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= 0001.4341.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...   651   0.0  

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

 Score =  651 bits (1679), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/419 (81%), Positives = 369/419 (88%), Gaps = 5/419 (1%)

Query: 1   MSNVLNYLITARRCEVEELQRLARTCQLVLTVGKLVHCLQQERGISNLYLGSRGERDAQA 60
           MSNVL YLITARRCEVEELQRL+RTCQ+VLTVG+L+HCLQQERG+SNLYLGS G+RDA A
Sbjct: 1   MSNVLTYLITARRCEVEELQRLSRTCQMVLTVGQLIHCLQQERGLSNLYLGSGGQRDAAA 60

Query: 61  WQARVAASQAAQREFTAWLDSTEHDNALSNGARLYTRIAFALHALDGLPRLRADIAALAC 120
            QARVA SQAA  EF  WL S E DNALSNGARLYTRIAFALHAL+GLPRLR +I+AL C
Sbjct: 61  RQARVANSQAAAAEFQDWLHSIEQDNALSNGARLYTRIAFALHALEGLPRLREEISALRC 120

Query: 121 SPATSYERFKTLVGALLALVFEAADVAVDPQISRLLVALFNLMQGKEFAGRERATGAAAF 180
           SP  SYERFKT+VGALLALVFEAADVAVD QISRLLVALFNLMQGKEFAGRERA GAAAF
Sbjct: 121 SPTESYERFKTVVGALLALVFEAADVAVDAQISRLLVALFNLMQGKEFAGRERAAGAAAF 180

Query: 181 AMGKITREQEQSIEYQIEMQEQALRRFESFAEGFRNEWSAMQATLPLADLERLRRKLLTA 240
           A GKITREQEQSIEYQIEMQEQALRRFESFAE  R  W A+QA LPLA+LERLRRKLLT+
Sbjct: 181 ATGKITREQEQSIEYQIEMQEQALRRFESFAEDVRAPWQALQAGLPLAELERLRRKLLTS 240

Query: 241 HERPLDPQLAETWYQCCSMRIDGLHRVEIHLAQYVQAQCRDKIVELQKELDDQGQLFGQS 300
           HER LD ++A+ WYQCCS RIDGLH++EIHLAQ+VQA+C+ KI ELQ+ELDDQ QLF Q 
Sbjct: 241 HERGLDAEMADAWYQCCSARIDGLHQIEIHLAQFVQARCQAKITELQQELDDQDQLFSQQ 300

Query: 301 EGLDPLAPLTAFSSSLEGQALQDEPMHSGVGPHLTHSIVDILRAQSERLQNLTQELATVR 360
           + LDPL PL  FS+ L+ QAL D     GVG HL HSIVD+LR+QSERLQNLT ELATVR
Sbjct: 301 DRLDPLTPLAGFSAPLDEQALAD-----GVGSHLAHSIVDMLRSQSERLQNLTAELATVR 355

Query: 361 ESLEERKLIERAKGVLMMKQGLNEENAYRLLRKHAMNQNRRIAEVAQAILSLTEILPQA 419
           +SLEERKLIERAKGVLMMKQGLNEE AYRLLRKHAMNQNRRIAEVAQAILSLTEILP+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    0.373 

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: 1,158,041
Number of extensions: 45233
Number of successful extensions: 156
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 155
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)