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= 017005
         (379 letters)

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

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



>pdb|1ZQ1|C Chain C, Structure Of Gatde Trna-Dependent Amidotransferase From
           Pyrococcus Abyssi
 pdb|1ZQ1|D Chain D, Structure Of Gatde Trna-Dependent Amidotransferase From
           Pyrococcus Abyssi
          Length = 633

 Score = 30.8 bits (68), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 31/98 (31%), Positives = 51/98 (52%), Gaps = 10/98 (10%)

Query: 281 IGAGTISALRSSLARIQIEKEEKA---RVQRINI-LEGFGGTPEYLLHPPKEHLVEKYFH 336
           +G  TI  L    ARI IE+++K    R+ R+ I L     TP+  +H P++  V   F 
Sbjct: 154 VGIPTI-CLEEDAARI-IERKDKEVIYRLDRLGIPLIEISTTPD--IHHPEQAKVVAKFI 209

Query: 337 PDNMSSAEKMKIELAKVREEFKMSESDCGSARVQSKGF 374
            D + + +K+K  L  +R++  +S    G AR++ KG 
Sbjct: 210 GDALRATKKVKRGLGTIRQDLNVSIK--GGARIEIKGV 245


  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
   0.316    0.132    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,760,008
Number of Sequences: 62578
Number of extensions: 224745
Number of successful extensions: 584
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 583
Number of HSP's gapped (non-prelim): 2
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)