Citrus Sinensis ID: 009824

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520----
Protein Sequence
MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSSNCYLDISSSIANSTHLENSRGDLSY
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccEEEEEEccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHHccccccEEEEEcccccccHHHHHHHHHHcccccEEEEEccccHHHHHHHHHcccccEEcccccHHHHHHHHHHHHHHHccccccccccccHHHHHHcccccccccccccccccccccccccccccccccEEcHHHHHHHHHHHHHHccccccHHHHHHHcccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEccHHHHHHHHHHHccccccEEEEEcccccccHHHHHHHHHHcccccEEEEEccccccEEEEEEEcccccEEEccccHHHHHHHHHHHHHHHcccccccccccccccccccccccEEEEccccccccccHHcccHHHcccccEEEcHHHHHHHHHHHHHcccccccccEEEEEEccccHccccccccEEEEEEcccccccccccHcccccccccccccccccccHHccccccccccHHHHccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mtaeekggsssdedgvidkfpigmrvlavddDQTCLKILEKFLRECQYEVTVTNRAITALKMLREnrnnfdlvisdvympdmdgFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINhgacdyllkpvrmEELKNTWQHVIRrkkvdpkdqnrsphefeksyrkrkdqdgedededgdddghenensttqkkprvVWTTELHTKFIGAVNllgldkavpKKILDLMnvegltreNVKFRLSLKRLGNKTLEAGMvasvgskdssylrigaldgfggshsvnspgrlsssalsssyvpgsmigrlnssaglsmhgiassgmikpglsqsfnTSFNTIGknqqamfpanrnsnlvqgvqtslepnqmpqsestthigdfnhinsptaftaaTGFIDARVAVGSSSSSVSTSLSNLMMlqanphqaqsrdaygnqsSLTVASLNQAYFdlgvhdssnfldhgrcqesWQDAVQLSKsssislplgepfildqvppnkdnilssncyldisssiansthlensrgdlsy
Flexible Loop (DISEMBL)
mtaeekggsssdedgvidkFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQhvirrkkvdpkdqnrsphefeksyrkrkdqdgedededgdddghenensttqkkprvvWTTELHTKFIGavnllgldkAVPKKILDLmnvegltrenvkfrlSLKRlgnktleagmvasvgskdssYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSSNCYLDISssiansthlensrgdlsy
Low Complexity Region (SEG)
MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQdgedededgdddgHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNspgrlsssalsssyvpgsMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGsssssvstslsNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSSNCYLDISSSIANSTHLENSRGDLSY
Disordered region (IsUnstruct)
***************VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR***************************************************RVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVG***SSYLRIGALDGF****************************************************************************************************GDFNHINSPTAFTAATGFIDARVAV************************************TVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAV*********LPLGEPFILDQVPPNKDNILSSNCYLDI*******************
Disordered Region (DISOPRED)
*******************FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR**********************************************************LHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRL*********************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
************EDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK**********************************************KKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVA**********SLSNLMMLQAN***********NQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQES***********SISLPLGEPFILDQVPPNKDNILSSNCYLDISSSIANST***********
Disordered Region (DISPRO)
******************KFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK*******************RKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMP*********************************************N*****************************************************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSSNCYLDISSSIANSTHLENSRGDLSY
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	524	2.2.26 [Sep-21-2011]
Q9FGT7	635	Two-component response re	yes	no	0.853	0.703	0.431	1e-89
P62598	596	Two-component response re	yes	no	0.627	0.552	0.5	5e-86
O49397	552	Two-component response re	no	no	0.667	0.634	0.467	7e-86
Q9ZWJ9	664	Two-component response re	no	no	0.639	0.504	0.439	7e-76
Q940D0	690	Two-component response re	no	no	0.643	0.488	0.421	7e-76
Q9FXD6	521	Two-component response re	no	no	0.5	0.502	0.489	2e-61
Q8L9Y3	382	Two-component response re	no	no	0.431	0.591	0.494	1e-59
Q7Y0W5	341	Two-component response re	no	no	0.463	0.712	0.374	3e-39
Q7Y0W3	341	Two-component response re	N/A	no	0.463	0.712	0.374	3e-39
Q9FJ16	292	Putative two-component re	no	no	0.419	0.753	0.377	1e-37

>sp|Q9FGT7|ARR18_ARATH Two-component response regulator ARR18 OS=Arabidopsis thaliana GN=ARR18 PE=2 SV=2

 Score =  330 bits (847), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 220/510 (43%), Positives = 291/510 (57%), Gaps = 63/510 (12%)

Query: 11  SDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNF 70
           S EDG  DKFP+GMRVLAVDD+ TCL+ LE+ L  C+Y VT T  +  AL+MLREN N F
Sbjct: 5   STEDGRHDKFPVGMRVLAVDDNPTCLRKLEELLLRCKYHVTKTMESRKALEMLRENSNMF 64

Query: 71  DLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRME 130
           DLVISDV MPD DGFKLLE +GLEMDLPV+MLSA+SD   VMKGI HGACDYL+KPV ++
Sbjct: 65  DLVISDVEMPDTDGFKLLE-IGLEMDLPVIMLSAHSDYDSVMKGIIHGACDYLVKPVGLK 123

Query: 131 ELKNTWQHVIRR------KKVDPKDQNRSPHEFEKSYRKRKDQ----------------- 167
           EL+N W HV+++      K + P + +  P     + RKRKD+                 
Sbjct: 124 ELQNIWHHVVKKNIKSYAKLLPPSESDSVP----SASRKRKDKVNDSGDEDDSDREEDDG 179

Query: 168 DGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNV 227
           +G ++D DG         S T+KKPRVVW+ ELH KF+ AV  LGLDKAVPKKILDLM++
Sbjct: 180 EGSEQDGDG---------SGTRKKPRVVWSQELHQKFVSAVQQLGLDKAVPKKILDLMSI 230

Query: 228 EGLTRENV-----KFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDG---FGGSHSV 279
           EGLTRENV     K+RL LK++     +     + G++DSSY ++  LDG   F  +  +
Sbjct: 231 EGLTRENVASHLQKYRLYLKKIDEGQQQNMTPDAFGTRDSSYFQMAQLDGLRDFTAARQI 290

Query: 280 NSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQ 339
            S G LS S L+    P  M   +N      + G+ SS  I+ G  Q+ + S N  G   
Sbjct: 291 PSSGLLSRSHLTKLQPP--MYSSIN------LQGMNSSSFIQQGHHQNSSNSANPFGTYH 342

Query: 340 QAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVG 399
             + P  +N NL Q   + LEP Q P+S+S  +IGDF  +           F+D  +  G
Sbjct: 343 STLSPRIQNVNLFQRTSSPLEPLQFPRSKS--YIGDFKGLGD---RAIGGSFLDTCMPFG 397

Query: 400 SSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGR 459
           SSS+S+ ++ +N +MLQAN  Q     + G Q  +     N A  ++     S F  H  
Sbjct: 398 SSSTSLPSASTNPLMLQANYTQPLHIASDGIQPCIEGTPSNSASPNISFQGLSRFPGH-- 455

Query: 460 CQESWQDAVQLSKSSSISLPLGEPFILDQV 489
              SWQ  +  ++    SLPL   F+ DQV
Sbjct: 456 ---SWQGNLNTTRFPPSSLPLNLAFLPDQV 482

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.
Arabidopsis thaliana (taxid: 3702)

>sp|P62598|ARR12_ARATH Two-component response regulator ARR12 OS=Arabidopsis thaliana GN=ARR12 PE=2 SV=2

 Score =  318 bits (816), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 190/380 (50%), Positives = 242/380 (63%), Gaps = 51/380 (13%)

Query: 16  VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVIS 75
            +D+FP+GMRVLAVDDDQTCLKILE  LR CQY VT TN+A  AL++LREN+N FDLVIS
Sbjct: 9   ALDQFPVGMRVLAVDDDQTCLKILESLLRHCQYHVTTTNQAQKALELLRENKNKFDLVIS 68

Query: 76  DVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           DV MPDMDGFKLLELVGLEMDLPV+MLSA+SD K VMKG+ HGACDYLLKPVR+EELKN 
Sbjct: 69  DVDMPDMDGFKLLELVGLEMDLPVIMLSAHSDPKYVMKGVTHGACDYLLKPVRIEELKNI 128

Query: 136 WQHVIRRK--------------------KVDPKDQNRSPHEFEKSYRKRKDQDGEDEDED 175
           WQHV+R +                     V   DQN       K  RKRKDQ     +ED
Sbjct: 129 WQHVVRSRFDKNRGSNNNGDKRDGSGNEGVGNSDQNNG-----KGNRKRKDQ----YNED 179

Query: 176 GDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV 235
            D+D  +N++S  QKK RVVWT ELH KF+ AVN LG +KA+PKKILDLMNVE LTRENV
Sbjct: 180 EDEDRDDNDDSCAQKKQRVVWTVELHKKFVAAVNQLGYEKAMPKKILDLMNVEKLTRENV 239

Query: 236 -----KFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSAL 290
                KFRL LKR+     +  ++A   + +  ++++  LDGF         G+    A 
Sbjct: 240 ASHLQKFRLYLKRISGVANQQAIMA---NSELHFMQMNGLDGFHHRPIPVGSGQYHGGAP 296

Query: 291 S-SSYVPGSMIGRLNSSAGLSMHGIAS--SGMIKPGLSQSFNTSFNTIGK-NQQAMFPAN 346
           +  S+ P  ++GRLN+ +G+ +  ++S  +GM        F  +   IGK +  +  P N
Sbjct: 297 AMRSFPPNGILGRLNTPSGIGVRSLSSPPAGM--------FLQNQTDIGKFHHVSSLPLN 348

Query: 347 RN--SNLVQGVQTSLEPNQM 364
            +   N++QG+   LE +Q+
Sbjct: 349 HSDGGNILQGLPMPLEFDQL 368

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.

Arabidopsis thaliana (taxid: 3702)

>sp|O49397|ARR10_ARATH Two-component response regulator ARR10 OS=Arabidopsis thaliana GN=ARR10 PE=1 SV=1

 Score =  318 bits (815), Expect = 7e-86,   Method: Compositional matrix adjust.
 Identities = 195/417 (46%), Positives = 262/417 (62%), Gaps = 67/417 (16%)

Query: 16  VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVIS 75
           V+D+FP+GMRVLAVDDDQTCL+IL+  L+ CQY VT TN+A TAL++LREN+N FDLVIS
Sbjct: 9   VLDQFPVGMRVLAVDDDQTCLRILQTLLQRCQYHVTTTNQAQTALELLRENKNKFDLVIS 68

Query: 76  DVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           DV MPDMDGFKLLELVGLEMDLPV+MLSA+SD K VMKG+ HGACDYLLKPVR+EELKN 
Sbjct: 69  DVDMPDMDGFKLLELVGLEMDLPVIMLSAHSDPKYVMKGVKHGACDYLLKPVRIEELKNI 128

Query: 136 WQHVIRRKKVDPKDQNRS--PHEFEKSYRKRKDQDGEDEDEDGDDDGHENENSTTQKKPR 193
           WQHV+R+ K+     N S      +K+ RKRK+Q  E+E+E   + G++N++ T QKKPR
Sbjct: 129 WQHVVRKSKLKKNKSNVSNGSGNCDKANRKRKEQYEEEEEE---ERGNDNDDPTAQKKPR 185

Query: 194 VVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKRLGNKT 248
           V+WT ELH KF+ AV+ LG+++AVPKKILDLMNV+ LTRENV     KFR++LK++ +  
Sbjct: 186 VLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKVSDDA 245

Query: 249 LEAGMVASVGSKDSSYLRIGALDGFGGSH------SVNSPGRLSSSALSSSYVPGSMIGR 302
           ++    A++   DS ++++ +  G GG +       V S      + +   Y     +GR
Sbjct: 246 IQQANRAAI---DSHFMQMNSQKGLGGFYHHHRGIPVGSGQFHGGTTMMRHYSSNRNLGR 302

Query: 303 LNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPN 362
           LNS           +GM +P +S SF  + N  G             N++QG        
Sbjct: 303 LNS---------LGAGMFQP-VSSSFPRNHNDGG-------------NILQG-------- 331

Query: 363 QMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANP 419
            +P  E   +    N+IN   AF + T          S  +S   + SNL++L+ NP
Sbjct: 332 -LPLEELQIN----NNINR--AFPSFT----------SQQNSPMVAPSNLLLLEGNP 371

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZWJ9|ARR2_ARATH Two-component response regulator ARR2 OS=Arabidopsis thaliana GN=ARR2 PE=1 SV=1

 Score =  285 bits (729), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 177/403 (43%), Positives = 231/403 (57%), Gaps = 68/403 (16%)

Query: 7   GGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLREN 66
           GGS+SD       FP  +RVL VDDD TCL ILE+ L  C Y VT  NRA +AL +LR+N
Sbjct: 17  GGSNSD------PFPANLRVLVVDDDPTCLMILERMLMTCLYRVTKCNRAESALSLLRKN 70

Query: 67  RNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           +N FD+VISDV+MPDMDGFKLLE VGLEMDLPV+M+SA     +V+KG+ HGA DYL+KP
Sbjct: 71  KNGFDIVISDVHMPDMDGFKLLEHVGLEMDLPVIMMSADDSKSVVLKGVTHGAVDYLIKP 130

Query: 127 VRMEELKNTWQHVIRRKKVDPKDQNRSPH-----EFEKSYRKRKDQDGEDED-------- 173
           VR+E LKN WQHV+R+K+    + N S H     E     R R+ Q  ED D        
Sbjct: 131 VRIEALKNIWQHVVRKKR---NEWNVSEHSGGSIEDTGGDRDRQQQHREDADNNSSSVNE 187

Query: 174 -----------EDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKIL 222
                      E+ DD G + E+S++ KKPRVVW+ ELH +F+ AVN LG+DKAVPKKIL
Sbjct: 188 GNGRSSRKRKEEEVDDQGDDKEDSSSLKKPRVVWSVELHQQFVAAVNQLGVDKAVPKKIL 247

Query: 223 DLMNVEGLTRENV-----KFRLSLKRLGNKTLEAGMV--ASVGSKDSSYLRIGALDGFGG 275
           ++MNV GLTRENV     K+R+ L+RLG  +   G +  + +  +D S+  + +L+GF  
Sbjct: 248 EMMNVPGLTRENVASHLQKYRIYLRRLGGVSQHQGNMNHSFMTGQDQSFGPLSSLNGFD- 306

Query: 276 SHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTI 335
                    L S A++    P S+       A L   G+    + KPG+S S      +I
Sbjct: 307 ---------LQSLAVTGQLPPQSL-------AQLQAAGLGRPTLAKPGMSVSPLVDQRSI 350

Query: 336 --GKNQQAMF-----PANRNSNLVQGVQTS----LEPNQMPQS 367
              +N +  F         N NL+ GV T     L P Q  QS
Sbjct: 351 FNFENPKIRFGDGHGQTMNNGNLLHGVPTGSHMRLRPGQNVQS 393

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins. Involved in the expression of nuclear genes for components of mitochondrial complex I. Promotes cytokinin-mediated leaf longevity. Involved in the ethylene signaling pathway in an ETR1-dependent manner and in the cytokinin signaling pathway.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940D0|ARR1_ARATH Two-component response regulator ARR1 OS=Arabidopsis thaliana GN=ARR1 PE=1 SV=2

 Score =  285 bits (729), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 168/399 (42%), Positives = 233/399 (58%), Gaps = 62/399 (15%)

Query: 16  VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVIS 75
           V++ FP G+RVL VDDD TCL ILE+ LR C YEVT  NRA  AL +LR+N++ FD+VIS
Sbjct: 29  VVEMFPSGLRVLVVDDDPTCLMILERMLRTCLYEVTKCNRAEMALSLLRKNKHGFDIVIS 88

Query: 76  DVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           DV+MPDMDGFKLLE VGLEMDLPV+M+SA     +V+KG+ HGA DYL+KPVRME LKN 
Sbjct: 89  DVHMPDMDGFKLLEHVGLEMDLPVIMMSADDSKSVVLKGVTHGAVDYLIKPVRMEALKNI 148

Query: 136 WQHVIRRKKV-----------------------------------DPKDQNRSP----HE 156
           WQHV+R+++                                    D  D N S     + 
Sbjct: 149 WQHVVRKRRSEWSVPEHSGSIEETGERQQQQHRGGGGGAAVSGGEDAVDDNSSSVNEGNN 208

Query: 157 FEKSYRKRKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKA 216
           +  S RKRKD++GE++ +D D+D      ++  KKPRVVW+ ELH +F+ AVN LG++KA
Sbjct: 209 WRSSSRKRKDEEGEEQGDDKDED------ASNLKKPRVVWSVELHQQFVAAVNQLGVEKA 262

Query: 217 VPKKILDLMNVEGLTRENV-----KFRLSLKRLGNKTLEAGMV--ASVGSKDSSYLRIGA 269
           VPKKIL+LMNV GLTRENV     K+R+ L+RLG  +   G +  + +  +D+S+  +  
Sbjct: 263 VPKKILELMNVPGLTRENVASHLQKYRIYLRRLGGVSQHQGNLNNSFMTGQDASFGPLST 322

Query: 270 LDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFN 329
           L+GF    ++   G+L + +L+     G  +GR    A +S  G+  S ++      SF+
Sbjct: 323 LNGF-DLQALAVTGQLPAQSLAQLQAAG--LGR---PAMVSKSGLPVSSIVDERSIFSFD 376

Query: 330 TSFNTIGKN---QQAMFPANRNSNLVQGVQTSLEPNQMP 365
            +    G+               NL+ GV T L+  Q+P
Sbjct: 377 NTKTRFGEGLGHHGQQPQQQPQMNLLHGVPTGLQ-QQLP 414

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FXD6|ARR11_ARATH Two-component response regulator ARR11 OS=Arabidopsis thaliana GN=ARR11 PE=1 SV=1

 Score =  237 bits (604), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 145/296 (48%), Positives = 183/296 (61%), Gaps = 34/296 (11%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
           P+G+RVL VDDD T LKILEK L++C YEVT    A  AL++LRE ++ +D+VISDV MP
Sbjct: 8   PVGLRVLVVDDDPTWLKILEKMLKKCSYEVTTCGLAREALRLLRERKDGYDIVISDVNMP 67

Query: 81  DMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           DMDGFKLLE VGLE+DLPV+M+S   +T  VMKG+ HGACDYLLKP+RM+ELK  WQHV+
Sbjct: 68  DMDGFKLLEHVGLELDLPVIMMSVDGETSRVMKGVQHGACDYLLKPIRMKELKIIWQHVL 127

Query: 141 RRKKVDPKDQNRSPHEFEKSYRKRKDQ-----DGED-------EDEDGDDDGHENEN--- 185
           R+K  + +D     +E    +  R D+      GED       +D D +    ++E+   
Sbjct: 128 RKKLQEVRDIEGCGYEGGADWITRYDEAHFLGGGEDVSFGKKRKDFDFEKKLLQDESDPS 187

Query: 186 STTQKKPRVVWTTELHTKFIGAVNLLGLD-KAVPKKILDLMNVEGLTRENV-----KFRL 239
           S++ KK RVVW+ ELH KF+ AVN +G D KA PKKILDLMNV  LTRENV     K+RL
Sbjct: 188 SSSSKKARVVWSFELHHKFVNAVNQIGCDHKAGPKKILDLMNVPWLTRENVASHLQKYRL 247

Query: 240 SLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYV 295
            L RL            V + DSS   +    G+       SPGR       SSYV
Sbjct: 248 YLSRLEKGKELKCYSGGVKNADSSPKDVEVNSGY------QSPGR-------SSYV 290

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L9Y3|ARR14_ARATH Two-component response regulator ARR14 OS=Arabidopsis thaliana GN=ARR14 PE=1 SV=2

 Score =  231 bits (589), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 126/255 (49%), Positives = 164/255 (64%), Gaps = 29/255 (11%)

Query: 18  DKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDV 77
           D+FP G+R+L VDDD +CL ILEK L    Y+VT+ ++A  AL +LRE +++FDLV+SDV
Sbjct: 5   DQFPSGLRILVVDDDTSCLFILEKMLLRLMYQVTICSQADVALTILRERKDSFDLVLSDV 64

Query: 78  YMPDMDGFKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
           +MP M+G+ LL+ VG LEMDLPV+M+S    T  VM GINHGACDYL+KP+R EELKN W
Sbjct: 65  HMPGMNGYNLLQQVGLLEMDLPVIMMSVDGRTTTVMTGINHGACDYLIKPIRPEELKNIW 124

Query: 137 QHVIRRKKVDPKDQNRSPHEFE--------KSYRKRKDQDGEDEDEDGDDDGHENENSTT 188
           QHV+RRK V  K+  RS    E        ++      +  E+      +   + + S  
Sbjct: 125 QHVVRRKCVMKKEL-RSSQALEDNKNSGSLETVVVSVSECSEESLMKCRNKKKKKKRSVD 183

Query: 189 Q--------------KKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTREN 234
           +              KK RVVW+ ELH +F+ AVN LG+DKAVPK+IL+LMNV GL+REN
Sbjct: 184 RDDNEDDLLLDPGNSKKSRVVWSIELHQQFVNAVNKLGIDKAVPKRILELMNVPGLSREN 243

Query: 235 V-----KFRLSLKRL 244
           V     KFRL LKRL
Sbjct: 244 VASHLQKFRLYLKRL 258

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7Y0W5|EHD1_ORYSJ Two-component response regulator EHD1 OS=Oryza sativa subsp. japonica GN=EHD1 PE=1 SV=1

 Score =  163 bits (413), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 101/270 (37%), Positives = 145/270 (53%), Gaps = 27/270 (10%)

Query: 20  FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
           +P G+RVL +DDD + L ++E  L +C Y+VT       A+  + +N    DLVISD + 
Sbjct: 7   WPYGLRVLVIDDDCSYLSVMEDLLLKCSYKVTTYKNVREAVPFILDNPQIVDLVISDAFF 66

Query: 80  PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           P  DG  +L+ V  +  +P V++++  DT  VMK + +GA D+LLKPVR+EEL N WQH+
Sbjct: 67  PTEDGLLILQEVTSKFGIPTVIMASSGDTNTVMKYVANGAFDFLLKPVRIEELSNIWQHI 126

Query: 140 IRRKKVDPKDQN------------------RSPHEFEKSYRKRKDQDGEDEDEDGDDDGH 181
            R++  D K+ N                  R+     +S           E+E  DD  +
Sbjct: 127 FRKQMQDHKNNNMVGNLEKPGHPPSILAMARATPATTRSTATEASL-APLENEVRDDMVN 185

Query: 182 ENENSTTQK---KPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV--- 235
            N   T  +   K R+ WTT+LH +FI AVN LG DKAVPKKIL +M V+ LTRE V   
Sbjct: 186 YNGEITDIRDLGKSRLTWTTQLHRQFIAAVNHLGEDKAVPKKILGIMKVKHLTREQVASH 245

Query: 236 --KFRLSLKRLGNKTLEAGMVASVGSKDSS 263
             K+R+ LK+    T + G   S  + D +
Sbjct: 246 LQKYRMQLKKSIPTTSKHGATLSSTALDKT 275

Transcriptional activator that acts as floral inducer to promote short-day (SD) flowering pathway. Activates HD3A and other FT-like genes independently from HD1. May also activate MADS-box transcription factors involved in flowering regulation.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q7Y0W3|EHD1_ORYSI Two-component response regulator EHD1 OS=Oryza sativa subsp. indica PE=2 SV=1

 Score =  163 bits (413), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 101/270 (37%), Positives = 145/270 (53%), Gaps = 27/270 (10%)

Query: 20  FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
           +P G+RVL +DDD + L ++E  L +C Y+VT       A+  + +N    DLVISD + 
Sbjct: 7   WPYGLRVLVIDDDCSYLSVMEDLLLKCSYKVTTYKNVREAVPFILDNPQIVDLVISDAFF 66

Query: 80  PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           P  DG  +L+ V  +  +P V++++  DT  VMK + +GA D+LLKPVR+EEL N WQH+
Sbjct: 67  PTEDGLLILQEVTSKFGIPTVIMASSGDTNTVMKYVANGAFDFLLKPVRIEELSNIWQHI 126

Query: 140 IRRKKVDPKDQN------------------RSPHEFEKSYRKRKDQDGEDEDEDGDDDGH 181
            R++  D K+ N                  R+     +S           E+E  DD  +
Sbjct: 127 FRKQMQDHKNNNMVGNLEKPGHPPSILAMARATPATTRSTATEASL-APLENEVRDDMVN 185

Query: 182 ENENSTTQK---KPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV--- 235
            N   T  +   K R+ WTT+LH +FI AVN LG DKAVPKKIL +M V+ LTRE V   
Sbjct: 186 YNGEITDIRDLGKSRLTWTTQLHRQFIAAVNHLGEDKAVPKKILGIMKVKHLTREQVASH 245

Query: 236 --KFRLSLKRLGNKTLEAGMVASVGSKDSS 263
             K+R+ LK+    T + G   S  + D +
Sbjct: 246 LQKYRMQLKKSIPTTSKHGATLSSTALDKT 275

Transcriptional activator that acts as floral inducer to promote short-day (SD) flowering pathway. Activates Hd3a and other FT-like genes independently from Hd1. May also activate MADS-box transcription factors involved in flowering regulation.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q9FJ16|APRR4_ARATH Putative two-component response regulator-like APRR4 OS=Arabidopsis thaliana GN=APRR4 PE=3 SV=1

 Score =  158 bits (399), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 92/244 (37%), Positives = 145/244 (59%), Gaps = 24/244 (9%)

Query: 20  FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
           FP G+RVL  D+D + L ILE+ L++ QY+VT+ N    A+  LR +RN FDL +  V  
Sbjct: 38  FPEGLRVLVFDEDPSYLLILERHLQKFQYQVTICNEVNKAMHTLRNHRNRFDLAMIQVNN 97

Query: 80  PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            + D F+ L  +G EMDLP++++S     K V K + +GA DYL+KP+R E+L+  ++H+
Sbjct: 98  AEGDIFRFLSEIGSEMDLPIIIISEDDSVKSVKKWMINGAADYLIKPIRPEDLRIVFKHL 157

Query: 140 IRRKKVDPKDQNRS--PHEFEKSYRKRKDQDGED--------------EDEDGDDDGHEN 183
           +++ +     + RS    E EK+  ++    G+               E E  ++D H++
Sbjct: 158 VKKMR-----ERRSVVTGEAEKAAGEKSSSVGDSTIRNPNKSKRSSCLEAEVNEEDRHDH 212

Query: 184 EN---STTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLS 240
            +   +++ KK RVVW  ELH  F+ AV+ LGL++AVPKKILD+M V+ ++RENV   L 
Sbjct: 213 NDRACASSAKKRRVVWDEELHQNFLNAVDFLGLERAVPKKILDVMKVDYISRENVASHLQ 272

Query: 241 LKRL 244
           +  L
Sbjct: 273 VTFL 276

Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	524
359484783	712	PREDICTED: two-component response regula	0.994	0.731	0.540	1e-161
298103722	685	putative B-type response regulator 19 [P	0.973	0.744	0.546	1e-159
147787458	706	hypothetical protein VITISV_005486 [Viti	0.994	0.737	0.525	1e-158
224143990	707	type-b response regulator [Populus trich	0.982	0.728	0.558	1e-157
255565035	676	two-component system sensor histidine ki	0.921	0.714	0.559	1e-157
356556600	697	PREDICTED: two-component response regula	0.958	0.720	0.523	1e-146
356530639	676	PREDICTED: two-component response regula	0.954	0.739	0.523	1e-144
297735895	655	unnamed protein product [Vitis vinifera]	0.872	0.697	0.518	1e-143
449457923	697	PREDICTED: two-component response regula	0.963	0.724	0.528	1e-141
255548782	663	two-component system sensor histidine ki	0.959	0.758	0.523	1e-133

>gi|359484783|ref|XP_002270833.2| PREDICTED: two-component response regulator ARR12-like [Vitis vinifera]

 Score =  573 bits (1478), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 301/557 (54%), Positives = 389/557 (69%), Gaps = 36/557 (6%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT EE+ G  + EDGV D FP+GMRVLAVDDD TCL +L+  LR CQY+VT TN+AITAL
Sbjct: 1   MTVEERKGGLAGEDGVKDPFPVGMRVLAVDDDPTCLMLLDGLLRRCQYQVTTTNQAITAL 60

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           KMLREN+NNFDLVISDV MPDMDGFKLLELVGLEMDLPV+MLS++SD KLVM+GI HGAC
Sbjct: 61  KMLRENKNNFDLVISDVSMPDMDGFKLLELVGLEMDLPVIMLSSHSDPKLVMRGITHGAC 120

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDG 180
           DYLLKPVR+EELKN WQHVIRRKK+D KDQN+S  +    +   +  +G     + D +G
Sbjct: 121 DYLLKPVRIEELKNIWQHVIRRKKIDSKDQNKSADQDNALHADGEGGEGPPSSSNADQNG 180

Query: 181 HENEN---------------------STTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPK 219
             N                        ++QKKPRVVW+ ELH KF+ AVN LG++KAVPK
Sbjct: 181 KLNRKRKDQNEDEEEEGEENGEENEDPSSQKKPRVVWSVELHRKFVAAVNQLGIEKAVPK 240

Query: 220 KILDLMNVEGLTRENV-----KFRLSLKRLGN-KTLEAGMVASVGSKDSSYLRIGALDGF 273
           +ILDLMNVEGLTRENV     K+RL LKR+    T +A MVA+ G+KDSSY+R+G+LDGF
Sbjct: 241 RILDLMNVEGLTRENVASHLQKYRLYLKRISCVATQQANMVAAFGAKDSSYMRMGSLDGF 300

Query: 274 GGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFN 333
           G    +  PGRL+S+A+ SSY P  M+GRLNS AGLS+ G+ SSG+I+ G +Q+ + S N
Sbjct: 301 GDFRGLAGPGRLNSTAM-SSYPPSGMLGRLNSPAGLSLRGLTSSGLIQTGHAQNSSNSVN 359

Query: 334 TIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSES-TTHIGDFNHINSPTAFTAATGFI 392
           T GK Q  + P N++++L QG+ TSLE +Q+ Q +  +T  G+F+ +++ T FT A GF 
Sbjct: 360 THGKLQPVVLPTNQSASLFQGIPTSLELDQLQQRKCISTQRGEFSSVDNTTVFTTANGFP 419

Query: 393 DARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSS 452
           D+R+ V SSS+S+S + SN +MLQ+NP Q   R    NQSSL   +LN   + +GV  SS
Sbjct: 420 DSRMTVHSSSNSLSNAPSNPLMLQSNPQQTLCRGGLANQSSLKAVTLNPEPYTMGVSGSS 479

Query: 453 NFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPN--KDNILSSNCY-----LDI 505
           NFLDHGRC E+WQ A+QLSK  S SLPL EP   D +  N  +++I S+  +     +D 
Sbjct: 480 NFLDHGRCNENWQSALQLSKFPSNSLPLSEPLNCDPLTTNNLREHISSTGSHIRRSPIDF 539

Query: 506 SSSIANSTHLENSRGDL 522
           S++   +  LE+SRG++
Sbjct: 540 SATSVLAGPLEDSRGEM 556

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298103722|emb|CBM42562.1| putative B-type response regulator 19 [Populus x canadensis]

 Score =  567 bits (1462), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 307/562 (54%), Positives = 384/562 (68%), Gaps = 52/562 (9%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT E++ G +S  + +   FP+GMRVLAVDDD  CLK+LE  LR+CQYEVT TN+A+TAL
Sbjct: 1   MTVEDQRGCNSVNEKM---FPVGMRVLAVDDDPICLKVLENLLRKCQYEVTTTNQAVTAL 57

