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= 025643
         (250 letters)

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

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



>pdb|3IFR|A Chain A, The Crystal Structure Of Xylulose Kinase From
           Rhodospirillum Rubrum
 pdb|3IFR|B Chain B, The Crystal Structure Of Xylulose Kinase From
           Rhodospirillum Rubrum
          Length = 508

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 3/81 (3%)

Query: 164 RAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGR---EALKLRA 220
           RA LAE +   GE++ +  G  V      V  ++ + A L   +++  GR   E  +LRA
Sbjct: 60  RAVLAELKTTAGESDWRPGGICVTGXLPAVVLLDDRGAVLRPSIQQSDGRCGDEVAELRA 119

Query: 221 EVASMASLLKRQRAMMDKQIM 241
           EV S A L +    +  + + 
Sbjct: 120 EVDSEAFLARTGNGVTQQLVT 140


>pdb|4EP1|A Chain A, Crystal Structure Of Anabolic Ornithine
           Carbamoyltransferase From Bacillus Anthracis
 pdb|4EP1|B Chain B, Crystal Structure Of Anabolic Ornithine
           Carbamoyltransferase From Bacillus Anthracis
          Length = 340

 Score = 28.5 bits (62), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 20/35 (57%)

Query: 114 FMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELN 148
            + GP+  +F     RL +++A+ V   KNV EL+
Sbjct: 306 IIDGPQSIVFEQAGNRLHAQKALLVSLFKNVEELS 340


  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    0.136    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,265,199
Number of Sequences: 62578
Number of extensions: 157182
Number of successful extensions: 449
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 448
Number of HSP's gapped (non-prelim): 3
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
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: 50 (23.9 bits)