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= psy3566
         (105 letters)

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

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



>pdb|3IFV|A Chain A, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3IFV|B Chain B, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3IFV|C Chain C, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3HI8|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|B Chain B, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|C Chain C, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|D Chain D, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|E Chain E, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|F Chain F, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
          Length = 247

 Score = 32.0 bits (71), Expect = 0.082,   Method: Compositional matrix adjust.
 Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 9   VSDSGSKTTNLFEPDYLDHLNPEIPLYDEVNVQLKGYDFPVLESYQKFVYKIAASLS 65
           +S       +LF  DYL  +N  IP   EV V+L G +FPV     K  Y+IA  + 
Sbjct: 184 ISIEAGAADSLFSLDYLKDMNKAIPTDAEVTVEL-GEEFPV-----KLHYQIAEGMG 234


  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
   0.315    0.132    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,312,466
Number of Sequences: 62578
Number of extensions: 120622
Number of successful extensions: 245
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 242
Number of HSP's gapped (non-prelim): 5
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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: 45 (21.9 bits)