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           +MLRENRN +DLVISDV MPDMDGFKLLELVGLEMDLPV+MLS++ D + V KGI HGA 
Sbjct: 58  EMLRENRNKYDLVISDVNMPDMDGFKLLELVGLEMDLPVIMLSSHGDKEFVYKGITHGAV 117

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDED----- 175
           DYLLKPVR+EELKN WQHVIRRKK  P+DQN SP++        K  DG  E E      
Sbjct: 118 DYLLKPVRLEELKNIWQHVIRRKKWYPQDQNGSPNQ-------DKGGDGAGEGEQVTSTG 170

Query: 176 -GDDDGHENEN--------------------STTQKKPRVVWTTELHTKFIGAVNLLGLD 214
            GD +G  N                      S  QKKPRVVW+ ELH KF+ AVN LGLD
Sbjct: 171 SGDQNGKVNRKRKDQDEEEEGEGEDGNDNEESGNQKKPRVVWSVELHQKFVSAVNQLGLD 230

Query: 215 KAVPKKILDLMNVEGLTRENV-----KFRLSLKRLG-NKTLEAGMVASVGSKDSSYLRIG 268
           KAVPKKILDLMNV+GLTRENV     KFRL LKRL      +  MVA+ G+KDSSYLR+G
Sbjct: 231 KAVPKKILDLMNVDGLTRENVASHLQKFRLYLKRLSCGANQQPNMVAAFGAKDSSYLRMG 290

Query: 269 ALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSF 328
           +LDGFG   SV+ PG+LS+++L SSY PGS++GRLNS  GL++ GIAS G+++PG S+S 
Sbjct: 291 SLDGFGDFRSVHGPGQLSTTSL-SSYPPGSLLGRLNSPGGLTLQGIASPGLLQPGHSRSL 349

Query: 329 NTSFNTIGKNQQAMFPANRNS-NLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTA 387
           N   NT+GK Q  +   NR S NL QG+ ++L+P +  Q +S  HIGDFNH    T+FT 
Sbjct: 350 NNPLNTLGKLQPCLLQTNRGSTNLFQGISSALDPKEF-QLKSMNHIGDFNHKGDATSFTL 408

Query: 388 ATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLG 447
           A  F D +V +GS  +++S++ +N  ML  NP Q Q+R +   QSSL++ +LNQ  FD+G
Sbjct: 409 AGCFPDVKVTIGSLGNTISSAANNPQMLHVNPQQNQTRRSLATQSSLSMPALNQESFDVG 468

Query: 448 VHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPN--KDNILSSNCY--- 502
           V  SSNFLDH RC ++WQ  VQ+S   S SLPLGEPF  D +PP+  +DNI S+  +   
Sbjct: 469 VRGSSNFLDHSRCDDNWQGVVQMSTFPSNSLPLGEPFRHDPLPPSTRRDNISSTTSHIVN 528

Query: 503 --LDISSSIANSTHLENSRGDL 522
             LD SSS + +  LE+SR D+
Sbjct: 529 NPLDFSSSGSLTAPLEDSRLDM 550

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787458|emb|CAN60088.1| hypothetical protein VITISV_005486 [Vitis vinifera]

 Score =  563 bits (1450), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 301/573 (52%), Positives = 389/573 (67%), Gaps = 52/573 (9%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYE----------- 49
           MT EE+ G  + EDGV D FP+GMRVLAVDDD TCL +L+  LR CQY+           
Sbjct: 1   MTVEERKGGLAGEDGVKDPFPVGMRVLAVDDDPTCLMLLDGLLRRCQYQGLVLLCFARLL 60

Query: 50  -----VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSA 104
                VT TN+AITALKMLREN+NNFDLVISDV MPDMDGFKLLELVGLEMDLPV+MLS+
Sbjct: 61  LYMNFVTTTNQAITALKMLRENKNNFDLVISDVSMPDMDGFKLLELVGLEMDLPVIMLSS 120

Query: 105 YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKR 164
           +SD KLVM+GI HGACDYLLKPVR+EELKN WQHVIRRKK+D KDQN+S  +    +   
Sbjct: 121 HSDQKLVMRGITHGACDYLLKPVRIEELKNIWQHVIRRKKIDSKDQNKSADQDNALHADG 180

Query: 165 KDQDGEDEDEDGDDDGHENEN---------------------STTQKKPRVVWTTELHTK 203
           +  +G     + D +G  N                        ++QKKPRVVW+ ELH K
Sbjct: 181 EGGEGPPSSSNADQNGKLNRKRKDQNEDEEEEGEENGEENEDPSSQKKPRVVWSVELHRK 240

Query: 204 FIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKRLGN-KTLEAGMVASV 257
           F+ AVN LG++KAVPK+ILDLMNVEGLTRENV     K+RL LKR+    T +A  VA+ 
Sbjct: 241 FVAAVNQLGIEKAVPKRILDLMNVEGLTRENVASHLQKYRLYLKRISCVATQQANXVAAF 300

Query: 258 GSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASS 317
           G+KDSSY+R+G+LDGFG    +  PGRL+S+A+ SSY P  M+GRLNS AGLS+ G+ SS
Sbjct: 301 GAKDSSYMRMGSLDGFGDFRGLAGPGRLNSTAM-SSYPPSGMLGRLNSPAGLSLRGLTSS 359

Query: 318 GMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSES-TTHIGDF 376
           G+I+ G +Q+ + S NT GK Q  + P N++++L QG+ TSLE +Q+ Q +  +T IG+F
Sbjct: 360 GLIQTGHAQNSSNSVNTHGKLQPVVLPTNQSASLFQGIPTSLELDQLQQRKCISTQIGEF 419

Query: 377 NHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTV 436
           + +++ T FT A GF D+R+ V SSS+S+S + SN +MLQ+NP Q   R    NQSSL  
Sbjct: 420 SSVDNTTVFTTANGFPDSRMTVHSSSNSLSNAPSNPLMLQSNPQQTLCRGGLANQSSLKA 479

Query: 437 ASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPN--KD 494
            +LN   + +GV  SSNFLDHGRC E+WQ A+QLSK  S SLPL EP   D +  N  ++
Sbjct: 480 VTLNPEPYTMGVSGSSNFLDHGRCNENWQSALQLSKFPSNSLPLSEPLNRDPLTTNNLRE 539

Query: 495 NILSSNCY-----LDISSSIANSTHLENSRGDL 522
           +I S+  +     +D S++   +  LE+SRG++
Sbjct: 540 HISSTGSHIRRSPIDFSATSXLAGPLEDSRGEM 572

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143990|ref|XP_002325148.1| type-b response regulator [Populus trichocarpa] gi|222866582|gb|EEF03713.1| type-b response regulator [Populus trichocarpa]

 Score =  561 bits (1446), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 311/557 (55%), Positives = 391/557 (70%), Gaps = 42/557 (7%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT E++ G +S  + +   FP+GMRVLAVDDD  CLK+LE  LR+CQYEVT TN+A+TAL
Sbjct: 1   MTVEDQRGCNSVNEKM---FPVGMRVLAVDDDPICLKVLENLLRKCQYEVTTTNQAVTAL 57

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           +MLRENRN +DLVISDV MPDMDGFKLLELVGLEMDLPV+MLS++ D + V KGI HGA 
Sbjct: 58  EMLRENRNKYDLVISDVNMPDMDGFKLLELVGLEMDLPVIMLSSHGDKEFVFKGITHGAV 117

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFE---------------------K 159
           DYLLKPVR+EELKN WQHVIRRKK  P+DQN SP + +                     K
Sbjct: 118 DYLLKPVRLEELKNIWQHVIRRKKWYPQDQNGSPDQDKGGDGAGEGEQVTSTGSADQNGK 177

Query: 160 SYRKRKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPK 219
             RKRKDQ  ++E+E   +DG++NE S  QKKPRVVW+ ELH KF+ AVN LGLDKAVPK
Sbjct: 178 VNRKRKDQ--DEEEEGEGEDGNDNEESGNQKKPRVVWSVELHQKFVSAVNQLGLDKAVPK 235

Query: 220 KILDLMNVEGLTRENV-----KFRLSLKRLG-NKTLEAGMVASVGSKDSSYLRIGALDGF 273
           KILDLMNV+GLTRENV     KFRL LKRL      +  MVA+ G+KDSSYLR+G+LDGF
Sbjct: 236 KILDLMNVDGLTRENVASHLQKFRLYLKRLSCGANQQPNMVAAFGAKDSSYLRMGSLDGF 295

Query: 274 GGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFN 333
           G   SV+ PG+LS+++L SSY PGS++GRLNS  GL++ GIAS G+++PG S+S N   N
Sbjct: 296 GDFRSVHGPGQLSTTSL-SSYPPGSLLGRLNSPGGLTLQGIASPGLLQPGHSRSLNNPLN 354

Query: 334 TIGKNQQAMFPANRNS-NLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFI 392
           T+GK Q  +   NR S NL QG+ ++L+P Q  Q +S  H GDFNH    T+FT A  F 
Sbjct: 355 TLGKLQPGLLQTNRGSTNLFQGISSALDPKQF-QLKSMNHSGDFNHKGDATSFTLAGCFP 413

Query: 393 DARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSS 452
           D +V +GS  +++S++ +N  ML  NP Q Q+R +   QSSL++ SLNQ  FD+GV  SS
Sbjct: 414 DVKVTIGSLGNTISSAANNPQMLHVNPQQNQTRRSLATQSSLSMPSLNQESFDVGVRGSS 473

Query: 453 NFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPN--KDNILSSNCY-----LDI 505
           NFLDH RC ++WQ  VQ+S   S SLPLGEPF  D +P +  +DNI S+  +     LD 
Sbjct: 474 NFLDHSRCDDNWQGVVQMSTFPSNSLPLGEPFRHDPLPTSTRRDNISSTTSHIVNNPLDF 533

Query: 506 SSSIANSTHLENSRGDL 522
           SSS + +  LE+SR D+
Sbjct: 534 SSSGSLTAPLEDSRLDM 550

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565035|ref|XP_002523510.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis] gi|223537217|gb|EEF38849.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis]

 Score =  560 bits (1442), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 304/543 (55%), Positives = 379/543 (69%), Gaps = 60/543 (11%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT E+K  SS D      KFP+GMRVLAVDDD  CLK+L+  L++CQY+VT TN+AI AL
Sbjct: 1   MTVEDKRSSSED------KFPVGMRVLAVDDDPICLKVLDTLLKKCQYQVTTTNQAIQAL 54

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           KMLRENRN +DLVISDV MPDMDGFKLLELVGLEMDLPV+MLSA+SD +LV KG+ HGA 
Sbjct: 55  KMLRENRNKYDLVISDVNMPDMDGFKLLELVGLEMDLPVIMLSAHSDKELVYKGVTHGAV 114

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFE---------------------- 158
           DYLLKPVR+EELKN WQHVIRRKK+ PKDQ+RS ++ +                      
Sbjct: 115 DYLLKPVRIEELKNIWQHVIRRKKLQPKDQSRSQNQDKPLDGAGEGGQGMSSSGSEDQNG 174

Query: 159 KSYRKRKDQDG----------EDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAV 208
           K  RKRKDQD            D DE G            QKKPRVVW+ ELH KF+ AV
Sbjct: 175 KVNRKRKDQDEDEEEEGEDNLNDTDEPG-----------AQKKPRVVWSVELHRKFVAAV 223

Query: 209 NLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKRLGN-KTLEAGMVASVGSKDS 262
           N LGLDKAVPKKILDLMNVEGLTRENV     K+RL LKR+ +  + +A MVA+ G KDS
Sbjct: 224 NQLGLDKAVPKKILDLMNVEGLTRENVASHLQKYRLYLKRISSTASQQANMVAAFGIKDS 283

Query: 263 SYLRIGALDGFGGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKP 322
           SYLR+ +LDGFG   +++ PGRLSS+++ SSY P  M+GRLNS +GL++ GIASSG+++P
Sbjct: 284 SYLRMASLDGFGEFRTLSGPGRLSSTSI-SSYHPSGMLGRLNSPSGLTLRGIASSGLLQP 342

Query: 323 GLSQSFNTSFNTIGKNQQAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSP 382
           G SQS ++S NT+GK Q  +  +++  NL QG+ +SLEPNQ+ QS+S+ H G+FN  +  
Sbjct: 343 GQSQSLSSSVNTLGKLQPTLLHSSQGVNLFQGIPSSLEPNQL-QSKSSAHFGEFNRNDDS 401

Query: 383 TAFTAATGFIDARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQA 442
           + F+    F DARV +GS S++ +   SN MMLQA+P Q Q+   +  QSSL+V SLNQ 
Sbjct: 402 SGFSLTNSFSDARVTIGSLSNTATGPSSNPMMLQAHPQQNQNTGVFATQSSLSVPSLNQE 461

Query: 443 YFDLGVHDSSNFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPN--KDNILSSN 500
            FD+GV  SSNFLDH RC ESWQ AVQLSK S+ +LPL EPF  D +  +  +DN+ S+N
Sbjct: 462 SFDVGVRGSSNFLDHSRCNESWQGAVQLSKFST-TLPLSEPFSHDALSTSNFRDNMSSTN 520

Query: 501 CYL 503
             +
Sbjct: 521 SRM 523

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556600|ref|XP_003546612.1| PREDICTED: two-component response regulator ARR12-like [Glycine max]

 Score =  524 bits (1350), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 285/544 (52%), Positives = 371/544 (68%), Gaps = 42/544 (7%)

Query: 13  EDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDL 72
           ED   D+FP+GMRVLAVDDD  CLK+LE  LR+CQY VT TN+A+ ALKMLRENRN FDL
Sbjct: 8   EDEGCDRFPVGMRVLAVDDDPICLKVLENLLRKCQYHVTTTNQAVEALKMLRENRNKFDL 67

Query: 73  VISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           VISDV MPD+DGFKLLELVGLEMDLPV+MLSA+ DTKLVMKG+ HGACDYLLKPVR+EEL
Sbjct: 68  VISDVNMPDIDGFKLLELVGLEMDLPVIMLSAHGDTKLVMKGVTHGACDYLLKPVRIEEL 127

Query: 133 KNTWQHVIRRKKVDPKDQNRSPHEFEKSY-----------------------RKRKDQDG 169
           KN WQHV+RRK  D +DQN++ +E EK+                        +KRKDQ  
Sbjct: 128 KNIWQHVVRRKNFDSRDQNKASNE-EKAPNIAGEGSQGLRSENSADQNKRLGKKRKDQSE 186

Query: 170 EDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEG 229
           E+E++   ++  ++E+ + QKKPRVVW+ ELH KF+ AVN LGLDKAVPKKILDLMNVEG
Sbjct: 187 EEEED--GEENGDDEDPSAQKKPRVVWSVELHRKFVAAVNQLGLDKAVPKKILDLMNVEG 244

Query: 230 LTRENV-----KFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGR 284
           LTRENV     K+RL LK+      +A MVA++G  D SYLR+G++DG+G   + +  GR
Sbjct: 245 LTRENVASHLQKYRLYLKKAAQ---QANMVAALGGSD-SYLRMGSIDGYGDFCTSSGSGR 300

Query: 285 LSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFP 344
           ++++  S SY    +  RLNS A L+M  I+SS +I+P  SQ+ N S NT+G  Q ++FP
Sbjct: 301 ITNTT-SPSYASTGIFSRLNSPAALNMRAISSSALIRPVQSQNINCSLNTLGNIQPSVFP 359

Query: 345 ANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSS 404
           AN +S+L+QG+ TS+E NQ  QS  TT I   + ++S + F  A+GF D+R  V   ++S
Sbjct: 360 ANHSSSLLQGIPTSIELNQSKQSNCTTGISQLSQVDS-SGFAVASGFPDSRATVNGPNNS 418

Query: 405 VSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESW 464
           +    +N +MLQ NP Q     A+ NQSS+  ASL    FD G+  SSN LD+ RC E+W
Sbjct: 419 LPCVSNNHIMLQGNPQQMHGPGAFRNQSSVRAASLCAESFDAGLCSSSNLLDYNRCNENW 478

Query: 465 QDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSS-----NCYLDISSSIANSTHLENSR 519
           Q+A QLSK  + SLPL E F  DQ+PP + N+ +S     N  +D SS +  S  LE++R
Sbjct: 479 QNAAQLSKFPAHSLPLCEAFSNDQLPPTRINVSNSRTHIVNSPVDFSSRMGISVPLEDTR 538

Query: 520 GDLS 523
            +L+
Sbjct: 539 NELA 542

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530639|ref|XP_003533888.1| PREDICTED: two-component response regulator ARR12-like [Glycine max]

 Score =  519 bits (1337), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 285/544 (52%), Positives = 369/544 (67%), Gaps = 44/544 (8%)

Query: 13  EDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDL 72
           EDG  D+FP+GMRVLAVDDD  CLK+LE  LR+CQY VT TN+A+ AL MLRENRN FDL
Sbjct: 8   EDGGCDRFPVGMRVLAVDDDPICLKVLENLLRKCQYHVTTTNQAVEALTMLRENRNKFDL 67

Query: 73  VISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           VISDV MPD+DGFKLLELVGLEMDLPV+MLSA+ DTKLVMKG+ HGACDYLLKPVR+EEL
Sbjct: 68  VISDVNMPDIDGFKLLELVGLEMDLPVIMLSAHGDTKLVMKGVTHGACDYLLKPVRIEEL 127

Query: 133 KNTWQHVIRRKKVDPKDQNRSPHEFEKSY-----------------------RKRKDQDG 169
           KN WQHV+RRK  D +DQN++ +E EK+                        +KRKDQ  
Sbjct: 128 KNIWQHVVRRKNFDSRDQNKASNE-EKAPNFAGGGSQGLRSENSADQNKRLGKKRKDQSD 186

Query: 170 EDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEG 229
           E+E+    ++  ++E+ + QKK RVVW+ ELH KF+ AVN LGLDKAVPKKILDLMNVEG
Sbjct: 187 EEEEG--GEENEDDEDPSAQKKARVVWSVELHRKFVAAVNQLGLDKAVPKKILDLMNVEG 244

Query: 230 LTRENV-----KFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGR 284
           LTRENV     K+RL LK+      +A MVA++G  D SYLRIG++DG+G   + +  GR
Sbjct: 245 LTRENVASHLQKYRLYLKKAAQ---QANMVAALGGSD-SYLRIGSIDGYGDFCTSSGSGR 300

Query: 285 LSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFP 344
           ++++ L  SY    +  RLNS A L+M GI+SS +I+P  SQ+ N+S NT+G  Q ++FP
Sbjct: 301 ITNATL-PSYASTGIFSRLNSPAALNMRGISSSALIRPVQSQNINSSLNTLGNIQPSIFP 359

Query: 345 ANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSS 404
           AN++S+L+QG+ TS+E NQ  Q   TT I   + ++S + FT A+GF D R  V   ++S
Sbjct: 360 ANQSSSLLQGIPTSIELNQSKQRNCTTGISQLSQVDS-SGFTVASGFPDHRATVNGPNNS 418

Query: 405 VSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESW 464
           +    +N +MLQ NP Q     A+ NQSS+  ASL    FD+G+  SSN LDH RC ++W
Sbjct: 419 LPCVSNNHIMLQGNP-QTHGPGAFSNQSSVRAASLCAESFDVGLCGSSNLLDHNRCNDNW 477

Query: 465 QDAVQLSKSSSISLPLGEPFILDQVPP------NKDNILSSNCYLDISSSIANSTHLENS 518
           Q+A QLSK  + SLPL E F  DQ+PP      N    + +N  +D SS +  S  LE++
Sbjct: 478 QNAAQLSKFPANSLPLCEAFSNDQLPPTSINDSNSSTHIGNNSPVDFSSRMGISVPLEDT 537

Query: 519 RGDL 522
           R +L
Sbjct: 538 RNEL 541

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735895|emb|CBI18671.3| unnamed protein product [Vitis vinifera]

 Score =  515 bits (1327), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 278/536 (51%), Positives = 353/536 (65%), Gaps = 79/536 (14%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT EE+ G  + EDGV D FP+GMRVLAVDDD TCL +L+  LR CQY+VT TN+AITAL
Sbjct: 1   MTVEERKGGLAGEDGVKDPFPVGMRVLAVDDDPTCLMLLDGLLRRCQYQVTTTNQAITAL 60

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           KMLREN+NNFDLVISDV MPDMDGFKLLELVGLEMDLPV+MLS++SD KLVM+GI HGAC
Sbjct: 61  KMLRENKNNFDLVISDVSMPDMDGFKLLELVGLEMDLPVIMLSSHSDPKLVMRGITHGAC 120

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDG 180
           DYLLKPVR+EELKN WQHVIRRKK+D KDQN+S                 D+D     DG
Sbjct: 121 DYLLKPVRIEELKNIWQHVIRRKKIDSKDQNKS----------------ADQDNALHADG 164

Query: 181 HENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV----- 235
            ENE+ ++QKKPRVVW+ ELH KF+ AVN LG++KAVPK+ILDLMNVEGLTRENV     
Sbjct: 165 EENEDPSSQKKPRVVWSVELHRKFVAAVNQLGIEKAVPKRILDLMNVEGLTRENVASHLQ 224

Query: 236 KFRLSLKRLGN-KTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGRLSSSALSSSY 294
           K+RL LKR+    T +A MVA+ G+KDSSY+R+G+LDGFG +                  
Sbjct: 225 KYRLYLKRISCVATQQANMVAAFGAKDSSYMRMGSLDGFGHAQ----------------- 267

Query: 295 VPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAMFPANRNSNLVQG 354
                    NSS  ++ HG                       K Q  + P N++++L QG
Sbjct: 268 ---------NSSNSVNTHG-----------------------KLQPVVLPTNQSASLFQG 295

Query: 355 VQTSLEPNQMPQSES-TTHIGDFNHINSPTAFTAATGFIDARVAVGSSSSSVSTSLSNLM 413
           + TSLE +Q+ Q +  +T  G+F+ +++ T FT A GF D+R+ V SSS+S+S + SN +
Sbjct: 296 IPTSLELDQLQQRKCISTQRGEFSSVDNTTVFTTANGFPDSRMTVHSSSNSLSNAPSNPL 355

Query: 414 MLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQESWQDAVQLSKS 473
           MLQ+NP Q   R    NQSSL   +LN   + +GV  SSNFLDHGRC E+WQ A+QLSK 
Sbjct: 356 MLQSNPQQTLCRGGLANQSSLKAVTLNPEPYTMGVSGSSNFLDHGRCNENWQSALQLSKF 415

Query: 474 SSISLPLGEPFILDQVPPN--KDNILSSNCY-----LDISSSIANSTHLENSRGDL 522
            S SLPL EP   D +  N  +++I S+  +     +D S++   +  LE+SRG++
Sbjct: 416 PSNSLPLSEPLNCDPLTTNNLREHISSTGSHIRRSPIDFSATSVLAGPLEDSRGEM 471

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457923|ref|XP_004146697.1| PREDICTED: two-component response regulator ARR12-like [Cucumis sativus] gi|449505373|ref|XP_004162449.1| PREDICTED: two-component response regulator ARR12-like [Cucumis sativus]

 Score =  506 bits (1304), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 292/553 (52%), Positives = 372/553 (67%), Gaps = 48/553 (8%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT E    +   +DG  D FP+GMRVLAVDDD  CLK+LE  LR+CQY VT T ++I AL
Sbjct: 1   MTVEGHSVAVVGDDGATDHFPVGMRVLAVDDDPICLKVLESLLRKCQYHVTTTKQSIEAL 60

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           +MLRENRN FDLVISDV MPDMDGFKLLELVGLEMDLPV+MLSA+SDT+LVMKGI HGAC
Sbjct: 61  RMLRENRNKFDLVISDVNMPDMDGFKLLELVGLEMDLPVIMLSAHSDTELVMKGIAHGAC 120

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSP---------HEFEKSY---------- 161
           DYLLKPVR+EELKN WQHVIRRKK++PK +N+ P         +E E+ +          
Sbjct: 121 DYLLKPVRIEELKNIWQHVIRRKKLEPKAKNKFPSQNKVQNGGNEVEQGFSPTSNADSAK 180

Query: 162 --RKRKDQDGEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPK 219
             RKRKDQD +D+DE G ++G ++++ + QKKPRVVW+ ELH KF+ AVN LGL+KAVPK
Sbjct: 181 FNRKRKDQDDDDDDE-GKENGLDSDDPSNQKKPRVVWSVELHRKFVSAVNQLGLEKAVPK 239

Query: 220 KILDLMNVEGLTRENV-----KFRLSLKRLGN-KTLEAGMVASVGSKDSSYLRIGALDGF 273
           KILDLMNVEGLTRENV     K+RL LKR+ N  + +A MVA+ GSKD +Y+R+G+LDG+
Sbjct: 240 KILDLMNVEGLTRENVASHLQKYRLYLKRISNVASQQANMVATFGSKDGTYMRMGSLDGY 299

Query: 274 GGSHSVNSPGRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFN 333
           G  H     GRL +S+L SSY P  M+GRLNS AG+S+ GI SSG+I+   SQ+ N + N
Sbjct: 300 GDLHGFAGSGRLPNSSL-SSYSPVGMLGRLNSPAGMSLRGITSSGLIQQN-SQNLNCAIN 357

Query: 334 TIGKNQ-QAMFPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDFNHINSPTAFTAATGFI 392
            +GK Q   M   N+ +NL+QG+ TSLE  Q+  S+STT IGDFN +N  + F     F 
Sbjct: 358 NLGKLQPTTMLSPNQTTNLLQGIPTSLEIGQLQHSKSTTSIGDFNTMNDTSGFGVPNSFP 417

Query: 393 DARVAVGSSSSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSS 452
           + R  +G+S+ SVS +    +MLQ       +   YGNQ+SL V  LN   FD+ V   S
Sbjct: 418 ETRANIGNSTYSVSPA---PLMLQG------TIPTYGNQTSLRVDPLNGETFDIDV-GGS 467

Query: 453 NFLDHGRCQESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDNILSS------NCYLDIS 506
           NFLD      +WQ A  LS+ S+ SL   E +  DQ+  + ++++SS      N  +D S
Sbjct: 468 NFLDPDPSNGNWQGAAHLSRFSATSLTTNEAYPSDQL-HSMNSVISSTPSTIGNISVDFS 526

Query: 507 SSIANSTHLENSR 519
           S  A S  L +SR
Sbjct: 527 SRSAGSASLLDSR 539

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548782|ref|XP_002515447.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis] gi|223545391|gb|EEF46896.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis]

 Score =  483 bits (1243), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 287/548 (52%), Positives = 355/548 (64%), Gaps = 45/548 (8%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
           MT E+  G + D+      FPIGMRVLAVDDD TCL +LE FLR CQY VT T++AI+AL
Sbjct: 1   MTVEQGAGEAKDQ------FPIGMRVLAVDDDPTCLLVLETFLRRCQYHVTTTSQAISAL 54

Query: 61  KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
           KMLREN+N FDLVISDV+MPDMDGFKLLELVGLEMDLPV+MLSAYSD KLVMKGI HGAC
Sbjct: 55  KMLRENKNKFDLVISDVHMPDMDGFKLLELVGLEMDLPVIMLSAYSDPKLVMKGITHGAC 114

Query: 121 DYLLKPVRMEELKNTWQHVIRRKKVDPKDQN---------RSPHEF---EKSYRKRKDQD 168
           DYLLKPVR+EELKN WQHVIRRKKVD KDQN         R   E    +K  +KRKDQ+
Sbjct: 115 DYLLKPVRIEELKNIWQHVIRRKKVDNKDQNNFDNQDKLPRGSGEATADQKLNKKRKDQN 174

Query: 169 GEDEDEDGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVE 228
            EDEDED D+ GHENE+ TTQKKPRVVW+ ELH KF+ AVN LG+DKAVPKKILDLMNVE
Sbjct: 175 -EDEDEDRDEHGHENEDPTTQKKPRVVWSVELHRKFVAAVNQLGVDKAVPKKILDLMNVE 233

Query: 229 GLTRENV-----KFRLSLKRLGN-KTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSP 282
            LTRENV     K+RL LKR+      +A MVA++GS D+SYL++G+  GF G   +   
Sbjct: 234 KLTRENVASHLQKYRLYLKRISTVANQQANMVAALGSSDASYLQMGSGLGFQG---IAGA 290

Query: 283 GRLSSSALSSSYVPGSMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAM 342
           G+  ++       P  M+GRLNS AGL M G+ S G+I+ G  Q    S N     Q A+
Sbjct: 291 GQFHNATF-RPLPPSGMLGRLNSPAGLGMRGLPSPGVIQLGQLQGTGHSSNNQSHFQMAV 349

Query: 343 FPANRNSNLVQGVQTSLEPNQMPQSESTTHIGDF-NHINSPTAFTAATGFIDARVAVGSS 401
            P N   N++QG+ TSLE +Q+  ++  T+I +    IN  TAF+ + GF D ++ VGSS
Sbjct: 350 HPGNA-GNVLQGMPTSLELDQIQSNKGVTYIRELPTDINDATAFSVSGGFSDTKIMVGSS 408

Query: 402 SSSVSTSLSNLMMLQANPHQAQSRDAYGNQSSLTVASLNQAYFDLGVHDSSNFLDHGRCQ 461
           +SS   + +  +ML+ N   AQ    +G  SSLTVASL+  +       SS+  D GRC 
Sbjct: 409 NSSFLGASNKPLMLEGNTQGAQDGKEFGKHSSLTVASLDSGF-------SSHLPDPGRCN 461

Query: 462 ESWQDAVQLSKSSSISLPLGEPFILDQVPPNKDN-------ILSSNCYLDISSSIANSTH 514
           ++W  AVQ +   S S  L + F    + PN          + + N   DISS      H
Sbjct: 462 DNWSSAVQSNGVQSTSFALNDCFRQTTLHPNNSRDSMSTMGLQNGNNAPDISSISTLPIH 521

Query: 515 LENSRGDL 522
           L+ S+ DL
Sbjct: 522 LQESKADL 529

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	524
TAIR|locus:2116587	552	RR10 "response regulator 10" [	0.604	0.574	0.502	2.3e-78
TAIR|locus:2040194	596	RR12 "response regulator 12" [	0.639	0.562	0.489	5.5e-77
TAIR|locus:2093668	690	RR1 "response regulator 1" [Ar	0.263	0.2	0.631	1e-67
TAIR|locus:2065398	382	RR14 "response regulator 14" [	0.259	0.356	0.591	1.4e-58
TAIR|locus:2008585	521	ARR11 "response regulator 11"	0.442	0.445	0.508	5.3e-56
TAIR|locus:2130095	664	RR2 "response regulator 2" [Ar	0.349	0.275	0.502	6.3e-43
UNIPROTKB|Q7Y0W3	341	Q7Y0W3 "Two-component response	0.251	0.387	0.416	4.5e-40
UNIPROTKB|Q7Y0W5	341	EHD1 "Two-component response r	0.251	0.387	0.416	4.5e-40
TAIR|locus:2155954	292	APRR4 "pseudo-response regulat	0.423	0.760	0.372	2.4e-35
TAIR|locus:2044376	468	PRR9 "pseudo-response regulato	0.412	0.461	0.318	2.7e-19

TAIR|locus:2116587 RR10 "response regulator 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 788 (282.4 bits), Expect = 2.3e-78, P = 2.3e-78
 Identities = 168/334 (50%), Positives = 223/334 (66%)

Query:    16 VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVIS 75
             V+D+FP+GMRVLAVDDDQTCL+IL+  L+ CQY VT TN+A TAL++LREN+N FDLVIS
Sbjct:     9 VLDQFPVGMRVLAVDDDQTCLRILQTLLQRCQYHVTTTNQAQTALELLRENKNKFDLVIS 68

