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= 036568
         (168 letters)

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

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



>pdb|1VKY|A Chain A, Crystal Structure Of S-Adenosylmethionine Trna
           Ribosyltransferase (Tm0574) From Thermotoga Maritima At
           2.00 A Resolution
 pdb|1VKY|B Chain B, Crystal Structure Of S-Adenosylmethionine Trna
           Ribosyltransferase (Tm0574) From Thermotoga Maritima At
           2.00 A Resolution
          Length = 347

 Score = 30.0 bits (66), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 29/128 (22%), Positives = 47/128 (36%), Gaps = 30/128 (23%)

Query: 13  KAVVRDAAGIKRVELLVSKENSTAFNINRKLLRYSAAAADGNRIGTACSKDDIVIYQGST 72
           K +VR    +K+   LV  E+ +A  + R          DG RI     +DD +I++   
Sbjct: 104 KCLVRPGQKVKKGTELVIDEDLSAVCLGR--------GEDGTRILKFQPQDDRLIFEKGR 155

Query: 73  APLP----NGIP----------------ACTVQILNTCTCVSESESGGCSICNI--HVNC 110
            PLP    N +P                A T  +  T   + + +  G     +  HV  
Sbjct: 156 TPLPPYIKNEVPLERYQTVYAKEEGSVAAPTAGLHFTPELIEKLKKKGVQFAEVVLHVGI 215

Query: 111 GWFSSARL 118
           G F   ++
Sbjct: 216 GTFRPVKV 223


  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    0.134    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,740,833
Number of Sequences: 62578
Number of extensions: 176594
Number of successful extensions: 307
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 304
Number of HSP's gapped (non-prelim): 5
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)