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= 033696
         (113 letters)

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

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



>pdb|3VGI|A Chain A, The Crystal Structure Of Hyperthermophilic Family 12
           Endocellulase From Pyrococcus Furiosus
          Length = 319

 Score = 26.9 bits (58), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 8/43 (18%), Positives = 24/43 (55%)

Query: 25  AKIRTTVLPVLFKPRARNLSYKTMPSSTHSEFIAFKVPRPYRR 67
           +K++  V+P++      N +++   ++   E++AF++  P + 
Sbjct: 212 SKVKEIVVPIIVNGTPVNATFEVWKANIGWEYVAFRIKTPIKE 254


>pdb|1NIJ|A Chain A, Yjia Protein
 pdb|4IXM|A Chain A, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
 pdb|4IXM|B Chain B, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
          Length = 318

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 11/18 (61%), Positives = 14/18 (77%)

Query: 93  NRIPATIITGFLGSGKNT 110
           N I  T++TGFLG+GK T
Sbjct: 2   NPIAVTLLTGFLGAGKTT 19


>pdb|4IXN|A Chain A, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
           Mutant Yjia Gtpase
 pdb|4IXN|B Chain B, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
           Mutant Yjia Gtpase
          Length = 318

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 11/18 (61%), Positives = 14/18 (77%)

Query: 93  NRIPATIITGFLGSGKNT 110
           N I  T++TGFLG+GK T
Sbjct: 2   NPIAVTLLTGFLGAGKTT 19


>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
           (Replication Factor C, Rfc) Bound To The Dna Sliding
           Clamp (Proliferating Cell Nuclear Antigen, Pcna)
          Length = 323

 Score = 26.2 bits (56), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 16/30 (53%)

Query: 81  EDSDLLTKIPPDNRIPATIITGFLGSGKNT 110
           E  D L +I  D  +P  II+G  G GK T
Sbjct: 28  ETIDRLQQIAKDGNMPHMIISGMPGIGKTT 57


  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
   0.319    0.132    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,788,139
Number of Sequences: 62578
Number of extensions: 78977
Number of successful extensions: 117
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 113
Number of HSP's gapped (non-prelim): 4
length of query: 113
length of database: 14,973,337
effective HSP length: 77
effective length of query: 36
effective length of database: 10,154,831
effective search space: 365573916
effective search space used: 365573916
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)