Query:    76 DVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
             DV MPDMDGFKLLELVGLEMDLPV+MLSA+SD K VMKG+ HGACDYLLKPVR+EELKN 
Sbjct:    69 DVDMPDMDGFKLLELVGLEMDLPVIMLSAHSDPKYVMKGVKHGACDYLLKPVRIEELKNI 128

Query:   136 WQHVIRRKKVDPKDQNRS--PHEFEKSYRKRKDQXXXXXXXXXXXXXHENENSTTQKKPR 193
             WQHV+R+ K+     N S      +K+ RKRK+Q             ++N++ T QKKPR
Sbjct:   129 WQHVVRKSKLKKNKSNVSNGSGNCDKANRKRKEQYEEEEEEERG---NDNDDPTAQKKPR 185

Query:   194 VVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKRLGNKT 248
             V+WT ELH KF+ AV+ LG+++AVPKKILDLMNV+ LTRENV     KFR++LK++ +  
Sbjct:   186 VLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKKVSDDA 245

Query:   249 LEAGMVASVGSKDSSYLRIGALDGFGGSHSVNXXXXXXXXXXXXXXXXXXMIGRLNSSAG 308
             ++    A++   DS ++++ +  G GG +  +                  M+   +S+  
Sbjct:   246 IQQANRAAI---DSHFMQMNSQKGLGGFYHHHRGIPVGSGQFHGGTT---MMRHYSSNRN 299

Query:   309 LSMHGIASSGMIKPGLSQSFNTSFNTIGKNQQAM 342
             L       +GM +P +S SF  + N  G   Q +
Sbjct:   300 LGRLNSLGAGMFQP-VSSSFPRNHNDGGNILQGL 332

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA

GO:0009736 "cytokinin mediated signaling pathway" evidence=IGI;RCA;TAS

GO:0009735 "response to cytokinin stimulus" evidence=IGI

GO:0010380 "regulation of chlorophyll biosynthetic process" evidence=IGI

GO:0031537 "regulation of anthocyanin metabolic process" evidence=IGI;RCA

GO:0048367 "shoot system development" evidence=IGI

GO:0080022 "primary root development" evidence=IGI

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2040194 RR12 "response regulator 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 775 (277.9 bits), Expect = 5.5e-77, P = 5.5e-77
 Identities = 182/372 (48%), Positives = 229/372 (61%)

Query:    17 IDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISD 76
             +D+FP+GMRVLAVDDDQTCLKILE  LR CQY VT TN+A  AL++LREN+N FDLVISD
Sbjct:    10 LDQFPVGMRVLAVDDDQTCLKILESLLRHCQYHVTTTNQAQKALELLRENKNKFDLVISD 69

Query:    77 VYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
             V MPDMDGFKLLELVGLEMDLPV+MLSA+SD K VMKG+ HGACDYLLKPVR+EELKN W
Sbjct:    70 VDMPDMDGFKLLELVGLEMDLPVIMLSAHSDPKYVMKGVTHGACDYLLKPVRIEELKNIW 129

Query:   137 QHVIRRK---------KVDPKDQN------RSPHEFEKSYRKRKDQXXXXXXXXXXXXXH 181
             QHV+R +           D +D +       S     K  RKRKDQ              
Sbjct:   130 QHVVRSRFDKNRGSNNNGDKRDGSGNEGVGNSDQNNGKGNRKRKDQYNEDEDEDRD---- 185

Query:   182 ENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----K 236
             +N++S  QKK RVVWT ELH KF+ AVN LG +KA+PKKILDLMNVE LTRENV     K
Sbjct:   186 DNDDSCAQKKQRVVWTVELHKKFVAAVNQLGYEKAMPKKILDLMNVEKLTRENVASHLQK 245

Query:   237 FRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSH-SVNXXXXXXXXXXXXXXX 295
             FRL LKR+      A   A + + +  ++++  LDGF      V                
Sbjct:   246 FRLYLKRISGV---ANQQAIMANSELHFMQMNGLDGFHHRPIPVGSGQYHGGAPAMRSFP 302

Query:   296 XXXMIGRLNSSAGLSMHGIASSGMIKPGLSQSFNTSFNTIGK-NQQAMFPANRNS--NLV 352
                ++GRLN+ +G+ +  ++S      G+   F  +   IGK +  +  P N +   N++
Sbjct:   303 PNGILGRLNTPSGIGVRSLSSP---PAGM---FLQNQTDIGKFHHVSSLPLNHSDGGNIL 356

Query:   353 QGVQTSLEPNQM 364
             QG+   LE +Q+
Sbjct:   357 QGLPMPLEFDQL 368

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0009736 "cytokinin mediated signaling pathway" evidence=IGI;TAS

GO:0009735 "response to cytokinin stimulus" evidence=IGI

GO:0010380 "regulation of chlorophyll biosynthetic process" evidence=IGI

GO:0031537 "regulation of anthocyanin metabolic process" evidence=IGI

GO:0048367 "shoot system development" evidence=IGI

GO:0080022 "primary root development" evidence=IGI

TAIR|locus:2093668 RR1 "response regulator 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 468 (169.8 bits), Expect = 1.0e-67, Sum P(2) = 1.0e-67
 Identities = 91/144 (63%), Positives = 113/144 (78%)

Query:     7 GGSSS--DEDG----VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL 60
             GGSSS  ++ G    V++ FP G+RVL VDDD TCL ILE+ LR C YEVT  NRA  AL
Sbjct:    14 GGSSSGRNQGGGGETVVEMFPSGLRVLVVDDDPTCLMILERMLRTCLYEVTKCNRAEMAL 73

Query:    61 KMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC 120
              +LR+N++ FD+VISDV+MPDMDGFKLLE VGLEMDLPV+M+SA     +V+KG+ HGA 
Sbjct:    74 SLLRKNKHGFDIVISDVHMPDMDGFKLLEHVGLEMDLPVIMMSADDSKSVVLKGVTHGAV 133

Query:   121 DYLLKPVRMEELKNTWQHVIRRKK 144
             DYL+KPVRME LKN WQHV+R+++
Sbjct:   134 DYLIKPVRMEALKNIWQHVVRKRR 157

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA

GO:0009736 "cytokinin mediated signaling pathway" evidence=IGI;RCA;TAS

GO:0009735 "response to cytokinin stimulus" evidence=IGI;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0010380 "regulation of chlorophyll biosynthetic process" evidence=IGI

GO:0031537 "regulation of anthocyanin metabolic process" evidence=IGI;RCA

GO:0048367 "shoot system development" evidence=IGI

GO:0080022 "primary root development" evidence=IGI

GO:0006487 "protein N-linked glycosylation" evidence=RCA

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0010043 "response to zinc ion" evidence=RCA

GO:0016558 "protein import into peroxisome matrix" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2065398 RR14 "response regulator 14" [Arabidopsis thaliana (taxid:3702)]

 Score = 421 (153.3 bits), Expect = 1.4e-58, Sum P(2) = 1.4e-58
 Identities = 81/137 (59%), Positives = 104/137 (75%)

Query:    18 DKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDV 77
             D+FP G+R+L VDDD +CL ILEK L    Y+VT+ ++A  AL +LRE +++FDLV+SDV
Sbjct:     5 DQFPSGLRILVVDDDTSCLFILEKMLLRLMYQVTICSQADVALTILRERKDSFDLVLSDV 64

Query:    78 YMPDMDGFKLLELVGL-EMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
             +MP M+G+ LL+ VGL EMDLPV+M+S    T  VM GINHGACDYL+KP+R EELKN W
Sbjct:    65 HMPGMNGYNLLQQVGLLEMDLPVIMMSVDGRTTTVMTGINHGACDYLIKPIRPEELKNIW 124

Query:   137 QHVIRRKKVDPKDQNRS 153
             QHV+RRK V  K+   S
Sbjct:   125 QHVVRRKCVMKKELRSS 141

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical protein binding" evidence=IPI

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

TAIR|locus:2008585 ARR11 "response regulator 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 577 (208.2 bits), Expect = 5.3e-56, P = 5.3e-56
 Identities = 126/248 (50%), Positives = 158/248 (63%)

Query:    21 PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
             P+G+RVL VDDD T LKILEK L++C YEVT    A  AL++LRE ++ +D+VISDV MP
Sbjct:     8 PVGLRVLVVDDDPTWLKILEKMLKKCSYEVTTCGLAREALRLLRERKDGYDIVISDVNMP 67

Query:    81 DMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
             DMDGFKLLE VGLE+DLPV+M+S   +T  VMKG+ HGACDYLLKP+RM+ELK  WQHV+
Sbjct:    68 DMDGFKLLEHVGLELDLPVIMMSVDGETSRVMKGVQHGACDYLLKPIRMKELKIIWQHVL 127

Query:   141 RRKKVDPKDQNRSPHEFEKSYRKRKDQXXXXXXXXXXXXXHENEN--------------- 185
             R+K  + +D     +E    +  R D+              + ++               
Sbjct:   128 RKKLQEVRDIEGCGYEGGADWITRYDEAHFLGGGEDVSFGKKRKDFDFEKKLLQDESDPS 187

Query:   186 STTQKKPRVVWTTELHTKFIGAVNLLGLD-KAVPKKILDLMNVEGLTRENVKFRLSLKRL 244
             S++ KK RVVW+ ELH KF+ AVN +G D KA PKKILDLMNV  LTRENV   L   RL
Sbjct:   188 SSSSKKARVVWSFELHHKFVNAVNQIGCDHKAGPKKILDLMNVPWLTRENVASHLQKYRL 247

Query:   245 GNKTLEAG 252
                 LE G
Sbjct:   248 YLSRLEKG 255

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;TAS

GO:0009735 "response to cytokinin stimulus" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2130095 RR2 "response regulator 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 455 (165.2 bits), Expect = 6.3e-43, P = 6.3e-43
 Identities = 96/191 (50%), Positives = 121/191 (63%)

Query:     7 GGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLREN 66
             GGS+SD       FP  +RVL VDDD TCL ILE+ L  C Y VT  NRA +AL +LR+N
Sbjct:    17 GGSNSDP------FPANLRVLVVDDDPTCLMILERMLMTCLYRVTKCNRAESALSLLRKN 70

Query:    67 RNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
             +N FD+VISDV+MPDMDGFKLLE VGLEMDLPV+M+SA     +V+KG+ HGA DYL+KP
Sbjct:    71 KNGFDIVISDVHMPDMDGFKLLEHVGLEMDLPVIMMSADDSKSVVLKGVTHGAVDYLIKP 130

Query:   127 VRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSY--RKRKDQXXXXXXXXXXXXXHENE 184
             VR+E LKN WQHV+R+K+ +      S    E +   R R+ Q               N 
Sbjct:   131 VRIEALKNIWQHVVRKKRNEWNVSEHSGGSIEDTGGDRDRQQQHREDADNNSSSVNEGNG 190

Query:   185 NSTTQKKPRVV 195
              S+ ++K   V
Sbjct:   191 RSSRKRKEEEV 201

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0009736 "cytokinin mediated signaling pathway" evidence=RCA;TAS

GO:0009723 "response to ethylene stimulus" evidence=IMP

GO:0009735 "response to cytokinin stimulus" evidence=IEP;IGI

GO:0010150 "leaf senescence" evidence=IMP

GO:0009873 "ethylene mediated signaling pathway" evidence=IMP

GO:0010119 "regulation of stomatal movement" evidence=IMP

GO:0007623 "circadian rhythm" evidence=RCA

GO:0010029 "regulation of seed germination" evidence=RCA

GO:0031537 "regulation of anthocyanin metabolic process" evidence=RCA

GO:0048831 "regulation of shoot system development" evidence=RCA

UNIPROTKB|Q7Y0W3 Q7Y0W3 "Two-component response regulator EHD1" [Oryza sativa Indica Group (taxid:39946)]

 Score = 290 (107.1 bits), Expect = 4.5e-40, Sum P(2) = 4.5e-40
 Identities = 55/132 (41%), Positives = 83/132 (62%)

Query:    20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
             +P G+RVL +DDD + L ++E  L +C Y+VT       A+  + +N    DLVISD + 
Sbjct:     7 WPYGLRVLVIDDDCSYLSVMEDLLLKCSYKVTTYKNVREAVPFILDNPQIVDLVISDAFF 66

Query:    80 PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
             P  DG  +L+ V  +  +P V++++  DT  VMK + +GA D+LLKPVR+EEL N WQH+
Sbjct:    67 PTEDGLLILQEVTSKFGIPTVIMASSGDTNTVMKYVANGAFDFLLKPVRIEELSNIWQHI 126

Query:   140 IRRKKVDPKDQN 151
              R++  D K+ N
Sbjct:   127 FRKQMQDHKNNN 138

GO:0003677 "DNA binding" evidence=IDA

GO:0048576 "positive regulation of short-day photoperiodism, flowering" evidence=IMP

UNIPROTKB|Q7Y0W5 EHD1 "Two-component response regulator EHD1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 290 (107.1 bits), Expect = 4.5e-40, Sum P(2) = 4.5e-40
 Identities = 55/132 (41%), Positives = 83/132 (62%)

Query:    20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
             +P G+RVL +DDD + L ++E  L +C Y+VT       A+  + +N    DLVISD + 
Sbjct:     7 WPYGLRVLVIDDDCSYLSVMEDLLLKCSYKVTTYKNVREAVPFILDNPQIVDLVISDAFF 66

Query:    80 PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
             P  DG  +L+ V  +  +P V++++  DT  VMK + +GA D+LLKPVR+EEL N WQH+
Sbjct:    67 PTEDGLLILQEVTSKFGIPTVIMASSGDTNTVMKYVANGAFDFLLKPVRIEELSNIWQHI 126

Query:   140 IRRKKVDPKDQN 151
              R++  D K+ N
Sbjct:   127 FRKQMQDHKNNN 138

GO:0048576 "positive regulation of short-day photoperiodism, flowering" evidence=IMP

TAIR|locus:2155954 APRR4 "pseudo-response regulator 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 2.4e-35, P = 2.4e-35
 Identities = 88/236 (37%), Positives = 134/236 (56%)

Query:    20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
             FP G+RVL  D+D + L ILE+ L++ QY+VT+ N    A+  LR +RN FDL +  V  
Sbjct:    38 FPEGLRVLVFDEDPSYLLILERHLQKFQYQVTICNEVNKAMHTLRNHRNRFDLAMIQVNN 97

Query:    80 PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
              + D F+ L  +G EMDLP++++S     K V K + +GA DYL+KP+R E+L+  ++H+
Sbjct:    98 AEGDIFRFLSEIGSEMDLPIIIISEDDSVKSVKKWMINGAADYLIKPIRPEDLRIVFKHL 157

Query:   140 IR----RKKVDPKDQNRSPHEFEKSY--------RKRKDQXXXXXXXXXXXXXHENENS- 186
             ++    R+ V   +  ++  E   S          K K                 N+ + 
Sbjct:   158 VKKMRERRSVVTGEAEKAAGEKSSSVGDSTIRNPNKSKRSSCLEAEVNEEDRHDHNDRAC 217

Query:   187 -TTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSL 241
              ++ KK RVVW  ELH  F+ AV+ LGL++AVPKKILD+M V+ ++RENV   L +
Sbjct:   218 ASSAKKRRVVWDEELHQNFLNAVDFLGLERAVPKKILDVMKVDYISRENVASHLQV 273

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

TAIR|locus:2044376 PRR9 "pseudo-response regulator 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 256 (95.2 bits), Expect = 2.7e-19, P = 2.7e-19
 Identities = 74/232 (31%), Positives = 116/232 (50%)

Query:    24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
             +RVL V+ D +  +I+   LR+C Y+V   +  + A ++L+E  +N DL+++++ +P + 
Sbjct:    37 LRVLLVESDYSTRQIITALLRKCCYKVVAVSDGLAAWEVLKEKSHNIDLILTELDLPSIS 96

Query:    84 GFKLLELVGLEMD----LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
             GF LL LV +E +    +PV+M+S+    K+V+K +  GA DYL+KP+R  ELKN WQHV
Sbjct:    97 GFALLALV-MEHEACKNIPVIMMSSQDSIKMVLKCMLRGAADYLIKPMRKNELKNLWQHV 155

Query:   140 IRRKKV--DPKDQNRS-P---HEFEKSYRKRKDQXXXXXXXXXXXXXHEN-ENSTTQKKP 192
              RR  +  DP    +S P   H  E +    +D              + N  N   +   
Sbjct:   156 WRRLTLRDDPTAHAQSLPASQHNLEDTDETCEDSRYHSDQGSGAQAINYNGHNKLMENGK 215

Query:   193 RVVWTTELHTKFIGAVNLLG-LDKAVPKKILDLMNVEGLTRENVKFRLSLKR 243
              V    E    F   ++L+G +DK       D    E +  E     LSLKR
Sbjct:   216 SVDERDEFKETFDVTMDLIGGIDKRPDSIYKDKSRDECVGPE---LGLSLKR 264

GO:0000156 "phosphorelay response regulator activity" evidence=IEA;ISS

GO:0000160 "phosphorelay signal transduction system" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;TAS

GO:0007623 "circadian rhythm" evidence=IMP;TAS

GO:0005515 "protein binding" evidence=IPI

GO:0009266 "response to temperature stimulus" evidence=IGI

GO:0010017 "red or far-red light signaling pathway" evidence=IMP

GO:0003677 "DNA binding" evidence=IPI

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: RRb3 SubName- Full=Chromosome undetermined scaffold_314, whole genome shotgun sequence; (627 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	524
cd00156	113	cd00156, REC, Signal receiver domain; originally t	1e-27
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	3e-25
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	5e-25
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	2e-24
COG0745	229	COG0745, OmpR, Response regulators consisting of a	3e-24
COG4753	475	COG4753, COG4753, Response regulator containing Ch	6e-18
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	9e-17
COG3706	435	COG3706, PleD, Response regulator containing a Che	1e-16
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	5e-16
TIGR01557	57	TIGR01557, myb_SHAQKYF, myb-like DNA-binding domai	8e-16
COG3437	360	COG3437, COG3437, Response regulator containing a	6e-15
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	1e-14
PRK15479	221	PRK15479, PRK15479, transcriptional regulatory pro	2e-14
COG2197	211	COG2197, CitB, Response regulator containing a Che	4e-14
COG3947	361	COG3947, COG3947, Response regulator containing Ch	1e-13
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	2e-13
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	2e-13
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	1e-12
smart00448	55	smart00448, REC, cheY-homologous receiver domain	3e-11
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	3e-11
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	4e-11
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	7e-11
PLN03029	222	PLN03029, PLN03029, type-a response regulator prot	8e-11
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	1e-10
PRK09468	239	PRK09468, ompR, osmolarity response regulator; Pro	2e-10
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	2e-10
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	5e-10
TIGR02875	262	TIGR02875, spore_0_A, sporulation transcription fa	9e-10
PRK10643	222	PRK10643, PRK10643, DNA-binding transcriptional re	9e-10
PRK09836	227	PRK09836, PRK09836, DNA-binding transcriptional ac	1e-09
PRK10923	469	PRK10923, glnG, nitrogen regulation protein NR(I);	2e-09
PLN03162	526	PLN03162, PLN03162, golden-2 like transcription fa	2e-09
PRK10955	232	PRK10955, PRK10955, DNA-binding transcriptional re	3e-09
PRK11517	223	PRK11517, PRK11517, transcriptional regulatory pro	3e-09
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	3e-09
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	5e-09
COG3707	194	COG3707, AmiR, Response regulator with putative an	1e-08
TIGR02956	968	TIGR02956, TMAO_torS, TMAO reductase sytem sensor	6e-08
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	1e-07
PRK10430	239	PRK10430, PRK10430, DNA-binding transcriptional ac	2e-07
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	4e-07
PRK10816	223	PRK10816, PRK10816, DNA-binding transcriptional re	5e-07
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	1e-06
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	2e-06
PRK10693	303	PRK10693, PRK10693, response regulator of RpoS; Pr	3e-06
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	4e-06
PRK10046	225	PRK10046, dpiA, two-component response regulator D	4e-06
PRK11697	238	PRK11697, PRK11697, putative two-component respons	6e-06
COG4567	182	COG4567, COG4567, Response regulator consisting of	6e-06
COG3279	244	COG3279, LytT, Response regulator of the LytR/AlgR	9e-06
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	3e-05
PRK10529	225	PRK10529, PRK10529, DNA-binding transcriptional ac	6e-05
PRK10701	240	PRK10701, PRK10701, DNA-binding transcriptional re	8e-05
PRK12555	337	PRK12555, PRK12555, chemotaxis-specific methyleste	9e-05
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	1e-04
PRK13557	540	PRK13557, PRK13557, histidine kinase; Provisional	1e-04
PRK10766	221	PRK10766, PRK10766, DNA-binding transcriptional re	2e-04
COG3706	435	COG3706, PleD, Response regulator containing a Che	3e-04
pfam00249	47	pfam00249, Myb_DNA-binding, Myb-like DNA-binding d	0.001
PRK10710	240	PRK10710, PRK10710, DNA-binding transcriptional re	0.001
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	0.002

>gnl|CDD|238088 cd00156, REC, Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; contains a phosphoacceptor site that is phosphorylated by histidine kinase homologs; usually found N-terminal to a DNA binding effector domain; forms homodimers

 Score =  106 bits (267), Expect = 1e-27
 Identities = 39/115 (33%), Positives = 62/115 (53%), Gaps = 3/115 (2%)

Query: 27  LAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFK 86
           L VDDD    ++L + L +  YEV        AL +L E +   DL++ D+ MP MDG +
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAEEK--PDLILLDIMMPGMDGLE 58

Query: 87  LL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           LL  +     D+P++ L+A+ D +  ++ +  GA DYL KP   EEL    + ++
Sbjct: 59  LLRRIRKRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIRALL 113

Length = 113

>gnl|CDD|223855 COG0784, CheY, FOG: CheY-like receiver [Signal transduction mechanisms]

 Score =  100 bits (250), Expect = 3e-25
 Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 4/125 (3%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD 81
           G+RVL VDD+    ++L++ L +  YEV    +    AL++LRE     DL++ D+ MP 
Sbjct: 5   GLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELPQ-PDLILLDINMPG 63

Query: 82  MDGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHV 139
           MDG +LL  +     ++PV++L+AY+D     + +  GA DYL KP+   EEL    + +
Sbjct: 64  MDGIELLRRLRARGPNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRL 123

Query: 140 IRRKK 144
           + R  
Sbjct: 124 LARAA 128

Length = 130

>gnl|CDD|200976 pfam00072, Response_reg, Response regulator receiver domain

 Score = 99.2 bits (248), Expect = 5e-25
 Identities = 39/111 (35%), Positives = 61/111 (54%), Gaps = 3/111 (2%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           VL VDDD    ++L + L +  Y V   +    AL++L+E R   DL++ D+ MP MDG 
Sbjct: 1   VLIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELLKEKR--PDLILLDIRMPGMDGL 58

Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           +LL  +       PV++L+A+ D +  ++ +  GA D+L KP   EEL   
Sbjct: 59  ELLRRIRRRPPTTPVIVLTAHGDEEDAVEALKAGANDFLSKPFDPEELVAA 109

This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain. Length = 111

>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

 Score =  105 bits (264), Expect = 2e-24
 Identities = 43/136 (31%), Positives = 71/136 (52%), Gaps = 5/136 (3%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            R+L VDDD    ++LE+ L    YEV     A  AL+ L E+   FDLV+ D+ MP MD
Sbjct: 5   ARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSESP--FDLVLLDIRMPGMD 62

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI-- 140
           G +LL E+   + DLPV++++ + D    ++ +  GA D+L KP  ++ L    +  +  
Sbjct: 63  GLELLKEIKSRDPDLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALEL 122

Query: 141 RRKKVDPKDQNRSPHE 156
           R  + + +   +    
Sbjct: 123 RELQRENRRSLKRAKS 138

Length = 464

>gnl|CDD|223816 COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score =  100 bits (252), Expect = 3e-24
 Identities = 43/136 (31%), Positives = 69/136 (50%), Gaps = 5/136 (3%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MR+L V+DD    ++L+++L E  YEV V      AL+  RE     DLV+ D+ +PD+D
Sbjct: 1   MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAREQ---PDLVLLDLMLPDLD 57

Query: 84  GFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           G +L   +        P+++L+A  D +  + G+  GA DYL KP    EL    + ++R
Sbjct: 58  GLELCRRLRAKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLR 117

Query: 142 RKKVDPKDQNRSPHEF 157
           R     + +      F
Sbjct: 118 RNAGASRAEASEVLVF 133

Length = 229

>gnl|CDD|227095 COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]

 Score = 86.3 bits (214), Expect = 6e-18
 Identities = 41/139 (29%), Positives = 71/139 (51%), Gaps = 10/139 (7%)

Query: 25  RVLAVDDDQTCLKILEKFL--RECQYEVTVTNR-AITALKMLRENRNNFDLVISDVYMPD 81
           +VL VDD+    + L+  +       EV  T      AL++++E +   D+VI+D+ MP 
Sbjct: 3   KVLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQETQ--PDIVITDINMPG 60

Query: 82  MDGFKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           MDG  L++ +  +  D   ++LS Y + +   K +  G  DYLLKPV   EL+   + +I
Sbjct: 61  MDGLDLIKAIKEQSPDTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKII 120

Query: 141 RRKKVDPKDQNRSPHEFEK 159
            +     ++Q +   + EK
Sbjct: 121 GKL----EEQQKVKQDIEK 135

Length = 475

>gnl|CDD|214376 CHL00148, orf27, Ycf27; Reviewed

 Score = 79.4 bits (196), Expect = 9e-17
 Identities = 45/119 (37%), Positives = 68/119 (57%), Gaps = 2/119 (1%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            ++L VDD+    KILE  L    YEV   +    ALK+ R  +   DLVI DV MP +D
Sbjct: 7   EKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFR--KEQPDLVILDVMMPKLD 64

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G+ + + +  E D+P++ML+A  D    + G+  GA DY++KP   +EL+   + V+RR
Sbjct: 65  GYGVCQEIRKESDVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRR 123

Length = 240

>gnl|CDD|226229 COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

 Score = 82.0 bits (203), Expect = 1e-16
 Identities = 44/146 (30%), Positives = 69/146 (47%), Gaps = 7/146 (4%)

Query: 5   EKGGSSSDEDGV--IDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKM 62
                +  E GV  +       ++L VDDD T  + L + L+   + V        AL  
Sbjct: 112 RLREETGGELGVSPLLPEDAPKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQ 171

Query: 63  LRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGA 119
           L E     DLV+ D  MPDMDG +L   +       D+P+++LS+  D +LV++    G 
Sbjct: 172 LAELP--PDLVLLDANMPDMDGLELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGV 229

Query: 120 CDYLLKPVRMEELKNTWQHVIRRKKV 145
            DY+ KP+   EL+   +  +RRK+ 
Sbjct: 230 NDYITKPIEEGELRARLRRQLRRKRY 255

Length = 435

>gnl|CDD|233585 TIGR01818, ntrC, nitrogen regulation protein NR(I)

 Score = 80.2 bits (198), Expect = 5e-16
 Identities = 43/132 (32%), Positives = 66/132 (50%), Gaps = 7/132 (5%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD++   +LEK L    YEV     A + L+ L   R   DL+I+DV MP  DG 
Sbjct: 1   VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRAL--ARGQPDLLITDVRMPGEDGL 58

Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            LL ++      LPV++++A+SD    +     GA +YL KP  ++E       ++ R  
Sbjct: 59  DLLPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVT----LVERAL 114

Query: 145 VDPKDQNRSPHE 156
              ++Q   P +
Sbjct: 115 AHAQEQVALPAD 126

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, DNA interactions, Signal transduction, Two-component systems]. Length = 463

>gnl|CDD|130620 TIGR01557, myb_SHAQKYF, myb-like DNA-binding domain, SHAQKYF class

 Score = 71.3 bits (175), Expect = 8e-16
 Identities = 31/56 (55%), Positives = 38/56 (67%), Gaps = 1/56 (1%)

Query: 191 KPRVVWTTELHTKFIGAVNLLG-LDKAVPKKILDLMNVEGLTRENVKFRLSLKRLG 245
           KPRVVWT +LH +F+ AV  LG  D A PK+IL+LM V+GLTR+ V   L   RL 
Sbjct: 1   KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif. Length = 57

>gnl|CDD|225971 COG3437, COG3437, Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]

 Score = 75.9 bits (187), Expect = 6e-15
 Identities = 45/145 (31%), Positives = 77/145 (53%), Gaps = 6/145 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           + VL VDD+   L+ L + LR   Y V        ALK+L+E     DLV+ DV MP+MD
Sbjct: 15  LTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQEEP--PDLVLLDVRMPEMD 72

Query: 84  GFKLLELVGLEM----DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           G ++L  +         +PV++L+AY+D++   + +  GA DYL KP+  +EL       
Sbjct: 73  GAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSH 132

Query: 140 IRRKKVDPKDQNRSPHEFEKSYRKR 164
           ++ K+ +    +++ +   +  R+R
Sbjct: 133 LQLKRNEDFLLDQNLYLELQELRRR 157

Length = 360

>gnl|CDD|182412 PRK10365, PRK10365, transcriptional regulatory protein ZraR; Provisional

 Score = 75.5 bits (185), Expect = 1e-14
 Identities = 43/111 (38%), Positives = 65/111 (58%), Gaps = 3/111 (2%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L VDDD +   IL+  LR   Y V + N    AL+ +RE    FDLV+ DV M +MDG 
Sbjct: 8   ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQV--FDLVLCDVRMAEMDGI 65

Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
             L E+  L   +PV++++AYS  +  ++ +  GA DYL+KP+  + L+ T
Sbjct: 66  ATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQAT 116

Length = 441

>gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD; Provisional

 Score = 72.1 bits (177), Expect = 2e-14
 Identities = 41/120 (34%), Positives = 64/120 (53%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MR+L  +D++     LEK L +  + V      + A  +L+     + L + D+ MP MD
Sbjct: 1   MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSE--MYALAVLDINMPGMD 58

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G ++L  L      LPV++L+A S     +KG+N GA DYL KP  +EEL    + ++RR
Sbjct: 59  GLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRR 118

Length = 221

>gnl|CDD|225107 COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score = 71.2 bits (175), Expect = 4e-14
 Identities = 40/115 (34%), Positives = 60/115 (52%), Gaps = 11/115 (9%)

Query: 24  MRVLAVDDDQ---TCLK-ILEKFLRECQYEVTVT-NRAITALKMLRENRNNFDLVISDVY 78
           ++VL VDD       L+ +LE    E   EV    +    AL + RE +   D+V+ D+ 
Sbjct: 1   IKVLIVDDHPLVREGLRQLLEL---EPDLEVVGEASNGEEALDLARELK--PDVVLLDLS 55

Query: 79  MPDMDGFKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           MP MDG + L+ +     D+ VV+L+A+ D   V++ +  GA  YLLK    EEL
Sbjct: 56  MPGMDGLEALKQLRARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEEL 110

Length = 211

>gnl|CDD|226456 COG3947, COG3947, Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

 Score = 72.2 bits (177), Expect = 1e-13
 Identities = 37/123 (30%), Positives = 63/123 (51%), Gaps = 8/123 (6%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            R++ VDDD   +K+L   L    +EV   +  + AL +L   +   DL+  D+ MP M+
Sbjct: 1   PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEVFK--PDLIFLDIVMPYMN 58

Query: 84  GFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G +  E +  +E  +P++ +S++++      G+N    DYL KPV  E+L      + RR
Sbjct: 59  GIEFAEQVRDIESAVPIIFISSHAEYADDSFGMN--LDDYLPKPVTPEKLNRA---IDRR 113

Query: 143 KKV 145
            K 
Sbjct: 114 LKR 116

Length = 361

>gnl|CDD|226931 COG4565, CitB, Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

