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= 0008.0095.p
         (266 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312913|ref|YP_003777005.1| LytR/AlgR family two component ...   379   e-106
gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula...    55   5e-09

>gi|300312913|ref|YP_003777005.1| LytR/AlgR family two component
           response regulator protein [Herbaspirillum seropedicae
           SmR1]
          Length = 268

 Score =  379 bits (973), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 194/267 (72%), Positives = 226/267 (84%), Gaps = 3/267 (1%)

Query: 3   APTALIAEDEPLLANALRQALARCWPDLPAPHLAANGDEALEQALALLPDVLFLDIKMPG 62
           A +ALIAEDEPLLA AL+  L RCWP+L  P LAANG +ALE AL  LPDVLFLDI+MPG
Sbjct: 2   AVSALIAEDEPLLARALQNTLQRCWPELETPRLAANGVQALEMALESLPDVLFLDIRMPG 61

Query: 63  RSGLEVAGELADEWPAGRPFPLIVFVTAYDDYALQAFERAAIDYLLKPVSQDRLAVTVAR 122
            SGLEVA ELA++WP  +PFPLIVFVTAYD++AL+AFERAAIDYLLKPV+++RL  TV R
Sbjct: 62  HSGLEVARELAEQWPQRQPFPLIVFVTAYDEHALEAFERAAIDYLLKPVNEERLGKTVQR 121

Query: 123 LQALLAQRAASDQDSHLERALAQLRAL---SAPAVEDAPPRLDYIRAAVGNKVKLIPVDE 179
           L+ALLAQRAAS Q+ HLE+ALAQLR L    +P     P RL+ IRAAVGN+ +LIPV+E
Sbjct: 122 LRALLAQRAASSQELHLEQALAQLRQLVSADSPVAAAPPARLEVIRAAVGNRTRLIPVEE 181

Query: 180 VIYFEATDKYVNVVSAEGSALIRTSLRELIPQLDGRQFWQIHRGTVVQVRQIQAALREES 239
           VIYFEATDKYVNVV+A+G ALIRTSLRELIPQLD  QFWQIHRGTVVQVR+++AA+R+E+
Sbjct: 182 VIYFEATDKYVNVVTADGQALIRTSLRELIPQLDPGQFWQIHRGTVVQVRKVEAAVRDEA 241

Query: 240 GKLFVTLRDRPEKLAVSRLFAHLFRQM 266
           GKL + LR RPE+LAVSRLFA LFRQM
Sbjct: 242 GKLSLQLRGRPERLAVSRLFAPLFRQM 268


>gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regulator
           transcription regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 219

 Score = 55.5 bits (132), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 37/116 (31%), Positives = 58/116 (50%), Gaps = 3/116 (2%)

Query: 7   LIAEDEPLLANALRQALARCWPDLPAPHLAANGDEALEQALALLPDVLFLDIKMPGRSGL 66
           L+ +D  L  + +R  L R  PD+     A +G + +++AL L PDV+ +D+ MPG SGL
Sbjct: 6   LLVDDHTLFRSGIRLLLQR-HPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLSGL 64

Query: 67  EVAGELADEWPAGRPFPLIVFVTAYDDYALQAFERAAIDYLLKPVSQDRLAVTVAR 122
           E    +  + P      L++ V+   D    A    A  YLLK +  D L  ++ R
Sbjct: 65  EAMQLIVQDLP--ETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKR 118


  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
   0.322    0.136    0.391 

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: 749,802
Number of extensions: 29875
Number of successful extensions: 193
Number of sequences better than 1.0e-08: 6
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 6
Length of query: 266
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 182
Effective length of database: 1,222,130
Effective search space: 222427660
Effective search space used: 222427660
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: 130 (54.7 bits)