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= 039244
         (518 letters)

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

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



>pdb|2AJT|A Chain A, Crystal Structure Of L-Arabinose Isomerase From E.Coli
 pdb|2AJT|B Chain B, Crystal Structure Of L-Arabinose Isomerase From E.Coli
 pdb|2AJT|C Chain C, Crystal Structure Of L-Arabinose Isomerase From E.Coli
 pdb|2HXG|A Chain A, Crystal Structure Of Mn2+ Bound Ecai
 pdb|2HXG|B Chain B, Crystal Structure Of Mn2+ Bound Ecai
 pdb|2HXG|C Chain C, Crystal Structure Of Mn2+ Bound Ecai
          Length = 500

 Score = 32.7 bits (73), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 28/112 (25%), Positives = 39/112 (34%), Gaps = 28/112 (25%)

Query: 126 MKSAEEFVEDYVYHLSKTRIDKSQPLWDLHLLNVKTSSESEAVGIFRIHH---------- 175
           ++    F+EDY YH  K     +  +   H+L V  S   E   I  + H          
Sbjct: 325 LQGGTSFMEDYTYHFEK----GNDLVLGSHMLEVCPSIAVEEKPILDVQHLGIGGKDDPA 380

Query: 176 --------------SLGDGTSLMSLLLACTRQINDPEALPTIPVKNKNKKQQ 213
                         SL D      LL+ C   +  P +LP +PV N   K Q
Sbjct: 381 RLIFNTQTGPAIVASLIDLGDRYRLLVNCIDTVKTPHSLPKLPVANALWKAQ 432


>pdb|4F2D|A Chain A, Crystal Structure Of Escherichia Coli L-Arabinose
           Isomerase (Ecai) Complexed With Ribitol
 pdb|4F2D|B Chain B, Crystal Structure Of Escherichia Coli L-Arabinose
           Isomerase (Ecai) Complexed With Ribitol
 pdb|4F2D|C Chain C, Crystal Structure Of Escherichia Coli L-Arabinose
           Isomerase (Ecai) Complexed With Ribitol
          Length = 500

 Score = 30.8 bits (68), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 27/109 (24%), Positives = 40/109 (36%), Gaps = 22/109 (20%)

Query: 126 MKSAEEFVEDYVYHLSKTR---------------IDKSQPLWDLHLLNVKTSSESEAVGI 170
           ++    F EDY YH  K                   + +P+ D+  L +    +   + I
Sbjct: 325 LQGGTSFXEDYTYHFEKGNDLVLGSHXLEVCPSIAVEEKPILDVQHLGIGGKDDPARL-I 383

Query: 171 FR------IHHSLGDGTSLMSLLLACTRQINDPEALPTIPVKNKNKKQQ 213
           F       I  SL D      LL+ C   +  P +LP +PV N   K Q
Sbjct: 384 FNTQTGPAIVASLIDLGDRYRLLVNCIDTVKTPHSLPKLPVANALWKAQ 432


  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    0.134    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,607,593
Number of Sequences: 62578
Number of extensions: 573352
Number of successful extensions: 1166
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: 1164
Number of HSP's gapped (non-prelim): 3
length of query: 518
length of database: 14,973,337
effective HSP length: 103
effective length of query: 415
effective length of database: 8,527,803
effective search space: 3539038245
effective search space used: 3539038245
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: 54 (25.4 bits)