 Score = 69.6 bits (171), Expect = 2e-13
 Identities = 33/125 (26%), Positives = 67/125 (53%), Gaps = 5/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLREC-QYEVTVTNRAI-TALKMLRENRNNFDLVISDVYMPD 81
           + VL ++DD    +I  +++++   + V  T   +  A  ++ E +   DL++ D+YMPD
Sbjct: 1   INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKP--DLILLDIYMPD 58

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
            +G +LL EL      + V++++A SD + + + + +G  DYL+KP   E L+       
Sbjct: 59  GNGIELLPELRSQHYPVDVIVITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYR 118

Query: 141 RRKKV 145
           +++  
Sbjct: 119 QKRHA 123

Length = 224

>gnl|CDD|236577 PRK09581, pleD, response regulator PleD; Reviewed

 Score = 72.2 bits (178), Expect = 2e-13
 Identities = 37/107 (34%), Positives = 58/107 (54%), Gaps = 7/107 (6%)

Query: 25  RVLAVDDDQTCLKILE-KFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           R+L VDD    +K+LE K L E  Y V   +    A+ +    +   D+++ DV MP MD
Sbjct: 4   RILVVDDIPANVKLLEAKLLAE-YYTVLTASSGAEAIAICEREQ--PDIILLDVMMPGMD 60

Query: 84  GF---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV 127
           GF   + L+       +PVVM++A  D +  ++G+  GA D+L KP+
Sbjct: 61  GFEVCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPI 107

Length = 457

>gnl|CDD|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein AtoC; Provisional

 Score = 69.9 bits (171), Expect = 1e-12
 Identities = 40/140 (28%), Positives = 73/140 (52%), Gaps = 6/140 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDD+    ++L        +E    N   TAL +  +     D+V+ D+ MP+MDG
Sbjct: 6   RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHP--DVVLMDIRMPEMDG 63

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            K L E+   E   PV++++AY++ +  ++ +  GA DY++KP  ++EL    Q  ++ +
Sbjct: 64  IKALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQLQ 123

Query: 144 KVDPKDQNRSPH-EFEKSYR 162
            +  K + R  H     S++
Sbjct: 124 SM--KKEIRHLHQALSTSWQ 141

Length = 457

>gnl|CDD|214668 smart00448, REC, cheY-homologous receiver domain

 Score = 58.3 bits (142), Expect = 3e-11
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
          MR+L VDDD    ++L+  L +  YEV        AL++L+E     DL++ D+ MP
Sbjct: 1  MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKE--EKPDLILLDIMMP 55

CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues. Length = 55

>gnl|CDD|130454 TIGR01387, cztR_silR_copR, heavy metal response regulator

 Score = 62.5 bits (152), Expect = 3e-11
 Identities = 36/108 (33%), Positives = 60/108 (55%), Gaps = 3/108 (2%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L V+D+Q   + L++ L E  Y V   +     L +  ++  ++DL+I DV +P MDG+
Sbjct: 1   ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKD--DYDLIILDVMLPGMDGW 58

Query: 86  KLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           ++L+ L       PV+ L+A       +KG++ GA DYL+KP    EL
Sbjct: 59  QILQTLRRSGKQTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSEL 106

Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. Length = 218

>gnl|CDD|237951 PRK15347, PRK15347, two component system sensor kinase SsrA; Provisional

 Score = 65.4 bits (160), Expect = 4e-11
 Identities = 37/117 (31%), Positives = 61/117 (52%), Gaps = 7/117 (5%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
           P  +++L VDD +T   I+   L E   +VT       AL++ R++R  FDLV+ D+ MP
Sbjct: 688 PWQLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHR--FDLVLMDIRMP 745

Query: 81  DMDGFKLLEL-----VGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            +DG +  +L       L+ D  +V L+A +  + + +    G   YL KPV + +L
Sbjct: 746 GLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQL 802

Length = 921

>gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional

 Score = 64.1 bits (156), Expect = 7e-11
 Identities = 38/109 (34%), Positives = 56/109 (51%), Gaps = 3/109 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L VDDD   LK+L   L    Y V        AL++L  NR   DLVISD+ M +MDG
Sbjct: 7   HLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVL--NREKVDLVISDLRMDEMDG 64

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            +L  E+  ++  +PV++L+A+      +     G   +L KPV  + L
Sbjct: 65  MQLFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDAL 113

Length = 444

>gnl|CDD|215544 PLN03029, PLN03029, type-a response regulator protein; Provisional

 Score = 61.6 bits (149), Expect = 8e-11
 Identities = 45/163 (27%), Positives = 82/163 (50%), Gaps = 21/163 (12%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKML---RENRNNFD----------- 71
           VLAVDD     K++EK L+   Y+VT  +    ALK L    ++R+N D           
Sbjct: 11  VLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQE 70

Query: 72  ----LVISDVYMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLL 124
               L+I+D  MP M G+ LL+ +       ++PVV++S+ +    + + +  GA ++ L
Sbjct: 71  VEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFL 130

Query: 125 KPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQ 167
           KPV++ +L     H+++ K  + K +N+   E  +    + ++
Sbjct: 131 KPVQLSDLNRLKPHMMKTKSKNQKQENQEKQEKLEESEIQSEK 173

Length = 222

>gnl|CDD|170568 PRK10610, PRK10610, chemotaxis regulatory protein CheY; Provisional

 Score = 58.8 bits (142), Expect = 1e-10
 Identities = 35/107 (32%), Positives = 56/107 (52%), Gaps = 6/107 (5%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     F  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GFGFVISDWNMPNM 63

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 110

Length = 129

>gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional

 Score = 60.8 bits (148), Expect = 2e-10
 Identities = 37/120 (30%), Positives = 61/120 (50%), Gaps = 3/120 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDDD     +LE++L E  ++V     A    ++L   R +F L++ D+ +P  DG
Sbjct: 7   KILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLL--TRESFHLMVLDLMLPGEDG 64

Query: 85  FKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             +   L       P++ML+A  +    + G+  GA DYL KP    EL    + V+RR+
Sbjct: 65  LSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQ 124

Length = 239

>gnl|CDD|226932 COG4566, TtrR, Response regulator [Signal transduction mechanisms]

 Score = 60.0 bits (146), Expect = 2e-10
 Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 3/123 (2%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
           P    V  VDDD++    L   L    ++V     A   L     +R     ++ DV MP
Sbjct: 2   PREPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPG--CLLLDVRMP 59

Query: 81  DMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            M G +L + L    + LPV+ L+ + D  + ++ +  GA D+L KP   ++L +  +  
Sbjct: 60  GMSGLELQDRLAERGIRLPVIFLTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERA 119

Query: 140 IRR 142
           + R
Sbjct: 120 LAR 122

Length = 202

>gnl|CDD|131209 TIGR02154, PhoB, phosphate regulon transcriptional regulatory protein PhoB

 Score = 59.3 bits (144), Expect = 5e-10
 Identities = 33/123 (26%), Positives = 59/123 (47%), Gaps = 5/123 (4%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
             R+L V+D+    +++   L +  Y+V        AL ++ E     DL++ D  +P  
Sbjct: 2   TRRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERGP--DLILLDWMLPGT 59

Query: 83  DGFKLL-ELVGLEM--DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            G +L   L        +P++ML+A  + +  ++G+  GA DY+ KP    EL    + V
Sbjct: 60  SGIELCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAV 119

Query: 140 IRR 142
           +RR
Sbjct: 120 LRR 122

PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well [Regulatory functions, DNA interactions, Signal transduction, Two-component systems]. Length = 226

>gnl|CDD|131922 TIGR02875, spore_0_A, sporulation transcription factor Spo0A

 Score = 59.0 bits (143), Expect = 9e-10
 Identities = 41/155 (26%), Positives = 74/155 (47%), Gaps = 12/155 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQ-YEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD 81
           +R++  DD++    +L+++L      EV  V +  + AL++++E +   D+V+ D+ MP 
Sbjct: 3   IRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQP--DVVVLDIIMPH 60

Query: 82  MDGFKLLELVGLEMDLP---VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
           +DG  +LE +          V+MLSA+   K+  + +  GA  Y+LKP  +E L    + 
Sbjct: 61  LDGIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQ 120

Query: 139 VIRRKKVD-PKDQNRSPHEFEKSYRKRKDQDGEDE 172
           +      D   D    P     +    K +D E E
Sbjct: 121 LAWGTNADILADSPTVPP----ASHAAKTKDLEAE 151

Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species [Cellular processes, Sporulation and germination]. Length = 262

>gnl|CDD|182612 PRK10643, PRK10643, DNA-binding transcriptional regulator BasR; Provisional

 Score = 58.5 bits (142), Expect = 9e-10
 Identities = 40/120 (33%), Positives = 64/120 (53%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M++L V+DD   L+ L   L+   Y     + A  A  +L     ++ LV+ D+ +PD D
Sbjct: 1   MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALL--ESGHYSLVVLDLGLPDED 58

Query: 84  GFKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  LL     +   LPV++L+A    +  + G++ GA DYL+KP  +EEL    + +IRR
Sbjct: 59  GLHLLRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRR 118

Length = 222

>gnl|CDD|182102 PRK09836, PRK09836, DNA-binding transcriptional activator CusR; Provisional

 Score = 58.4 bits (141), Expect = 1e-09
 Identities = 34/122 (27%), Positives = 68/122 (55%), Gaps = 7/122 (5%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITA--LKMLRENRNNFDLVISDVYMPD 81
           M++L V+D++   + L K L E  + V + +  +    L M  +    +DL+I D+ +PD
Sbjct: 1   MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGD----YDLIILDIMLPD 56

Query: 82  MDGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           ++G+ ++ ++      +P+++L+A    +  +KG+  GA DYL+KP    EL    + ++
Sbjct: 57  VNGWDIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLL 116

Query: 141 RR 142
           RR
Sbjct: 117 RR 118

Length = 227

>gnl|CDD|182842 PRK10923, glnG, nitrogen regulation protein NR(I); Provisional

 Score = 59.9 bits (145), Expect = 2e-09
 Identities = 35/107 (32%), Positives = 53/107 (49%), Gaps = 3/107 (2%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +   +LE+ L       T        L+ L       D+++SD+ MP MDG 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEAL--ASKTPDVLLSDIRMPGMDGL 63

Query: 86  KLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            LL+ +      LPV++++A+SD    +     GA DYL KP  ++E
Sbjct: 64  ALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

Length = 469

>gnl|CDD|178707 PLN03162, PLN03162, golden-2 like transcription factor; Provisional

 Score = 59.4 bits (143), Expect = 2e-09
 Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 5/69 (7%)

Query: 189 QKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKR 243
           +KK +V WT ELH +F+ AV  LG++KA P +IL+LM V+ LTR N+     K+R   + 
Sbjct: 233 KKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRH 292

Query: 244 LGNKTLEAG 252
           L  +  EA 
Sbjct: 293 LAAREAEAA 301

Length = 526

>gnl|CDD|182864 PRK10955, PRK10955, DNA-binding transcriptional regulator CpxR; Provisional

 Score = 57.1 bits (138), Expect = 3e-09
 Identities = 41/128 (32%), Positives = 66/128 (51%), Gaps = 5/128 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDDD+    +L++ L    + V V +    AL +L    ++ DL++ DV MP  +G
Sbjct: 3   KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLD---DSIDLLLLDVMMPKKNG 59

Query: 85  FKLLELVGLEMDLPVVMLSAY-SDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
              L+ +      PV+ML+A  S+   V+ G+  GA DYL KP    EL    + ++RR 
Sbjct: 60  IDTLKELRQTHQTPVIMLTARGSELDRVL-GLELGADDYLPKPFNDRELVARIRAILRRS 118

Query: 144 KVDPKDQN 151
               + QN
Sbjct: 119 HWSEQQQN 126

Length = 232

>gnl|CDD|183172 PRK11517, PRK11517, transcriptional regulatory protein YedW; Provisional

 Score = 56.8 bits (137), Expect = 3e-09
 Identities = 30/109 (27%), Positives = 60/109 (55%), Gaps = 2/109 (1%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M++L ++D+Q   + + + L E  Y +   +     L +  ++  ++ L+I D+ +P MD
Sbjct: 1   MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKD--DYALIILDIMLPGMD 58

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G+++L+ +      PV+ L+A       ++G++ GA DYL+KP    EL
Sbjct: 59  GWQILQTLRTAKQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSEL 107

Length = 223

>gnl|CDD|181815 PRK09390, fixJ, response regulator FixJ; Provisional

 Score = 56.5 bits (137), Expect = 3e-09
 Identities = 34/102 (33%), Positives = 51/102 (50%), Gaps = 3/102 (2%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD+     L   L    +EV +   A   L  L   R  F  V++DV MP +DG 
Sbjct: 6   VHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLR--FGCVVTDVRMPGIDGI 63

Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           +LL  L      LPV++++ + D  L ++ +  GA D++ KP
Sbjct: 64  ELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKP 105

Length = 202

>gnl|CDD|236838 PRK11083, PRK11083, DNA-binding response regulator CreB; Provisional

 Score = 56.5 bits (137), Expect = 5e-09
 Identities = 40/106 (37%), Positives = 57/106 (53%), Gaps = 7/106 (6%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
             +L V+D+Q     L   L+   + V    R + AL  LR+     DLVI DV +PD+ 
Sbjct: 4   PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQP--PDLVILDVGLPDIS 61

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDT--KLVMKGINHGACDYLLKP 126
           GF+L  +L+     LPV+ L+A SD   +LV  G+  GA DY+ KP
Sbjct: 62  GFELCRQLLAFHPALPVIFLTARSDEVDRLV--GLEIGADDYVAKP 105

Length = 228

>gnl|CDD|226230 COG3707, AmiR, Response regulator with putative antiterminator output domain [Signal transduction mechanisms]

 Score = 54.6 bits (132), Expect = 1e-08
 Identities = 34/111 (30%), Positives = 52/111 (46%), Gaps = 3/111 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           +RVL  DD+      + + L E  Y+ V      + A++     R   D+VI D+ MP  
Sbjct: 6   LRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVE--VCERLQPDVVILDIEMPRR 63

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELK 133
           D  + L L    +  P+V L+AYSD  L+   I  G   Y++KP+    L 
Sbjct: 64  DIIEALLLASENVARPIVALTAYSDPALIEAAIEAGVMAYIVKPLDESRLL 114

Length = 194

>gnl|CDD|234070 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS

 Score = 55.2 bits (133), Expect = 6e-08
 Identities = 34/138 (24%), Positives = 64/138 (46%), Gaps = 6/138 (4%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
             RVL V+D++    + + FL    ++VT+     +AL+   ++   FDL + D+ +PD 
Sbjct: 702 PQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQHA--FDLALLDINLPDG 759

Query: 83  DGFKLL----ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
           DG  LL     + G + ++  +  SA+   + V + +  G   +L KPV  E+L      
Sbjct: 760 DGVTLLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAV 819

Query: 139 VIRRKKVDPKDQNRSPHE 156
           ++   K + +    S   
Sbjct: 820 ILAGGKSNTEAPVLSASP 837

This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072) [Signal transduction, Two-component systems]. Length = 968

>gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional

 Score = 54.6 bits (132), Expect = 1e-07
 Identities = 40/121 (33%), Positives = 65/121 (53%), Gaps = 15/121 (12%)

Query: 16  VIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVIS 75
           V+D  PI  R+LA   DQ         L    Y+    N  + AL +L  ++N+ D+V++
Sbjct: 806 VVDDHPINRRLLA---DQ---------LGSLGYQCKTANDGVDALNVL--SKNHIDIVLT 851

Query: 76  DVYMPDMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
           DV MP+MDG++L + L  L + LPV+ ++A +  +   + +  G    L KPV ++ LK 
Sbjct: 852 DVNMPNMDGYRLTQRLRQLGLTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQ 911

Query: 135 T 135
           T
Sbjct: 912 T 912

Length = 924

>gnl|CDD|182454 PRK10430, PRK10430, DNA-binding transcriptional activator DcuR; Provisional

 Score = 51.6 bits (124), Expect = 2e-07
 Identities = 31/125 (24%), Positives = 62/125 (49%), Gaps = 16/125 (12%)

Query: 24  MRVLAVDDDQTCLKILEKFLRE-----CQYEVTVTNRAITALKMLRENRNNFDLVISDVY 78
           + VL VDDD    ++  +++ +     C    +   +A    +++  +    DL++ D+Y
Sbjct: 2   INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQA---KEIIFNSDTPIDLILLDIY 58

Query: 79  MPDMDGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV---RMEEL 132
           M   +G  LL ++   G + D  V+++S+ +D   +   +++G  DYL+KP    R EE 
Sbjct: 59  MQQENGLDLLPVLHEAGCKSD--VIVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEA 116

Query: 133 KNTWQ 137
              W+
Sbjct: 117 LTGWR 121

Length = 239

>gnl|CDD|236848 PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional

 Score = 52.5 bits (127), Expect = 4e-07
 Identities = 36/145 (24%), Positives = 65/145 (44%), Gaps = 18/145 (12%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           + V+AVDD+   LK++   L E    V + +    A++  ++    FDL++ D+ MP MD
Sbjct: 668 LTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQRP--FDLILMDIQMPGMD 725

Query: 84  GFKLLELV---GLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRMEELKNT 135
           G +  EL+       + P++ ++A+      M G     ++ G  DYL KP+    LK  
Sbjct: 726 GIRACELIRQLPHNQNTPIIAVTAH-----AMAGERERLLSAGMDDYLAKPIDEAMLKQV 780

Query: 136 ---WQHVIRRKKVDPKDQNRSPHEF 157
              ++   +        +   P  F
Sbjct: 781 LLRYKPGPKFTSRVVAPEPPEPVHF 805

Length = 919

>gnl|CDD|182755 PRK10816, PRK10816, DNA-binding transcriptional regulator PhoP; Provisional

 Score = 50.5 bits (121), Expect = 5e-07
 Identities = 36/120 (30%), Positives = 64/120 (53%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MRVL V+D+      L+  L++  ++V     A  A   L E+    D+ I D+ +PD D
Sbjct: 1   MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEHLP--DIAIVDLGLPDED 58

Query: 84  GFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  L+      ++ LP+++L+A    +  ++ ++ GA DY+ KP  +EE+    Q ++RR
Sbjct: 59  GLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR 118

Length = 223

>gnl|CDD|236577 PRK09581, pleD, response regulator PleD; Reviewed

 Score = 50.3 bits (121), Expect = 1e-06
 Identities = 42/149 (28%), Positives = 68/149 (45%), Gaps = 13/149 (8%)

Query: 2   TAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALK 61
           T  E G ++       +K   G R+L VDDD +  + +   L+  ++ V V +    AL 
Sbjct: 135 TNAEIGVTALMIMAYANKDEDG-RILLVDDDVSQAERIANILK-EEFRVVVVSDPSEAL- 191

Query: 62  MLRENRNNFDLVISDVYMPDMDGFKLL-ELVGLEMD--LPVVMLSAYSDTKLVMKGINHG 118
                  N+DLVI      + D  +L  +L   E    +P+++L    D   ++K +  G
Sbjct: 192 -FNAAETNYDLVIVSANFENYDPLRLCSQLRSKERTRYVPILLLVDEDDDPRLVKALELG 250

Query: 119 ACDYLLKPVRMEEL---KNTWQHVIRRKK 144
             DYL++P+   EL     T Q  IRRK+
Sbjct: 251 VNDYLMRPIDKNELLARVRT-Q--IRRKR 276

Length = 457

>gnl|CDD|225111 COG2201, CheB, Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 34/110 (30%), Positives = 53/110 (48%), Gaps = 12/110 (10%)

Query: 24  MRVLAVDDDQTCLKILEKFL-RECQYEVTVTN----RAITALKMLRENRNNFDLVISDVY 78
           +RVL VDD     K++   L  +   EV  T      AI  +K L+      D++  DV 
Sbjct: 2   IRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKKLKP-----DVITLDVE 56

Query: 79  MPDMDGFKLLELVGLEMDLPVVMLSA--YSDTKLVMKGINHGACDYLLKP 126
           MP MDG + L  +     LPV+M+S+      +  ++ +  GA D++ KP
Sbjct: 57  MPVMDGLEALRKIMRLRPLPVIMVSSLTEEGAEATLEALELGAVDFIAKP 106

Length = 350

>gnl|CDD|182652 PRK10693, PRK10693, response regulator of RpoS; Provisional

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 3/71 (4%)

Query: 59  ALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINH 117
           AL++L       DL+I D+ MP M+G + +E +       PV+++SA  +   + K +  
Sbjct: 9   ALELLGGFTP--DLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRL 66

Query: 118 GACDYLLKPVR 128
           G  D LLKPV+
Sbjct: 67  GVQDVLLKPVK 77

Length = 303

>gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

 Score = 49.7 bits (118), Expect = 4e-06
 Identities = 36/115 (31%), Positives = 60/115 (52%), Gaps = 3/115 (2%)

Query: 20   FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
             P  + +L  DD  T   +L++ L    Y+V      + AL   + +  ++DL+I+DV M
Sbjct: 955  LPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALH--KVSMQHYDLLITDVNM 1012

Query: 80   PDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELK 133
            P+MDGF+L  +L      LP+  L+A +      KG++ G    L KP+ ++ LK
Sbjct: 1013 PNMDGFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLK 1067

Length = 1197

>gnl|CDD|182208 PRK10046, dpiA, two-component response regulator DpiA; Provisional

 Score = 47.7 bits (113), Expect = 4e-06
 Identities = 39/129 (30%), Positives = 58/129 (44%), Gaps = 1/129 (0%)

Query: 72  LVISDVYMPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRME 130
           L++ D Y+PD  G  LL ELV       VV  +A SD + V + +  G  DYL+KP+  E
Sbjct: 53  LILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYE 112

Query: 131 ELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDGHENENSTTQK 190
            L  T     +RK +     + S  + ++ +      + +DE   G D    N      K
Sbjct: 113 RLGQTLTRFRQRKHMLESIDSASQKQIDEMFNAYARGEPKDELPTGIDPLTLNAVRKLFK 172

Query: 191 KPRVVWTTE 199
           +P V  T E
Sbjct: 173 EPGVQHTAE 181

Length = 225

>gnl|CDD|236956 PRK11697, PRK11697, putative two-component response-regulatory protein YehT; Provisional

 Score = 47.1 bits (113), Expect = 6e-06
 Identities = 38/149 (25%), Positives = 66/149 (44%), Gaps = 30/149 (20%)

Query: 24  MRVLAVDDDQ------TCLKILEK-----FLRECQYEVTVTNRAITALKMLRENRNNFDL 72
           ++VL VDD+         L  L++      + EC       + AI A+  +  +R   D+
Sbjct: 2   IKVLIVDDEPLAREELREL--LQEEGDIEIVGEC-------SNAIEAIGAI--HRLKPDV 50

Query: 73  VISDVYMPDMDGFKLLELVG-LEMD-LP-VVMLSAYSDTKLVMKGINHGACDYLLKPVRM 129
           V  D+ MP + G   LELVG L+ + +P +V ++A+ +  +  K     A DYLLKP+  
Sbjct: 51  VFLDIQMPRISG---LELVGMLDPEHMPYIVFVTAFDEYAI--KAFEEHAFDYLLKPIDP 105

Query: 130 EELKNTWQHVIRRKKVDPKDQNRSPHEFE 158
             L  T   + + +         +    +
Sbjct: 106 ARLAKTLARLRQERSPQDVLLPEAQPPLK 134

Length = 238

>gnl|CDD|226933 COG4567, COG4567, Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]

 Score = 46.6 bits (111), Expect = 6e-06
 Identities = 28/101 (27%), Positives = 47/101 (46%), Gaps = 3/101 (2%)

Query: 27  LAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFK 86
           L VDDD   L+ L + +    + V        AL   R     + +V  D+ + D  G  
Sbjct: 13  LLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAARTAPPAYAVV--DLKLGDGSGLA 70

Query: 87  LLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           ++E +     D+ +V+L+ Y+     ++ +  GACDYL KP
Sbjct: 71  VIEALRERRADMRIVVLTGYASIATAVEAVKLGACDYLAKP 111

Length = 182

>gnl|CDD|225818 COG3279, LytT, Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]

 Score = 46.6 bits (111), Expect = 9e-06
 Identities = 36/150 (24%), Positives = 63/150 (42%), Gaps = 10/150 (6%)

Query: 24  MRVLAVDDDQ-TCLKILEKFLRECQYEVTVTNR-AITALKMLRENRNNFDLVISDVYMPD 81
           ++VL VDD+     ++          E+         AL++L+      DLV  D+ MPD
Sbjct: 2   LKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQ--GLRPDLVFLDIAMPD 59

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           ++G +L   +   +    +V ++A+ +    +      A DYLLKP+  E L  T   + 
Sbjct: 60  INGIELAARIRKGDPRPAIVFVTAHDE--YAVAAFEVEALDYLLKPISEERLAKT---LE 114

Query: 141 RRKKVDPKDQNRSPHEFEKSYRKRKDQDGE 170
           R ++           + EK  R    + GE
Sbjct: 115 RLRRYAQLQLLELLADTEKVLRFIPIKGGE 144

Length = 244

>gnl|CDD|182277 PRK10161, PRK10161, transcriptional regulator PhoB; Provisional

 Score = 45.1 bits (106), Expect = 3e-05
 Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 5/121 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    +++   L +  ++        +A+  L E     DL++ D  +P   G
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP--DLILLDWMLPGGSG 61

Query: 85  FKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            + ++ +  E    D+PVVML+A  + +  ++G+  GA DY+ KP   +EL    + V+R
Sbjct: 62  IQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121

Query: 142 R 142
           R
Sbjct: 122 R 122

Length = 229

>gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE; Provisional

 Score = 44.0 bits (104), Expect = 6e-05
 Identities = 25/72 (34%), Positives = 42/72 (58%)

Query: 71  DLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRME 130
           DL+I D+ +PD DG + +  +     +PV++LSA S+    +  ++ GA DYL KP  + 
Sbjct: 47  DLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIG 106

Query: 131 ELKNTWQHVIRR 142
           EL+   +  +RR
Sbjct: 107 ELQARLRVALRR 118

Length = 225

>gnl|CDD|236738 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA; Provisional

 Score = 43.9 bits (104), Expect = 8e-05
 Identities = 32/108 (29%), Positives = 52/108 (48%), Gaps = 16/108 (14%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +++ V+DD     ++  +L +   +VTV  R   A   +   R   DLV+ D+ +P  DG
Sbjct: 3   KIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATIL--REQPDLVLLDIMLPGKDG 60

Query: 85  FKLLELVGLEMDLPVVML-SAYSDTKLVMKGINH------GACDYLLK 125
             +   +  +   P+V+L S  SD       +NH      GACDY+LK
Sbjct: 61  MTICRDLRPKWQGPIVLLTSLDSD-------MNHILALEMGACDYILK 101

Length = 240

>gnl|CDD|237135 PRK12555, PRK12555, chemotaxis-specific methylesterase; Provisional

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 27/111 (24%), Positives = 52/111 (46%), Gaps = 12/111 (10%)

Query: 24  MRVLAVDDDQTCLKILEKFL-RECQYEV--TVTNRAITALKMLRENRNNFDLVISDVYMP 80
           MR+  V+D    ++ L + L R+  +EV    T+    A++         D+++ D+ MP
Sbjct: 1   MRIGIVNDSPLAVEALRRALARDPDHEVVWVATD-GAQAVERCA--AQPPDVILMDLEMP 57

Query: 81  DMDGFKLLELVGLEMDLPVVMLSAYSDTK----LVMKGINHGACDYLLKPV 127
            MDG +    +  E   P+++++  S T+     V + +  GA D +  P 
Sbjct: 58  RMDGVEATRRIMAERPCPILIVT--SLTERNASRVFEAMGAGALDAVDTPT 106

Length = 337

>gnl|CDD|234828 PRK00742, PRK00742, chemotaxis-specific methylesterase; Provisional

 Score = 44.0 bits (105), Expect = 1e-04
 Identities = 32/108 (29%), Positives = 56/108 (51%), Gaps = 8/108 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFL-RECQYEV--TVTNRAITALKMLRENRNNFDLVISDVYMP 80
           +RVL VDD     +++ + L  +   EV  T  +  + A + ++  + N D++  DV MP
Sbjct: 4   IRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPD-GLEAREKIK--KLNPDVITLDVEMP 60

Query: 81  DMDGFKLLELVGLEMDLPVVMLSA--YSDTKLVMKGINHGACDYLLKP 126
            MDG   LE +      PVVM+S+      ++ ++ +  GA D++ KP
Sbjct: 61  VMDGLDALEKIMRLRPTPVVMVSSLTERGAEITLRALELGAVDFVTKP 108

Length = 354

>gnl|CDD|237425 PRK13557, PRK13557, histidine kinase; Provisional

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 28/110 (25%), Positives = 48/110 (43%), Gaps = 3/110 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP-DMD 83
            +L VDD     ++    L +  Y   V +    AL++L  +    DL+ +D+ MP  M+
Sbjct: 417 TILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSHP-EVDLLFTDLIMPGGMN 475

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G  L  E    +  + V++ + Y++  +          D L KP R  EL
Sbjct: 476 GVMLAREARRRQPKIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRAEL 525

Length = 540

>gnl|CDD|182711 PRK10766, PRK10766, DNA-binding transcriptional regulator TorR; Provisional

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 24/110 (21%), Positives = 54/110 (49%), Gaps = 6/110 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L V+D+      L+ +  +  Y V+         +++     + DL++ D+ +P  DG
Sbjct: 4   HILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIM--QNQHVDLILLDINLPGEDG 61

Query: 85  FKLLELVGLEMDLPVVMLSAYSDT--KLVMKGINHGACDYLLKPVRMEEL 132
             L   +     + +++++  +D+  ++V  G+  GA DY+ KP+ + EL
Sbjct: 62  LMLTRELRSRSTVGIILVTGRTDSIDRIV--GLEMGADDYVTKPLELREL 109

Length = 221

>gnl|CDD|226229 COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 1/75 (1%)

Query: 71  DLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRME 130
           D  + DV MP MDGF+L   +       VVM++A  D+   ++G+  GA D+L KPV   
Sbjct: 34  DYKLLDVMMPGMDGFELCRRLK-AEPATVVMVTALDDSAPRVRGLKAGADDFLTKPVNDS 92

Query: 131 ELKNTWQHVIRRKKV 145
           +L    + ++R K  
Sbjct: 93  QLFLRAKSLVRLKCS 107

Length = 435

>gnl|CDD|215818 pfam00249, Myb_DNA-binding, Myb-like DNA-binding domain

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 14/46 (30%), Positives = 15/46 (32%), Gaps = 4/46 (8%)

Query: 193 RVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFR 238
           R  WT E     I AV   G       KI   +   G T    K R
Sbjct: 1   RGPWTPEEDELLIEAVKKHGNGN--WSKIAKHLP--GRTDNQCKNR 42

This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family. Length = 47

>gnl|CDD|182665 PRK10710, PRK10710, DNA-binding transcriptional regulator BaeR; Provisional

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 37/148 (25%), Positives = 70/148 (47%), Gaps = 10/148 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    ++L  +L+   Y  T+ +     L  +R+     DL++ D+ +P  DG
Sbjct: 12  RILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQT--PPDLILLDLMLPGTDG 69

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
             L   +    D+P+VM++A  +    + G+  GA DY+ KP    E+    + ++RR K
Sbjct: 70  LTLCREIRRFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCK 129

Query: 145 VDPKDQNRSPH--------EFEKSYRKR 164
              + Q +            F+ S+R +
Sbjct: 130 PQRELQQQDAESPLIIDESRFQASWRGK 157

