BLASTP 2.2.18 [Mar-02-2008]


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= 0004.0088.p
         (143 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogen...   293   3e-81
gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenas...    74   6e-15

>gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score =  293 bits (750), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 141/143 (98%), Positives = 142/143 (99%)

Query: 1   MGKAIYHAGESGSGQTVKVCNNMLLGTLMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRN 60
           MGKAIYHAGESGSGQTVKVCNNMLLG LMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRN
Sbjct: 155 MGKAIYHAGESGSGQTVKVCNNMLLGILMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRN 214

Query: 61  WTLEVYNPCPGVMETAPASKGYAGGFGVDLMLKDLGLAVENALATNCAIPLGSTARNLYD 120
           WTLEVYNPCPGVMETAPASKGYAGGFGVDLMLKDLGLAVENALATNCAIPLG+TARNLYD
Sbjct: 215 WTLEVYNPCPGVMETAPASKGYAGGFGVDLMLKDLGLAVENALATNCAIPLGATARNLYD 274

Query: 121 IHSMNGAGKLDFSSIFNMLGKAQ 143
           IHSMNGAGKLDFSSIFNMLGKAQ
Sbjct: 275 IHSMNGAGKLDFSSIFNMLGKAQ 297


>gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 298

 Score = 73.6 bits (179), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 42/140 (30%), Positives = 74/140 (52%), Gaps = 8/140 (5%)

Query: 1   MGKAIYHAGES-GSGQTVKVCNNMLLGTLMIGTSEAIRLGMANGMDPKVLSEIMSKSSGR 59
           M   +Y  G++ G G  VK+ N +L G  +  ++EA+ LG+  G++P  L E+++ S+G 
Sbjct: 155 MAGKVYRLGDTHGIGSKVKIINQLLAGVHIAASAEAMALGLREGVNPDALYEVITHSAGN 214

Query: 60  NWTLEVYNPCPGVMETAPASKGYAGGFGVDLMLKDLGLAVENALATNCAIPLGSTARNLY 119
           +W  E  N  P ++     S  Y     VD+ +KDLGL ++ A  +   +PL + A  ++
Sbjct: 215 SWMFE--NRVPHIL-----SGDYTPLSAVDIFVKDLGLVLDTARRSKFPLPLSAAAHQMF 267

Query: 120 DIHSMNGAGKLDFSSIFNML 139
            + S  G G  D S++  + 
Sbjct: 268 MMASTAGHGGEDDSAVIKIF 287


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.316    0.133    0.388 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 457,897
Number of extensions: 18230
Number of successful extensions: 61
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 3
Length of query: 143
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 66
Effective length of database: 1,255,275
Effective search space: 82848150
Effective search space used: 82848150
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 126 (53.1 bits)