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= 020162
         (330 letters)

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

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



>pdb|3SYB|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa Occd3 (Opdp)
          Length = 467

 Score = 30.4 bits (67), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 1/54 (1%)

Query: 277 PASDRPVSDSSEQEKPSVEKPSDGQPKPDHHKRGQDALAAAKERFMARKKAKEQ 330
           PA D P   +  Q  PSV KP  GQ        GQ +L      F +R+  K+ 
Sbjct: 8   PAPDNPSYAAEVQSIPSVAKPIKGQAGATGLVEGQ-SLTLTTRNFYSRENMKDS 60


>pdb|3PV9|D Chain D, Structure Of Ph1245, A Cas1 From Pyrococcus Horikoshii
 pdb|3PV9|E Chain E, Structure Of Ph1245, A Cas1 From Pyrococcus Horikoshii
          Length = 322

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 131 SKEDHLFADKEKFVTGAYKKKLEEQQRWAREQALRDLRDERDDVTKKTDVSD 182
           +KE  LF  K  FVTG  K      + W  +  L D  DE +D  K T++ +
Sbjct: 97  NKEKRLFLAKS-FVTGGTKNMERNLKNWGIKAKLSDYLDELNDARKITEIMN 147


  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
   0.310    0.128    0.353 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,336,757
Number of Sequences: 62578
Number of extensions: 316995
Number of successful extensions: 717
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: 716
Number of HSP's gapped (non-prelim): 16
length of query: 330
length of database: 14,973,337
effective HSP length: 99
effective length of query: 231
effective length of database: 8,778,115
effective search space: 2027744565
effective search space used: 2027744565
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.6 bits)