Length = 240

>gnl|CDD|182387 PRK10336, PRK10336, DNA-binding transcriptional regulator QseB; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MR+L ++DD      ++  L +  + V    +     + L      +D VI D+ +P MD
Sbjct: 1   MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSA--PYDAVILDLTLPGMD 58

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  +L E        PV++L+A       ++G+  GA DYL KP  + E+    + ++RR
Sbjct: 59  GRDILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRR 118

Length = 219

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	524
COG3437	360	Response regulator containing a CheY-like receiver	100.0
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.91
COG0745	229	OmpR Response regulators consisting of a CheY-like	99.87
COG2197	211	CitB Response regulator containing a CheY-like rec	99.87
COG4753	475	Response regulator containing CheY-like receiver d	99.82
COG2204	464	AtoC Response regulator containing CheY-like recei	99.81
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.81
PF00072	112	Response_reg: Response regulator receiver domain;	99.78
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.78
PRK10840	216	transcriptional regulator RcsB; Provisional	99.77
PRK09483	217	response regulator; Provisional	99.75
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.73
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.71
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.69
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.68
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.68
PLN03029	222	type-a response regulator protein; Provisional	99.68
PRK11173	237	two-component response regulator; Provisional	99.67
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.66
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.66
PRK09935	210	transcriptional regulator FimZ; Provisional	99.66
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.65
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.65
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.65
COG3706	435	PleD Response regulator containing a CheY-like rec	99.65
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.64
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.63
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.63
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.63
PRK10161	229	transcriptional regulator PhoB; Provisional	99.63
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.63
CHL00148	240	orf27 Ycf27; Reviewed	99.63
PRK13856	241	two-component response regulator VirG; Provisional	99.62
PRK09390	202	fixJ response regulator FixJ; Provisional	99.62
COG4567	182	Response regulator consisting of a CheY-like recei	99.62
PRK09468	239	ompR osmolarity response regulator; Provisional	99.61
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.61
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.61
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.61
COG3947	361	Response regulator containing CheY-like receiver a	99.6
PRK15347	921	two component system sensor kinase SsrA; Provision	99.59
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.59
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.58
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.58
PRK15369	211	two component system sensor kinase SsrB; Provision	99.58
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.58
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.57
PRK10651	216	transcriptional regulator NarL; Provisional	99.56
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.56
PRK11697	238	putative two-component response-regulatory protein	99.55
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.55
PRK14084	246	two-component response regulator; Provisional	99.55
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.55
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.54
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.54
PRK09581	457	pleD response regulator PleD; Reviewed	99.53
PRK10403	215	transcriptional regulator NarP; Provisional	99.53
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.53
PRK15115	444	response regulator GlrR; Provisional	99.52
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.52
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.51
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.5
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.5
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.5
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.49
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.48
COG3707	194	AmiR Response regulator with putative antiterminat	99.47
PRK13435	145	response regulator; Provisional	99.46
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.45
PRK09581	457	pleD response regulator PleD; Reviewed	99.44
PRK13558	665	bacterio-opsin activator; Provisional	99.43
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.42
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.4
PRK09191	261	two-component response regulator; Provisional	99.31
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.29
cd00156	113	REC Signal receiver domain; originally thought to	99.23
PRK13557	540	histidine kinase; Provisional	99.17
PRK10693	303	response regulator of RpoS; Provisional	99.13
PRK15029	755	arginine decarboxylase; Provisional	99.08
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.01
PLN03162	526	golden-2 like transcription factor; Provisional	98.85
COG2206	344	c-di-GMP phosphodiesterase class II (HD-GYP domain	98.83
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.3
COG3706	435	PleD Response regulator containing a CheY-like rec	98.19
TIGR01557	57	myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF c	98.12
PF13487	64	HD_5: HD domain; PDB: 3TMD_A 3TM8_B 3TMC_A 3TMB_B.	97.82
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	97.63
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	97.57
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	96.62
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	96.48
PRK02261	137	methylaspartate mutase subunit S; Provisional	96.39
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	95.98
PRK10618	894	phosphotransfer intermediate protein in two-compon	95.76
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	95.22
PRK15399	713	lysine decarboxylase LdcC; Provisional	94.26
PRK15400	714	lysine decarboxylase CadA; Provisional	93.76
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	93.46
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	92.98
PRK00208	250	thiG thiazole synthase; Reviewed	92.85
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	92.51
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	90.94
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	90.61
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	90.2
PRK15320	251	transcriptional activator SprB; Provisional	89.82
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	89.71
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	89.47
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	89.07
COG4999	140	Uncharacterized domain of BarA-like signal transdu	88.36
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	87.93
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	86.81
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	86.03
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	85.7
cd04729	219	NanE N-acetylmannosamine-6-phosphate epimerase (Na	84.85
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	83.04
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	81.36
TIGR03151	307	enACPred_II putative enoyl-(acyl-carrier-protein)	80.64

>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]

Probab=100.00  E-value=1.4e-34  Score=295.77  Aligned_cols=243  Identities=26%  Similarity=0.339  Sum_probs=185.4

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-C---CCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-E---MDL   97 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~---~di   97 (524)
                      ..++||+|||++..+..+..+|+..+|+|..|.++++|++++.++.  +|+||+|++||+|||+++|.+|+. .   ..+
T Consensus        13 ~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~~~~~--~dlvllD~~mp~mdg~ev~~~lk~~~p~t~~i   90 (360)
T COG3437          13 EKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQEEP--PDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRI   90 (360)
T ss_pred             ccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHhcccC--CceEEeeccCCCccHHHHHHHHHhcCCccccc
Confidence            4589999999999999999999999999999999999999988765  999999999999999999999975 3   468


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCCCcccCCCchhH-HHhhhhhccCCCCCcc---
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEF-EKSYRKRKDQDGEDED---  173 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~~~~~~~~~~~~-~~~~~~r~~~~~~~e~---  173 (524)
                      |||++|+..|.+...+++..||+|||.||+++.+|..++...+..+.......++..... .+..++..+ ....+.   
T Consensus        91 p~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv~~~~q~k~~~~~~~~~~~~le~~e~~~~~~e-~~~~~~~~~  169 (360)
T COG3437          91 PVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSHLQLKRNEDFLLDQNLYLELQELRRRTEE-LAQIEDNLD  169 (360)
T ss_pred             ceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            999999999999999999999999999999999999999766644322211111111111 000000000 000000   


Q ss_pred             c---cCCCCCCCccccccCCCCceEeeHHHHHHHHHHHHHcCCCC------------------CchHHHHhhcCCCCCCH
Q 009824          174 E---DGDDDGHENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDK------------------AVPKKILDLMNVEGLTR  232 (524)
Q Consensus       174 E---~~~~~~~~~e~~s~~kk~rvvw~veLh~kflaavn~LGl~~------------------avPk~IL~lmk~~~LT~  232 (524)
                      +   ......+.++..++    +|+.+++.+.+.++..  +|+++                  ++||.||  +||+.||.
T Consensus       170 ~t~~~L~~~~E~R~~etg----~H~~Rv~~~~~~lAe~--lgLse~~v~~i~~AapLHDIGKvaiPD~IL--lKpg~Lt~  241 (360)
T COG3437         170 ETLEELAALLEVRDYETG----DHLERVAQYSELLAEL--LGLSEEEVDLIKKAAPLHDIGKVAIPDSIL--LKPGKLTS  241 (360)
T ss_pred             HHHHHHHHHHHhcccchh----hHHHHHHHHHHHHHHH--hCCCHHHHHHHHhccchhhcccccCChHHh--cCCCCCCH
Confidence            0   00001122222333    5556666667666554  78775                  9999999  99999999


Q ss_pred             HhHHhhhhhcccchhhhhhhHHHhhcCCCchhhhhhhhhccCCCcccCCCCc
Q 009824          233 ENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGR  284 (524)
Q Consensus       233 eevk~rL~mKr~t~~~q~~~~~~~L~~sd~~ll~~aa~igl~hhe~~dGsGy  284 (524)
                      +|  |.+ ||.|+.     .|+.+|..+.. +++.|++||+.|||||||+||
T Consensus       242 ee--~~i-mk~H~~-----~G~~il~~s~~-~mq~a~eIa~~HHErwDGsGY  284 (360)
T COG3437         242 EE--FEI-MKGHPI-----LGAEILKSSER-LMQVAAEIARHHHERWDGSGY  284 (360)
T ss_pred             HH--HHH-HhcchH-----HHHHHHHHHHH-HHHHHHHHHHHhhhccCCCCC
Confidence            99  888 999998     88889987654 999999999999999999999

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.91  E-value=8.1e-24  Score=200.20  Aligned_cols=184  Identities=21%  Similarity=0.270  Sum_probs=147.8

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ...-|.|||||..+|+.+..+|+..||+|.++.++++.|.....  ..|.++|+|+.||+++|++|.+++. ....+|||
T Consensus         3 ~~~~V~vVDDD~~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~--~~pGclllDvrMPg~sGlelq~~L~~~~~~~PVI   80 (202)
T COG4566           3 REPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPL--DRPGCLLLDVRMPGMSGLELQDRLAERGIRLPVI   80 (202)
T ss_pred             CCCeEEEEcCcHHHHHHHHHHHHhCCceeeeecCHHHHHhhccC--CCCCeEEEecCCCCCchHHHHHHHHhcCCCCCEE
Confidence            34569999999999999999999999999999999999998533  4599999999999999999999885 56789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCCCcccCCCchhHHHhhhhhccCCCCCccccCCCCC
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDEDEDGDDDG  180 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~e~E~~~~~~  180 (524)
                      |+|+++|.....++++.||.|||.|||+.+.|+.++++++++......     ..........+..+++++|++      
T Consensus        81 fiTGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~~~~~~~-----~~~~~~~~~~~l~tLT~RERq------  149 (202)
T COG4566          81 FLTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALARDASRRA-----EADRQAAIRARLATLTPRERQ------  149 (202)
T ss_pred             EEeCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHhcCHHHHH------
Confidence            999999999999999999999999999999999999999887532211     111223333444444433332      


Q ss_pred             CCccccccCCCCceEeeHHHHHHHHHHHHHcCCCCCchHHHHhhcCCCCCCHHhHHhhhhhcccc
Q 009824          181 HENENSTTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSLKRLG  245 (524)
Q Consensus       181 ~~~e~~s~~kk~rvvw~veLh~kflaavn~LGl~~avPk~IL~lmk~~~LT~eevk~rL~mKr~t  245 (524)
                                             .+..+    ..+..+|+|+..|+++..|+|-|+.+++.|..+
T Consensus       150 -----------------------Vl~~v----V~G~~NKqIA~dLgiS~rTVe~HRanvM~Km~a  187 (202)
T COG4566         150 -----------------------VLDLV----VRGLMNKQIAFDLGISERTVELHRANVMEKMQA  187 (202)
T ss_pred             -----------------------HHHHH----HcCcccHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence                                   12222    346789999999999999999999999555544

>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

Probab=99.87  E-value=2.5e-21  Score=191.68  Aligned_cols=118  Identities=36%  Similarity=0.568  Sum_probs=111.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc--CCCCcEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL--EMDLPVVM  101 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~diPVIv  101 (524)
                      ++||||||++..+..|...|+..||+|..+.++.+|++.+..  . ||+||+|++||++||+++|+++|.  ...+||||
T Consensus         1 ~~ILiveDd~~i~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~--~-~dlviLD~~lP~~dG~~~~~~iR~~~~~~~PIi~   77 (229)
T COG0745           1 MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAARE--Q-PDLVLLDLMLPDLDGLELCRRLRAKKGSGPPIIV   77 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc--C-CCEEEEECCCCCCCHHHHHHHHHhhcCCCCcEEE
Confidence            589999999999999999999999999999999999999874  3 999999999999999999999983  46789999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+.++......++++||+|||.|||++.||..+++.++|+..
T Consensus        78 Lta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~~  120 (229)
T COG0745          78 LTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRNA  120 (229)
T ss_pred             EECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcCc
Confidence            9999999999999999999999999999999999999999864

>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]

Probab=99.87  E-value=3.7e-21  Score=188.09  Aligned_cols=122  Identities=33%  Similarity=0.432  Sum_probs=111.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ++|+||||+|.++..|+.+|+.. +++|+ .+.++.++++.++...  ||+||+|+.||+++|+++++.++ ..++++||
T Consensus         1 ~~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~~~~~--pdvvl~Dl~mP~~~G~e~~~~l~~~~p~~~vv   78 (211)
T COG2197           1 IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARELK--PDVVLLDLSMPGMDGLEALKQLRARGPDIKVV   78 (211)
T ss_pred             CeEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHhhhcC--CCEEEEcCCCCCCChHHHHHHHHHHCCCCcEE
Confidence            57999999999999999999875 48877 6778999999977654  99999999999999999999996 67899999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCCC
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDP  147 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~~  147 (524)
                      ++|.+.+...+.+++++||.+|+.|..+.++|..+|+.+..+..+.+
T Consensus        79 vlt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G~~~~~  125 (211)
T COG2197          79 VLTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAGGTYLP  125 (211)
T ss_pred             EEeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCCeEeC
Confidence            99999999999999999999999999999999999999998875443

>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]

Probab=99.82  E-value=6.5e-20  Score=196.21  Aligned_cols=119  Identities=31%  Similarity=0.517  Sum_probs=111.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHH--hCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLR--ECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~--~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diP   98 (524)
                      +++||||||++.+|++|+.++.  .+|++|+ +|.+|.+|++.+++..  |||||+|++||+|||++|++.++ ..|++.
T Consensus         1 MykVlIVDDE~lIr~GLk~lI~w~~~g~eiVgtA~NG~eAleli~e~~--pDiviTDI~MP~mdGLdLI~~ike~~p~~~   78 (475)
T COG4753           1 MYKVLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQETQ--PDIVITDINMPGMDGLDLIKAIKEQSPDTE   78 (475)
T ss_pred             CeeEEEecChHHHHHHHHHhCChhhcCCeEEEecccHHHHHHHHHhcC--CCEEEEecCCCCCcHHHHHHHHHHhCCCce
Confidence            3689999999999999999995  4799988 8999999999999875  99999999999999999999996 578999


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|++|++.+.+++.+|+++|+.|||+||++.++|..++.++..+.
T Consensus        79 ~IILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~kl  123 (475)
T COG4753          79 FIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIGKL  123 (475)
T ss_pred             EEEEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999987653

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.81  E-value=2.4e-19  Score=192.02  Aligned_cols=119  Identities=34%  Similarity=0.580  Sum_probs=112.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+|||||||+.++..++..|+..||+|..+.++.+|++++...  .+|+||+|+.||++||+++++.++ ..+++|||++
T Consensus         5 ~~iLvVDDd~~ir~~l~~~L~~~G~~v~~a~~~~~al~~i~~~--~~~lvl~Di~mp~~~Gl~ll~~i~~~~~~~pVI~~   82 (464)
T COG2204           5 ARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSES--PFDLVLLDIRMPGMDGLELLKEIKSRDPDLPVIVM   82 (464)
T ss_pred             CCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcC--CCCEEEEecCCCCCchHHHHHHHHhhCCCCCEEEE
Confidence            5699999999999999999999999999999999999999875  499999999999999999999885 5689999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++++.+.+.+|++.||+|||.|||+.+.|...+.+++...+
T Consensus        83 Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~~~  124 (464)
T COG2204          83 TGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALELRE  124 (464)
T ss_pred             eCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999988644

>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

Probab=99.81  E-value=6.5e-19  Score=169.90  Aligned_cols=119  Identities=25%  Similarity=0.506  Sum_probs=110.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ++|||||||+.+.++-+.+++.. ||.++ +|.+.++|..++++.+  |||||+|+.||+.+|++|+..++ ...++-||
T Consensus         1 i~VLIiEDD~mVaeih~~yv~~~~gF~~vg~A~~~~ea~~~i~~~~--pDLILLDiYmPd~~Gi~lL~~ir~~~~~~DVI   78 (224)
T COG4565           1 INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFK--PDLILLDIYMPDGNGIELLPELRSQHYPVDVI   78 (224)
T ss_pred             CcEEEEcCchHHHHHHHHHHHhCCCceEEEeeccHHHHHHHHHhhC--CCEEEEeeccCCCccHHHHHHHHhcCCCCCEE
Confidence            68999999999999999999974 88877 8899999999998765  89999999999999999999886 56788999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..|.+.+.+++++||.|||.|||..+.|..++.+..+++.
T Consensus        79 ~iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~~r~  122 (224)
T COG4565          79 VITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQKRH  122 (224)
T ss_pred             EEeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999998877654

>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=99.78  E-value=7.7e-18  Score=144.51  Aligned_cols=110  Identities=36%  Similarity=0.610  Sum_probs=104.0

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCC-eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEe
Q 009824           26 VLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLS  103 (524)
Q Consensus        26 VLIVDDdp~~~~~L~~~L~~~gy-~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlT  103 (524)
                      ||||||++..++.++.+|+..|| +|..+.++.++++.+....  ||+||+|+.||+++|+++++.|+ ..+.+|||++|
T Consensus         1 Ilivd~~~~~~~~l~~~l~~~~~~~v~~~~~~~~~~~~~~~~~--~d~iiid~~~~~~~~~~~~~~i~~~~~~~~ii~~t   78 (112)
T PF00072_consen    1 ILIVDDDPEIRELLEKLLERAGYEEVTTASSGEEALELLKKHP--PDLIIIDLELPDGDGLELLEQIRQINPSIPIIVVT   78 (112)
T ss_dssp             EEEEESSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHST--ESEEEEESSSSSSBHHHHHHHHHHHTTTSEEEEEE
T ss_pred             cEEEECCHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHhcccC--ceEEEEEeeeccccccccccccccccccccEEEec
Confidence            79999999999999999999999 8999999999999998765  99999999999999999999996 45799999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHH
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQ  137 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~  137 (524)
                      ...+.....+++++|+++||.||++.++|..+++
T Consensus        79 ~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~  112 (112)
T PF00072_consen   79 DEDDSDEVQEALRAGADDYLSKPFSPEELRAAIN  112 (112)
T ss_dssp             SSTSHHHHHHHHHTTESEEEESSSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHCCCCEEEECCCCHHHHHHhhC
Confidence            9999999999999999999999999999998874

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.78  E-value=2.2e-17  Score=161.22  Aligned_cols=123  Identities=25%  Similarity=0.413  Sum_probs=110.8

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHh-CCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRE-CQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMD   96 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~-~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~d   96 (524)
                      +|..++||||||++.++..++.+|+. .++. |..+.++.++++.+....  ||+||+|+.||+++|+++++.++. .++
T Consensus         1 ~~~~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~~~--pdlvllD~~mp~~~gle~~~~l~~~~~~   78 (225)
T PRK10046          1 MTAPLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFK--PGLILLDNYLPDGRGINLLHELVQAHYP   78 (225)
T ss_pred             CCCcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCcHHHHHHHHHhcCCC
Confidence            46679999999999999999999986 4786 558999999999997654  999999999999999999999864 567


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|||++|+..+.....++++.||.+||.||++.++|..+++++..+..
T Consensus        79 ~~iivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~  126 (225)
T PRK10046         79 GDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQRKH  126 (225)
T ss_pred             CCEEEEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999998876544

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.77  E-value=8.4e-18  Score=162.50  Aligned_cols=121  Identities=19%  Similarity=0.284  Sum_probs=107.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCC-e-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCC---CCHHHHHHHHh-cCCC
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQY-E-VTVTNRAITALKMLRENRNNFDLVISDVYMPD---MDGFKLLELVG-LEMD   96 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy-~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd---mdGleLLe~Lr-~~~d   96 (524)
                      +++||||||++..+..++.+|+..++ . +..+.++.++++.+...  .||+||+|+.||+   ++|+++++.++ ..+.
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~~--~~DlvllD~~l~~~~~~~g~~~~~~l~~~~~~   80 (216)
T PRK10840          3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKL--DAHVLITDLSMPGDKYGDGITLIKYIKRHFPS   80 (216)
T ss_pred             ceEEEEECCcHHHHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHhC--CCCEEEEeCcCCCCCCCCHHHHHHHHHHHCCC
Confidence            48999999999999999999987654 4 55789999999988764  4999999999999   59999999885 4678


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      +|||++|...+.....++++.||++|+.||++.++|..+++.+..+...
T Consensus        81 ~~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~g~~~  129 (216)
T PRK10840         81 LSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKF  129 (216)
T ss_pred             CcEEEEEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHCCCee
Confidence            9999999999999999999999999999999999999999999876543

>PRK09483 response regulator; Provisional

Probab=99.75  E-value=6.4e-17  Score=153.82  Aligned_cols=121  Identities=24%  Similarity=0.335  Sum_probs=109.2

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      +++||||||++..+..++.+|+.. ++.++ .+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+||
T Consensus         1 m~~ilivd~~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~~--~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~i   78 (217)
T PRK09483          1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTN--AVDVVLMDMNMPGIGGLEATRKILRYTPDVKI   78 (217)
T ss_pred             CeEEEEECCcHHHHHHHHHHHccCCCCEEEEEeCCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHHHCCCCeE
Confidence            378999999999999999999874 88876 789999999988765  499999999999999999999885 5678999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      |++|...+.....+++..||++|+.||++.++|..+++.++++...
T Consensus        79 i~ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g~~~  124 (217)
T PRK09483         79 IMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRY  124 (217)
T ss_pred             EEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCCcc
Confidence            9999999999999999999999999999999999999999876543

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.73  E-value=7.3e-17  Score=152.01  Aligned_cols=118  Identities=19%  Similarity=0.267  Sum_probs=108.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      |+|+||||++..+..+...|+..|+++. .+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+.+|||+
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~--~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~   78 (204)
T PRK09958          1 MNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETL--KPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIII   78 (204)
T ss_pred             CcEEEECCcHHHHHHHHHHHhcCCCEEEEEeCCHHHHHHHHHcc--CCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEE
Confidence            6899999999999999999998899987 689999999988754  4999999999999999999998864 56789999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.....++++.||++|+.||++.++|..+++.++++.
T Consensus        79 ls~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~  120 (204)
T PRK09958         79 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGY  120 (204)
T ss_pred             EeCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999999998764

>COG0784 CheY FOG: CheY-like receiver [Signal transduction mechanisms]

Probab=99.71  E-value=4.8e-16  Score=136.60  Aligned_cols=119  Identities=36%  Similarity=0.614  Sum_probs=105.0

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHH-HHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-CCCcE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAI-TALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-MDLPV   99 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~-eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-~diPV   99 (524)
                      ...+||+|||++..+..++.+|...|+.|..+.++. +|++.++... .||+|++|+.||++||+++++.++.. +.+||
T Consensus         4 ~~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~~~~~-~~dlii~D~~mp~~~G~~~~~~l~~~~~~~pv   82 (130)
T COG0784           4 SGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELP-QPDLILLDINMPGMDGIELLRRLRARGPNIPV   82 (130)
T ss_pred             CCcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHHHhCC-CCCEEEEeCCCCCCCHHHHHHHHHhCCCCCCE
Confidence            358899999999999999999999999999999995 9999998641 39999999999999999999999765 77899


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHH-HHHHHHHHHH
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEE-LKNTWQHVIR  141 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~ee-L~~aI~~vlr  141 (524)
                      |++|++.......++++.|+.+|+.||+...+ |..++.+.+.
T Consensus        83 v~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~  125 (130)
T COG0784          83 ILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRLLA  125 (130)
T ss_pred             EEEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHHHHHH
Confidence            99999999887788899999999999977666 7777775554

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.69  E-value=3.9e-16  Score=152.45  Aligned_cols=108  Identities=12%  Similarity=0.104  Sum_probs=92.3

Q ss_pred             HHHHHHHHHh---CCCeEEEECCHHHHHHHHHhcCCCceEEE---EeCCCCCCCHHHHHHHHh-cCCCCcEEEEecCCCH
Q 009824           36 LKILEKFLRE---CQYEVTVTNRAITALKMLRENRNNFDLVI---SDVYMPDMDGFKLLELVG-LEMDLPVVMLSAYSDT  108 (524)
Q Consensus        36 ~~~L~~~L~~---~gy~V~~a~sg~eALe~L~e~~~~pDLVI---lDi~MPdmdGleLLe~Lr-~~~diPVIvlTa~~d~  108 (524)
                      +..++.+|+.   .+|.|..+.+++++++.+...  .||+||   +|+.||+++|+++++.++ ..+++|||++|++.+.
T Consensus         3 r~gi~~lL~~~~~~~~~v~~~~~~~~~l~~~~~~--~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p~~~iIvlt~~~~~   80 (207)
T PRK11475          3 SIGIESLFRKFPGNPYKLHTFSSQSSFQDAMSRI--SFSAVIFSLSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIE   80 (207)
T ss_pred             hHHHHHHHhcCCCCeeEEEEeCCHHHHHHHhccC--CCCEEEeeccccCCCCCCHHHHHHHHHHHCCCCCEEEEeCCCCH
Confidence            5678888865   356667899999999988654  489998   688899999999999884 6789999999999888


Q ss_pred             HHHHHHH-hcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824          109 KLVMKGI-NHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus       109 ~~~~~al-~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ....+++ ++||.+||.||++.++|..+|+.++++...
T Consensus        81 ~~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G~~~  118 (207)
T PRK11475         81 ARLIGSLSPSPLDGVLSKASTLEILQQELFLSLNGVRQ  118 (207)
T ss_pred             HHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCCCcc
Confidence            7676666 799999999999999999999999987654

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.68  E-value=3.4e-15  Score=147.01  Aligned_cols=119  Identities=20%  Similarity=0.422  Sum_probs=105.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ++||||||++.++..++.+|+. .++.++ .+.++.++++.+......||+||+|+.||+++|+++++.++ ..+++|||
T Consensus         2 ~~VLivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~a~~~~~~~~~~~DlvilD~~~p~~~G~eli~~l~~~~~~~~vI   81 (239)
T PRK10430          2 INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEIIFNSDTPIDLILLDIYMQQENGLDLLPVLHEAGCKSDVI   81 (239)
T ss_pred             eeEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhcCCCCCEEEEecCCCCCCcHHHHHHHHhhCCCCCEE
Confidence            6899999999999999999986 477755 77899999998863223599999999999999999999885 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....++++.||.+|+.||++.++|..++..++.+
T Consensus        82 ~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~~~~  123 (239)
T PRK10430         82 VISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWRQK  123 (239)
T ss_pred             EEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999876543

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.68  E-value=1.3e-15  Score=145.83  Aligned_cols=118  Identities=29%  Similarity=0.390  Sum_probs=109.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      ++||||||++..+..+...|+..||++..+.++.+++..+...  .||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         2 ~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~lr~~~~~pvi~lt   79 (225)
T PRK10529          2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR--KPDLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLS   79 (225)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHcCCCCCEEEEE
Confidence            5899999999999999999999999999999999999887654  49999999999999999999999877789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.+...++++.||++|+.||++.++|..+++.++++.
T Consensus        80 ~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~~~  119 (225)
T PRK10529         80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH  119 (225)
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999888764

>PLN03029 type-a response regulator protein; Provisional

Probab=99.68  E-value=9e-16  Score=150.90  Aligned_cols=121  Identities=32%  Similarity=0.568  Sum_probs=108.5

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcC------------------CCceEEEEeCCCCCCCH
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENR------------------NNFDLVISDVYMPDMDG   84 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~------------------~~pDLVIlDi~MPdmdG   84 (524)
                      .++||||||++..+..+..+|+..||+|.++.++.++++.+....                  ..+||||+|+.||+++|
T Consensus         8 ~~~VLiVdd~~~~~~~l~~~L~~~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~~~G   87 (222)
T PLN03029          8 QFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPGMTG   87 (222)
T ss_pred             CccEEEEeCCHHHHHHHHHHHHHcCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCCCCH
Confidence            489999999999999999999999999999999999999986432                  13689999999999999


Q ss_pred             HHHHHHHhcC---CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           85 FKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        85 leLLe~Lr~~---~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +++++.++..   .++|||++|+..+.....++++.||++||.||+...+|...+.++++.+
T Consensus        88 ~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~~  149 (222)
T PLN03029         88 YDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTK  149 (222)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHHHH
Confidence            9999999643   5799999999999999999999999999999999999988888776643

>PRK11173 two-component response regulator; Provisional

Probab=99.67  E-value=2.1e-15  Score=146.51  Aligned_cols=118  Identities=23%  Similarity=0.396  Sum_probs=110.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..+...|+..||+|..+.++.++++.+...  .||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         4 ~~iLiv~dd~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~lr~~~~~pii~lt   81 (237)
T PRK11173          4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEN--DINLVIMDINLPGKNGLLLARELREQANVALMFLT   81 (237)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhhC--CCCEEEEcCCCCCCCHHHHHHHHhcCCCCCEEEEE
Confidence            5899999999999999999999999999999999999998765  49999999999999999999999877789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+......+++.||++|+.||++.++|...++.++++.
T Consensus        82 ~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~r~  121 (237)
T PRK11173         82 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRT  121 (237)
T ss_pred             CCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999988764

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.66  E-value=2.6e-15  Score=143.84  Aligned_cols=118  Identities=31%  Similarity=0.432  Sum_probs=109.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      |+||+|||++..+..+...|+..||+|..+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+++|||++
T Consensus         1 m~iLlv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~~--~~dlvild~~l~~~~g~~l~~~lr~~~~~~pii~l   78 (223)
T PRK10816          1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEH--LPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVL   78 (223)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhC--CCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            5899999999999999999999999999999999999988764  4999999999999999999998864 578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....++++.||++|+.||++.++|..+++.++++.
T Consensus        79 s~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~~~  119 (223)
T PRK10816         79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN  119 (223)
T ss_pred             EcCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999988763

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.66  E-value=3.9e-15  Score=139.34  Aligned_cols=116  Identities=25%  Similarity=0.327  Sum_probs=104.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhC-CCeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLREC-QYEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~-gy~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      ++||||||++..+..++..|+.. ++.+ ..+.++.++++.+...  .||+||+|+.||+++|+++++.++  +.+|||+
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~~~~--~~dlvi~d~~~~~~~g~~~~~~l~--~~~~vi~   77 (196)
T PRK10360          2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGR--GVQVCICDISMPDISGLELLSQLP--KGMATIM   77 (196)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHc--cCCCEEE
Confidence            68999999999999999999753 6664 5789999999998754  499999999999999999999885  3689999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|...+.+...++++.||++|+.||++.++|..+++.++++.
T Consensus        78 ~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~  119 (196)
T PRK10360         78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGG  119 (196)
T ss_pred             EECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999999998763

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.66  E-value=2.9e-15  Score=140.89  Aligned_cols=119  Identities=21%  Similarity=0.327  Sum_probs=107.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPV   99 (524)
                      ..+||||||++..+..++..|+.. ++.++ .+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+.+||
T Consensus         3 ~~~iliv~d~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~l~~~~~~~~i   80 (210)
T PRK09935          3 PASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTR--PVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKV   80 (210)
T ss_pred             cceEEEECCcHHHHHHHHHHHhhCCCceEEEEeCCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHHhCCCCcE
Confidence            478999999999999999999876 68876 688999999988754  4999999999999999999998864 578999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.....++++.|+++|+.||++.++|..+++.++.+.
T Consensus        81 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~~~  124 (210)
T PRK09935         81 LFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGY  124 (210)
T ss_pred             EEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999988764

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.65  E-value=3.6e-15  Score=142.46  Aligned_cols=118  Identities=20%  Similarity=0.409  Sum_probs=110.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      ++||+|||++..+..+...|+..||+|..+.++.++++.+...  .||+||+|+.||+++|+++++.++..+.+|||+++
T Consensus         3 ~~iLlv~d~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~lr~~~~~~ii~l~   80 (221)
T PRK10766          3 YHILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQ--HVDLILLDINLPGEDGLMLTRELRSRSTVGIILVT   80 (221)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhCCCCCEEEEE
Confidence            5899999999999999999999999999999999999988754  49999999999999999999999777789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||+||+.||++.++|..++..++++.
T Consensus        81 ~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~r~  120 (221)
T PRK10766         81 GRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWRI  120 (221)
T ss_pred             CCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999999999988764

