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= 048179
         (589 letters)

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

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



>pdb|1MMF|B Chain B, Crystal Structure Of Substrate Free Form Of Glycerol
           Dehydratase
 pdb|1MMF|E Chain E, Crystal Structure Of Substrate Free Form Of Glycerol
           Dehydratase
          Length = 194

 Score = 32.0 bits (71), Expect = 1.0,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 3/58 (5%)

Query: 27  VSARKLFEELPLRGVDTYNSI---IIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTV 81
           +S  +LF + PL  ++TY  I      Y+RKESP  V  + +QM++      ++ F +
Sbjct: 115 LSNLELFSQAPLLTLETYRQIGKNAARYARKESPSPVPVVNDQMVRPKFMAKAALFHI 172


>pdb|1IWP|B Chain B, Glycerol Dehydratase-Cyanocobalamin Complex Of Klebsiella
           Pneumoniae
 pdb|1IWP|E Chain E, Glycerol Dehydratase-Cyanocobalamin Complex Of Klebsiella
           Pneumoniae
          Length = 194

 Score = 32.0 bits (71), Expect = 1.1,   Method: Composition-based stats.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 3/58 (5%)

Query: 27  VSARKLFEELPLRGVDTYNSI---IIAYSRKESPFEVLGLYNQMIKEDVRPDSSTFTV 81
           +S  +LF + PL  ++TY  I      Y+RKESP  V  + +QM++      ++ F +
Sbjct: 115 LSNLELFSQAPLLTLETYRQIGKNAARYARKESPSPVPVVNDQMVRPKFMAKAALFHI 172


>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 30.0 bits (66), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 13/86 (15%)

Query: 23  KNDIVSARKLFEELPLRGVDT----YNSIIIAYSRKESPFEV---------LGLYNQMIK 69
           K D++ A +L++E    GV      YN ++   S  E+  E            ++ QMI 
Sbjct: 39  KGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV 98

Query: 70  EDVRPDSSTFTVALKACVSLMDLKMG 95
           + V P+ +TFT   +  V+  D +M 
Sbjct: 99  DKVVPNEATFTNGARLAVAKDDPEMA 124


  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    0.135    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,887,525
Number of Sequences: 62578
Number of extensions: 673121
Number of successful extensions: 1565
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1564
Number of HSP's gapped (non-prelim): 10
length of query: 589
length of database: 14,973,337
effective HSP length: 104
effective length of query: 485
effective length of database: 8,465,225
effective search space: 4105634125
effective search space used: 4105634125
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)