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= psy12373
         (198 letters)

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

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



>pdb|1RI7|A Chain A, Crystal Structure Of A Protein In The LrpASNC FAMILY FROM
           THE Hyperthermophilic Archaeon Pyrococcus Sp. Ot3
 pdb|2E1C|A Chain A, Structure Of Putative Hth-Type Transcriptional Regulator
           Ph1519DNA Complex
 pdb|2ZNY|A Chain A, Crystal Structure Of The Ffrp
 pdb|2ZNY|B Chain B, Crystal Structure Of The Ffrp
 pdb|2ZNY|C Chain C, Crystal Structure Of The Ffrp
 pdb|2ZNY|D Chain D, Crystal Structure Of The Ffrp
 pdb|2ZNY|E Chain E, Crystal Structure Of The Ffrp
 pdb|2ZNY|F Chain F, Crystal Structure Of The Ffrp
 pdb|2ZNY|G Chain G, Crystal Structure Of The Ffrp
 pdb|2ZNY|H Chain H, Crystal Structure Of The Ffrp
 pdb|2ZNZ|A Chain A, Crystal Structure Of Ffrp
 pdb|2ZNZ|B Chain B, Crystal Structure Of Ffrp
 pdb|2ZNZ|C Chain C, Crystal Structure Of Ffrp
 pdb|2ZNZ|D Chain D, Crystal Structure Of Ffrp
 pdb|2ZNZ|E Chain E, Crystal Structure Of Ffrp
 pdb|2ZNZ|F Chain F, Crystal Structure Of Ffrp
 pdb|2ZNZ|G Chain G, Crystal Structure Of Ffrp
 pdb|2ZNZ|H Chain H, Crystal Structure Of Ffrp
          Length = 171

 Score = 31.6 bits (70), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 53  QYAKAKEAMGSYRESVGAYERAEDYDNVVRVDLDHLNDIRHAVDIVKAKKCTEGA 107
           +Y++    +  Y E V  YE   DYD VV++   +  ++ + +D++ +    EG 
Sbjct: 99  KYSEVASNLAKYPEIVEVYETTGDYDMVVKIRTKNSEELNNFLDLIGSIPGVEGT 153


>pdb|2CYY|A Chain A, Crystal Structure Of Ph1519 From Pyrococcus Horikosii Ot3
          Length = 151

 Score = 31.6 bits (70), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 14/55 (25%), Positives = 28/55 (50%)

Query: 53  QYAKAKEAMGSYRESVGAYERAEDYDNVVRVDLDHLNDIRHAVDIVKAKKCTEGA 107
           +Y++    +  Y E V  YE   DYD VV++   +  ++ + +D++ +    EG 
Sbjct: 79  KYSEVASNLAKYPEIVEVYETTGDYDXVVKIRTKNSEELNNFLDLIGSIPGVEGT 133


>pdb|3MCZ|A Chain A, The Structure Of An O-Methyltransferase Family Protein
           From Burkholderia Thailandensis.
 pdb|3MCZ|B Chain B, The Structure Of An O-Methyltransferase Family Protein
           From Burkholderia Thailandensis
          Length = 352

 Score = 26.9 bits (58), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 19/97 (19%)

Query: 29  YIQLKNWTKIGQLLPHIKSATTFIQYAKAKEAMGSYRESVGAYE-RAEDYDNVVRVDLDH 87
           Y+Q  NW ++G++L             ++++ +   +ES  A++ RA D  N   V L  
Sbjct: 119 YLQWDNWPRLGEIL-------------RSEKPLAFQQESRFAHDTRARDAFNDAXVRLS- 164

Query: 88  LNDIRHAVDIVKAKKCTEGAKRIADYCNKHGDFGAAI 124
               +  VD+V        A+ + D    HG + A +
Sbjct: 165 ----QPXVDVVSELGVFARARTVIDLAGGHGTYLAQV 197


  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    0.134    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,038,507
Number of Sequences: 62578
Number of extensions: 235476
Number of successful extensions: 548
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 540
Number of HSP's gapped (non-prelim): 16
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
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: 49 (23.5 bits)