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= 0034.0123.p
         (247 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310768|ref|YP_003774860.1| homoserine kinase type II prote...   416   e-118

>gi|300310768|ref|YP_003774860.1| homoserine kinase type II protein
           [Herbaspirillum seropedicae SmR1]
          Length = 336

 Score =  416 bits (1069), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 207/235 (88%), Positives = 215/235 (91%), Gaps = 1/235 (0%)

Query: 1   MNSPAQSADLPDATSFATLSPDTVLDALDGLGLYGDGRLLALNSYENRVYQVGMEDGPPL 60
           MN  A + D PDATSFATLSPDTVLDAL   GLYGDGRLLALNSYENRVYQVGME+GPPL
Sbjct: 1   MNQSA-APDQPDATSFATLSPDTVLDALAAQGLYGDGRLLALNSYENRVYQVGMEEGPPL 59

Query: 61  VAKFYRPLRWSDEQILEEHAFSQELADEEVPVVPAMRLDNGATLHRHAGFRFAVFRRHGG 120
           VAKFYRPLRW+DEQILEEHAFSQELAD+EVPVVPAMRL+NG TLHRHAGFRFAVFRRHGG
Sbjct: 60  VAKFYRPLRWTDEQILEEHAFSQELADDEVPVVPAMRLENGRTLHRHAGFRFAVFRRHGG 119

Query: 121 RAPELDDADTLERLGRFIGRIHAVGLRSPFQSRPALDIASFGEEPRDWLLAHDFIPMDVA 180
           RAPELDDADTLERLGRFIGRIHAVGLR PF  RPALD ASFGEEPRDWLLAHDFIPMDVA
Sbjct: 120 RAPELDDADTLERLGRFIGRIHAVGLRQPFVHRPALDQASFGEEPRDWLLAHDFIPMDVA 179

Query: 181 TAWRTTVEQALDGVRRCYERAGEIRTLRLHGDCHVGNVLWTDAGPXKVSANSSHA 235
           TAWRTTVEQAL GV+RCYERAGEIRTLRLHGDCHVGNVLWTDAGP  V  + S +
Sbjct: 180 TAWRTTVEQALAGVQRCYERAGEIRTLRLHGDCHVGNVLWTDAGPHFVDFDDSRS 234


  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
   0.321    0.137    0.428 

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: 811,867
Number of extensions: 34447
Number of successful extensions: 86
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 86
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 164
Effective length of database: 1,226,865
Effective search space: 201205860
Effective search space used: 201205860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 129 (54.3 bits)