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= 0225.0047.p
         (206 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309349|ref|YP_003773441.1| DNA gyrase subunit B [Herbaspir...   303   7e-84
gi|300311161|ref|YP_003775253.1| DNA topoisomerase IV subunit B ...    58   6e-10

>gi|300309349|ref|YP_003773441.1| DNA gyrase subunit B
           [Herbaspirillum seropedicae SmR1]
          Length = 832

 Score =  303 bits (776), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 152/207 (73%), Positives = 169/207 (81%), Gaps = 1/207 (0%)

Query: 1   MRLTRMIDATALSAIMTG-VTLQLNTAAEAEQSAAALKAAINEPGIDVIVRSDELTDKHI 59
           MRLTR ID +AL AIMTG V L+++   +A  +A  LK AIN+  IDV  R DE ++K  
Sbjct: 626 MRLTRAIDESALDAIMTGGVVLKMDNLEQATATAEELKKAINDINIDVQARMDEHSEKVA 685

Query: 60  LRIQRMYHGNIKVTAIDTDFVNGPDYQVLANAAATFRGLIGRGALIRRGTGDKIKESAIS 119
           L I R  HGNIK T ID DFV+GPDYQVL+ AA TF+GLI +GA + RG G+K KES I+
Sbjct: 686 LHIHRRQHGNIKATVIDADFVSGPDYQVLSTAAETFKGLIRKGATVARGQGEKRKESVIT 745

Query: 120 DFHQAMAWLRDEAERGVSKQRYKGLGEMNPEQLWETTMDPTVRRLLKVQIEDAIAADQIF 179
           DF QAMAWLRDEAERGV+KQRYKGLGEMNPEQLWETTMDPTVRRLLKVQIEDAIAADQIF
Sbjct: 746 DFRQAMAWLRDEAERGVNKQRYKGLGEMNPEQLWETTMDPTVRRLLKVQIEDAIAADQIF 805

Query: 180 MTLMGDDVEPRRAFIELNALQAGNIDV 206
           MTLMGDDVEPRRAFIE NALQAGNIDV
Sbjct: 806 MTLMGDDVEPRRAFIESNALQAGNIDV 832


>gi|300311161|ref|YP_003775253.1| DNA topoisomerase IV subunit B
           [Herbaspirillum seropedicae SmR1]
          Length = 662

 Score = 57.8 bits (138), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 32/68 (47%), Positives = 43/68 (63%), Gaps = 3/68 (4%)

Query: 137 SKQRYKGLGEMNPEQLWETTMDPTVRRLLKVQIED--AIAADQIFMTLMGD-DVEPRRAF 193
           S  R+KGLGEMN EQLWETTM+P  RRLL +   +     +++ F  LMG  +   RRA+
Sbjct: 591 SISRFKGLGEMNAEQLWETTMNPDTRRLLPISFGEPGVQTSEERFNMLMGKGEAASRRAW 650

Query: 194 IELNALQA 201
           IE +  +A
Sbjct: 651 IEEHGNEA 658


  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
   0.319    0.134    0.373 

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: 502,556
Number of extensions: 15972
Number of successful extensions: 67
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 66
Number of HSP's successfully gapped: 2
Length of query: 206
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 125
Effective length of database: 1,236,335
Effective search space: 154541875
Effective search space used: 154541875
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 (21.8 bits)
S2: 128 (53.9 bits)