BLASTP 2.2.17 [Aug-26-2007]

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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= 0001.4402.p         (133 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_003774337.1| receiver domain-containing protein [Herbaspi...   138   3e-31
ref|YP_003776894.1| two component response regulator protein [He...   129   2e-28
ref|YP_003777136.1| two component response regulator protein [He...    84   5e-15
ref|YP_004259696.1| integral membrane sensor hybrid histidine ki...    80   1e-13
ref|ZP_08298195.1| ATPase/histidine kinase/DNA gyrase B/HSP90 do...    79   2e-13

>ref|YP_003774337.1| receiver domain-containing protein [Herbaspirillum seropedicae
           SmR1]
 gb|ADJ62429.1| receiver domain protein [Herbaspirillum seropedicae SmR1]
          Length = 125

 Score =  138 bits (347), Expect = 3e-31,   Method: Composition-based stats.
 Identities = 68/120 (56%), Positives = 90/120 (75%)

Query: 14  RGRTILLVEDNVDVRTIFSEVFKNEGYRVLEATNGREAYDLMMGSDDSVNVVLTDLRMPI 73
           R R IL++EDN+ VR IF+EVF   GY V +A NG E  ++++ S   V+VVLTDLRMP+
Sbjct: 6   RTRAILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGLEILLSSPGRVSVVLTDLRMPV 65

Query: 74  MDGFELATLLKNNPRFSSIPIVLLSATPLKNSWRALEVFDALLVKPCLFAEVVSTVKAVQ 133
           MDG   AT LK + RF+ +P+VLLSATP+ NSW A +VF ALLVKPC F++++ TV+AVQ
Sbjct: 66  MDGLRFATELKKDVRFAGLPVVLLSATPMANSWEARKVFAALLVKPCPFSQLLDTVEAVQ 125


>ref|YP_003776894.1| two component response regulator protein [Herbaspirillum
           seropedicae SmR1]
 gb|ADJ64986.1| two component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 125

 Score =  129 bits (323), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 67/124 (54%), Positives = 89/124 (71%)

Query: 9   MDGLFRGRTILLVEDNVDVRTIFSEVFKNEGYRVLEATNGREAYDLMMGSDDSVNVVLTD 68
           M G     T+L+VEDN +VR ++SEV +++GYRVLEA NG  A  ++      V+V+LTD
Sbjct: 1   MHGASGTSTVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTD 60

Query: 69  LRMPIMDGFELATLLKNNPRFSSIPIVLLSATPLKNSWRALEVFDALLVKPCLFAEVVST 128
           LRMP+MDG ELA  LK + RFS+IP+VLLSATP+ NSW A + F ALL KPC    ++ST
Sbjct: 61  LRMPLMDGLELAETLKADERFSAIPLVLLSATPMTNSWHARKNFAALLTKPCPLNLLLST 120

Query: 129 VKAV 132
           ++AV
Sbjct: 121 IEAV 124


>ref|YP_003777136.1| two component response regulator protein [Herbaspirillum
           seropedicae SmR1]
 gb|ADJ65228.1| two component response regulator protein [Herbaspirillum
           seropedicae SmR1]
          Length = 122

 Score = 84.3 bits (207), Expect = 5e-15,   Method: Composition-based stats.
 Identities = 48/116 (41%), Positives = 72/116 (62%), Gaps = 3/116 (2%)

Query: 14  RGRTILLVEDNVDVRTIFSEVFKNEGYRVLEATNGREAYDLMMGSDDSVNVVLTDLRMPI 73
           + +T+L+VED+ D R +  E+  ++G  V+ A++G EA  LM     S+  VLTDLRMP 
Sbjct: 5   KQKTVLVVEDHPDSRDLLCEILAHKGLSVMAASDGVEAIALMQSQAPSL--VLTDLRMPR 62

Query: 74  MDGFELATLLKNNPRFSSIPIVLLSATPLKNSWRALEVFDALLVKPCLFAEVVSTV 129
           MDG ELA  +K++ RF  IP+ L+SA     + R  E+  A L+KPC    +++TV
Sbjct: 63  MDGMELARYIKSDERFGHIPVALISANLPAANARVPEI-SAFLLKPCSVDHLLTTV 117


>ref|YP_004259696.1| integral membrane sensor hybrid histidine kinase [Bacteroides
            salanitronis DSM 18170]
 gb|ADY37223.1| integral membrane sensor hybrid histidine kinase [Bacteroides
            salanitronis DSM 18170]
          Length = 1437

 Score = 79.7 bits (195), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 47/118 (39%), Positives = 73/118 (61%), Gaps = 5/118 (4%)

Query: 17   TILLVEDNVDVRTIFSEVFKNEGYRVLEATNGREAYDLMMGSDDSVNVVLTDLRMPIMDG 76
            TILLVEDN ++R     V ++E YRVLEA NGR   D  M   +  +++++D+ MP MDG
Sbjct: 1175 TILLVEDNEELRKFTGRVLRHE-YRVLEAENGRAGLD--MALKEIPDIIISDVMMPEMDG 1231

Query: 77   FELATLLKNNPRFSSIPIVLLSA-TPLKNSWRALEV-FDALLVKPCLFAEVVSTVKAV 132
             EL  ++K+NP    IP+V+LSA   L++  + LE   D  + KP   A +++ +K++
Sbjct: 1232 IELLDIIKHNPSVCHIPVVVLSAKASLEDRIKGLEYGADGYITKPFSSAYLLARIKSL 1289


>ref|ZP_08298195.1| ATPase/histidine kinase/DNA gyrase B/HSP90 domain protein
            [Bacteroides clarus YIT 12056]
 gb|EGF49706.1| ATPase/histidine kinase/DNA gyrase B/HSP90 domain protein
            [Bacteroides clarus YIT 12056]
          Length = 1343

 Score = 79.3 bits (194), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 46/119 (38%), Positives = 68/119 (57%), Gaps = 5/119 (4%)

Query: 14   RGRTILLVEDNVDVRTIFSEVFKNEGYRVLEATNGREAYDLMMGSDDSVNVVLTDLRMPI 73
            R   IL+VEDN D+R    E   N  Y +L A NG EA  ++   +  ++++LTD+ MP+
Sbjct: 1095 RKENILIVEDNTDIRQYLCEELGNS-YHILTAENGEEALSIV--KEQEIDLILTDVMMPV 1151

Query: 74   MDGFELATLLKNNPRFSSIPIVLLSA-TPLKNSWRALEV-FDALLVKPCLFAEVVSTVK 130
            MDG +L   +K N R   IPI++LSA T LK     L+V  D  + KP   A +V+ ++
Sbjct: 1152 MDGLQLCKQIKQNLRTCHIPIIILSAKTDLKEQLEGLQVGADDYIPKPFSMAVIVAKIR 1210