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= psy4920
         (111 letters)

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

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



>pdb|3C9R|A Chain A, Aathil Complexed With Atp
 pdb|3C9R|B Chain B, Aathil Complexed With Atp
 pdb|3C9S|A Chain A, Aathil Complexed With Amppcp
 pdb|3C9S|B Chain B, Aathil Complexed With Amppcp
 pdb|3C9T|A Chain A, Aathil Complexed With Amppcp And Tmp
 pdb|3C9T|B Chain B, Aathil Complexed With Amppcp And Tmp
 pdb|3C9U|A Chain A, Aathil Complexed With Adp And Tpp
 pdb|3C9U|B Chain B, Aathil Complexed With Adp And Tpp
          Length = 342

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 34  QIIKQDDVTQEGLSGLKSCPPDGLVWRLAICSSHALYSMGGAKSFAHVWFEFVQELRYRW 93
           +++   DV  EG+  L+S  P+ + W+    +   + + GG   +A +     ++L   +
Sbjct: 73  KLLLTTDVLNEGVHFLRSYIPEAVGWKAISVNVSDVIANGGLPKWALISLNLPEDLEVSY 132

Query: 94  ENSLRIPGVKK 104
                I GVK+
Sbjct: 133 VERFYI-GVKR 142


>pdb|1VQV|A Chain A, Crystal Structure Of Thiamine Monophosphate Kinase (Thil)
           From Aquifex Aeolicus
 pdb|1VQV|B Chain B, Crystal Structure Of Thiamine Monophosphate Kinase (Thil)
           From Aquifex Aeolicus
          Length = 306

 Score = 25.4 bits (54), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 34  QIIKQDDVTQEGLSGLKSCPPDGLVWRLAICSSHALYSMGGAKSFAHVWFEFVQELRYRW 93
           +++   DV  EG+  L+S  P+ + W+    +   + + GG   +A +     ++L   +
Sbjct: 37  KLLLTTDVLNEGVHFLRSYIPEAVGWKAISVNVSDVIANGGLPKWALISLNLPEDLEVSY 96

Query: 94  ENSLRIPGVKK 104
                I GVK+
Sbjct: 97  VERFYI-GVKR 106


  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
   0.321    0.135    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,860,191
Number of Sequences: 62578
Number of extensions: 99128
Number of successful extensions: 178
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 2
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
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: 45 (21.9 bits)