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.65  E-value=4.4e-15  Score=142.68  Aligned_cols=117  Identities=27%  Similarity=0.577  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      |+||||||++..+..+...|+..||.|..+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+++|||++
T Consensus         1 m~iliv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~--~~dlvild~~~~~~~g~~~~~~lr~~~~~~pii~l   78 (227)
T PRK09836          1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTG--DYDLIILDIMLPDVNGWDIVRMLRSANKGMPILLL   78 (227)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhC--CCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            5899999999999999999999999999999999999987654  4999999999999999999998864 478999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |+..+.+...++++.||++|+.||++.++|..+++.++++
T Consensus        79 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  118 (227)
T PRK09836         79 TALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRR  118 (227)
T ss_pred             EcCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999998875

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.65  E-value=5.2e-15  Score=140.41  Aligned_cols=118  Identities=34%  Similarity=0.513  Sum_probs=109.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      |+||||||++..+..+...|+..|+.+..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~--~~d~illd~~~~~~~g~~~~~~l~~~~~~~pii~l   78 (222)
T PRK10643          1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESG--HYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLIL   78 (222)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhC--CCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            5899999999999999999999999999999999999988764  499999999999999999999886 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....++++.||.+|+.||++.++|..+++.++++.
T Consensus        79 s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~  119 (222)
T PRK10643         79 TARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRRH  119 (222)
T ss_pred             ECCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999888754

>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

Probab=99.65  E-value=2e-15  Score=160.93  Aligned_cols=122  Identities=34%  Similarity=0.520  Sum_probs=113.3

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      ...+||||||+...++.++.+|...||+|+.+.++.+|+..+.+.  .||+||+|+.||++||++++.+++.   ...+|
T Consensus       131 ~~~kILvvdD~~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~~~e~--~~dlil~d~~mp~~dg~el~~~lr~~~~t~~ip  208 (435)
T COG3706         131 APKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQLAEL--PPDLVLLDANMPDMDGLELCTRLRQLERTRDIP  208 (435)
T ss_pred             cCceEEEEcCcHHHHHHHHHHHHhccceeeeecCHHHHHHHHhcC--CCcEEEEecCCCccCHHHHHHHHhccccccccc
Confidence            468999999999999999999999999999999999999999876  4999999999999999999998863   45799


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ||++++.++.....+|++.|+.|||.||+...+|..+++..+++.+.
T Consensus       209 ii~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~Rl~~~l~~~~~  255 (435)
T COG3706         209 IILLSSKDDDELVVRAFELGVNDYITKPIEEGELRARLRRQLRRKRY  255 (435)
T ss_pred             EEEEecccchHHHHHHHHcCCcceEecCCCHHHHHHHHHHHHHhhhH
Confidence            99999999999999999999999999999999999999988887653

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.64  E-value=7e-15  Score=142.91  Aligned_cols=118  Identities=24%  Similarity=0.397  Sum_probs=109.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..+...|+..||++..+.++.++++.+...  .||+||+|+.||+++|+++++.++....+|||+++
T Consensus         2 ~~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~~--~~dlvild~~l~~~~g~~~~~~ir~~~~~pii~l~   79 (240)
T PRK10701          2 NKIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILRE--QPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVLLT   79 (240)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHhhC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEE
Confidence            4899999999999999999999999999999999999998764  49999999999999999999999766678999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||++|+.||++..+|..+++.++++.
T Consensus        80 ~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~~~  119 (240)
T PRK10701         80 SLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQN  119 (240)
T ss_pred             CCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence            9999888999999999999999999999999999888764

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.63  E-value=8.6e-15  Score=139.52  Aligned_cols=118  Identities=26%  Similarity=0.517  Sum_probs=109.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      |+||||||++..+..+...|+..|+.|..+.++.+++..+...  .||+||+|+.||+++|+++++.++....+|||++|
T Consensus         1 m~iliv~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~l~~~~~~--~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~ii~ls   78 (223)
T PRK11517          1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKD--DYALIILDIMLPGMDGWQILQTLRTAKQTPVICLT   78 (223)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC--CCCEEEEECCCCCCCHHHHHHHHHcCCCCCEEEEE
Confidence            5899999999999999999999999999999999999988654  49999999999999999999999766789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.+...++++.||++|+.||++.++|..+++.++++.
T Consensus        79 ~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~  118 (223)
T PRK11517         79 ARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQH  118 (223)
T ss_pred             CCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHccc
Confidence            9999999999999999999999999999999999887653

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.63  E-value=9.4e-15  Score=138.61  Aligned_cols=118  Identities=27%  Similarity=0.382  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      |+||||||++..+..+...|+..+|++..+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+.+|||++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~i~~~~~~~~ii~l   78 (219)
T PRK10336          1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSA--PYDAVILDLTLPGMDGRDILREWREKGQREPVLIL   78 (219)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhC--CCCEEEEECCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            5899999999999999999998899999999999999988654  4999999999999999999998864 578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....+++++||++|+.||++.++|..+++.++++.
T Consensus        79 t~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~  119 (219)
T PRK10336         79 TARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRT  119 (219)
T ss_pred             ECCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999887753

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.63  E-value=9.1e-15  Score=140.18  Aligned_cols=118  Identities=31%  Similarity=0.494  Sum_probs=108.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..+...|+..||.|..+.++.++++.+..   .||+||+|+.||+++|+++++.++....+|||++|
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~---~~d~vl~d~~~~~~~g~~~~~~l~~~~~~~ii~lt   78 (232)
T PRK10955          2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDD---SIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLT   78 (232)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHhhc---CCCEEEEeCCCCCCcHHHHHHHHHhcCCCcEEEEE
Confidence            489999999999999999999889999999999999998752   49999999999999999999988755459999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +..+.....++++.||++|+.||++.++|..+++.++++..
T Consensus        79 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~  119 (232)
T PRK10955         79 ARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSH  119 (232)
T ss_pred             CCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999999887643

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.63  E-value=1e-14  Score=140.31  Aligned_cols=117  Identities=28%  Similarity=0.444  Sum_probs=108.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      ++||||||++..+..+...|+..||++..+.++.++++.+...  .||+||+|+.||+++|+++++.++..   +.+|||
T Consensus         3 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~l~~~~~~~~~pvi   80 (229)
T PRK10161          3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP--WPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVV   80 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcc--CCCEEEEeCCCCCCCHHHHHHHHHhccccCCCCEE
Confidence            6799999999999999999998899999999999999988754  49999999999999999999988643   679999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....+++++||++|+.||++.++|..+++.++++
T Consensus        81 ~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~  122 (229)
T PRK10161         81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  122 (229)
T ss_pred             EEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999998876

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.63  E-value=1.1e-14  Score=138.37  Aligned_cols=118  Identities=27%  Similarity=0.470  Sum_probs=108.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPVI  100 (524)
                      ++||||||++..+..+...|+..+++|..+.++.+++..+...  .||+||+|+.||+++|+++++.++.   .+.+|||
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~--~~d~vi~d~~~~~~~g~~~~~~l~~~~~~~~~~ii   80 (226)
T TIGR02154         3 RRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINER--GPDLILLDWMLPGTSGIELCRRLRRRPETRAIPII   80 (226)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHHhc--CCCEEEEECCCCCCcHHHHHHHHHccccCCCCCEE
Confidence            6899999999999999999998899999999999999988765  4999999999999999999998864   3579999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.....++++.||++|+.||++.++|..++..++++.
T Consensus        81 ~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~  123 (226)
T TIGR02154        81 MLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRRI  123 (226)
T ss_pred             EEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhccc
Confidence            9999999999999999999999999999999999999988764

PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well.

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.63  E-value=1.2e-14  Score=140.17  Aligned_cols=119  Identities=38%  Similarity=0.589  Sum_probs=110.2

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVML  102 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvl  102 (524)
                      .++||||||++..+..+...|+..+|.|..+.++.+++..+...  .||+||+|+.||+++|+++++.++..+++|||++
T Consensus         6 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~~~~--~~d~illd~~~~~~~g~~~~~~l~~~~~~~ii~l   83 (240)
T CHL00148          6 KEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKE--QPDLVILDVMMPKLDGYGVCQEIRKESDVPIIML   83 (240)
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCcEEEE
Confidence            47999999999999999999998899999899999999988754  4999999999999999999999976678999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+......+++.||++|+.||++.++|..+++.++++.
T Consensus        84 s~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~~  124 (240)
T CHL00148         84 TALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRT  124 (240)
T ss_pred             ECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999888764

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.62  E-value=1.2e-14  Score=142.08  Aligned_cols=117  Identities=21%  Similarity=0.404  Sum_probs=107.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEec
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSA  104 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlTa  104 (524)
                      +||||||++..+..+...|+..+|.|..+.++.++++.+...  .||+||+|+.||+++|+++++.++....+|+|++|+
T Consensus         3 ~ILived~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~--~~dlvi~d~~l~~~~g~~l~~~i~~~~~~pii~lt~   80 (241)
T PRK13856          3 HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASE--TVDVVVVDLNLGREDGLEIVRSLATKSDVPIIIISG   80 (241)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhhC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCcEEEEEC
Confidence            799999999999999999999999999999999999988754  499999999999999999999997667899999998


Q ss_pred             C-CCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          105 Y-SDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       105 ~-~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      . .+.....++++.||++|+.||++.++|..+++.++++.
T Consensus        81 ~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~~~  120 (241)
T PRK13856         81 DRLEEADKVVALELGATDFIAKPFGTREFLARIRVALRVR  120 (241)
T ss_pred             CCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHhhc
Confidence            5 46677889999999999999999999999999988764

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.62  E-value=1.6e-14  Score=133.69  Aligned_cols=119  Identities=29%  Similarity=0.423  Sum_probs=108.3

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+.+||||||++..+..+...|+..+|.+..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+|+|
T Consensus         2 ~~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~d~ii~d~~~~~~~~~~~~~~l~~~~~~~~ii   79 (202)
T PRK09390          2 DKGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGL--RFGCVVTDVRMPGIDGIELLRRLKARGSPLPVI   79 (202)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHhccC--CCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEE
Confidence            457899999999999999999998899999999999999888654  499999999999999999999885 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|...+......+++.|+.+|+.||+..+++..++..++..
T Consensus        80 ~l~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~~~  121 (202)
T PRK09390         80 VMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQ  121 (202)
T ss_pred             EEECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999887765

>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]

Probab=99.62  E-value=4.6e-15  Score=136.28  Aligned_cols=112  Identities=24%  Similarity=0.445  Sum_probs=105.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEe
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLS  103 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlT  103 (524)
                      ..||||||..++..|...+++-||.|+++.+.++++..++...  |.-.++|+.|.+.+|+++++.|+ ...+..||++|
T Consensus        11 ~lllvdDD~~f~~~LaRa~e~RGf~v~~a~~~~eal~~art~~--PayAvvDlkL~~gsGL~~i~~lr~~~~d~rivvLT   88 (182)
T COG4567          11 SLLLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAARTAP--PAYAVVDLKLGDGSGLAVIEALRERRADMRIVVLT   88 (182)
T ss_pred             eeEEecCChHHHHHHHHHHhccCceeEeeccHHHHHHHHhcCC--CceEEEEeeecCCCchHHHHHHHhcCCcceEEEEe
Confidence            6899999999999999999999999999999999999998765  99999999999999999999886 56899999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHH
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH  138 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~  138 (524)
                      ++.+...+.+|++.||++||.||-+.++++.++..
T Consensus        89 Gy~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl~~  123 (182)
T COG4567          89 GYASIATAVEAVKLGACDYLAKPADADDILAALLR  123 (182)
T ss_pred             cchHHHHHHHHHHhhhhhhcCCCCChHHHHHHHhh
Confidence            99999999999999999999999999999887764

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.61  E-value=1.8e-14  Score=139.76  Aligned_cols=119  Identities=29%  Similarity=0.494  Sum_probs=109.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      ..+||||||++..+..++..|+..||++..+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+++|||+
T Consensus         5 ~~~iLiv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~--~~dlvild~~l~~~~g~~~~~~lr~~~~~~pii~   82 (239)
T PRK09468          5 NYKILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRE--SFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIM   82 (239)
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            46899999999999999999999999999999999999988754  4999999999999999999998864 46899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +++..+......+++.||++|+.||++.++|..+++.++++.
T Consensus        83 ls~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~r~  124 (239)
T PRK09468         83 LTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQ  124 (239)
T ss_pred             EECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhccc
Confidence            999999999999999999999999999999999999988764

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.61  E-value=1.9e-14  Score=137.16  Aligned_cols=118  Identities=34%  Similarity=0.470  Sum_probs=108.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      ++||||||++..+..+...|+..+|+|..+.++.+++..+...  .||+||+|+.||+.+|+++++.++. .+.+|||++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~ii~l   81 (228)
T PRK11083          4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQ--PPDLVILDVGLPDISGFELCRQLLAFHPALPVIFL   81 (228)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEEE
Confidence            6899999999999999999998999999999999999988654  4999999999999999999998864 478999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+......+++.||++|+.||++.++|..+++.++++.
T Consensus        82 s~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~  122 (228)
T PRK11083         82 TARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRV  122 (228)
T ss_pred             EcCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHCcc
Confidence            99999999999999999999999999999999999887764

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.61  E-value=2.4e-14  Score=137.27  Aligned_cols=117  Identities=26%  Similarity=0.376  Sum_probs=107.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC--CCHHHHHHHHhc-CCCCcEEE
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD--MDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd--mdGleLLe~Lr~-~~diPVIv  101 (524)
                      +||||||++..+..+...|+..||+|..+.++.+++..+....  ||+||+|+.||+  .+|+++++.++. .+.+|||+
T Consensus         2 ~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~--~dlvild~~l~~~~~~g~~~~~~i~~~~~~~pii~   79 (227)
T TIGR03787         2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFRQRL--PDLAIIDIGLGEEIDGGFMLCQDLRSLSATLPIIF   79 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHHhCC--CCEEEEECCCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            6999999999999999999989999999999999999887654  999999999998  589999998864 46899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+......++++||++|+.||++.++|..+++.++++.
T Consensus        80 ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~  121 (227)
T TIGR03787        80 LTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRRA  121 (227)
T ss_pred             EECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999988764

This model describes a family of DNA-binding response regulator proteins, associated with an adjacent histidine kinase (TIGR03785) to form a two-component system. This system co-occurs with, and often is adjacent to, a proteobacterial variant form of the protein sorting transpeptidase called sortase (TIGR03784), and a single target protein for the sortase. We give this protein the gene symbol pdsR, for Proteobacterial Dedicated Sortase system Response regulator.

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.61  E-value=7.4e-15  Score=144.30  Aligned_cols=117  Identities=13%  Similarity=0.145  Sum_probs=97.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHH-HHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLL-ELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLL-e~Lr-~~~diPVI  100 (524)
                      .+|++|||+|..+..|+.+|+. ++.|. .+.++.++++.+.    .|||||+|+.||+++|++++ +.++ ..+.++||
T Consensus        11 ~~~~~v~~~~l~~~~l~~~L~~-~~~v~~~~~~~~~~~~~~~----~~DvvllDi~~p~~~G~~~~~~~i~~~~p~~~vv   85 (216)
T PRK10100         11 HTLLLITKPSLQATALLQHLKQ-SLAITGKLHNIQRSLDDIS----SGSIILLDMMEADKKLIHYWQDTLSRKNNNIKIL   85 (216)
T ss_pred             ceEEEEeChHhhhHHHHHHHHH-hCCCeEEEcCHHHhhccCC----CCCEEEEECCCCCccHHHHHHHHHHHhCCCCcEE
Confidence            4699999999999999999984 55544 6788999988642    38999999999999999997 5565 56789999


Q ss_pred             EEecCCCHHHHHHHHh--cCCcEEEeCCCCHHHHHHHHHHHHHhccCCC
Q 009824          101 MLSAYSDTKLVMKGIN--HGACDYLLKPVRMEELKNTWQHVIRRKKVDP  147 (524)
Q Consensus       101 vlTa~~d~~~~~~al~--~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~~  147 (524)
                      ++|+..+  ....++.  .||.+|+.|+.+.++|..+|+.+.++....+
T Consensus        86 vlt~~~~--~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G~~~~~  132 (216)
T PRK10100         86 LLNTPED--YPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGECYFT  132 (216)
T ss_pred             EEECCch--hHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcCCcccC
Confidence            9999987  3445555  5999999999999999999999998765543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=99.60  E-value=2.4e-15  Score=150.85  Aligned_cols=115  Identities=30%  Similarity=0.494  Sum_probs=103.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      ++|+|||||......|..+|.+.+..|..|....+|++.|...+  |||||+|+.||+|+|++++++++ ..+.+|||++
T Consensus         1 ~~~iiVDdd~a~~~~l~~iLs~~~~~~~~~~~~~eal~~Le~~k--pDLifldI~mp~~ngiefaeQvr~i~~~v~iifI   78 (361)
T COG3947           1 PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEVFK--PDLIFLDIVMPYMNGIEFAEQVRDIESAVPIIFI   78 (361)
T ss_pred             CcEEEEcchHHHHHHHHHHHHhccchhhccCCHHHHHHHHHhcC--CCEEEEEeecCCccHHHHHHHHHHhhccCcEEEE
Confidence            58999999999999999999999977889999999999998765  99999999999999999999886 4678999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++.+  .....+...+.|||.||+..+.|-++|.+..++
T Consensus        79 ssh~e--ya~dsf~~n~~dYl~KPvt~ekLnraIdr~~k~  116 (361)
T COG3947          79 SSHAE--YADDSFGMNLDDYLPKPVTPEKLNRAIDRRLKR  116 (361)
T ss_pred             ecchh--hhhhhcccchHhhccCCCCHHHHHHHHHHHhcc
Confidence            99975  556667777899999999999999999988743

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.59  E-value=1.5e-14  Score=166.96  Aligned_cols=120  Identities=29%  Similarity=0.429  Sum_probs=110.3

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-----C
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-----M   95 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-----~   95 (524)
                      |.+++||||||++..+..++.+|+..||+|.++.++.+|++.+.+.  .||+||+|+.||++||+++++.++..     +
T Consensus       688 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~--~~dlil~D~~mp~~~G~~~~~~ir~~~~~~~~  765 (921)
T PRK15347        688 PWQLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQH--RFDLVLMDIRMPGLDGLETTQLWRDDPNNLDP  765 (921)
T ss_pred             cccCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhchhhcCC
Confidence            3468999999999999999999999999999999999999998765  49999999999999999999988642     6


Q ss_pred             CCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           96 DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        96 diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      .+|||++|+..+.....++++.|+++||.||++.++|..++..+++.
T Consensus       766 ~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  812 (921)
T PRK15347        766 DCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAAEY  812 (921)
T ss_pred             CCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhh
Confidence            79999999999999999999999999999999999999999887653

>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional

Probab=99.59  E-value=3e-14  Score=138.84  Aligned_cols=119  Identities=8%  Similarity=-0.009  Sum_probs=98.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCC--eEE-EECCHHHHHHHHHhcCCCceEEEEeCC--CCCCCHHHHHHHHh-cCCCC
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQY--EVT-VTNRAITALKMLRENRNNFDLVISDVY--MPDMDGFKLLELVG-LEMDL   97 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy--~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~--MPdmdGleLLe~Lr-~~~di   97 (524)
                      |.|+||||++.++..++.+|+..++  +++ .+.++.++++.+...  .|||||+|+.  ||+++|+++++.++ ..+++
T Consensus         1 ~~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~~~~--~pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~   78 (207)
T PRK15411          1 MSTIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIACDSL--RPSVVFINEDCFIHDASNSQRIKQIINQHPNT   78 (207)
T ss_pred             CCEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHHhcc--CCCEEEEeCcccCCCCChHHHHHHHHHHCCCC
Confidence            4689999999999999999986543  443 789999999988654  4999999966  88889999999885 57889


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcE-EEeCCCCHHHHHHHHHHHHHhccC
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACD-YLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~d-YL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      +||++|++.+..... ++..|+.. |+.|+.+.++|..+++.+..+...
T Consensus        79 ~iivlt~~~~~~~~~-~~~~~~~~~~~~K~~~~~~L~~aI~~v~~g~~~  126 (207)
T PRK15411         79 LFIVFMAIANIHFDE-YLLVRKNLLISSKSIKPESLDDLLGDILKKETT  126 (207)
T ss_pred             eEEEEECCCchhHHH-HHHHHhhceeeeccCCHHHHHHHHHHHHcCCcc
Confidence            999999998876653 55555554 899999999999999999877543

>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional

Probab=99.58  E-value=2.6e-14  Score=166.86  Aligned_cols=120  Identities=30%  Similarity=0.471  Sum_probs=111.2

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVI  100 (524)
                      .+++||||||++.++..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+|+|+++++.++. .+.+|||
T Consensus       800 ~~~~ILvVdD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~--~DlVl~D~~mP~mdG~el~~~ir~~~~~~pII  877 (924)
T PRK10841        800 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH--IDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVI  877 (924)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhCC--CCEEEEcCCCCCCCHHHHHHHHHhcCCCCCEE
Confidence            4579999999999999999999999999999999999999998654  999999999999999999999864 5689999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+....+...+++++|+++||.||++.++|..++..+.++.
T Consensus       878 ~lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~~~~  920 (924)
T PRK10841        878 GVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYAERV  920 (924)
T ss_pred             EEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999998876643

>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]

Probab=99.58  E-value=1.4e-14  Score=166.19  Aligned_cols=123  Identities=28%  Similarity=0.453  Sum_probs=112.2

Q ss_pred             CCCCCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC--
Q 009824           17 IDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE--   94 (524)
Q Consensus        17 ~~~~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~--   94 (524)
                      .+.+..+.+||||||++..+++...+|+..|.+|+++.++.||++++.. ...||+||+|++||.|||++..+.||..  
T Consensus       660 ~~~~l~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~sg~e~l~~~~~-~~~y~~ifmD~qMP~mDG~e~~~~irk~~~  738 (786)
T KOG0519|consen  660 DSKLLTGPKILLVDDNPVNRKVATGMLKKLGAEVTEVNSGQEALDKLKP-PHSYDVIFMDLQMPEMDGYEATREIRKKER  738 (786)
T ss_pred             ccccccCCceEEEecccchHHHHHHHHHHhCCeeEeecCcHHHHHhcCC-CCcccEEEEEcCCcccchHHHHHHHHHhhc
Confidence            3556668999999999999999999999999999999999999999972 3469999999999999999999999644  


Q ss_pred             CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824           95 MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus        95 ~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      ..+|||.+|++.+.....+|++.|.++||.|||..+.|..+++..+
T Consensus       739 ~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~~l~~~l~~~~  784 (786)
T KOG0519|consen  739 WHLPIVALTADADPSTEEECLEVGMDGYLSKPFTLEKLVKILREFL  784 (786)
T ss_pred             CCCCEEEEecCCcHHHHHHHHHhCCceEEcccccHHHHHHHHHHHh
Confidence            4899999999999999999999999999999999999999888765

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.58  E-value=5.4e-14  Score=130.72  Aligned_cols=119  Identities=21%  Similarity=0.364  Sum_probs=105.5

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      .++||||||++..+..+...|... ++.++ .+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+|+
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlvl~d~~~~~~~~~~~~~~l~~~~~~~~i   80 (211)
T PRK15369          3 NYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQL--EPDIVILDLGLPGMNGLDVIPQLHQRWPAMNI   80 (211)
T ss_pred             ccEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHHHCCCCcE
Confidence            478999999999999999999865 56655 788999999887654  499999999999999999998885 3578999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+......+++.|+.+|+.||+...+|..+++.++++.
T Consensus        81 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  124 (211)
T PRK15369         81 LVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGK  124 (211)
T ss_pred             EEEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999887653

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.58  E-value=2.5e-14  Score=164.98  Aligned_cols=119  Identities=27%  Similarity=0.434  Sum_probs=110.4

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      ..++||||||++..+..++.+|+..|+.|..+.++.+|++.+.+.  .||+||+|+.||++||+++++.++.   .+++|
T Consensus       666 ~~~~vLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~~~~~--~~dlil~D~~mp~~~g~~~~~~lr~~~~~~~~p  743 (919)
T PRK11107        666 LPLTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQR--PFDLILMDIQMPGMDGIRACELIRQLPHNQNTP  743 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhC--CCCEEEEeCCCCCCcHHHHHHHHHhcccCCCCC
Confidence            358999999999999999999999999999999999999999765  4999999999999999999999974   45799


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+..+.+...++++.|+++||.||++.++|..++.+++..
T Consensus       744 ii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  787 (919)
T PRK11107        744 IIAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYKPG  787 (919)
T ss_pred             EEEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHccc
Confidence            99999999999999999999999999999999999999887654

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.57  E-value=8.4e-14  Score=131.74  Aligned_cols=117  Identities=32%  Similarity=0.560  Sum_probs=107.7

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEec
Q 009824           26 VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLSA  104 (524)
Q Consensus        26 VLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlTa  104 (524)
                      ||||||++..+..+...|+..+|.+..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+++|||++|+
T Consensus         1 iliidd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvl~d~~~~~~~g~~~~~~l~~~~~~~~iivls~   78 (218)
T TIGR01387         1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKD--DYDLIILDVMLPGMDGWQILQTLRRSGKQTPVLFLTA   78 (218)
T ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHccCCCCcEEEEEc
Confidence            58999999999999999998999999999999999988754  499999999999999999999886 457899999999


Q ss_pred             CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          105 YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       105 ~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ..+.....++++.||++|+.||++.++|..+++.++++..
T Consensus        79 ~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~  118 (218)
T TIGR01387        79 RDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSH  118 (218)
T ss_pred             CCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999999998877643

Members of this family contain a response regulator receiver domain (Pfam:PF00072) and an associated transcriptional regulatory region (Pfam:PF00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system.

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.56  E-value=1.2e-13  Score=130.08  Aligned_cols=119  Identities=20%  Similarity=0.334  Sum_probs=106.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      ..+||||||++..+..+...|+.. ++.++ .+.++.+++..+...  .||+||+|+.||+++|+++++.++ ..+.+|+
T Consensus         6 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlvl~d~~l~~~~~~~~~~~l~~~~~~~~v   83 (216)
T PRK10651          6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESL--DPDLILLDLNMPGMNGLETLDKLREKSLSGRI   83 (216)
T ss_pred             ceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHHHhC--CCCEEEEeCCCCCCcHHHHHHHHHHhCCCCcE
Confidence            378999999999999999999764 66654 688999999988764  499999999999999999999885 4578899


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+++...+......+++.|+.+|+.||++.++|...++.++++.
T Consensus        84 i~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~~~  127 (216)
T PRK10651         84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGE  127 (216)
T ss_pred             EEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999988754

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.56  E-value=4.5e-13  Score=127.04  Aligned_cols=119  Identities=34%  Similarity=0.535  Sum_probs=108.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      |+|++|||++..+..++..|+..++.+..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+++|+|++
T Consensus         1 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~d~vild~~~~~~~~~~~~~~i~~~~~~~~ii~l   78 (221)
T PRK15479          1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSE--MYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLL   78 (221)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhC--CCCEEEEeCCCCCCcHHHHHHHHHhcCCCCCEEEE
Confidence            5799999999999999999998899998999999999887654  499999999999999999999885 4568999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |...+.....++++.||++|+.||+..++|..+++.++++..
T Consensus        79 t~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~~~  120 (221)
T PRK15479         79 TARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRSA  120 (221)
T ss_pred             ECCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhhhc
Confidence            999999999999999999999999999999999998877543

>PRK11697 putative two-component response-regulatory protein YehT; Provisional

Probab=99.55  E-value=1.1e-13  Score=134.68  Aligned_cols=116  Identities=28%  Similarity=0.441  Sum_probs=99.5

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCC-CeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQ-YEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~g-y~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      +++|+||||++..+..++.+|+..+ +.+ ..+.++.++++.+...  .||+||+|+.||+++|+++++.++.....+||
T Consensus         1 m~~IlIvdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~--~~dlv~lDi~~~~~~G~~~~~~l~~~~~~~ii   78 (238)
T PRK11697          1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRL--KPDVVFLDIQMPRISGLELVGMLDPEHMPYIV   78 (238)
T ss_pred             CcEEEEECCCHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHhcccCCCEEE
Confidence            3799999999999999999998876 344 4688999999988764  49999999999999999999988644445688


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|++.  +.+.++++.||.+||.||+..++|..++.++.+.
T Consensus        79 ~vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~~~  118 (238)
T PRK11697         79 FVTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQE  118 (238)
T ss_pred             EEeccH--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHh
Confidence            888875  4678899999999999999999999999988654

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.55  E-value=5.9e-14  Score=162.44  Aligned_cols=121  Identities=22%  Similarity=0.298  Sum_probs=110.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+.+||||||++.++..++.+|+..||+|..+.++.+|++.+... ..||+||+|+.||++||+++++.++ ..+.+|||
T Consensus       680 ~~~~vLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~-~~~Dlvl~D~~mp~~~G~~~~~~lr~~~~~~~ii  758 (914)
T PRK11466        680 DGLRLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNS-EPFAAALVDFDLPDYDGITLARQLAQQYPSLVLI  758 (914)
T ss_pred             CCcceEEEeCCHHHHHHHHHHHHhcCCceEEeCCHHHHHHHHHcC-CCCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEE
Confidence            357999999999999999999999999999999999999988643 3589999999999999999999886 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|++.......++++.|+++||.||++.++|..++.++++..
T Consensus       759 ~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~~  801 (914)
T PRK11466        759 GFSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQLQ  801 (914)
T ss_pred             EEeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhhhc
Confidence            9999999999999999999999999999999999999988654

>PRK14084 two-component response regulator; Provisional

Probab=99.55  E-value=1.3e-13  Score=135.40  Aligned_cols=115  Identities=23%  Similarity=0.391  Sum_probs=100.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCC-C-eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQ-Y-EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~g-y-~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVI  100 (524)
                      |+|+||||++..+..++.+|+..+ + .+..+.++.++++.+.+.  .||+||+|+.||+++|+++++.++. .+..+||
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~~l~~~~~~--~~dlv~lDi~m~~~~G~~~~~~i~~~~~~~~iI   78 (246)
T PRK14084          1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLIN--QYDIIFLDINLMDESGIELAAKIQKMKEPPAII   78 (246)
T ss_pred             CEEEEECCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEE
Confidence            589999999999999999998764 4 456889999999998764  4999999999999999999998864 4567788


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|++.+  ...++++.||.+||.||+..++|..+++++.+.
T Consensus        79 ~~t~~~~--~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~~~  118 (246)
T PRK14084         79 FATAHDQ--FAVKAFELNATDYILKPFEQKRIEQAVNKVRAT  118 (246)
T ss_pred             EEecChH--HHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHh
Confidence            8888754  567899999999999999999999999988754

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.55  E-value=1.3e-13  Score=137.04  Aligned_cols=118  Identities=29%  Similarity=0.530  Sum_probs=105.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-C--CC
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-M--DL   97 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-~--di   97 (524)
                      +++||||||++..+..+...|+.. ++.++ .+.++.++++.+....  ||+||+|+.||++||+++++.++.. .  .+
T Consensus         2 ~~~vLivdd~~~~~~~l~~~L~~~~~~~~~~~a~~~~eal~~l~~~~--~DlvllD~~mp~~dG~~~l~~i~~~~~~~~~   79 (262)
T TIGR02875         2 KIRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQ--PDVVVLDIIMPHLDGIGVLEKLNEIELSARP   79 (262)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCeEEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhhccccCC
Confidence            479999999999999999999864 56665 7899999999988654  9999999999999999999988642 3  38


