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= 0001.4385.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_003774337.1| receiver domain-containing protein [Herbaspi...   147   4e-34
ref|YP_003776894.1| two component response regulator protein [He...   139   1e-31
ref|YP_003777136.1| two component response regulator protein [He...   100   6e-20
ref|ZP_07917319.1| conserved hypothetical protein [Bacteroides s...    92   3e-17
ref|ZP_07038160.1| putative two-component system sensor histidin...    89   2e-16

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

 Score =  147 bits (372), Expect = 4e-34,   Method: Composition-based stats.
 Identities = 75/125 (60%), Positives = 90/125 (72%)

Query: 1   MNPSSHARTLLIVEDNKDVRNIFAEVFQGVGYHVIEAGNGEEALALMAHEHPAVSVVLTD 60
           M  +   R +LI+EDN  VR IFAEVF   GY V +AGNG E L ++      VSVVLTD
Sbjct: 1   MPDNPRTRAILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGLEILLSSPGRVSVVLTD 60

Query: 61  LRMPVMDGLELATRIKGDERFSAIPVVLLSATPMSNSWQALEVFSALLTKPCSFEHLLST 120
           LRMPVMDGL  AT +K D RF+ +PVVLLSATPM+NSW+A +VF+ALL KPC F  LL T
Sbjct: 61  LRMPVMDGLRFATELKKDVRFAGLPVVLLSATPMANSWEARKVFAALLVKPCPFSQLLDT 120

Query: 121 IESVQ 125
           +E+VQ
Sbjct: 121 VEAVQ 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 =  139 bits (350), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 73/124 (58%), Positives = 94/124 (75%)

Query: 1   MNPSSHARTLLIVEDNKDVRNIFAEVFQGVGYHVIEAGNGEEALALMAHEHPAVSVVLTD 60
           M+ +S   T+L+VEDN +VR +++EV +  GY V+EA NG  AL+++      V V+LTD
Sbjct: 1   MHGASGTSTVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTD 60

Query: 61  LRMPVMDGLELATRIKGDERFSAIPVVLLSATPMSNSWQALEVFSALLTKPCSFEHLLST 120
           LRMP+MDGLELA  +K DERFSAIP+VLLSATPM+NSW A + F+ALLTKPC    LLST
Sbjct: 61  LRMPLMDGLELAETLKADERFSAIPLVLLSATPMTNSWHARKNFAALLTKPCPLNLLLST 120

Query: 121 IESV 124
           IE+V
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 =  100 bits (249), Expect = 6e-20,   Method: Composition-based stats.
 Identities = 58/117 (49%), Positives = 79/117 (67%), Gaps = 3/117 (2%)

Query: 5   SHARTLLIVEDNKDVRNIFAEVFQGVGYHVIEAGNGEEALALMAHEHPAVSVVLTDLRMP 64
           S  +T+L+VED+ D R++  E+    G  V+ A +G EA+ALM  + P  S+VLTDLRMP
Sbjct: 4   SKQKTVLVVEDHPDSRDLLCEILAHKGLSVMAASDGVEAIALMQSQAP--SLVLTDLRMP 61

Query: 65  VMDGLELATRIKGDERFSAIPVVLLSATPMSNSWQALEVFSALLTKPCSFEHLLSTI 121
            MDG+ELA  IK DERF  IPV L+SA   + + +  E+ SA L KPCS +HLL+T+
Sbjct: 62  RMDGMELARYIKSDERFGHIPVALISANLPAANARVPEI-SAFLLKPCSVDHLLTTV 117


>ref|ZP_07917319.1| conserved hypothetical protein [Bacteroides sp. D2]
 gb|EFS31789.1| conserved hypothetical protein [Bacteroides sp. D2]
          Length = 1330

 Score = 92.0 bits (227), Expect = 3e-17,   Method: Composition-based stats.
 Identities = 52/122 (42%), Positives = 76/122 (62%), Gaps = 5/122 (4%)

Query: 5    SHARTLLIVEDNKDVRNIFAEVFQGVGYHVIEAGNGEEALALMAHEHPAVSVVLTDLRMP 64
            +H  +LLIVEDN D RN      +G  Y V +A NG+EAL ++AH+  ++ +V++D+ MP
Sbjct: 1078 THKTSLLIVEDNDDFRNFLINCLKGT-YQVFDAPNGKEALEILAHQ--SIQIVISDVMMP 1134

Query: 65   VMDGLELATRIKGDERFSAIPVVLLSA-TPMSNSWQAL-EVFSALLTKPCSFEHLLSTIE 122
             MDG+EL  +IK D R+S IPV+LL+A T   +    L E     +TKP + E LL  I+
Sbjct: 1135 EMDGMELCRKIKTDIRYSHIPVILLTARTADEHELSGLKEGADDYITKPFNLEILLLRIQ 1194

Query: 123  SV 124
             +
Sbjct: 1195 KI 1196


>ref|ZP_07038160.1| putative two-component system sensor histidine kinase/response
            [Bacteroides sp. 3_1_23]
 gb|EFI39464.1| putative two-component system sensor histidine kinase/response
            [Bacteroides sp. 3_1_23]
          Length = 1330

 Score = 89.0 bits (219), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 51/122 (41%), Positives = 75/122 (61%), Gaps = 5/122 (4%)

Query: 5    SHARTLLIVEDNKDVRNIFAEVFQGVGYHVIEAGNGEEALALMAHEHPAVSVVLTDLRMP 64
            +H  +LLIVEDN D RN      +   Y V +A NG+EAL ++AH+  ++ +V++D+ MP
Sbjct: 1078 AHKTSLLIVEDNDDFRNFLINCLKDT-YQVFDAPNGKEALEILAHQ--SIQIVISDVMMP 1134

Query: 65   VMDGLELATRIKGDERFSAIPVVLLSA-TPMSNSWQAL-EVFSALLTKPCSFEHLLSTIE 122
             MDG+EL  +IK D R+S IPV+LL+A T   +    L E     +TKP + E LL  I+
Sbjct: 1135 EMDGMELCRKIKTDIRYSHIPVILLTARTADEHELSGLKEGADDYITKPFNLEILLLRIQ 1194

Query: 123  SV 124
             +
Sbjct: 1195 KI 1196