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= 004425
         (754 letters)

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

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



>pdb|3AIA|A Chain A, Crystal Structure Of Duf358 Reveals A Putative Spout-Class
           Methltransferase
 pdb|3AIA|B Chain B, Crystal Structure Of Duf358 Reveals A Putative Spout-Class
           Methltransferase
          Length = 211

 Score = 30.0 bits (66), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 26/113 (23%), Positives = 45/113 (39%), Gaps = 13/113 (11%)

Query: 227 CVNFMILEYNKAGESEMAFHVFVHLLSSDFEP------NDYTFTN----VISVCYENL-- 274
           C+ F+  E  K    E    +F+      FE        D+  +     V  + + NL  
Sbjct: 71  CIKFVGSELKKVSPDERNIAIFIKKALKKFEELDEEQRKDWNQSTPGIYVRRLGFRNLVL 130

Query: 275 -GVEEGKQLHGLAVKFGVVREISVGNAIVTMYGKHGMSEEAERMFDAISERNL 326
             +EEGK ++ L +    V  + + N +  +    G+ EE ER  D I  + +
Sbjct: 131 EKLEEGKNIYYLHMNGEDVENVDIENPVFIIGDHIGIGEEDERFLDEIKAKRI 183


  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    0.137    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,528,982
Number of Sequences: 62578
Number of extensions: 877652
Number of successful extensions: 2282
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: 2282
Number of HSP's gapped (non-prelim): 2
length of query: 754
length of database: 14,973,337
effective HSP length: 106
effective length of query: 648
effective length of database: 8,340,069
effective search space: 5404364712
effective search space used: 5404364712
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: 55 (25.8 bits)