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |||++|+..+.....++++.|+++|+.||++.++|..+++.++..
T Consensus        80 ~iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~~~  124 (262)
T TIGR02875        80 RVIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG  124 (262)
T ss_pred             eEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999988754

Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.54  E-value=1.2e-13  Score=148.26  Aligned_cols=121  Identities=29%  Similarity=0.516  Sum_probs=110.1

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCc
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diP   98 (524)
                      |+...+||||||++..+..+...|+..||+|..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+|
T Consensus         1 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~--~~dlillD~~~p~~~g~~ll~~i~~~~~~~p   78 (457)
T PRK11361          1 MTAINRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADI--HPDVVLMDIRMPEMDGIKALKEMRSHETRTP   78 (457)
T ss_pred             CCCCCeEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCC
Confidence            34567899999999999999999999999999999999999998765  499999999999999999999885 457899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+..+.+...++++.||.+|+.||++.++|...++.++..
T Consensus        79 vI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~  122 (457)
T PRK11361         79 VILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQL  122 (457)
T ss_pred             EEEEeCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhccc
Confidence            99999999999999999999999999999999999988877653

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.54  E-value=8.7e-14  Score=148.58  Aligned_cols=119  Identities=35%  Similarity=0.631  Sum_probs=109.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ..++||||||++..+..++..|+..||.|..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+++|||
T Consensus         4 ~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~--~~DlvilD~~m~~~~G~~~~~~ir~~~~~~~vi   81 (441)
T PRK10365          4 DNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQ--VFDLVLCDVRMAEMDGIATLKEIKALNPAIPVL   81 (441)
T ss_pred             CcceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEE
Confidence            358999999999999999999999999999999999999988754  499999999999999999999885 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|++.+.+...++++.||.+|+.||++.++|..+++.++.+
T Consensus        82 ~lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l~~  123 (441)
T PRK10365         82 IMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAH  123 (441)
T ss_pred             EEECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887764

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.53  E-value=3.8e-14  Score=149.43  Aligned_cols=118  Identities=29%  Similarity=0.448  Sum_probs=105.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      ...+||||||++..+..+..+|.. .+.+..+.++.+|+..+.+.  .||+||+|+.||+++|+++++.++.   .+++|
T Consensus       154 ~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~~~~--~~d~vi~d~~~p~~~g~~l~~~i~~~~~~~~~~  230 (457)
T PRK09581        154 EDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNAAET--NYDLVIVSANFENYDPLRLCSQLRSKERTRYVP  230 (457)
T ss_pred             cCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhcccC--CCCEEEecCCCCCchHhHHHHHHHhccccCCCc
Confidence            357899999999999999999965 57777899999999987654  4999999999999999999999963   37899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|++.+.+.+.++++.||+|||.||++.++|...+....+.
T Consensus       231 ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~~~~  274 (457)
T PRK09581        231 ILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIRR  274 (457)
T ss_pred             EEEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999888776553

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.53  E-value=3.1e-13  Score=126.80  Aligned_cols=119  Identities=22%  Similarity=0.291  Sum_probs=105.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      .++||||||++..+..+...|+. .++.+. .+.++.+++..+...  .||+||+|+.||+++|+++++.++ ..+.+|+
T Consensus         6 ~~~ilii~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlvi~d~~~~~~~~~~~~~~l~~~~~~~~i   83 (215)
T PRK10403          6 PFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRL--DPDVILLDLNMKGMSGLDTLNALRRDGVTAQI   83 (215)
T ss_pred             eEEEEEEcCCHHHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHhc--CCCEEEEecCCCCCcHHHHHHHHHHhCCCCeE
Confidence            37899999999999999999975 578876 688999999987654  499999999999999999999886 4467899


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+++...+......+++.|+++|+.||++.++|..+++.++.+.
T Consensus        84 i~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~~  127 (215)
T PRK10403         84 IILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGS  127 (215)
T ss_pred             EEEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999887653

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.53  E-value=3.9e-13  Score=129.54  Aligned_cols=118  Identities=27%  Similarity=0.450  Sum_probs=109.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..+...|+..++.|..+.++.+++..+...  .||+||+|+.||+++|+++++.++..+.+|+|+++
T Consensus        11 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~--~~dlvl~d~~~~~~~g~~~~~~l~~~~~~pii~l~   88 (240)
T PRK10710         11 PRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQT--PPDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVT   88 (240)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEE
Confidence            4899999999999999999999999999999999999988754  49999999999999999999999877789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ...+......+++.||.+|+.||++.++|..+++.++++.
T Consensus        89 ~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~~~  128 (240)
T PRK10710         89 AKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRC  128 (240)
T ss_pred             cCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHhhc
Confidence            9999988999999999999999999999999999887754

>PRK15115 response regulator GlrR; Provisional

Probab=99.52  E-value=1.4e-13  Score=147.57  Aligned_cols=118  Identities=30%  Similarity=0.480  Sum_probs=109.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      ..+||||||++..+..+...|+..||.|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         5 ~~~vLiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~eal~~l~~~--~~dlvilD~~lp~~~g~~ll~~l~~~~~~~pvIv   82 (444)
T PRK15115          5 PAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNRE--KVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVII   82 (444)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcC--CCCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEEE
Confidence            37899999999999999999999999999999999999998754  499999999999999999999885 457899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|+..+.....++++.||.+|+.||+..++|..+++.+++.
T Consensus        83 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~~  123 (444)
T PRK15115         83 LTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQ  123 (444)
T ss_pred             EECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999988764

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.52  E-value=2.3e-13  Score=146.95  Aligned_cols=117  Identities=31%  Similarity=0.435  Sum_probs=108.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+||||||++..+..++..|+..||.|..+.++.+++..+....  ||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         4 ~~ILiVdd~~~~~~~L~~~L~~~g~~v~~~~s~~~al~~l~~~~--~DlvllD~~lp~~dgl~~l~~ir~~~~~~pvIvl   81 (469)
T PRK10923          4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKT--PDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIM   81 (469)
T ss_pred             CeEEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcCC--CCEEEECCCCCCCCHHHHHHHHHhhCCCCeEEEE
Confidence            68999999999999999999999999999999999999997654  99999999999999999999885 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++.+.+....+++.||.+|+.||++.++|...+.+++..
T Consensus        82 t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  121 (469)
T PRK10923         82 TAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (469)
T ss_pred             ECCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999887764

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.51  E-value=1.8e-13  Score=159.20  Aligned_cols=118  Identities=26%  Similarity=0.360  Sum_probs=108.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-CC---Cc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-MD---LP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-~d---iP   98 (524)
                      +.+||||||++..+..++.+|+..||+|.++.++.+|++.+...  .||+||+|+.||+++|+++++.++.. +.   +|
T Consensus       702 ~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~--~~dlvl~D~~mp~~~g~~~~~~ir~~~~~~~~~p  779 (968)
T TIGR02956       702 PQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQH--AFDLALLDINLPDGDGVTLLQQLRAIYGAKNEVK  779 (968)
T ss_pred             ccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHCC--CCCEEEECCCCCCCCHHHHHHHHHhCccccCCCe
Confidence            45899999999999999999999999999999999999999764  49999999999999999999999743 33   89


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|++.+.....++++.|+++||.||++.++|..++..++..
T Consensus       780 ii~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  823 (968)
T TIGR02956       780 FIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILAG  823 (968)
T ss_pred             EEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999988754

This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.50  E-value=3.1e-13  Score=140.39  Aligned_cols=116  Identities=23%  Similarity=0.357  Sum_probs=99.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHH-hCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLR-ECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~-~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      |+||||||++..+..++.+|+ ..+++++ .+.++.++++.+.+.  .||+|++|+.||+|+|+++++.++....+|||+
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l~~~--~pDlVllD~~mp~~~G~e~l~~l~~~~~~pviv   78 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQ--PPDVILMDLEMPRMDGVEATRRIMAERPCPILI   78 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhcc--CCCEEEEcCCCCCCCHHHHHHHHHHHCCCcEEE
Confidence            589999999999999999994 5688887 789999999998765  499999999999999999999997666799999


Q ss_pred             EecCCC--HHHHHHHHhcCCcEEEeCCC---------CHHHHHHHHHHHHH
Q 009824          102 LSAYSD--TKLVMKGINHGACDYLLKPV---------RMEELKNTWQHVIR  141 (524)
Q Consensus       102 lTa~~d--~~~~~~al~~GA~dYL~KP~---------~~eeL~~aI~~vlr  141 (524)
                      +++..+  .....++++.|+.+|+.||+         ..++|...++.+.+
T Consensus        79 vs~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~~~~~~~~l~~~i~~~~~  129 (337)
T PRK12555         79 VTSLTERNASRVFEAMGAGALDAVDTPTLGIGAGLEEYAAELLAKIDQIGR  129 (337)
T ss_pred             EeCCCCcCHHHHHHHHhcCceEEEECCCCCcchhHHHHHHHHHHHHHHHhh
Confidence            998754  56677899999999999999         45666666666554

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

Probab=99.50  E-value=2.6e-13  Score=161.62  Aligned_cols=121  Identities=29%  Similarity=0.469  Sum_probs=111.1

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCc
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diP   98 (524)
                      ++..++||||||++..+..++.+|+..||+|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++ ..+.+|
T Consensus       955 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~--~~dlil~D~~mp~~~g~~~~~~i~~~~~~~p 1032 (1197)
T PRK09959        955 LPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQ--HYDLLITDVNMPNMDGFELTRKLREQNSSLP 1032 (1197)
T ss_pred             cccCceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhcC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCC
Confidence            44568999999999999999999999999999999999999998764  499999999999999999999886 457899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+..+.....++++.|+++||.||++.++|..+++.+...
T Consensus      1033 ii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~ 1076 (1197)
T PRK09959       1033 IWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQV 1076 (1197)
T ss_pred             EEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999877653

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.50  E-value=3.1e-13  Score=144.96  Aligned_cols=113  Identities=25%  Similarity=0.380  Sum_probs=103.7

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC-----CCHHHHHHHHh-cCCCCcE
Q 009824           26 VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD-----MDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        26 VLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-----mdGleLLe~Lr-~~~diPV   99 (524)
                      ||||||++..+..+...|  .+|+|..+.++.+|++.+...  .||+||+|+.||+     ++|+++++.++ ..+++||
T Consensus         1 ILivddd~~~~~~l~~~l--~~~~v~~a~~~~~al~~l~~~--~~dlvllD~~mp~~~~~~~~g~~~l~~i~~~~~~~pi   76 (445)
T TIGR02915         1 LLIVEDDLGLQKQLKWSF--ADYELAVAADRESAIALVRRH--EPAVVTLDLGLPPDADGASEGLAALQQILAIAPDTKV   76 (445)
T ss_pred             CEEEECCHHHHHHHHHHh--CCCeEEEeCCHHHHHHHHhhC--CCCEEEEeCCCCCCcCCCCCHHHHHHHHHhhCCCCCE
Confidence            689999999999999988  689999999999999999865  4999999999996     89999999885 5678999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++|+..+.+...++++.||+|||.||++.++|..+++.++..
T Consensus        77 I~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~  119 (445)
T TIGR02915        77 IVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFHL  119 (445)
T ss_pred             EEEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhhhh
Confidence            9999999999999999999999999999999999999887654

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.49  E-value=3.4e-13  Score=154.05  Aligned_cols=117  Identities=24%  Similarity=0.344  Sum_probs=104.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CC-Cc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MD-LP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~d-iP   98 (524)
                      +++||||||++.++..++.+|+..||+|..+.++.+|++.+...  .||+||+|+.||++||+++++.++..   +. .|
T Consensus       525 ~~~ILivdD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~--~~Dlvl~D~~mp~~~G~e~~~~ir~~~~~~~~~~  602 (779)
T PRK11091        525 ALNILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMFDPD--EYDLVLLDIQLPDMTGLDIARELRERYPREDLPP  602 (779)
T ss_pred             ccceEEEcCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhcC--CCCEEEEcCCCCCCCHHHHHHHHHhccccCCCCc
Confidence            58999999999999999999999999999999999999998754  49999999999999999999999643   34 48


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+.... ...++++.|+++||.||++.++|..++++++..
T Consensus       603 ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  645 (779)
T PRK11091        603 LVALTANVLK-DKKEYLDAGMDDVLSKPLSVPALTAMIKKFWDT  645 (779)
T ss_pred             EEEEECCchH-hHHHHHHCCCCEEEECCCCHHHHHHHHHHHhcc
Confidence            9999988764 467889999999999999999999999988754

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.48  E-value=5.3e-13  Score=143.71  Aligned_cols=115  Identities=34%  Similarity=0.512  Sum_probs=106.3

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEec
Q 009824           26 VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLSA  104 (524)
Q Consensus        26 VLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlTa  104 (524)
                      ||||||++..+..+...|+..||+|..+.++.+|+..+...  .||+||+|+.||+++|+++++.++ ..+.+|||++|+
T Consensus         1 ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~--~~DlVllD~~~p~~~g~~ll~~l~~~~~~~~vIvlt~   78 (463)
T TIGR01818         1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARG--QPDLLITDVRMPGEDGLDLLPQIKKRHPQLPVIVMTA   78 (463)
T ss_pred             CEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC--CCCEEEEcCCCCCCCHHHHHHHHHHhCCCCeEEEEeC
Confidence            68999999999999999999999999999999999988754  499999999999999999999885 457899999999


Q ss_pred             CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          105 YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       105 ~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +.+.....++++.|+.+|+.||+..++|..+++.++..
T Consensus        79 ~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  116 (463)
T TIGR01818        79 HSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALAH  116 (463)
T ss_pred             CCCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999887664

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]

Probab=99.47  E-value=4.1e-13  Score=128.26  Aligned_cols=120  Identities=28%  Similarity=0.380  Sum_probs=105.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      ..+||++||++..+..+...|...||.++ ++.++.++.+......  ||+||+|+.||..|-.+-+.+....+..|||+
T Consensus         5 ~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~~~--pDvVildie~p~rd~~e~~~~~~~~~~~piv~   82 (194)
T COG3707           5 LLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCERLQ--PDVVILDIEMPRRDIIEALLLASENVARPIVA   82 (194)
T ss_pred             ccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHHHhcC--CCEEEEecCCCCccHHHHHHHhhcCCCCCEEE
Confidence            37899999999999999999999999877 7788888888877655  99999999999999544445556677889999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+++++..+..+++.||.+||+||++...|+.++.-+..+..
T Consensus        83 lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA~srf~  125 (194)
T COG3707          83 LTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVAVSRFE  125 (194)
T ss_pred             EEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998877653

>PRK13435 response regulator; Provisional

Probab=99.46  E-value=1.7e-12  Score=117.04  Aligned_cols=117  Identities=20%  Similarity=0.268  Sum_probs=101.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCC-CCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMP-DMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MP-dmdGleLLe~Lr~~~diPVI  100 (524)
                      .++|||+|+++.....+...|+..||.++ .+.++.++++.+.+.  .||+||+|+.|+ +.+|+++++.++..+.+|+|
T Consensus         5 ~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~dliivd~~~~~~~~~~~~~~~l~~~~~~pii   82 (145)
T PRK13435          5 QLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALGRRR--QPDVALVDVHLADGPTGVEVARRLSADGGVEVV   82 (145)
T ss_pred             cceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHhhhc--CCCEEEEeeecCCCCcHHHHHHHHHhCCCCCEE
Confidence            58999999999999999999998899987 788999999988654  499999999998 58999999988766789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +++...+.   ..++..|+.+|+.||++.++|..++++++.+..
T Consensus        83 ~ls~~~~~---~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~  123 (145)
T PRK13435         83 FMTGNPER---VPHDFAGALGVIAKPYSPRGVARALSYLSARRV  123 (145)
T ss_pred             EEeCCHHH---HHHHhcCcceeEeCCCCHHHHHHHHHHHHhcCc
Confidence            99986542   467789999999999999999999998876543

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.45  E-value=5.3e-12  Score=106.51  Aligned_cols=118  Identities=30%  Similarity=0.554  Sum_probs=105.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diP   98 (524)
                      .++|+++|+++.....++..|+..+++ +..+.++.+++..+...  .+|++++|..+++++|+++++.++..   +.+|
T Consensus         5 ~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~di~l~d~~~~~~~~~~~~~~l~~~~~~~~~~   82 (129)
T PRK10610          5 ELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GFGFVISDWNMPNMDGLELLKTIRADGAMSALP   82 (129)
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHhhcc--CCCEEEEcCCCCCCCHHHHHHHHHhCCCcCCCc
Confidence            479999999999999999999988885 66788999999987654  49999999999999999999988643   5689


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|+++...+.....++++.|+.+|+.||++.+++...++.++++
T Consensus        83 ~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~~  126 (129)
T PRK10610         83 VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  126 (129)
T ss_pred             EEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHHH
Confidence            99999998888999999999999999999999999999887764

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.44  E-value=3e-12  Score=135.00  Aligned_cols=117  Identities=31%  Similarity=0.482  Sum_probs=107.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      .+||||||++..+..+...|...+|+|..+.++.++++.+...  .||+||+|+.||+.+|+++++.++..   +.+|||
T Consensus         3 ~~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvi~d~~~~~~~g~~l~~~i~~~~~~~~~~ii   80 (457)
T PRK09581          3 ARILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICERE--QPDIILLDVMMPGMDGFEVCRRLKSDPATTHIPVV   80 (457)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHhhc--CCCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCEE
Confidence            4799999999999999999998899999999999999998764  49999999999999999999999653   478999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....++++.||++|+.||++.++|..++..+++.
T Consensus        81 ~~s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  122 (457)
T PRK09581         81 MVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTRL  122 (457)
T ss_pred             EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887764

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.43  E-value=1.3e-12  Score=146.69  Aligned_cols=119  Identities=19%  Similarity=0.230  Sum_probs=105.0

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      +.++||||||++..+..+..+|...+|.|..+.++.++++.+...  .|||||+|+.||+++|+++++.++ ..+++|||
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~al~~~~~~--~~Dlvl~d~~lp~~~g~~~l~~l~~~~~~~piI   83 (665)
T PRK13558          6 PTRGVLFVGDDPEAGPVDCDLDEDGRLDVTQIRDFVAARDRVEAG--EIDCVVADHEPDGFDGLALLEAVRQTTAVPPVV   83 (665)
T ss_pred             cceeEEEEccCcchHHHHHHHhhccCcceEeeCCHHHHHHHhhcc--CCCEEEEeccCCCCcHHHHHHHHHhcCCCCCEE
Confidence            458999999999999999999988899999999999999988754  499999999999999999999996 46789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCH--HHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRM--EELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~--eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....++++.||.+|+.||...  ..+..+++.++..
T Consensus        84 ~lt~~~~~~~~~~al~~Ga~dyl~k~~~~~~~~l~~~i~~~~~~  127 (665)
T PRK13558         84 VVPTAGDEAVARRAVDADAAAYVPAVSDDATAAIAERIESAVPE  127 (665)
T ss_pred             EEECCCCHHHHHHHHhcCcceEEeccchhHHHHHHHHHHHhhhc
Confidence            99999999999999999999999999754  3666666666544

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.42  E-value=3.7e-12  Score=133.10  Aligned_cols=104  Identities=29%  Similarity=0.462  Sum_probs=91.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      +++||||||++..+..++.+|+.. +++++ .+.++.++++.+....  ||+|++|+.||+++|+++++.++....+|||
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~~~~~vv~~a~~~~~al~~~~~~~--~DlVllD~~mp~~dgle~l~~i~~~~~~piI   80 (354)
T PRK00742          3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLN--PDVITLDVEMPVMDGLDALEKIMRLRPTPVV   80 (354)
T ss_pred             ccEEEEECCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhhhC--CCEEEEeCCCCCCChHHHHHHHHHhCCCCEE
Confidence            479999999999999999999875 88887 8899999999887654  9999999999999999999988654449999


Q ss_pred             EEecCC--CHHHHHHHHhcCCcEEEeCCCC
Q 009824          101 MLSAYS--DTKLVMKGINHGACDYLLKPVR  128 (524)
Q Consensus       101 vlTa~~--d~~~~~~al~~GA~dYL~KP~~  128 (524)
                      ++|+..  +.....++++.||++||.||+.
T Consensus        81 vls~~~~~~~~~~~~al~~Ga~d~l~kP~~  110 (354)
T PRK00742         81 MVSSLTERGAEITLRALELGAVDFVTKPFL  110 (354)
T ss_pred             EEecCCCCCHHHHHHHHhCCCcEEEeCCcc
Confidence            999764  3466788999999999999994

>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]

Probab=99.40  E-value=2.3e-12  Score=134.10  Aligned_cols=104  Identities=29%  Similarity=0.471  Sum_probs=92.8

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCC-CeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQ-YEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~g-y~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      +||||||||.+..|..|+++|...+ .+|+ ++.++.+|++.+.+..  ||+|.+|+.||.|||+++++.+-....+|||
T Consensus         1 ~irVlvVddsal~R~~i~~~l~~~~~i~vv~~a~ng~~a~~~~~~~~--PDVi~ld~emp~mdgl~~l~~im~~~p~pVi   78 (350)
T COG2201           1 KIRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKKLK--PDVITLDVEMPVMDGLEALRKIMRLRPLPVI   78 (350)
T ss_pred             CcEEEEEcCcHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHHHhcC--CCEEEEecccccccHHHHHHHHhcCCCCcEE
Confidence            4899999999999999999999877 5555 8899999999998765  9999999999999999999988666899999


Q ss_pred             EEecCCC--HHHHHHHHhcCCcEEEeCCCC
Q 009824          101 MLSAYSD--TKLVMKGINHGACDYLLKPVR  128 (524)
Q Consensus       101 vlTa~~d--~~~~~~al~~GA~dYL~KP~~  128 (524)
                      |+++...  .+...+++++||.||+.||..
T Consensus        79 mvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          79 MVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             EEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            9987544  567889999999999999974

>PRK09191 two-component response regulator; Provisional

Probab=99.31  E-value=4.3e-11  Score=118.15  Aligned_cols=116  Identities=19%  Similarity=0.348  Sum_probs=98.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD-MDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGleLLe~Lr~~~diPVI  100 (524)
                      ..+||||||++..+..++..|+..|+.++ .+.++.++++.+.+.  .||+||+|+.||+ ++|+++++.++....+|||
T Consensus       137 ~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l~~~--~~dlvi~d~~~~~~~~g~e~l~~l~~~~~~pii  214 (261)
T PRK09191        137 ATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALAKKT--RPGLILADIQLADGSSGIDAVNDILKTFDVPVI  214 (261)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHHhcc--CCCEEEEecCCCCCCCHHHHHHHHHHhCCCCEE
Confidence            35799999999999999999998899987 688999999998764  4999999999995 8999999988643489999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+....  +...|+.+|+.||++.++|..+++.++..
T Consensus       215 ~ls~~~~~~~~--~~~~~~~~~l~kP~~~~~l~~~i~~~~~~  254 (261)
T PRK09191        215 FITAFPERLLT--GERPEPAFLITKPFQPDTVKAAISQALFF  254 (261)
T ss_pred             EEeCCCcHHHH--HHhcccCceEECCCCHHHHHHHHHHHHhc
Confidence            99998765433  34567899999999999999999887654

>PRK13837 two-component VirA-like sensor kinase; Provisional

Probab=99.29  E-value=5.2e-11  Score=137.68  Aligned_cols=118  Identities=19%  Similarity=0.223  Sum_probs=107.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +.+||||||++..+..++..|+..||+|+.+.++.++++.+.+....||+||+  .||+++|+++++.++ ..+.+|||+
T Consensus       697 ~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~~~~~~DlVll--~~~~~~g~~l~~~l~~~~~~ipIIv  774 (828)
T PRK13837        697 GETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISKGPERFDLVLV--DDRLLDEEQAAAALHAAAPTLPIIL  774 (828)
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCCCCceEEEE--CCCCCCHHHHHHHHHhhCCCCCEEE
Confidence            56899999999999999999999999999999999999998765445899999  799999999999885 467899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.....++++.| ++||.||++..+|..+++++++..
T Consensus       775 ls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l~~~  815 (828)
T PRK13837        775 GGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTALATA  815 (828)
T ss_pred             EeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHHccc
Confidence            99999999999999999 999999999999999999988754

>cd00156 REC Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; contains a phosphoacceptor site that is phosphorylated by histidine kinase homologs; usually found N-terminal to a DNA binding effector domain; forms homodimers

Probab=99.23  E-value=2.1e-10  Score=91.98  Aligned_cols=111  Identities=35%  Similarity=0.558  Sum_probs=98.9

Q ss_pred             EEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEEecC
Q 009824           27 LAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVMLSAY  105 (524)
Q Consensus        27 LIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvlTa~  105 (524)
                      +++|+++..+..+...|+..|+.+..+.+..+++..+...  .+|++|+|..+++.+|+++++.++. .+.+|+|+++..
T Consensus         1 l~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~ii~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~~   78 (113)
T cd00156           1 LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAEE--KPDLILLDIMMPGMDGLELLRRIRKRGPDIPIIFLTAH   78 (113)
T ss_pred             CeecCcHHHHHHHHHHHhhcCceEEEecCHHHHHHHHHhC--CCCEEEEecCCCCCchHHHHHHHHHhCCCCCEEEEEec
Confidence            4789999999999999998899998899999999988754  4999999999999999999988854 567899999988


Q ss_pred             CCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHH
Q 009824          106 SDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV  139 (524)
Q Consensus       106 ~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~v  139 (524)
                      .+.....++++.|+.+|+.||+..++|..+++.+
T Consensus        79 ~~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~~~  112 (113)
T cd00156          79 GDDEDAVEALKAGADDYLTKPFSPEELLARIRAL  112 (113)
T ss_pred             ccHHHHHHHHHcChhhHccCCCCHHHHHHHHHhh
Confidence            8888888999999999999999999998887653

>PRK13557 histidine kinase; Provisional

Probab=99.17  E-value=4e-10  Score=121.52  Aligned_cols=119  Identities=24%  Similarity=0.380  Sum_probs=107.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHHHHHHHHhc-CCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD-MDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGleLLe~Lr~-~~diPVI  100 (524)
                      +.+||||||++..+..+..+|+..+|.+..+.++.++++.+... ..||+||+|..||+ ++|+++++.++. .+.+|||
T Consensus       415 ~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~-~~~d~vi~d~~~~~~~~~~~~~~~l~~~~~~~~ii  493 (540)
T PRK13557        415 TETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSH-PEVDLLFTDLIMPGGMNGVMLAREARRRQPKIKVL  493 (540)
T ss_pred             CceEEEEcCcHHHHHHHHHHHHhcCCeEEEeCCHHHHHHHHhcC-CCceEEEEeccCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            56899999999999999999999999999999999999988643 24999999999997 999999998864 5789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +++...+......++..|+.+|+.||++.++|..+++.++..
T Consensus       494 ~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  535 (540)
T PRK13557        494 LTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVLDG  535 (540)
T ss_pred             EEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHhcC
Confidence            999999988888999999999999999999999999887654

>PRK10693 response regulator of RpoS; Provisional

Probab=99.13  E-value=3.9e-10  Score=116.00  Aligned_cols=89  Identities=28%  Similarity=0.443  Sum_probs=79.5

Q ss_pred             EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCC-CH
Q 009824           52 VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV-RM  129 (524)
Q Consensus        52 ~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~-~~  129 (524)
                      .+.++.+|++.+...  .||+||+|+.||+++|+++++.++. .+.+|||++|+..+.+.+.++++.||+||+.||+ +.
T Consensus         2 ~a~~g~~al~~l~~~--~pDlVL~D~~mp~~~Gle~~~~ir~~~~~ipiI~lt~~~~~~~~~~al~~Ga~dyl~KP~~~~   79 (303)
T PRK10693          2 LAANGVDALELLGGF--TPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDL   79 (303)
T ss_pred             EeCCHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEEECCCCHHHHHHHHHCCCcEEEECCCCcH
Confidence            467899999998764  4999999999999999999998864 4689999999999999999999999999999999 58


Q ss_pred             HHHHHHHHHHHHh
Q 009824          130 EELKNTWQHVIRR  142 (524)
Q Consensus       130 eeL~~aI~~vlr~  142 (524)
                      ++|..++..+++.
T Consensus        80 ~~L~~~i~~~l~~   92 (303)
T PRK10693         80 NRLREMVFACLYP   92 (303)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999988887754

>PRK15029 arginine decarboxylase; Provisional

Probab=99.08  E-value=8.3e-10  Score=125.71  Aligned_cols=118  Identities=14%  Similarity=0.175  Sum_probs=92.7

Q ss_pred             cEEEEEeCCHH--------HHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHH----HHHHHH
Q 009824           24 MRVLAVDDDQT--------CLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF----KLLELV   91 (524)
Q Consensus        24 irVLIVDDdp~--------~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGl----eLLe~L   91 (524)
                      ||||||||+..        .++.|+..|+..||+|..+.++.+|++.+... ..||+||+|++||+++|+    ++++++
T Consensus         1 MkILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l~~~-~~~DlVLLD~~LPd~dG~~~~~ell~~I   79 (755)
T PRK15029          1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSN-EAIDCLMFSYQMEHPDEHQNVRQLIGKL   79 (755)
T ss_pred             CeEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhc-CCCcEEEEECCCCCCccchhHHHHHHHH
Confidence            58999999995        69999999999999999999999999999752 259999999999999997    899888


Q ss_pred             hc-CCCCcEEEEecCCC--HHHHHHHHhcCCcEEEeCCCCHHHH-HHHHHHHHHhc
Q 009824           92 GL-EMDLPVVMLSAYSD--TKLVMKGINHGACDYLLKPVRMEEL-KNTWQHVIRRK  143 (524)
Q Consensus        92 r~-~~diPVIvlTa~~d--~~~~~~al~~GA~dYL~KP~~~eeL-~~aI~~vlr~~  143 (524)
                      +. .+++|||++|+..+  .......++ -+.+|+-+--+..++ ...+....+++
T Consensus        80 R~~~~~iPIIlLTar~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~y  134 (755)
T PRK15029         80 HERQQNVPVFLLGDREKALAAMDRDLLE-LVDEFAWILEDTADFIAGRAVAAMTRY  134 (755)
T ss_pred             HhhCCCCCEEEEEcCCcccccCCHHHHH-hhheEEEecCCCHHHHHHHHHHHHHHH
Confidence            74 56899999999986  443333333 367788887554444 33455554433

>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]

Probab=99.01  E-value=1.5e-09  Score=108.76  Aligned_cols=116  Identities=29%  Similarity=0.445  Sum_probs=99.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPV   99 (524)
                      .++|+++||++..+..|..++.. ..+++. .+.++.++++.+...  .+|++++|+.||+++|+++...++. .+..+|
T Consensus         1 m~~i~i~dd~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~fldI~~~~~~G~ela~~i~~~~~~~~I   78 (244)
T COG3279           1 MLKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQGL--RPDLVFLDIAMPDINGIELAARIRKGDPRPAI   78 (244)
T ss_pred             CCcEEEecCCHHHHHHHHHHHHhhhhcCeeeeeccchhhHHHHhcc--CCCeEEEeeccCccchHHHHHHhcccCCCCeE
Confidence            37899999999999999999984 234443 678899999998865  5999999999999999999999975 567789


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++|++.+  .+..+++..|.||+.||+..+.|...+....+.
T Consensus        79 vfvt~~~~--~a~~afev~a~d~i~kp~~~~~l~~~l~~~~~~  119 (244)
T COG3279          79 VFVTAHDE--YAVAAFEVEALDYLLKPISEERLAKTLERLRRY  119 (244)
T ss_pred             EEEEehHH--HHHHHHhHHHHhhhcCcchHHHHHHHHHHHHHH
Confidence            99999875  667777899999999999999999999876554

