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= 0012.0106.p
         (419 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313751|ref|YP_003777843.1| nitrate response regulator prot...   629   0.0  

>gi|300313751|ref|YP_003777843.1| nitrate response regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 414

 Score =  629 bits (1622), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/419 (78%), Positives = 361/419 (86%), Gaps = 5/419 (1%)

Query: 1   MSQVLNYLITARRCEAEELQRLARTCQLVLTVGKLIHCLQQERGLSNIYLGSRGERDAQA 60
           MS VL YLITARRCE EELQRL+RTCQ+VLTVG+LIHCLQQERGLSN+YLGS G+RDA A
Sbjct: 1   MSNVLTYLITARRCEVEELQRLSRTCQMVLTVGQLIHCLQQERGLSNLYLGSGGQRDAAA 60

Query: 61  WQERVAASQAAQCEFDTWLGSTVPDNALSNGARLYTRIAFALHALDGLPKLRADVAALAC 120
            Q RVA SQAA  EF  WL S   DNALSNGARLYTRIAFALHAL+GLP+LR +++AL C
Sbjct: 61  RQARVANSQAAAAEFQDWLHSIEQDNALSNGARLYTRIAFALHALEGLPRLREEISALRC 120

Query: 121 TPAASYERFKTVVGALLALVFEAADVAVDPQISRLLVALFNLMQGKEFAGRERAAGAAAF 180
           +P  SYERFKTVVGALLALVFEAADVAVD QISRLLVALFNLMQGKEFAGRERAAGAAAF
Sbjct: 121 SPTESYERFKTVVGALLALVFEAADVAVDAQISRLLVALFNLMQGKEFAGRERAAGAAAF 180

Query: 181 VTGKITREQEQTIETQIEMQEQALRRFESFAEGFRNEWSAMQATLPLADLERLRRKLLTA 240
            TGKITREQEQ+IE QIEMQEQALRRFESFAE  R  W A+QA LPLA+LERLRRKLLT+
Sbjct: 181 ATGKITREQEQSIEYQIEMQEQALRRFESFAEDVRAPWQALQAGLPLAELERLRRKLLTS 240

Query: 241 HGRPLDPELADAWYQCCSTRMDGLHRVEIHLAQYVQSQCQDKIRELQKDLDHQGQFFTQA 300
           H R LD E+ADAWYQCCS R+DGLH++EIHLAQ+VQ++CQ KI ELQ++LD Q Q F+Q 
Sbjct: 241 HERGLDAEMADAWYQCCSARIDGLHQIEIHLAQFVQARCQAKITELQQELDDQDQLFSQQ 300

Query: 301 DDRDPLASLTAFASGLDGQPLPDGSLSAGVGPHLTQSIVDILRTQSERLQNLTQELATVR 360
           D  DPL  L  F++ LD Q L D     GVG HL  SIVD+LR+QSERLQNLT ELATVR
Sbjct: 301 DRLDPLTPLAGFSAPLDEQALAD-----GVGSHLAHSIVDMLRSQSERLQNLTAELATVR 355

Query: 361 ESLEERKLIERAKGVLMMKQGLNEEAAYRLLRKHAMNQNRRIAEVAQAILSLTEILPDA 419
           +SLEERKLIERAKGVLMMKQGLNEEAAYRLLRKHAMNQNRRIAEVAQAILSLTEILP+A
Sbjct: 356 DSLEERKLIERAKGVLMMKQGLNEEAAYRLLRKHAMNQNRRIAEVAQAILSLTEILPEA 414


  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
   0.320    0.132    0.377 

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: 1,156,280
Number of extensions: 45634
Number of successful extensions: 150
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 1
Length of query: 419
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 331
Effective length of database: 1,203,190
Effective search space: 398255890
Effective search space used: 398255890
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: 132 (55.5 bits)