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= 0001.1252.p
         (337 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...   576   e-165

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

 Score =  576 bits (1484), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 283/329 (86%), Positives = 303/329 (92%), Gaps = 1/329 (0%)

Query: 7   APDPSDDATSFATLSPDTVLDALDALGLYGDGRLLALNSYENRVYQVGMEDGPPLVAKFY 66
           APD   DATSFATLSPDTVLDAL A GLYGDGRLLALNSYENRVYQVGME+GPPLVAKFY
Sbjct: 6   APD-QPDATSFATLSPDTVLDALAAQGLYGDGRLLALNSYENRVYQVGMEEGPPLVAKFY 64

Query: 67  RPLRWTDEQILEEHAFSQELADEEVPVVPALRLDNGATLHRHAGFRFAVFRRHGGRAPEL 126
           RPLRWTDEQILEEHAFSQELAD+EVPVVPA+RL+NG TLHRHAGFRFAVFRRHGGRAPEL
Sbjct: 65  RPLRWTDEQILEEHAFSQELADDEVPVVPAMRLENGRTLHRHAGFRFAVFRRHGGRAPEL 124

Query: 127 DDADTLERLGRFIGRIHAVGMRRPFVARPALDIATFGEEPRDWLLAHDFIPAELLNAYRS 186
           DDADTLERLGRFIGRIHAVG+R+PFV RPALD A+FGEEPRDWLLAHDFIP ++  A+R+
Sbjct: 125 DDADTLERLGRFIGRIHAVGLRQPFVHRPALDQASFGEEPRDWLLAHDFIPMDVATAWRT 184

Query: 187 TVDQALDGVRQCYQRAGNSRQLRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPAVQDLWML 246
           TV+QAL GV++CY+RAG  R LRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPAVQDLWML
Sbjct: 185 TVEQALAGVQRCYERAGEIRTLRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPAVQDLWML 244

Query: 247 LSGERAEMARQLGDLLTGYESFCEFDPRELNLLEALRTLRLIHYSAWLARRWNDPAFPVA 306
           LSGER EM  QL DLL GYESFCEF+PREL L+EALRTLRLIHYSAWLARRW+DPAFP A
Sbjct: 245 LSGERREMVGQLADLLAGYESFCEFEPRELYLIEALRTLRLIHYSAWLARRWDDPAFPAA 304

Query: 307 FPWFGSVRYWQDRILELREQVALMQEAPF 335
           FPWF + RYWQDRILELREQ+ALM EAP 
Sbjct: 305 FPWFNTQRYWQDRILELREQIALMDEAPL 333


  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
   0.323    0.140    0.446 

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: 1,071,012
Number of extensions: 47166
Number of successful extensions: 124
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 1
Length of query: 337
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 251
Effective length of database: 1,212,660
Effective search space: 304377660
Effective search space used: 304377660
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 131 (55.1 bits)