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= 031904
         (150 letters)

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

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



>pdb|1EAH|2 Chain 2, Pv2l Complexed With Antiviral Agent Sch48973
          Length = 271

 Score = 28.5 bits (62), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)

Query: 72  RIDACGHSLSILQSPSSLGTPGVTGSVMWDSGVVLGKFLEHAVDS 116
            I+ACG+S+ ++Q   +LG   +T     +S V  G++ E+  DS
Sbjct: 3   NIEACGYSVRVMQ--LTLGNSTITTQEAANSVVAYGRWPEYIKDS 45


>pdb|2R0M|A Chain A, The Effect Of A Glu370asp Mutation In Glutaryl-Coa
           Dehydrogenase On Proton Transfer To The Dienolate
           Intermediate
          Length = 394

 Score = 26.9 bits (58), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 105 VLGKFLEHAVDSGMLLLHGKKIVE---LGSGCGLVGPFGC 141
           + GKF   A  +GM+++ G ++ E   L     L GPFGC
Sbjct: 206 IQGKFSLRASATGMIIMDGVEVPEENVLPGASSLGGPFGC 245


>pdb|1SIR|A Chain A, The Crystal Structure And Mechanism Of Human Glutaryl-Coa
           Dehydrogenase
 pdb|2R0N|A Chain A, The Effect Of A Glu370asp Mutation In Glutaryl-Coa
           Dehydrogenase On Proton Transfer To The Dienolate
           Intermediate
          Length = 394

 Score = 26.9 bits (58), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 105 VLGKFLEHAVDSGMLLLHGKKIVE---LGSGCGLVGPFGC 141
           + GKF   A  +GM+++ G ++ E   L     L GPFGC
Sbjct: 206 IQGKFSLRASATGMIIMDGVEVPEENVLPGASSLGGPFGC 245


>pdb|1SIQ|A Chain A, The Crystal Structure And Mechanism Of Human Glutaryl-Coa
           Dehydrogenase
          Length = 392

 Score = 26.9 bits (58), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 105 VLGKFLEHAVDSGMLLLHGKKIVE---LGSGCGLVGPFGC 141
           + GKF   A  +GM+++ G ++ E   L     L GPFGC
Sbjct: 204 IQGKFSLRASATGMIIMDGVEVPEENVLPGASSLGGPFGC 243


>pdb|4AIB|A Chain A, Crystal Structure Of Ornithine Decarboxylase From
           Entamoeba Histolytica.
 pdb|4AIB|B Chain B, Crystal Structure Of Ornithine Decarboxylase From
           Entamoeba Histolytica.
 pdb|4AIB|C Chain C, Crystal Structure Of Ornithine Decarboxylase From
           Entamoeba Histolytica.
 pdb|4AIB|D Chain D, Crystal Structure Of Ornithine Decarboxylase From
           Entamoeba Histolytica
          Length = 395

 Score = 26.6 bits (57), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 12/22 (54%), Positives = 15/22 (68%)

Query: 120 LLHGKKIVELGSGCGLVGPFGC 141
           + +GKK +E  SG GL G FGC
Sbjct: 280 IQNGKKQIEYTSGDGLHGSFGC 301


  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    0.139    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,835,493
Number of Sequences: 62578
Number of extensions: 134379
Number of successful extensions: 338
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 336
Number of HSP's gapped (non-prelim): 8
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
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: 47 (22.7 bits)