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= psy14867
         (224 letters)

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

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



>pdb|1BXK|A Chain A, Dtdp-Glucose 4,6-Dehydratase From E. Coli
 pdb|1BXK|B Chain B, Dtdp-Glucose 4,6-Dehydratase From E. Coli
          Length = 355

 Score = 28.5 bits (62), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 11/64 (17%)

Query: 82  ALVQSVINELKAAVITCVKLCKASTYINNL-------DSNNVVFALVQSVINELKAQLFT 134
           ALV+ +INE   AV+   KL    TY  NL        S    F  V        A++FT
Sbjct: 16  ALVRYIINETSDAVVVVDKL----TYAGNLMSLAPVAQSERFAFEKVDICDRAELARVFT 71

Query: 135 PHKP 138
            H+P
Sbjct: 72  EHQP 75


>pdb|3V7P|A Chain A, Crystal Structure Of Amidohydrolase Nis_0429 (Target
           Efi-500396) From Nitratiruptor Sp. Sb155-2
          Length = 427

 Score = 26.9 bits (58), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 151 DLMIECFVSGF-RIKPHNNEALKVCLNPNSPLIYHFVL 187
           D+M   F+  F + K H NE  K  +  +SP   H++L
Sbjct: 151 DVMYASFLERFHQSKKHENERFKAAVAIHSPYSVHYIL 188


  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
   0.322    0.135    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,351,580
Number of Sequences: 62578
Number of extensions: 234707
Number of successful extensions: 516
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 516
Number of HSP's gapped (non-prelim): 3
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
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: 49 (23.5 bits)