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= 002781
         (882 letters)

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

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



>pdb|16VP|A Chain A, Conserved Core Of The Herpes Simplex Virus Transcriptional
           Regulatory Protein Vp16
          Length = 366

 Score = 30.4 bits (67), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 1/71 (1%)

Query: 772 SGEQDVSLGSPIARAQDKLQCHAMPVEEKVVRMERNDSDKLKTPFL-GFLKEEGEAPIIV 830
           S  Q   L  P       L    +P+E + +R   +  + L  P +     EE  AP+  
Sbjct: 216 SWRQLAGLFQPFMFVNGALTVRGVPIEARRLRELNHIREHLNLPLVRSAATEEPGAPLTT 275

Query: 831 TPQVHGNNAAA 841
            P +HGN A A
Sbjct: 276 PPTLHGNQARA 286


>pdb|3EEH|A Chain A, The Crystal Structure Of The Domain Of The Putative Light
           And Redox Sensing Histidine Kinase From Haloarcula
           Marismortui
          Length = 125

 Score = 30.0 bits (66), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 5/110 (4%)

Query: 27  ESSVKEAGQADGKEVENHNASLAEVK-DHSEKENGAATNVPNGEADPHVANQTSHEREEK 85
           E  V+E  +A    +    A L+EV   +S  E+    +V     +PH      H  + +
Sbjct: 10  ERRVRELTEATNDILWEFTADLSEVLVINSAYEDIWGRSVAKLRENPHDFLNGIHPEDRE 69

Query: 86  EIEDQPPA----ESPKVEVKSNATEESHESSEMQPNSVSNDSKEHEKLLG 131
            ++D   +    ES  VE + NATEE      +Q   ++ND+ E  ++ G
Sbjct: 70  LMKDTMQSLMDGESADVECRVNATEEYQRWVWIQGEPITNDAGETVRVAG 119


  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
   0.302    0.122    0.331 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,006,223
Number of Sequences: 62578
Number of extensions: 1103602
Number of successful extensions: 1408
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1402
Number of HSP's gapped (non-prelim): 19
length of query: 882
length of database: 14,973,337
effective HSP length: 107
effective length of query: 775
effective length of database: 8,277,491
effective search space: 6415055525
effective search space used: 6415055525
T: 11
A: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 56 (26.2 bits)