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= psy10166
         (104 letters)

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

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



>pdb|3NVS|A Chain A, 1.02 Angstrom Resolution Crystal Structure Of
           3-Phosphoshikimate 1- Carboxyvinyltransferase From
           Vibrio Cholerae In Complex With Shikimate-3-Phosphate
           (Partially Photolyzed) And Glyphosate
          Length = 450

 Score = 27.3 bits (59), Expect = 2.1,   Method: Composition-based stats.
 Identities = 11/23 (47%), Positives = 16/23 (69%)

Query: 13  IVSMSHELRKLGGRKRKGEDLIV 35
           + +M+ ELRK+G    +GED IV
Sbjct: 370 LAAMATELRKVGATVEEGEDFIV 392


>pdb|1GZ5|A Chain A, Trehalose-6-Phosphate Synthase. Otsa
 pdb|1GZ5|B Chain B, Trehalose-6-Phosphate Synthase. Otsa
 pdb|1GZ5|C Chain C, Trehalose-6-Phosphate Synthase. Otsa
 pdb|1GZ5|D Chain D, Trehalose-6-Phosphate Synthase. Otsa
          Length = 456

 Score = 26.6 bits (57), Expect = 4.0,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 14/21 (66%)

Query: 10  DFHIVSMSHELRKLGGRKRKG 30
           D+H++  +HELRK G   R G
Sbjct: 130 DYHLLPFAHELRKRGVNNRIG 150


>pdb|1UQU|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
 pdb|1UQU|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
 pdb|1UQT|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
           Glucose.
 pdb|1UQT|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
           Glucose
          Length = 482

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 14/21 (66%)

Query: 10  DFHIVSMSHELRKLGGRKRKG 30
           D+H++  +HELRK G   R G
Sbjct: 131 DYHLLPFAHELRKRGVNNRIG 151


>pdb|2WTX|A Chain A, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
           With Retention Through The Synthesis And Analysis Of
           Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
           Synthase
 pdb|2WTX|B Chain B, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
           With Retention Through The Synthesis And Analysis Of
           Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
           Synthase
 pdb|2WTX|C Chain C, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
           With Retention Through The Synthesis And Analysis Of
           Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
           Synthase
 pdb|2WTX|D Chain D, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
           With Retention Through The Synthesis And Analysis Of
           Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
           Synthase
          Length = 474

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 14/21 (66%)

Query: 10  DFHIVSMSHELRKLGGRKRKG 30
           D+H++  +HELRK G   R G
Sbjct: 131 DYHLLPFAHELRKRGVNNRIG 151


>pdb|4APW|A Chain A, Alp12 Filament Structure
 pdb|4APW|B Chain B, Alp12 Filament Structure
 pdb|4APW|C Chain C, Alp12 Filament Structure
 pdb|4APW|D Chain D, Alp12 Filament Structure
 pdb|4APW|E Chain E, Alp12 Filament Structure
 pdb|4APW|F Chain F, Alp12 Filament Structure
 pdb|4APW|G Chain G, Alp12 Filament Structure
 pdb|4APW|H Chain H, Alp12 Filament Structure
 pdb|4APW|I Chain I, Alp12 Filament Structure
 pdb|4APW|J Chain J, Alp12 Filament Structure
 pdb|4APW|K Chain K, Alp12 Filament Structure
 pdb|4APW|L Chain L, Alp12 Filament Structure
 pdb|4APW|M Chain M, Alp12 Filament Structure
 pdb|4APW|N Chain N, Alp12 Filament Structure
 pdb|4APW|O Chain O, Alp12 Filament Structure
 pdb|4APW|P Chain P, Alp12 Filament Structure
          Length = 329

 Score = 25.4 bits (54), Expect = 7.8,   Method: Composition-based stats.
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 23  LGGRKRKGEDLIVKDVDGNSLVSDSQQWLT 52
           +GG  +K ++ I K    NS+++++ QW T
Sbjct: 285 IGGTTQKLKEQISKTYPNNSIITNNSQWTT 314


  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
   0.316    0.130    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,308,015
Number of Sequences: 62578
Number of extensions: 116037
Number of successful extensions: 276
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 267
Number of HSP's gapped (non-prelim): 11
length of query: 104
length of database: 14,973,337
effective HSP length: 69
effective length of query: 35
effective length of database: 10,655,455
effective search space: 372940925
effective search space used: 372940925
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)