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= 019159
         (345 letters)

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

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



>pdb|1HSK|A Chain A, Crystal Structure Of S. Aureus Murb
          Length = 326

 Score = 31.2 bits (69), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 28/55 (50%)

Query: 246 QRFIPVTTYYDGNRFFTNQDGMRKATPLLLTVAVIELSDIAFAVDSIPAVFGVTR 300
           Q  IPVT   +G+     + G+R     LL++  IE+SD A    S  A+  V+R
Sbjct: 70  QNEIPVTYLGNGSNIIIREGGIRGIVISLLSLDHIEVSDDAIIAGSGAAIIDVSR 124


>pdb|4DZZ|A Chain A, Structure Of Parf-Adp, Crystal Form 1
 pdb|4DZZ|B Chain B, Structure Of Parf-Adp, Crystal Form 1
 pdb|4E03|A Chain A, Structure Of Parf-Adp Form 2
 pdb|4E03|B Chain B, Structure Of Parf-Adp Form 2
 pdb|4E07|A Chain A, Parf-Amppcp-C2221 Form
 pdb|4E07|B Chain B, Parf-Amppcp-C2221 Form
 pdb|4E09|A Chain A, Structure Of Parf-Amppcp, I422 Form
          Length = 206

 Score = 28.1 bits (61), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 5/100 (5%)

Query: 183 LSYGIAGAIVFRLSLILLGTATLQRFEAVNLVLAGILLFSSFKLFASEEDDTDLSDNFIV 242
           L +  AG++V     +L   A  ++ EA  L+   I + +   +      DT +   F  
Sbjct: 110 LDFSAAGSVV----TVLEAQAYSRKVEARFLITRKIEMATMLNVLKESIKDTGVK-AFRT 164

Query: 243 KTCQRFIPVTTYYDGNRFFTNQDGMRKATPLLLTVAVIEL 282
              QR + V +  DG+  F + DG  K    +LT  ++ +
Sbjct: 165 AITQRQVYVKSILDGDSVFESSDGAAKGEIEILTKEIVRI 204


  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
   0.322    0.136    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,830,856
Number of Sequences: 62578
Number of extensions: 332279
Number of successful extensions: 692
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 690
Number of HSP's gapped (non-prelim): 3
length of query: 345
length of database: 14,973,337
effective HSP length: 100
effective length of query: 245
effective length of database: 8,715,537
effective search space: 2135306565
effective search space used: 2135306565
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)