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= 038436
         (353 letters)

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

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



>pdb|1YJY|A Chain A, K226m Mutant Of Serine Hydroxymethyltransferase From B.
           Stearothermophilus, Complex With Serine
 pdb|1YJZ|A Chain A, K226m Mutant Of Serine Hydroxymethyltransferase From B.
           Stearothermophilus
          Length = 419

 Score = 30.8 bits (68), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 21/84 (25%)

Query: 180 AKFNKLLKKVGAYSLVISQTALLIALLVFVLHSMVGIVAAPGL---MVPCLALFQRKLTK 236
           AKF ++  +VGAY            L+V + H + G+VAA GL    VP  A F    T 
Sbjct: 181 AKFREIADEVGAY------------LMVDMAH-IAGLVAA-GLHPNPVP-YAHFVTTTTH 225

Query: 237 LVRRGPKTSLL---QKFAAQLDVA 257
           +  RGP+  ++   ++FA Q+D A
Sbjct: 226 MTLRGPRGGMILCQEQFAKQIDKA 249


  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
   0.325    0.134    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,751,087
Number of Sequences: 62578
Number of extensions: 291318
Number of successful extensions: 1155
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1155
Number of HSP's gapped (non-prelim): 1
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)