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= 026335
         (240 letters)

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

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



>pdb|3BEO|A Chain A, A Structural Basis For The Allosteric Regulation Of Non-
           Hydrolyzing Udp-Glcnac 2-Epimerases
 pdb|3BEO|B Chain B, A Structural Basis For The Allosteric Regulation Of Non-
           Hydrolyzing Udp-Glcnac 2-Epimerases
          Length = 375

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 6/70 (8%)

Query: 77  AFLQELSTF--EIPLLKSKAVIDANLREKENFNELKEEINRQTLQAKADIEDLKKQLEES 134
            F+  L+ F  +IP+      ++A LR  + ++   EE+NRQ     AD+         +
Sbjct: 108 TFIASLAAFYNQIPV----GHVEAGLRTWDKYSPYPEEMNRQLTGVMADLHFSPTAKSAT 163

Query: 135 KIERQHKEEC 144
            +++++K+E 
Sbjct: 164 NLQKENKDES 173


>pdb|3LQ1|A Chain A, Crystal Structure Of
           2-Succinyl-6-Hydroxy-2,4-Cyclohexadiene 1-Carboxylic
           Acid Synthase2-Oxoglutarate Decarboxylase From Listeria
           Monocytogenes Str. 4b F2365
 pdb|3LQ1|B Chain B, Crystal Structure Of
           2-Succinyl-6-Hydroxy-2,4-Cyclohexadiene 1-Carboxylic
           Acid Synthase2-Oxoglutarate Decarboxylase From Listeria
           Monocytogenes Str. 4b F2365
          Length = 578

 Score = 27.3 bits (59), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 26/48 (54%)

Query: 92  SKAVIDANLREKENFNELKEEINRQTLQAKADIEDLKKQLEESKIERQ 139
           + A  DA+  E ++ +EL+E I++ +     DI ++K    E+K   Q
Sbjct: 521 AAAFYDADYHEAKSVDELEEAIDKASYHKGLDIIEVKTNRHENKANHQ 568


>pdb|2GCJ|A Chain A, Crystal Structure Of The Pob3 Middle Domain
 pdb|2GCJ|B Chain B, Crystal Structure Of The Pob3 Middle Domain
 pdb|2GCJ|C Chain C, Crystal Structure Of The Pob3 Middle Domain
 pdb|2GCJ|D Chain D, Crystal Structure Of The Pob3 Middle Domain
          Length = 261

 Score = 26.9 bits (58), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 44  EPPLKKLQKKFTSFVLEIEKDEDN 67
           EPPL+K Q  +   VL+ +KDE+ 
Sbjct: 86  EPPLRKGQTTYPFLVLQFQKDEET 109


  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
   0.310    0.129    0.341 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,178,472
Number of Sequences: 62578
Number of extensions: 226063
Number of successful extensions: 941
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 46
Number of HSP's that attempted gapping in prelim test: 906
Number of HSP's gapped (non-prelim): 77
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 50 (23.9 bits)