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= 0031.0032.p
         (341 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313654|ref|YP_003777746.1| transcription regulator protein...   355   4e-99
gi|300310565|ref|YP_003774657.1| response regulator containing a...    66   3e-12
gi|300313980|ref|YP_003778072.1| two component response regulato...    60   4e-10

>gi|300313654|ref|YP_003777746.1| transcription regulator protein
           [Herbaspirillum seropedicae SmR1]
          Length = 485

 Score =  355 bits (910), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 229/335 (68%), Positives = 260/335 (77%), Gaps = 4/335 (1%)

Query: 8   QRLQGAAVPAVVYYTSLAGDLEIHARSHDIPFALEAVQRNGGIKYPAELVSRVLPQAADW 67
           ++L   A+P VVY TSLAGDLEI +R+H +  A + + + GG+KYP  +    +  A   
Sbjct: 154 RQLTHEAIPPVVYLTSLAGDLEILSRTHPVAAACQMILQLGGVKYPNAMAQLAVAHAPAL 213

Query: 68  LAALDEEADGAAIPVDLPMHAVPLSIVADLIELKLPWLTGYSRRVSELVQRAAVLAGLPV 127
           LAAL++  D   I  DLP H V LSIVA+LIELKLPWLTGYSRRV+EL  RAA LAGL  
Sbjct: 214 LAALEQGGD---IDADLPAHPVALSIVAELIELKLPWLTGYSRRVAELAVRAAALAGLDP 270

Query: 128 EQQERLARAALIHGIGRASVSNTIWEREGRPGQADWERIRLAPYWTARAGALIPGLHHEA 187
           EQ +RL RAAL+HGIGRASVSNTIWER GRP  ADWERIRLAPYWTARAGALIP L  EA
Sbjct: 271 EQGQRLERAALLHGIGRASVSNTIWERPGRPSAADWERIRLAPYWTARAGALIPALRDEA 330

Query: 188 ALASQLYERLDGSGYFRGLDADMLGLPARLLAAASVQAALCARRPWREAYAPQAAGEVLQ 247
            LAS+LYERLDGSGYFR LD D L +PARLLAAA+  AALCA RPWR A +   A + LQ
Sbjct: 331 ELASRLYERLDGSGYFRNLDRDSLAMPARLLAAAAALAALCAPRPWRGAMSEPDACQQLQ 390

Query: 248 EQARLGRVDPEAVRWVLAAAAGEGVPLP-VRKGLLSEREVEVLRRISLGESNKEAARTMQ 306
             A+ G  DP+AV+WV+AAAAG+G  +P + + LLSERE EVLRRISLGESNKEAAR MQ
Sbjct: 391 ADAQAGLFDPQAVQWVVAAAAGQGGAMPSLPRRLLSEREAEVLRRISLGESNKEAARAMQ 450

Query: 307 ISPSTVRTHVESIFRKLQCSTRAAATLKGLHLGLI 341
           ISPSTVRTHVESIFRKLQCSTRAAATLKGL LGLI
Sbjct: 451 ISPSTVRTHVESIFRKLQCSTRAAATLKGLSLGLI 485


>gi|300310565|ref|YP_003774657.1| response regulator containing a
           CheY-like receiver domain and an HD-GYP domain
           [Herbaspirillum seropedicae SmR1]
          Length = 348

 Score = 66.2 bits (160), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 81/161 (50%), Gaps = 11/161 (6%)

Query: 111 RVSELVQRAAVLAGLPVEQQERLARAALIHGIGRASVSNTIWEREGRPGQADWERIRLAP 170
           R++   +  A   GL  +QQE L  AA +H IG+  + + I  + GR  + + + +R+  
Sbjct: 177 RMANYARIIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMH- 235

Query: 171 YWTARAGALI------PGLHHEAALASQLYERLDGSGYFRGLDADMLGLPARLLAAASVQ 224
              AR GA I      P L   + +A   +E+ DGSGY  GL  + + L  R++A A V 
Sbjct: 236 ---ARIGADILVASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVF 292

Query: 225 AALCARRPWREAYAPQAAGEVLQEQARLGRVDPEAVRWVLA 265
            AL + RP++  ++ + A + L+EQ+     DP  V    A
Sbjct: 293 DALTSSRPYKPGWSLERASQYLREQSG-AHFDPRCVEAFFA 332


>gi|300313980|ref|YP_003778072.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 199

 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 72/148 (48%), Gaps = 4/148 (2%)

Query: 107 GYSRRVSELVQRAAVLAG----LPVEQQERLARAALIHGIGRASVSNTIWEREGRPGQAD 162
           GY+    +     AV+ G    L  E+ + L  A+ +H IG+A +   +  + GR    +
Sbjct: 26  GYTPNHEDQTAELAVMIGRHLDLATERIDALHMASQVHDIGKARIPLALLTKPGRISVEE 85

Query: 163 WERIRLAPYWTARAGALIPGLHHEAALASQLYERLDGSGYFRGLDADMLGLPARLLAAAS 222
           ++ ++    +       I    + A +    +E LDGSGY RG+  D + L AR+L  A 
Sbjct: 86  YDVLKTHVQFGYEILNKISFPFNLAEIVHCHHEYLDGSGYPRGISGDEIPLEARILTVAD 145

Query: 223 VQAALCARRPWREAYAPQAAGEVLQEQA 250
           +  ++ A RP+R++    AA + +Q Q+
Sbjct: 146 IVESMSADRPYRKSLGMSAALDEIQRQS 173


  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    0.133    0.393 

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: 974,041
Number of extensions: 38819
Number of successful extensions: 190
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 190
Number of HSP's successfully gapped: 4
Length of query: 341
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 255
Effective length of database: 1,212,660
Effective search space: 309228300
Effective search space used: 309228300
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 (21.8 bits)
S2: 131 (55.1 bits)