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= 024970
         (260 letters)

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

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



>pdb|1DIO|A Chain A, Diol Dehydratase-Cyanocobalamin Complex From Klebsiella
           Oxytoca
 pdb|1DIO|L Chain L, Diol Dehydratase-Cyanocobalamin Complex From Klebsiella
           Oxytoca
 pdb|1EGM|A Chain A, Crystal Structure Of Diol Dehydratase-Cyanocobalamin
           Complex At 100k.
 pdb|1EGM|L Chain L, Crystal Structure Of Diol Dehydratase-Cyanocobalamin
           Complex At 100k.
 pdb|1EEX|A Chain A, Crystal Structure Of The Diol Dehydratase-
           Adeninylpentylcobalamin Complex From Klebsiella Oxytoca
 pdb|1EEX|L Chain L, Crystal Structure Of The Diol Dehydratase-
           Adeninylpentylcobalamin Complex From Klebsiella Oxytoca
 pdb|1EGV|A Chain A, Crystal Structure Of The Diol Dehydratase-
           Adeninylpentylcobalamin Complex From Klebsella Oxytoca
           Under The Illuminated Condition.
 pdb|1EGV|L Chain L, Crystal Structure Of The Diol Dehydratase-
           Adeninylpentylcobalamin Complex From Klebsella Oxytoca
           Under The Illuminated Condition.
 pdb|1IWB|A Chain A, Crystal Structure Of Diol Dehydratase
 pdb|1IWB|L Chain L, Crystal Structure Of Diol Dehydratase
 pdb|1UC4|A Chain A, Structure Of Diol Dehydratase Complexed With (S)-1,2-
           Propanediol
 pdb|1UC4|L Chain L, Structure Of Diol Dehydratase Complexed With (S)-1,2-
           Propanediol
 pdb|1UC5|A Chain A, Structure Of Diol Dehydratase Complexed With (r)-1,2-
           Propanediol
 pdb|1UC5|L Chain L, Structure Of Diol Dehydratase Complexed With (r)-1,2-
           Propanediol
 pdb|3AUJ|A Chain A, Structure Of Diol Dehydratase Complexed With Glycerol
 pdb|3AUJ|L Chain L, Structure Of Diol Dehydratase Complexed With Glycerol
          Length = 554

 Score = 30.0 bits (66), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 11/84 (13%)

Query: 169 FILIFHYIPQYGQTHIMVYIGVCSLVGSLSVMSVKAIGIALKLTLSGMNQ-LIYPQTWAF 227
           F LI H+I +YG           +L  +  VM++ ++ +A  L    + +  I P T A 
Sbjct: 59  FDLIDHFIARYG----------INLNRAEEVMAMDSVKLANMLCDPNVKRSEIVPLTTAM 108

Query: 228 TLIVIVCVLTQMNYLNMVMPISSL 251
           T   IV V++ MN + M+M +  +
Sbjct: 109 TPAKIVEVVSHMNVVEMMMAMQKM 132


>pdb|4F11|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
           Gaba(B) Receptor Gbr2
 pdb|4F12|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
           Gaba(B) Receptor Gbr2
          Length = 433

 Score = 30.0 bits (66), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)

Query: 154 EPAFL---LYAALVITAVFILIFHYIPQYGQTHIMVYIGVCSLVGSLSVMSVKA 204
            P FL   LY      A  +  F+   +YG  H+MV+ GVC  V S+   S++ 
Sbjct: 54  RPYFLDLRLYDTECDNAKGLKAFYDAIKYGPNHLMVFGGVCPSVTSIIAESLQG 107


>pdb|2WBR|A Chain A, The Rrm Domain In Gw182 Proteins Contributes To Mirna-
           Mediated Gene Silencing
          Length = 89

 Score = 28.5 bits (62), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 18/23 (78%)

Query: 125 CVVGSTTIVLHAPAEREIESVIE 147
           CV+ +TTI   +P+E E++S+++
Sbjct: 66  CVLANTTIFAESPSENEVQSIMQ 88


>pdb|3FDH|A Chain A, Crystal Structure Of A SusdRAGB FAMILY PROTEIN (BT_2033)
           FROM Bacteroides Thetaiotaomicron Vpi-5482 At 1.75 A
           Resolution
          Length = 499

 Score = 28.1 bits (61), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 1/20 (5%)

Query: 50  VRAGFGGYSYLY-EPLWWVG 68
           V+A +G   Y+Y EP+WW G
Sbjct: 477 VKAAYGNGDYVYSEPVWWAG 496


  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
   0.329    0.143    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,673,030
Number of Sequences: 62578
Number of extensions: 159124
Number of successful extensions: 267
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 265
Number of HSP's gapped (non-prelim): 5
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.9 bits)