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= psy16807
         (220 letters)

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

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



>pdb|3KMW|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
           (Mgatp)
 pdb|3REP|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
           (Mnatp)
          Length = 271

 Score = 30.0 bits (66), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 36/94 (38%), Gaps = 12/94 (12%)

Query: 102 EVWAKPWRENQLTGQKLKKIKCDTRKWKSSTRDVRAEEIVVCRLRIGHCLATHQYLLERQ 161
           E+W   W+ N +  + LK     TRK    +RD   E     RLRI         L   Q
Sbjct: 25  ELWKGRWQGNDIVVKVLKVRDWSTRK----SRDFNEE---CPRLRIFSHPNVLPVLGACQ 77

Query: 162 NPPACHLCNEVPITIKHWLLECPRLNALRRKFKF 195
           +PPA H     P  I HW+      N L     F
Sbjct: 78  SPPAPH-----PTLITHWMPYGSLYNVLHEGTNF 106


>pdb|2HNH|A Chain A, Crystal Structure Of The Catalytic Alpha Subunit Of E.
           Coli Replicative Dna Polymerase Iii
          Length = 910

 Score = 28.9 bits (63), Expect = 2.5,   Method: Composition-based stats.
 Identities = 13/47 (27%), Positives = 24/47 (51%)

Query: 173 PITIKHWLLECPRLNALRRKFKFGSCLKTILKDDEIIIDSCVNFLKE 219
           PI  + WL+E      L    + G   +++L+ +  ++D CV F +E
Sbjct: 114 PIIDRDWLIELNEGLILLSGGRMGDVGRSLLRGNSALVDECVAFYEE 160


>pdb|3KMU|A Chain A, Crystal Structure Of The IlkALPHA-Parvin Core Complex
           (Apo)
          Length = 271

 Score = 28.5 bits (62), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 35/94 (37%), Gaps = 12/94 (12%)

Query: 102 EVWAKPWRENQLTGQKLKKIKCDTRKWKSSTRDVRAEEIVVCRLRIGHCLATHQYLLERQ 161
           E+W   W+ N +  + LK     TRK    +RD   E     RLRI         L   Q
Sbjct: 25  ELWKGRWQGNDIVVKVLKVRDWSTRK----SRDFNEE---CPRLRIFSHPNVLPVLGACQ 77

Query: 162 NPPACHLCNEVPITIKHWLLECPRLNALRRKFKF 195
           +PPA H     P  I HW       N L     F
Sbjct: 78  SPPAPH-----PTLITHWXPYGSLYNVLHEGTNF 106


>pdb|2HQA|A Chain A, Crystal Structure Of The Catalytic Alpha Subunit Of E.
           Coli Replicative Dna Polymerase Iii
          Length = 917

 Score = 28.1 bits (61), Expect = 3.9,   Method: Composition-based stats.
 Identities = 13/47 (27%), Positives = 24/47 (51%)

Query: 173 PITIKHWLLECPRLNALRRKFKFGSCLKTILKDDEIIIDSCVNFLKE 219
           PI  + WL+E      L    + G   +++L+ +  ++D CV F +E
Sbjct: 114 PIIDRDWLIELNEGLILLSGGRXGDVGRSLLRGNSALVDECVAFYEE 160


  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    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,550,798
Number of Sequences: 62578
Number of extensions: 245167
Number of successful extensions: 692
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 692
Number of HSP's gapped (non-prelim): 4
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
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: 49 (23.5 bits)