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= 0019.0178.p
         (137 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313044|ref|YP_003777136.1| two component response regulato...   187   4e-49
gi|300312802|ref|YP_003776894.1| two component response regulato...    89   2e-19
gi|300310245|ref|YP_003774337.1| receiver domain-containing prot...    71   3e-14
gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas...    68   3e-13
gi|300310698|ref|YP_003774790.1| AraC family two-component hybri...    62   1e-11

>gi|300313044|ref|YP_003777136.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 122

 Score =  187 bits (474), Expect = 4e-49,   Method: Compositional matrix adjust.
 Identities = 92/119 (77%), Positives = 103/119 (86%)

Query: 6   SKAPTVMVVEDHPESREMLCGILQQGGLQVVAAADGVDAIAQMQEQAPSLVLTDLRMPRM 65
           SK  TV+VVEDHP+SR++LC IL   GL V+AA+DGV+AIA MQ QAPSLVLTDLRMPRM
Sbjct: 4   SKQKTVLVVEDHPDSRDLLCEILAHKGLSVMAASDGVEAIALMQSQAPSLVLTDLRMPRM 63

Query: 66  DGMELARYIKSHERFSPIPVVLISAHLPAASARIPTIAAFLLKPCSVDHLLGTVTGLLR 124
           DGMELARYIKS ERF  IPV LISA+LPAA+AR+P I+AFLLKPCSVDHLL TVT LLR
Sbjct: 64  DGMELARYIKSDERFGHIPVALISANLPAANARVPEISAFLLKPCSVDHLLTTVTQLLR 122


>gi|300312802|ref|YP_003776894.1| two component response regulator
           protein [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score = 88.6 bits (218), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 53/122 (43%), Positives = 77/122 (63%), Gaps = 5/122 (4%)

Query: 6   SKAPTVMVVEDHPESREMLCGILQQGGLQVVAAADGVDAIAQMQEQAPSL--VLTDLRMP 63
           S   TV+VVED+ E R +   +L+  G +V+ AA+G  A++ + ++   +  +LTDLRMP
Sbjct: 5   SGTSTVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTDLRMP 64

Query: 64  RMDGMELARYIKSHERFSPIPVVLISAHLPAAS--ARIPTIAAFLLKPCSVDHLLGTVTG 121
            MDG+ELA  +K+ ERFS IP+VL+SA     S  AR    AA L KPC ++ LL T+  
Sbjct: 65  LMDGLELAETLKADERFSAIPLVLLSATPMTNSWHAR-KNFAALLTKPCPLNLLLSTIEA 123

Query: 122 LL 123
           +L
Sbjct: 124 VL 125


>gi|300310245|ref|YP_003774337.1| receiver domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score = 71.2 bits (173), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/114 (39%), Positives = 66/114 (57%), Gaps = 7/114 (6%)

Query: 11  VMVVEDHPESREMLCGILQQGGLQVVAAADGVDAIAQMQEQAP---SLVLTDLRMPRMDG 67
           ++++ED+   RE+   +    G +V  A +G + + ++   +P   S+VLTDLRMP MDG
Sbjct: 10  ILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGL-EILLSSPGRVSVVLTDLRMPVMDG 68

Query: 68  MELARYIKSHERFSPIPVVLISAHLPAAS--ARIPTIAAFLLKPCSVDHLLGTV 119
           +  A  +K   RF+ +PVVL+SA   A S  AR    AA L+KPC    LL TV
Sbjct: 69  LRFATELKKDVRFAGLPVVLLSATPMANSWEAR-KVFAALLVKPCPFSQLLDTV 121


>gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein
           [Herbaspirillum seropedicae SmR1]
          Length = 121

 Score = 68.2 bits (165), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 57/105 (54%), Gaps = 3/105 (2%)

Query: 8   APTVMVVEDHPESREMLCGILQQGGLQVVAAADGVDAIAQMQEQAPSLVLTDLRMPRMDG 67
           + T++ V+D    R+M+   L+  G  V  A DGVDA+ + + Q   LVLTD  MPRMDG
Sbjct: 2   SKTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMDG 61

Query: 68  MELARYIKSHERFSPIPVVLISAHLP---AASARIPTIAAFLLKP 109
           + L R ++    ++ +P+++++        A  +      +L+KP
Sbjct: 62  LTLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKP 106


>gi|300310698|ref|YP_003774790.1| AraC family two-component hybrid
          sensor/regulator transcription regulator protein
          [Herbaspirillum seropedicae SmR1]
          Length = 262

 Score = 62.4 bits (150), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 28/80 (35%), Positives = 46/80 (57%)

Query: 11 VMVVEDHPESREMLCGILQQGGLQVVAAADGVDAIAQMQEQAPSLVLTDLRMPRMDGMEL 70
          ++VV+D  + R +L G L + G+++    DG D   + Q   P L+L D+RMP  DG+  
Sbjct: 19 ILVVDDAEDDRTLLSGFLLRHGVRLYIGTDGQDGYRKAQTVRPDLILMDIRMPGYDGLTS 78

Query: 71 ARYIKSHERFSPIPVVLISA 90
           R +K++     IPV+ +SA
Sbjct: 79 CRLLKANTSTRNIPVIFLSA 98


  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    0.133    0.382 

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: 360,656
Number of extensions: 11727
Number of successful extensions: 129
Number of sequences better than 1.0e-08: 19
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 19
Length of query: 137
Length of database: 1,619,870
Length adjustment: 76
Effective length of query: 61
Effective length of database: 1,260,010
Effective search space: 76860610
Effective search space used: 76860610
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: 126 (53.1 bits)