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= 0222.0004.p
         (245 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 ...   325   3e-90
gi|300311885|ref|YP_003775977.1| LuxR family two component respo...    67   2e-12
gi|300312940|ref|YP_003777032.1| nitrate/nitrite response regula...    65   4e-12
gi|300312077|ref|YP_003776169.1| response regulator containing a...    56   2e-09

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

 Score =  325 bits (832), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 170/264 (64%), Positives = 196/264 (74%), Gaps = 28/264 (10%)

Query: 10  ALIAEDETLLADALSAQLQRLWPGLEIAGIAANGMAAVEQALALQPDVLFLDIKMPGQSG 69
           ALIAEDE LLA AL   LQR WP LE   +AANG+ A+E AL   PDVLFLDI+MPG SG
Sbjct: 5   ALIAEDEPLLARALQNTLQRCWPELETPRLAANGVQALEMALESLPDVLFLDIRMPGHSG 64

Query: 70  LEAARELADEWPDTRPFPLLVFVTAYDEYAIRAFEQAAIDYVLKPANDARLALTVARLQG 129
           LE ARELA++WP  +PFPL+VFVTAYDE+A+ AFE+AAIDY+LKP N+ RL  TV RL+ 
Sbjct: 65  LEVARELAEQWPQRQPFPLIVFVTAYDEHALEAFERAAIDYLLKPVNEERLGKTVQRLRA 124

Query: 130 ----------------------------XPAAIAPQERLRMIRAAVGNQVRLIPVDDVVY 161
                                        P A AP  RL +IRAAVGN+ RLIPV++V+Y
Sbjct: 125 LLAQRAASSQELHLEQALAQLRQLVSADSPVAAAPPARLEVIRAAVGNRTRLIPVEEVIY 184

Query: 162 FEATDKYVNVVTADGEALIRTSLKELIPQLDPERFWQVHRGTVVQIAEVAAAQRDEAGKL 221
           FEATDKYVNVVTADG+ALIRTSL+ELIPQLDP +FWQ+HRGTVVQ+ +V AA RDEAGKL
Sbjct: 185 FEATDKYVNVVTADGQALIRTSLRELIPQLDPGQFWQIHRGTVVQVRKVEAAVRDEAGKL 244

Query: 222 SLKLRKRPETLAVSRLFAHLFRQM 245
           SL+LR RPE LAVSRLFA LFRQM
Sbjct: 245 SLQLRGRPERLAVSRLFAPLFRQM 268


>gi|300311885|ref|YP_003775977.1| LuxR family two component response
           regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 216

 Score = 66.6 bits (161), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/108 (34%), Positives = 60/108 (55%), Gaps = 3/108 (2%)

Query: 8   ARALIAEDETLLADALSAQLQRLWPGLEIAGIAANGMAAVEQALALQPDVLFLDIKMPGQ 67
            R ++A+D  L+   + A L  + PG+E+ G A++G   +E    L+PD++ LDI M G 
Sbjct: 3   TRIMLADDHALVRSGIKALLTAM-PGVEVVGEASDGAEVIEMIPQLKPDLVLLDIAMKGM 61

Query: 68  SGLEAARELADEWPDTRPFPLLVFVTAYDEYAIRAFEQAAIDYVLKPA 115
           +GLEA R L  E+P  R   L ++    +EY ++A    A  Y+ K +
Sbjct: 62  NGLEALRRLRGEYPTIRFLMLSMY--GSEEYVMQALNAGANGYLFKDS 107


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

 Score = 65.5 bits (158), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 46/144 (31%), Positives = 71/144 (49%), Gaps = 6/144 (4%)

Query: 9   RALIAEDETLLADALSAQLQRLWPGLEIAGIAANGMAAVEQALALQPDVLFLDIKMPGQS 68
           R L+ +D TL    +   LQR  P +++ G A +G+  V++AL L+PDV+ +D+ MPG S
Sbjct: 4   RILLVDDHTLFRSGIRLLLQR-HPDIDVVGEAVDGLDGVKRALQLRPDVVLMDLNMPGLS 62

Query: 69  GLEAARELADEWPDTRPFPLLVFVTAYDEYAIRAFEQAAIDYVLKPANDARLALTVARLQ 128
           GLEA + +  + P+T    L V   A D     A    A  Y+LK      L  ++ R  
Sbjct: 63  GLEAMQLIVQDLPETAVLMLSVSEEADD--LTTALHNGARGYLLKNIEADYLVQSIKRAA 120

Query: 129 GXPAAIAPQERLRMI---RAAVGN 149
                I+     +++   RA  GN
Sbjct: 121 AGEPVISESMTAKLVMQLRAGAGN 144


>gi|300312077|ref|YP_003776169.1| response regulator containing a
           CheY-like receiver domain and an HTH DNA-binding
           domain-containing protein [Herbaspirillum seropedicae
           SmR1]
          Length = 217

 Score = 56.2 bits (134), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 64/113 (56%), Gaps = 5/113 (4%)

Query: 9   RALIAEDETLLADALSAQLQRLWPGLEIAGIAANGMAAVEQALALQPDVLFLDIKMPGQS 68
           + LIA+D  ++ + L  Q+      + +AG AANG+ A++ A     DVL LDI +P ++
Sbjct: 10  KVLIADDHAIVREGLR-QICAGSKDIMVAGNAANGLEAIKLAREGNGDVLLLDIVLPDRN 68

Query: 69  GLEAARELADEWPDTRPFPLLVF-VTAYDEYAIRAFEQAAIDYVLKPANDARL 120
           G++  +++  E P+    P+L+  +   D+YAIRA +  A  ++ K A  A L
Sbjct: 69  GIDILKQIRKEQPE---LPVLILSIHREDQYAIRALKAGAAGFLNKQAAPAEL 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
   0.321    0.135    0.386 

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: 754,122
Number of extensions: 31685
Number of successful extensions: 231
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 5
Length of query: 245
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 162
Effective length of database: 1,226,865
Effective search space: 198752130
Effective search space used: 198752130
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: 129 (54.3 bits)