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= 0001.4011.p         (135 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_003776894.1| two component response regulator protein [He...   100   1e-19
ref|YP_003774337.1| receiver domain-containing protein [Herbaspi...    96   2e-18
ref|ZP_08298195.1| ATPase/histidine kinase/DNA gyrase B/HSP90 do...    86   2e-15
emb|CBX27288.1| hypothetical protein N47_I07080 [uncultured Desu...    86   2e-15
ref|YP_001531152.1| PAS/PAC sensor hybrid histidine kinase [Desu...    84   9e-15

>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 =  100 bits (248), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 54/121 (44%), Positives = 79/121 (65%), Gaps = 2/121 (1%)

Query: 1   MSNKTASDTILVVEDRVDLRLLLADVFEGEGYKVVIAANGREALRTLEYQV--VDIILTD 58
           M   + + T+LVVED  ++R L ++V   +GY+V+ AANG  AL  L  +   VD+ILTD
Sbjct: 1   MHGASGTSTVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTD 60

Query: 59  LRMPVMDGVRFAQAVKTDAHLRHIPIILLSATPMTDAWKALRIFDAFLWKPSLLEVIIGA 118
           LRMP+MDG+  A+ +K D     IP++LLSATPMT++W A + F A L KP  L +++  
Sbjct: 61  LRMPLMDGLELAETLKADERFSAIPLVLLSATPMTNSWHARKNFAALLTKPCPLNLLLST 120

Query: 119 V 119
           +
Sbjct: 121 I 121


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

 Score = 95.9 bits (237), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 50/111 (45%), Positives = 72/111 (64%), Gaps = 2/111 (1%)

Query: 1   MSNKTASDTILVVEDRVDLRLLLADVFEGEGYKVVIAANGREALRTLEYQV--VDIILTD 58
           M +   +  IL++ED + +R + A+VF+  GY+V  A NG E L  L      V ++LTD
Sbjct: 1   MPDNPRTRAILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGLEILLSSPGRVSVVLTD 60

Query: 59  LRMPVMDGVRFAQAVKTDAHLRHIPIILLSATPMTDAWKALRIFDAFLWKP 109
           LRMPVMDG+RFA  +K D     +P++LLSATPM ++W+A ++F A L KP
Sbjct: 61  LRMPVMDGLRFATELKKDVRFAGLPVVLLSATPMANSWEARKVFAALLVKP 111


>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 = 85.9 bits (211), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 45/121 (37%), Positives = 75/121 (61%), Gaps = 3/121 (2%)

Query: 2    SNKTASDTILVVEDRVDLRLLLADVFEGEGYKVVIAANGREALRTLEYQVVDIILTDLRM 61
            +++   + IL+VED  D+R  L +   G  Y ++ A NG EAL  ++ Q +D+ILTD+ M
Sbjct: 1091 ADRQRKENILIVEDNTDIRQYLCEEL-GNSYHILTAENGEEALSIVKEQEIDLILTDVMM 1149

Query: 62   PVMDGVRFAQAVKTDAHLRHIPIILLSA-TPMTDAWKALRI-FDAFLWKPSLLEVIIGAV 119
            PVMDG++  + +K +    HIPII+LSA T + +  + L++  D ++ KP  + VI+  +
Sbjct: 1150 PVMDGLQLCKQIKQNLRTCHIPIIILSAKTDLKEQLEGLQVGADDYIPKPFSMAVIVAKI 1209

Query: 120  R 120
            R
Sbjct: 1210 R 1210


>emb|CBX27288.1| hypothetical protein N47_I07080 [uncultured Desulfobacterium sp.]
          Length = 699

 Score = 85.5 bits (210), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 49/114 (42%), Positives = 72/114 (63%), Gaps = 3/114 (2%)

Query: 10  ILVVEDRVDLRLLLADVFEGEGYKVVIAANGREALRTLEYQVVDIILTDLRMPVMDGVRF 69
           IL+V+DR D R LL  + +G G+ V  AANG EAL  ++   +++I++D+ MPVMDG + 
Sbjct: 14  ILIVDDREDNRYLLESLLKGNGHDVEAAANGAEALERIKAGEIELIVSDILMPVMDGFQL 73

Query: 70  AQAVKTDAHLRHIPIILLSATPM--TDAWKALRI-FDAFLWKPSLLEVIIGAVR 120
            + VKTD  LRHIP I+ +AT     D   A++I  D F+ KP   +V + A+R
Sbjct: 74  CRIVKTDERLRHIPFIIYTATYTGPKDQEFAIKIGADRFILKPCEPDVFMEAIR 127


>ref|YP_001531152.1| PAS/PAC sensor hybrid histidine kinase [Desulfococcus oleovorans
           Hxd3]
 gb|ABW69075.1| PAS/PAC sensor hybrid histidine kinase [Desulfococcus oleovorans
           Hxd3]
          Length = 962

 Score = 83.6 bits (205), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 52/129 (40%), Positives = 79/129 (61%), Gaps = 6/129 (4%)

Query: 10  ILVVEDRVDLRLLLADVFEGEGYKVVIAANGREALRTLEYQVVDIILTDLRMPVMDGVRF 69
           IL+V+DR + R LL  + +G G+ V  AANG EA+  L    +D++++D+ MPVMDG + 
Sbjct: 24  ILIVDDREENRYLLERLLQGNGHTVRQAANGAEAMEILTAGGIDLVISDILMPVMDGFQL 83

Query: 70  AQAVKTDAHLRHIPIILLSAT---PMTDAWKALRI-FDAFLWKPSLLEVIIGAVRRAHAN 125
            + VKTD  L  IP I+ +AT   P  +A+ AL+I  D F+ KP  ++V++ A+    A 
Sbjct: 84  CRKVKTDETLHAIPFIVYTATYTGPQDEAF-ALKIGADRFIQKPCEVDVLLSAINEVMAV 142

Query: 126 GPPR-PDPV 133
           G  R  +PV
Sbjct: 143 GGGRVAEPV 151