/57 (45%)

Query: 74  SLNVAAGLLGFAIVKAWTSLLEKFGVLKQPFTRQENTVIQTCVVASSGIAFSSGTAS 130
           S++ +  +L FAIV+  T +  K GV   P     +  + TC   SS     SG  S
Sbjct: 73  SMSSSDKMLDFAIVRVPTHVWSKLGVKSTPLVCPSSKDVITCYGGSSSDCLMSGVGS 129


  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
   0.325    0.140    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,441,137
Number of Sequences: 62578
Number of extensions: 767436
Number of successful extensions: 1596
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1595
Number of HSP's gapped (non-prelim): 16
length of query: 684
length of database: 14,973,337
effective HSP length: 105
effective length of query: 579
effective length of database: 8,402,647
effective search space: 4865132613
effective search space used: 4865132613
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)