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= 0017.0003.p
         (334 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...   550   e-158

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

 Score =  550 bits (1418), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 266/333 (79%), Positives = 295/333 (88%)

Query: 2   AAMTDSTTVFNFAGLSPDTVLDALDSVGLYGDGRLLALNSYENRVYQVGMEEGPPLVAKF 61
           +A  D     +FA LSPDTVLDAL + GLYGDGRLLALNSYENRVYQVGMEEGPPLVAKF
Sbjct: 4   SAAPDQPDATSFATLSPDTVLDALAAQGLYGDGRLLALNSYENRVYQVGMEEGPPLVAKF 63

Query: 62  YRPQRWSDEAILEEHAFVSELVEQEIPVVPAMLLPNGRSLQEFQGFRFAAFTRHGGRAPE 121
           YRP RW+DE ILEEHAF  EL + E+PVVPAM L NGR+L    GFRFA F RHGGRAPE
Sbjct: 64  YRPLRWTDEQILEEHAFSQELADDEVPVVPAMRLENGRTLHRHAGFRFAVFRRHGGRAPE 123

Query: 122 LDNPDTLEWLGRFIGRIHAVGMQRPFTHRPALNIATFGEEPRDYLLANDFIPMDVLASYK 181
           LD+ DTLE LGRFIGRIHAVG+++PF HRPAL+ A+FGEEPRD+LLA+DFIPMDV  +++
Sbjct: 124 LDDADTLERLGRFIGRIHAVGLRQPFVHRPALDQASFGEEPRDWLLAHDFIPMDVATAWR 183

Query: 182 STVDLALDGVRRCFDRAGDIKQLRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPAIQDLWM 241
           +TV+ AL GV+RC++RAG+I+ LRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPA+QDLWM
Sbjct: 184 TTVEQALAGVQRCYERAGEIRTLRLHGDCHVGNVLWTDAGPHFVDFDDSRSGPAVQDLWM 243

Query: 242 LLSGERGEMVRQLSDLLAGYESFCEFEQRELYLIEALRTLRLIHYSAWLARRWEDPAFPQ 301
           LLSGER EMV QL+DLLAGYESFCEFE RELYLIEALRTLRLIHYSAWLARRW+DPAFP 
Sbjct: 244 LLSGERREMVGQLADLLAGYESFCEFEPRELYLIEALRTLRLIHYSAWLARRWDDPAFPA 303

Query: 302 AFPWFNTQRYWQDRILELREQIALMDEPPLWPL 334
           AFPWFNTQRYWQDRILELREQIALMDE PLWP+
Sbjct: 304 AFPWFNTQRYWQDRILELREQIALMDEAPLWPV 336


  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
   0.324    0.141    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: 1,199,453
Number of extensions: 54389
Number of successful extensions: 132
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 1
Length of query: 334
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 248
Effective length of database: 1,212,660
Effective search space: 300739680
Effective search space used: 300739680
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 131 (55.1 bits)