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= psy477
         (60 letters)

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

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



>pdb|3Q87|B Chain B, Structure Of Eukaryotic Translation Termination Complex
           Methyltransferase Mtq2-Trm112
          Length = 170

 Score = 38.5 bits (88), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 17/48 (35%), Positives = 32/48 (66%)

Query: 8   GILYLLVIKENDPEDIIHCLSQYGFMGKTLLTRQVPGEKLSVLKFTRS 55
           G+LYLLVI+ N P++++  L + G+  + L  R++ GE + ++K  +S
Sbjct: 117 GMLYLLVIEANRPKEVLARLEERGYGTRILKVRKILGETVYIIKGEKS 164


>pdb|3II1|A Chain A, Structural Characterization Of Difunctional Glucanase-
           Xylanse Celm2
          Length = 535

 Score = 25.8 bits (55), Expect = 6.2,   Method: Composition-based stats.
 Identities = 14/37 (37%), Positives = 20/37 (54%)

Query: 1   MDSLSDKGILYLLVIKENDPEDIIHCLSQYGFMGKTL 37
           MD + DK + Y   IK  DP  +I    ++G+ G TL
Sbjct: 224 MDEIRDKMLDYGAKIKTVDPSALIVGPEEWGWSGYTL 260


>pdb|3FW6|A Chain A, Crystal Structure Of Celm2, A Bifunctional Glucanase-
           Xylanase Protein From A Metagenome Library
          Length = 534

 Score = 25.8 bits (55), Expect = 6.2,   Method: Composition-based stats.
 Identities = 14/37 (37%), Positives = 20/37 (54%)

Query: 1   MDSLSDKGILYLLVIKENDPEDIIHCLSQYGFMGKTL 37
           MD + DK + Y   IK  DP  +I    ++G+ G TL
Sbjct: 224 MDEIRDKMLDYGAKIKTVDPSALIVGPEEWGWSGYTL 260


  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
   0.320    0.139    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,728,994
Number of Sequences: 62578
Number of extensions: 52457
Number of successful extensions: 117
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 114
Number of HSP's gapped (non-prelim): 3
length of query: 60
length of database: 14,973,337
effective HSP length: 31
effective length of query: 29
effective length of database: 13,033,419
effective search space: 377969151
effective search space used: 377969151
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: 45 (21.9 bits)