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= 033720
         (112 letters)

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

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



>pdb|3TL3|A Chain A, Structure Of A Short-Chain Type DehydrogenaseREDUCTASE
           FROM Mycobacterium Ulcerans
 pdb|3TL3|B Chain B, Structure Of A Short-Chain Type DehydrogenaseREDUCTASE
           FROM Mycobacterium Ulcerans
          Length = 257

 Score = 30.4 bits (67), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 10/58 (17%)

Query: 26  RAKIGKGSRLPNRGKFPDELGVVASYSGQGRIADFGFRNPKWVDGELLQLNGKVGMGP 83
           RA +GK    P+R   PDE G +A +            NP  ++GE+++L+G + M P
Sbjct: 209 RASLGKQVPHPSRLGNPDEYGALAVHI---------IENP-MLNGEVIRLDGAIRMAP 256


>pdb|2G8S|A Chain A, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
 pdb|2G8S|B Chain B, Crystal Structure Of The Soluble Aldose Sugar
           Dehydrogenase (Asd) From Escherichia Coli In The
           Apo-Form
          Length = 353

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)

Query: 30  GKGSRLPNRGKFPDELGVVASYSGQGRIADFGFRNPK------WVDGELLQLNGKVGMGP 83
           GK  RL ++G+ PD+   +     +  I  +G RNP+      W +   L  +G  G G 
Sbjct: 164 GKLVRLTDQGEIPDDNPFIKESGVRAEIWSYGIRNPQGXAXNPWSNALWLNEHGPRG-GD 222

Query: 84  YVKGADLGFLYVVPEQSFLVLFNRLKLPD 112
            +     G  Y  P  ++ + ++  K+P+
Sbjct: 223 EINIPQKGKNYGWPLATWGINYSGFKIPE 251


>pdb|1QU9|A Chain A, 1.2 A Crystal Structure Of Yjgf Gene Product From E.
          Coli
 pdb|1QU9|B Chain B, 1.2 A Crystal Structure Of Yjgf Gene Product From E.
          Coli
 pdb|1QU9|C Chain C, 1.2 A Crystal Structure Of Yjgf Gene Product From E.
          Coli
          Length = 128

 Score = 26.6 bits (57), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 76 NGKVGMGPYVKGADLGFLYVVPEQ 99
          N    +GPYV+G DLG + +   Q
Sbjct: 9  NAPAAIGPYVQGVDLGNMIITSGQ 32


>pdb|1J6O|A Chain A, Crystal Structure Of Tatd-related Deoxyribonuclease
           (tm0667) From Thermotoga Maritima At 1.8 A Resolution
          Length = 268

 Score = 26.6 bits (57), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 18/108 (16%)

Query: 6   YVEAVKLTGDLNVPAGEVTFRAKIGKGSRLPNRGKFPDELGVVASYSGQ----GRIADFG 61
           +VE ++L G LN+P   V  R    +   +      P++ GV+ ++S       +  D G
Sbjct: 122 FVEQIELAGKLNLPLV-VHIRDAYSEAYEILRTESLPEKRGVIHAFSSDYEWAKKFIDLG 180

Query: 62  F--------RNPKWVDGELLQLNGKVGMGPYVKGADLGFLYVVPEQSF 101
           F          PK  +  L ++  +VG+   V   D  FL   P Q F
Sbjct: 181 FLLGIGGPVTYPK--NEALREVVKRVGLEYIVLETDCPFL---PPQPF 223


>pdb|2ODO|A Chain A, Crystal Structure Of Pseudomonas Fluorescens Alanine
           Racemase
 pdb|2ODO|B Chain B, Crystal Structure Of Pseudomonas Fluorescens Alanine
           Racemase
 pdb|2ODO|C Chain C, Crystal Structure Of Pseudomonas Fluorescens Alanine
           Racemase
 pdb|2ODO|D Chain D, Crystal Structure Of Pseudomonas Fluorescens Alanine
           Racemase
          Length = 357

 Score = 25.4 bits (54), Expect = 7.3,   Method: Composition-based stats.
 Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 7/64 (10%)

Query: 18  VPAGEVTFRAKIGKGSRLPNRGKFPDELGVVASYSGQGRIADFGFRNPKWVDGELLQLNG 77
           +PAGE      +G G+R       P  +GVVA     G         P +VDG   QL G
Sbjct: 245 LPAGE-----PVGYGARFITPK--PMRIGVVAMGYADGYPRQAPTGTPVFVDGVRSQLLG 297

Query: 78  KVGM 81
           +V M
Sbjct: 298 RVSM 301


  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    0.145    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,879,451
Number of Sequences: 62578
Number of extensions: 176717
Number of successful extensions: 338
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 332
Number of HSP's gapped (non-prelim): 10
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
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)