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= 0001.3538.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 ...   382   e-107
gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula...    56   3e-09

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

 Score =  382 bits (980), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 196/267 (73%), Positives = 225/267 (84%), Gaps = 3/267 (1%)

Query: 3   APTALIAEDEPLLAQALRQALARCWPELPAPQLAVNGDEALEQALLLLPDVLFLDIKMPG 62
           A +ALIAEDEPLLA+AL+  L RCWPEL  P+LA NG +ALE AL  LPDVLFLDI+MPG
Sbjct: 2   AVSALIAEDEPLLARALQNTLQRCWPELETPRLAANGVQALEMALESLPDVLFLDIRMPG 61

Query: 63  RSGLEVARELAEEWPAQRPFPLIVFVTAYDDYALQAFERAAIDYLLKPVSQERLALTVTR 122
            SGLEVARELAE+WP ++PFPLIVFVTAYD++AL+AFERAAIDYLLKPV++ERL  TV R
Sbjct: 62  HSGLEVARELAEQWPQRQPFPLIVFVTAYDEHALEAFERAAIDYLLKPVNEERLGKTVQR 121

Query: 123 LQSLLAQRAAGEQEAQLERALAQLRTL---STPFTEEAPPRLDYIRAAVGNKVRMIAVDD 179
           L++LLAQRAA  QE  LE+ALAQLR L    +P     P RL+ IRAAVGN+ R+I V++
Sbjct: 122 LRALLAQRAASSQELHLEQALAQLRQLVSADSPVAAAPPARLEVIRAAVGNRTRLIPVEE 181

Query: 180 VLYFEATDKYVNVVTAQGDALIRTSLRELIPQLDGRQFWQIHRSTVVQVRQIQAAVRDES 239
           V+YFEATDKYVNVVTA G ALIRTSLRELIPQLD  QFWQIHR TVVQVR+++AAVRDE+
Sbjct: 182 VIYFEATDKYVNVVTADGQALIRTSLRELIPQLDPGQFWQIHRGTVVQVRKVEAAVRDEA 241

Query: 240 GKLSLTLHGRPEKLAVSRLFAHLFRQM 266
           GKLSL L GRPE+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 = 56.2 bits (134), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 74/157 (47%), Gaps = 14/157 (8%)

Query: 7   LIAEDEPLLAQALRQALARCWPELPAPQLAVNGDEALEQALLLLPDVLFLDIKMPGRSGL 66
           L+ +D  L    +R  L R  P++     AV+G + +++AL L PDV+ +D+ MPG SGL
Sbjct: 6   LLVDDHTLFRSGIRLLLQR-HPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLSGL 64

Query: 67  EVARELAEEWPAQRPFPLIVFVTAYDDYALQAFERAAIDYLLKPVSQERLALTVTRLQSL 126
           E  + + ++ P      L++ V+   D    A    A  YLLK +  + L  ++ R    
Sbjct: 65  EAMQLIVQDLP--ETAVLMLSVSEEADDLTTALHNGARGYLLKNIEADYLVQSIKR---- 118

Query: 127 LAQRAAGE---QEAQLERALAQLRT-LSTPFTEEAPP 159
               AAGE    E+   + + QLR     P    A P
Sbjct: 119 ---AAAGEPVISESMTAKLVMQLRAGAGNPAASAAEP 152


  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    0.135    0.384 

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: 692,590
Number of extensions: 24477
Number of successful extensions: 165
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 184
Number of HSP's successfully gapped: 3
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)