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= 0001.4350.p         (125 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...   170   6e-41
ref|YP_003774337.1| receiver domain-containing protein [Herbaspi...   132   1e-29
ref|YP_003777136.1| two component response regulator protein [He...    87   9e-16
ref|ZP_05857281.1| putative DNA-binding response regulator/senso...    84   8e-15
ref|YP_003813249.1| ATPase/histidine kinase/DNA gyrase B/HSP90 d...    79   2e-13

>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 =  170 bits (431), Expect = 6e-41,   Method: Composition-based stats.
 Identities = 91/125 (72%), Positives = 109/125 (87%)

Query: 1   MNGTAGTRTILVLEDNGDVRALYSELLRSEGYRVLEASNGSVGIGLLLNDAAVGDVILTD 60
           M+G +GT T+LV+EDN +VRALYSE+LRS+GYRVLEA+NG++ + +L +     DVILTD
Sbjct: 1   MHGASGTSTVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTD 60

Query: 61  LRMPLMDGLEFAETLKANERLSAIPIVLLSATPMANSWYARKYFSALLIKPCPLNLLLST 120
           LRMPLMDGLE AETLKA+ER SAIP+VLLSATPM NSW+ARK F+ALL KPCPLNLLLST
Sbjct: 61  LRMPLMDGLELAETLKADERFSAIPLVLLSATPMTNSWHARKNFAALLTKPCPLNLLLST 120

Query: 121 IEALL 125
           IEA+L
Sbjct: 121 IEAVL 125


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

 Score =  132 bits (333), Expect = 1e-29,   Method: Composition-based stats.
 Identities = 65/118 (55%), Positives = 88/118 (74%)

Query: 7   TRTILVLEDNGDVRALYSELLRSEGYRVLEASNGSVGIGLLLNDAAVGDVILTDLRMPLM 66
           TR IL++EDN  VR +++E+  + GY V +A NG+ G+ +LL+      V+LTDLRMP+M
Sbjct: 7   TRAILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGLEILLSSPGRVSVVLTDLRMPVM 66

Query: 67  DGLEFAETLKANERLSAIPIVLLSATPMANSWYARKYFSALLIKPCPLNLLLSTIEAL 124
           DGL FA  LK + R + +P+VLLSATPMANSW ARK F+ALL+KPCP + LL T+EA+
Sbjct: 67  DGLRFATELKKDVRFAGLPVVLLSATPMANSWEARKVFAALLVKPCPFSQLLDTVEAV 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 = 87.0 bits (214), Expect = 9e-16,   Method: Composition-based stats.
 Identities = 52/119 (43%), Positives = 76/119 (63%), Gaps = 5/119 (4%)

Query: 8   RTILVLEDNGDVRALYSELLRSEGYRVLEASNGSVGIGLLLNDAAVGDVILTDLRMPLMD 67
           +T+LV+ED+ D R L  E+L  +G  V+ AS+G   I L+ + A    ++LTDLRMP MD
Sbjct: 7   KTVLVVEDHPDSRDLLCEILAHKGLSVMAASDGVEAIALMQSQAP--SLVLTDLRMPRMD 64

Query: 68  GLEFAETLKANERLSAIPIVLLSAT-PMANSWYARKYFSALLIKPCPLNLLLSTIEALL 125
           G+E A  +K++ER   IP+ L+SA  P AN+       SA L+KPC ++ LL+T+  LL
Sbjct: 65  GMELARYIKSDERFGHIPVALISANLPAANARVPE--ISAFLLKPCSVDHLLTTVTQLL 121


>ref|ZP_05857281.1| putative DNA-binding response regulator/sensor histidine kinase
           [Prevotella veroralis F0319]
 gb|EEX18724.1| putative DNA-binding response regulator/sensor histidine kinase
           [Prevotella veroralis F0319]
          Length = 876

 Score = 83.6 bits (205), Expect = 8e-15,   Method: Composition-based stats.
 Identities = 51/119 (42%), Positives = 74/119 (62%), Gaps = 7/119 (5%)

Query: 10  ILVLEDNGDVRALYSELLRSEGYRVLEASNGSVGIGLLLNDAAVGDVILTDLRMPLMDGL 69
           IL+++DN D+R     +L S+ Y V EAS+G  G+ L+     V D++L+D+ MP+MDGL
Sbjct: 635 ILIIDDNSDIRTYLRSVL-SQKYNVSEASDGKRGLELVRR--TVPDIVLSDIMMPVMDGL 691

Query: 70  EFAETLKANERLSAIPIVLLSATPMANSWYARKY---FSALLIKPCPLNLLLSTIEALL 125
           EF E LK ++ +S IP++LL+A  M +   A  Y     A + KP  L LLLS IE L+
Sbjct: 692 EFCEQLKTDKAISHIPVILLTARSM-DEQRAEGYEHGADAYISKPFSLRLLLSRIENLI 749


>ref|YP_003813249.1| ATPase/histidine kinase/DNA gyrase B/HSP90 domain protein
           [Prevotella melaninogenica ATCC 25845]
 gb|ADK96037.1| ATPase/histidine kinase/DNA gyrase B/HSP90 domain protein
           [Prevotella melaninogenica ATCC 25845]
          Length = 878

 Score = 79.0 bits (193), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 49/119 (41%), Positives = 72/119 (60%), Gaps = 7/119 (5%)

Query: 10  ILVLEDNGDVRALYSELLRSEGYRVLEASNGSVGIGLLLNDAAVGDVILTDLRMPLMDGL 69
           +L+++DN D+R     +L SE Y V EA+NG VG  L L    V D++L+D+ MP+MDGL
Sbjct: 637 VLIIDDNIDIRTYLRSVL-SEKYNVSEAANGKVG--LELARKIVPDIVLSDIMMPVMDGL 693

Query: 70  EFAETLKANERLSAIPIVLLSATPMANSWYARKY---FSALLIKPCPLNLLLSTIEALL 125
            F + LK ++ +S IP++LL+A  + +   A  Y     A L KP  L LL S I+ L+
Sbjct: 694 AFCQQLKTDKAISHIPVILLTARSL-DEQRAEGYEHGADAYLSKPFSLRLLFSRIDNLI 751