>PLN03162 golden-2 like transcription factor; Provisional

Probab=98.85  E-value=2.7e-09  Score=109.55  Aligned_cols=60  Identities=47%  Similarity=0.815  Sum_probs=53.0

Q ss_pred             cccCCCCceEeeHHHHHHHHHHHHHcCCCCCchHHHHhhcCCCCCCHHhH-----Hhhhhhcccc
Q 009824          186 STTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSLKRLG  245 (524)
Q Consensus       186 ~s~~kk~rvvw~veLh~kflaavn~LGl~~avPk~IL~lmk~~~LT~eev-----k~rL~mKr~t  245 (524)
                      ..+.||+|+.|+.+||++|+.+|++||.++++||.||++|++.+||+++|     |||+++|+..
T Consensus       230 ~~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l~  294 (526)
T PLN03162        230 APGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHLA  294 (526)
T ss_pred             CCCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhccccc
Confidence            45688999999999999999999999999999999999999999999999     5555555433

>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]

Probab=98.83  E-value=2.3e-09  Score=112.51  Aligned_cols=79  Identities=18%  Similarity=0.162  Sum_probs=65.1

Q ss_pred             ceEeeHHHHHHHHHHHHHcCCCC------------------CchHHHHhhcCCCCCCHHhHHhhhhhcccchhhhhhhHH
Q 009824          193 RVVWTTELHTKFIGAVNLLGLDK------------------AVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMV  254 (524)
Q Consensus       193 rvvw~veLh~kflaavn~LGl~~------------------avPk~IL~lmk~~~LT~eevk~rL~mKr~t~~~q~~~~~  254 (524)
                      .|.++++.+..+++.-  +|+++                  ++|+.||  .|+++||.+|  |++ ||.|+.     .++
T Consensus       151 ~Hs~~va~~a~~ia~~--lgl~~~~i~~l~~aalLHDIGKi~ip~~IL--~K~g~Lt~eE--~~~-ik~H~~-----~g~  218 (344)
T COG2206         151 GHSVRVAELAEAIAKK--LGLSEEKIEELALAGLLHDIGKIGIPDSIL--NKPGKLTEEE--FEI-IKKHPI-----YGY  218 (344)
T ss_pred             HHHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhhcccccCCHHHh--CCCCCCCHHH--HHH-HHhchH-----HHH
Confidence            5566677777776655  88775                  9999999  9999999999  888 999998     777


Q ss_pred             HhhcCCCchhhhhhhhhccCCCcccCCCCc
Q 009824          255 ASVGSKDSSYLRIGALDGFGGSHSVNSPGR  284 (524)
Q Consensus       255 ~~L~~sd~~ll~~aa~igl~hhe~~dGsGy  284 (524)
                      .+|..-. .+...+..+++.|||||||+||
T Consensus       219 ~iL~~~~-~~~~~~~~~~l~HHEr~DGtGY  247 (344)
T COG2206         219 DILKDLP-EFLESVRAVALRHHERWDGTGY  247 (344)
T ss_pred             HHHHhcc-cccHHHHHHHHHhhhccCCCCC
Confidence            7776543 4666677889999999999999

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.30  E-value=7.3e-06  Score=95.11  Aligned_cols=113  Identities=19%  Similarity=0.212  Sum_probs=95.0

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHH-HHhc--CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLE-LVGL--EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe-~Lr~--~~diP   98 (524)
                      .+.+|+|+||++..+..+..+|+..||.|..+.+..+    +..  ..||++|+|+.||++++...+. .++.  ....+
T Consensus       535 ~g~~ili~d~~~~~~~~l~~~L~~~g~~v~~~~~~~~----l~~--~~~d~il~~~~~~~~~~~~~~~~~~~~~~~~~~~  608 (919)
T PRK11107        535 AGKRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQ----LPE--AHYDILLLGLPVTFREPLTMLHERLAKAKSMTDF  608 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEEcCCHHH----hcc--CCCCEEEecccCCCCCCHHHHHHHHHhhhhcCCc
Confidence            4689999999999999999999999999998888777    232  3599999999999988776554 3332  23457


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      +|+++...+......+.+.|+.+|+.||+...++..++....
T Consensus       609 ~i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~  650 (919)
T PRK11107        609 LILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEPC  650 (919)
T ss_pred             EEEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHhh
Confidence            888899888889999999999999999999999998887654

>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]

Probab=98.19  E-value=1.5e-06  Score=93.55  Aligned_cols=94  Identities=34%  Similarity=0.500  Sum_probs=83.3

Q ss_pred             CCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCCcEEEeCC
Q 009824           47 QYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP  126 (524)
Q Consensus        47 gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP  126 (524)
                      -|+|.++..+.+++..+...+  +|.+++|++||+|+|+++++.++..+.. ++++|...+.....+++++|+.++|.||
T Consensus        12 ~~~v~~a~~g~~~l~~~~~~~--~~~~lld~~m~~~~~~~~~~~lk~~~~~-~v~~t~~~~~~~~~~~~~~~~~~~l~~~   88 (435)
T COG3706          12 YKEVATAKKGLIALAILLDHK--PDYKLLDVMMPGMDGFELCRRLKAEPAT-VVMVTALDDSAPRVRGLKAGADDFLTKP   88 (435)
T ss_pred             hhhhhhccchHHHHHHHhcCC--CCeEEeecccCCcCchhHHHHHhcCCcc-eEEEEecCCCCcchhHHhhhhhhhccCC
Confidence            356777899999999987654  9999999999999999999999877655 9999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhc
Q 009824          127 VRMEELKNTWQHVIRRK  143 (524)
Q Consensus       127 ~~~eeL~~aI~~vlr~~  143 (524)
                      +....+......+.+.+
T Consensus        89 ~~~~~~~~r~~~l~~~k  105 (435)
T COG3706          89 VNDSQLFLRAKSLVRLK  105 (435)
T ss_pred             CChHHHHHhhhhhccch
Confidence            99999988888776543

>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class

Probab=98.12  E-value=4.2e-06  Score=65.74  Aligned_cols=51  Identities=57%  Similarity=0.900  Sum_probs=46.2

Q ss_pred             CCceEeeHHHHHHHHHHHHHcCC-CCCchHHHHhhcCCCCCCHHhHHhhhhh
Q 009824          191 KPRVVWTTELHTKFIGAVNLLGL-DKAVPKKILDLMNVEGLTRENVKFRLSL  241 (524)
Q Consensus       191 k~rvvw~veLh~kflaavn~LGl-~~avPk~IL~lmk~~~LT~eevk~rL~m  241 (524)
                      ++|..|+.++|.+|+.+++.+|. +.++|+.|++.|.+.+||.++|+.++++
T Consensus         1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QK   52 (57)
T TIGR01557         1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQK   52 (57)
T ss_pred             CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHH
Confidence            46889999999999999999998 8899999999999999999999766633

This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.

>PF13487 HD_5: HD domain; PDB: 3TMD_A 3TM8_B 3TMC_A 3TMB_B

Probab=97.82  E-value=8.1e-06  Score=65.26  Aligned_cols=48  Identities=10%  Similarity=-0.086  Sum_probs=29.7

Q ss_pred             CCCCHHhHHhhhhhcccchhhhhhhHHHhhcCCCchhhhhhhhhccCCCcccCCCCc
Q 009824          228 EGLTRENVKFRLSLKRLGNKTLEAGMVASVGSKDSSYLRIGALDGFGGSHSVNSPGR  284 (524)
Q Consensus       228 ~~LT~eevk~rL~mKr~t~~~q~~~~~~~L~~sd~~ll~~aa~igl~hhe~~dGsGy  284 (524)
                      +.||.+|  +++ +++|..     .+..+|..-. .+-...+.+.+.|||+|||+||
T Consensus         1 G~Lt~~e--~~~-~~~Hp~-----~~~~~l~~~~-~l~~~v~~~i~~hhEr~DGsGy   48 (64)
T PF13487_consen    1 GKLTPEE--REI-IQQHPE-----YGAELLSQIP-RLSPEVADIILQHHERWDGSGY   48 (64)
T ss_dssp             -GS-HHH--HHH-HHHHHH-----HHHHHHTT-T-TS-HHHHHHHHHTT--TBS-S-
T ss_pred             CCCCHHH--HHH-HHHHHH-----HHHHHHHcch-hhHHHHHHHHHHhccCCcCCCC
Confidence            4689999  778 788886     5556665432 2333567889999999999999

>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e

Probab=97.63  E-value=0.00044  Score=61.17  Aligned_cols=105  Identities=13%  Similarity=0.153  Sum_probs=74.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEE-EEeCCCCCCCHHHHHHHH-hcCCCCcEEEE
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLV-ISDVYMPDMDGFKLLELV-GLEMDLPVVML  102 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLV-IlDi~MPdmdGleLLe~L-r~~~diPVIvl  102 (524)
                      ||||||||..-+..|+.+|+=.|+++..+....- .......  ..+.+ |.....+  ...++++.+ +..+.+|||++
T Consensus         1 kILvIddd~~R~~~L~~ILeFlGe~~~~~~~~~~-~~~~~~~--~~~~~~v~~g~~~--~~~~~l~~l~~~~~~~Pvlll   75 (109)
T PF06490_consen    1 KILVIDDDAERRQRLSTILEFLGEQCEAVSSSDW-SQADWSS--PWEACAVILGSCS--KLAELLKELLKWAPHIPVLLL   75 (109)
T ss_pred             CEEEECCcHHHHHhhhhhhhhcCCCeEEecHHHH-HHhhhhc--CCcEEEEEecCch--hHHHHHHHHHhhCCCCCEEEE
Confidence            6999999999999999999989999887765443 2222222  23433 3333333  445566655 67889999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHH
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV  139 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~v  139 (524)
                      .........     ..+.+-|..|+++.+|..+++++
T Consensus        76 g~~~~~~~~-----~nvvg~Le~Pl~Y~qLt~~L~~c  107 (109)
T PF06490_consen   76 GEHDSPEEL-----PNVVGELEEPLNYPQLTDALHRC  107 (109)
T ss_pred             CCCCccccc-----cCeeEecCCCCCHHHHHHHHHHh
Confidence            887765111     12677799999999999998875

g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).

>smart00448 REC cheY-homologous receiver domain

Probab=97.57  E-value=0.00058  Score=47.10  Aligned_cols=55  Identities=38%  Similarity=0.619  Sum_probs=48.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCC
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP   80 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MP   80 (524)
                      ++|+++++++..+..+...+...++++..+.+..+++..+...  .+|++++|+.++
T Consensus         1 ~~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~vi~~~~~~   55 (55)
T smart00448        1 MRILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKEE--KPDLILLDIMMP   55 (55)
T ss_pred             CeEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHHHhc--CCCEEEEeccCC
Confidence            4799999999999999999998899988899999999888654  499999998664

CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=96.62  E-value=0.054  Score=48.51  Aligned_cols=110  Identities=15%  Similarity=0.104  Sum_probs=79.6

Q ss_pred             EEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCC--CHHHHHHHHhcC-
Q 009824           25 RVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDM--DGFKLLELVGLE-   94 (524)
Q Consensus        25 rVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdm--dGleLLe~Lr~~-   94 (524)
                      ||++.    |.|..=...+..+|+..||+|+..   ...++.++.+.+..  +|+|.+-..++..  .--++++.++.. 
T Consensus         1 ~vv~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~~~--~d~V~iS~~~~~~~~~~~~~~~~L~~~~   78 (122)
T cd02071           1 RILVAKPGLDGHDRGAKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQED--VDVIGLSSLSGGHMTLFPEVIELLRELG   78 (122)
T ss_pred             CEEEEecCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEcccchhhHHHHHHHHHHHHhcC
Confidence            35555    777777788888999999999853   35778888887654  9999998877543  223456666543 


Q ss_pred             CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHH
Q 009824           95 MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW  136 (524)
Q Consensus        95 ~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI  136 (524)
                      +....|++.+....+...+..++|+++|+..--..++...-+
T Consensus        79 ~~~i~i~~GG~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~~~  120 (122)
T cd02071          79 AGDILVVGGGIIPPEDYELLKEMGVAEIFGPGTSIEEIIDKI  120 (122)
T ss_pred             CCCCEEEEECCCCHHHHHHHHHCCCCEEECCCCCHHHHHHHH
Confidence            434556676666666778888999999999888888776554

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure

Probab=96.48  E-value=0.026  Score=50.23  Aligned_cols=105  Identities=15%  Similarity=0.158  Sum_probs=77.6

Q ss_pred             HHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC--CCHHHHHHHHh-cCCCCcEEEEecCCCHHHHH
Q 009824           36 LKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD--MDGFKLLELVG-LEMDLPVVMLSAYSDTKLVM  112 (524)
Q Consensus        36 ~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd--mdGleLLe~Lr-~~~diPVIvlTa~~d~~~~~  112 (524)
                      ...|...|++.|++|+.+.+..+++..++.. ..++.|++|+. ++  ....++++.++ ....+||.+++.....+.+-
T Consensus         6 ~~~l~~~L~~~~~~vv~~~~~dd~~~~i~~~-~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~~iPVFl~~~~~~~~~l~   83 (115)
T PF03709_consen    6 SRELAEALEQRGREVVDADSTDDALAIIESF-TDIAAVVISWD-GEEEDEAQELLDKIRERNFGIPVFLLAERDTTEDLP   83 (115)
T ss_dssp             HHHHHHHHHHTTTEEEEESSHHHHHHHHHCT-TTEEEEEEECH-HHHHHHHHHHHHHHHHHSTT-EEEEEESCCHHHCCC
T ss_pred             HHHHHHHHHHCCCEEEEeCChHHHHHHHHhC-CCeeEEEEEcc-cccchhHHHHHHHHHHhCCCCCEEEEecCCCcccCC
Confidence            4567778887899999999999999999875 47999999997 22  23456777774 67899999999876555444


Q ss_pred             HHHhcCCcEEEeCCC-CHHHHHHHHHHHHHh
Q 009824          113 KGINHGACDYLLKPV-RMEELKNTWQHVIRR  142 (524)
Q Consensus       113 ~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~  142 (524)
                      ..+-..+++|+-..- +.+.+...|..+.++
T Consensus        84 ~~~l~~v~~~i~l~~~t~~fia~rI~~Aa~~  114 (115)
T PF03709_consen   84 AEVLGEVDGFIWLFEDTAEFIARRIEAAARR  114 (115)
T ss_dssp             HHHHCCESEEEETTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHhhccEEEEecCCCHHHHHHHHHHHHHh
Confidence            445556888998874 455555677777665

Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=96.39  E-value=0.14  Score=47.08  Aligned_cols=115  Identities=17%  Similarity=0.055  Sum_probs=84.7

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCC--CHHHHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDM--DGFKLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdm--dGleLLe~Lr~   93 (524)
                      +.+||+.    |.|..-..++..+|+..||+|+..   ...++.++.+.+..  +|+|.+-..|...  .-.++++.++.
T Consensus         3 ~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~--~d~V~lS~~~~~~~~~~~~~~~~L~~   80 (137)
T PRK02261          3 KKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIETD--ADAILVSSLYGHGEIDCRGLREKCIE   80 (137)
T ss_pred             CCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEcCccccCHHHHHHHHHHHHh
Confidence            4678888    888888899999999999999854   45788888887654  9999999888743  23456667753


Q ss_pred             C-C-CCcEEEEecCC------CHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824           94 E-M-DLPVVMLSAYS------DTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus        94 ~-~-diPVIvlTa~~------d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      . . +++ |++.+..      ..+...++.+.|++.+....-..+++...++..+
T Consensus        81 ~~~~~~~-i~vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~~~~  134 (137)
T PRK02261         81 AGLGDIL-LYVGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLKKDL  134 (137)
T ss_pred             cCCCCCe-EEEECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHh
Confidence            3 3 554 4444433      3445677889999888888888888888777654

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=95.98  E-value=0.095  Score=46.27  Aligned_cols=93  Identities=16%  Similarity=0.128  Sum_probs=65.3

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCC--CHHHHHHHHhcC-C-CCcEEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDM--DGFKLLELVGLE-M-DLPVVML  102 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdm--dGleLLe~Lr~~-~-diPVIvl  102 (524)
                      |.+..=...+..+|+..||+|+..   ...++.++.+.+.+  ||+|.+-..+...  +..++++.++.. + +++ |++
T Consensus        10 e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~--pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~-i~v   86 (119)
T cd02067          10 DGHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEED--ADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIP-VLV   86 (119)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccccHHHHHHHHHHHHHcCCCCCe-EEE
Confidence            667777788999999999999743   35677788877654  9999998876543  456677777644 4 444 555


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeC
Q 009824          103 SAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~K  125 (524)
                      .+..-......+.+.|++.|+..
T Consensus        87 GG~~~~~~~~~~~~~G~D~~~~~  109 (119)
T cd02067          87 GGAIVTRDFKFLKEIGVDAYFGP  109 (119)
T ss_pred             ECCCCChhHHHHHHcCCeEEECC
Confidence            55554444456778999777763

This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.

>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

Probab=95.76  E-value=0.059  Score=63.79  Aligned_cols=52  Identities=15%  Similarity=0.204  Sum_probs=43.6

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM   79 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~M   79 (524)
                      ...+.+||||||++.++..+..+|+..|++|+.+.++.      .  ...||+||+|+.+
T Consensus       686 ~l~g~~vLlvdD~~~~r~~l~~~L~~~G~~v~~a~~~~------~--~~~~Dlvl~D~~~  737 (894)
T PRK10618        686 LLDGVTVLLDITSEEVRKIVTRQLENWGATCITPDERL------I--SQEYDIFLTDNPS  737 (894)
T ss_pred             cCCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEcCccc------c--CCCCCEEEECCCC
Confidence            34678999999999999999999999999999887531      1  2359999999984

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=95.22  E-value=0.53  Score=43.09  Aligned_cols=110  Identities=10%  Similarity=0.020  Sum_probs=77.1

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhc-CCCCcEEEEe
Q 009824           30 DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGL-EMDLPVVMLS  103 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~-~~diPVIvlT  103 (524)
                      |-|..-...+..+|+..||+|+.   ..+.+++++...+..  +|+|.+-..|.. +..+ ++++.++. ..+...|++-
T Consensus        13 D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~aa~e~~--adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivG   90 (132)
T TIGR00640        13 DGHDRGAKVIATAYADLGFDVDVGPLFQTPEEIARQAVEAD--VHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVG   90 (132)
T ss_pred             CccHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcC--CCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEe
Confidence            55666667888899999999984   456888888887654  898888665532 2233 24455653 3333345556


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      +....+...+..++|+++|+..--+..+....+...++
T Consensus        91 G~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l~~~~~  128 (132)
T TIGR00640        91 GVIPPQDFDELKEMGVAEIFGPGTPIPESAIFLLKKLR  128 (132)
T ss_pred             CCCChHhHHHHHHCCCCEEECCCCCHHHHHHHHHHHHH
Confidence            54555667778899999999988888888887776553

Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=94.26  E-value=0.46  Score=54.87  Aligned_cols=115  Identities=17%  Similarity=0.134  Sum_probs=73.0

Q ss_pred             cEEEEEeCCH-HH-----HHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCC
Q 009824           24 MRVLAVDDDQ-TC-----LKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMD   96 (524)
Q Consensus        24 irVLIVDDdp-~~-----~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~d   96 (524)
                      |+|+|||++- ..     .+.|...|++.||+|..+.+..+++..++.. ..+++|++|+.-.   ..++++.++ ...+
T Consensus         1 ~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~   76 (713)
T PRK15399          1 MNIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIEHN-PRICGVIFDWDEY---SLDLCSDINQLNEY   76 (713)
T ss_pred             CcEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhcc-cceeEEEEecccc---hHHHHHHHHHhCCC
Confidence            5788888773 22     4556667788899999999999999998744 5789999995322   345777774 6689


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCC-HHHHHHHHHHHHHh
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVR-MEELKNTWQHVIRR  142 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~-~eeL~~aI~~vlr~  142 (524)
                      +||+++........+-...-.-+.+|+..-.. .+.+...|..+.++
T Consensus        77 ~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~~~~~  123 (713)
T PRK15399         77 LPLYAFINTHSTMDVSVQDMRMALWFFEYALGAAEDIAIRIRQYTNE  123 (713)
T ss_pred             CCEEEEcCccccccCChhHhhhcceeeeeccCCHHHHHHHHHHHHHH
Confidence            99999876543322222222234555554332 33333444444443

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=93.76  E-value=0.59  Score=54.04  Aligned_cols=79  Identities=20%  Similarity=0.280  Sum_probs=58.8

Q ss_pred             cEEEEEeCCH-H-----HHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCC
Q 009824           24 MRVLAVDDDQ-T-----CLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMD   96 (524)
Q Consensus        24 irVLIVDDdp-~-----~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~d   96 (524)
                      |+|+||+++. .     -.+.|...|++.||+|+.+.+..+++..++.. ...++|++|+.-   ...++++.++ ...+
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~   76 (714)
T PRK15400          1 MNVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIENN-ARLCGVIFDWDK---YNLELCEEISKMNEN   76 (714)
T ss_pred             CcEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhcc-cceeEEEEecch---hhHHHHHHHHHhCCC
Confidence            5788887772 1     24566677888899999999999999988744 578999999522   2244777774 6689


Q ss_pred             CcEEEEecCC
Q 009824           97 LPVVMLSAYS  106 (524)
Q Consensus        97 iPVIvlTa~~  106 (524)
                      +||+++....
T Consensus        77 ~Pv~~~~~~~   86 (714)
T PRK15400         77 LPLYAFANTY   86 (714)
T ss_pred             CCEEEEcccc
Confidence            9999987654

>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit

Probab=93.46  E-value=2  Score=39.63  Aligned_cols=110  Identities=10%  Similarity=0.037  Sum_probs=75.3

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhcC-CCCcEEEEe
Q 009824           30 DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGLE-MDLPVVMLS  103 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~~-~diPVIvlT  103 (524)
                      |-|..-..++..+|+..||+|+.   ....++.++...+..  +|+|-+-..|-. +..+ ++.+.++.. ..-++|++-
T Consensus        12 D~HdiGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~~~--adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivG   89 (134)
T TIGR01501        12 DCHAVGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAAIETK--ADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVG   89 (134)
T ss_pred             ChhhHhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEec
Confidence            33445556788899999999984   457888888887764  999998887753 3333 344566532 323456676


Q ss_pred             cC---CCHH---HHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          104 AY---SDTK---LVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       104 a~---~d~~---~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      +.   ...+   ...++.+.|++......-..+++...+++.++
T Consensus        90 G~~vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~~~~  133 (134)
T TIGR01501        90 GNLVVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKKDLN  133 (134)
T ss_pred             CCcCcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence            63   1222   24467789998888887888999888887653

This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.

>cd04728 ThiG Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism

Probab=92.98  E-value=1.3  Score=44.82  Aligned_cols=111  Identities=18%  Similarity=0.219  Sum_probs=73.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHH------HhCCCeEE--EECCHHHHHHHHHhcCCCceEEEEeCCCC---------CCCHHH
Q 009824           24 MRVLAVDDDQTCLKILEKFL------RECQYEVT--VTNRAITALKMLRENRNNFDLVISDVYMP---------DMDGFK   86 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L------~~~gy~V~--~a~sg~eALe~L~e~~~~pDLVIlDi~MP---------dmdGle   86 (524)
                      +|+=|+.|+.....-+.+.+      -+.|+.|.  ++.+...|-++.. -  .+++|     ||         +..-.+
T Consensus        94 iKlEVi~d~~~Llpd~~~tv~aa~~L~~~Gf~vlpyc~dd~~~ar~l~~-~--G~~~v-----mPlg~pIGsg~Gi~~~~  165 (248)
T cd04728          94 IKLEVIGDDKTLLPDPIETLKAAEILVKEGFTVLPYCTDDPVLAKRLED-A--GCAAV-----MPLGSPIGSGQGLLNPY  165 (248)
T ss_pred             EEEEEecCccccccCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHH-c--CCCEe-----CCCCcCCCCCCCCCCHH
Confidence            56666666543333222222      23499887  4456666655543 2  37877     77         111157


Q ss_pred             HHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCCcEEEe-----CCCCHHHHHHHHHHHHHh
Q 009824           87 LLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLL-----KPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        87 LLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~-----KP~~~eeL~~aI~~vlr~  142 (524)
                      +++.++...++|||+=.+-..++.+.++++.||+..++     |.-++..+..+...++..
T Consensus       166 ~I~~I~e~~~vpVI~egGI~tpeda~~AmelGAdgVlV~SAIt~a~dP~~ma~af~~Av~a  226 (248)
T cd04728         166 NLRIIIERADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAVEA  226 (248)
T ss_pred             HHHHHHHhCCCcEEEeCCCCCHHHHHHHHHcCCCEEEEChHhcCCCCHHHHHHHHHHHHHH
Confidence            77777666789999999999999999999999999976     434455666666555543

ThiG catalyzes the formation of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP) and dehydroglycine, with the help of the sulfur carrier protein ThiS that carries the sulfur needed for thiazole assembly on its carboxy terminus (ThiS-COSH).

>PRK00208 thiG thiazole synthase; Reviewed

Probab=92.85  E-value=1.2  Score=45.00  Aligned_cols=110  Identities=17%  Similarity=0.204  Sum_probs=72.9

Q ss_pred             cEEEEEeCCHHHHHHHHHH------HHhCCCeEE--EECCHHHHHHHHHhcCCCceEEEEeCCCC---------CCCHHH
Q 009824           24 MRVLAVDDDQTCLKILEKF------LRECQYEVT--VTNRAITALKMLRENRNNFDLVISDVYMP---------DMDGFK   86 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~------L~~~gy~V~--~a~sg~eALe~L~e~~~~pDLVIlDi~MP---------dmdGle   86 (524)
                      +|+=|+.|+.....-+...      |-+.|+.|.  ++.+...|-++.. -  .+|+|     ||         +..-.+
T Consensus        94 iKlEVi~d~~~llpd~~~tv~aa~~L~~~Gf~vlpyc~~d~~~ak~l~~-~--G~~~v-----mPlg~pIGsg~gi~~~~  165 (250)
T PRK00208         94 IKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPYCTDDPVLAKRLEE-A--GCAAV-----MPLGAPIGSGLGLLNPY  165 (250)
T ss_pred             EEEEEecCCCCCCcCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHH-c--CCCEe-----CCCCcCCCCCCCCCCHH
Confidence            5666676654333222222      223499987  4456666655543 2  37877     77         111156


Q ss_pred             HHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCCcEEEe-----CCCCHHHHHHHHHHHHH
Q 009824           87 LLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLL-----KPVRMEELKNTWQHVIR  141 (524)
Q Consensus        87 LLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~-----KP~~~eeL~~aI~~vlr  141 (524)
                      +++.++...++|||+=.+-..++.+.++++.||+..++     |--++..+..+...++.
T Consensus       166 ~i~~i~e~~~vpVIveaGI~tpeda~~AmelGAdgVlV~SAItka~dP~~ma~af~~Av~  225 (250)
T PRK00208        166 NLRIIIEQADVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAVAGDPVAMARAFKLAVE  225 (250)
T ss_pred             HHHHHHHhcCCeEEEeCCCCCHHHHHHHHHcCCCEEEEChHhhCCCCHHHHHHHHHHHHH
Confidence            77777665789999999999999999999999999976     43445666666665554

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=92.51  E-value=0.39  Score=49.88  Aligned_cols=84  Identities=19%  Similarity=0.117  Sum_probs=55.2

Q ss_pred             CCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEec-CCCHHHHHHHHhcCCcEEEeC
Q 009824           47 QYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSA-YSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus        47 gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlTa-~~d~~~~~~al~~GA~dYL~K  125 (524)
                      |.+++.+.+..++-...    ..-.+|++|..+-   + ...+. ..-+...+|++.+ ..+......+++.||.|||.+
T Consensus         1 ~~~~~~~~~~~~~~~~~----~~~~~v~~~~~~~---~-~~~~~-~~p~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~   71 (322)
T TIGR03815         1 GVELDVAPDPEAARRAW----ARAPLVLVDADMA---E-ACAAA-GLPRRRRVVLVGGGEPGGALWRAAAAVGAEHVAVL   71 (322)
T ss_pred             CCceEEccCchhhhhcc----ccCCeEEECchhh---h-HHHhc-cCCCCCCEEEEeCCCCCHHHHHHHHHhChhheeeC
Confidence            45566666665554333    3357899986441   1 11111 1112233665554 567889999999999999999


Q ss_pred             CCCHHHHHHHHHHH
Q 009824          126 PVRMEELKNTWQHV  139 (524)
Q Consensus       126 P~~~eeL~~aI~~v  139 (524)
                      |++..+|..++..+
T Consensus        72 P~~~~~l~~~l~~~   85 (322)
T TIGR03815        72 PEAEGWLVELLADL   85 (322)
T ss_pred             CCCHHHHHHHHHhh
Confidence            99999999988776

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin)

Probab=90.94  E-value=3.4  Score=35.97  Aligned_cols=92  Identities=21%  Similarity=0.208  Sum_probs=59.3

Q ss_pred             CCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCC-CCC-CHHHHHHHHhc-CCCCcEEEEec
Q 009824           31 DDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYM-PDM-DGFKLLELVGL-EMDLPVVMLSA  104 (524)
Q Consensus        31 Ddp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~M-Pdm-dGleLLe~Lr~-~~diPVIvlTa  104 (524)
                      -++.-...+..+|++.||+|...   ...++..+.+.+.+  ||+|.+-..+ +.. ...++++.++. .++++||+=-.
T Consensus        12 ~~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~--pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~   89 (121)
T PF02310_consen   12 VHPLGLLYLAAYLRKAGHEVDILDANVPPEELVEALRAER--PDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGP   89 (121)
T ss_dssp             STSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTT--CSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEES
T ss_pred             chhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCC--CcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECC
Confidence            45677889999999999999866   23567777777654  9999998844 443 34566677764 45666654444


Q ss_pred             CCCHHHHHHHHh--cCCcEEEeC
Q 009824          105 YSDTKLVMKGIN--HGACDYLLK  125 (524)
Q Consensus       105 ~~d~~~~~~al~--~GA~dYL~K  125 (524)
                      +. ...-...++  .|++..+.-
T Consensus        90 ~~-t~~~~~~l~~~~~~D~vv~G  111 (121)
T PF02310_consen   90 HA-TADPEEILREYPGIDYVVRG  111 (121)
T ss_dssp             SS-GHHHHHHHHHHHTSEEEEEE
T ss_pred             ch-hcChHHHhccCcCcceecCC
Confidence            43 334445554  566555543

Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....

>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional

Probab=90.61  E-value=5  Score=39.33  Aligned_cols=85  Identities=18%  Similarity=0.191  Sum_probs=58.5

Q ss_pred             HHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCC-------CCCCCHHHHHHHHhcCCCCcEEEEecCCCH
Q 009824           38 ILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVY-------MPDMDGFKLLELVGLEMDLPVVMLSAYSDT  108 (524)
Q Consensus        38 ~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~-------MPdmdGleLLe~Lr~~~diPVIvlTa~~d~  108 (524)
                      .+.+.+++ .+..+. .+.+.+++..+...   .+|+|.+...       .....++++++.++...++|||...+-.+.
T Consensus       109 ~~i~~~~~~~~i~vi~~v~t~ee~~~a~~~---G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~~iPvia~GGI~t~  185 (221)
T PRK01130        109 ELVKRIKEYPGQLLMADCSTLEEGLAAQKL---GFDFIGTTLSGYTEETKKPEEPDFALLKELLKAVGCPVIAEGRINTP  185 (221)
T ss_pred             HHHHHHHhCCCCeEEEeCCCHHHHHHHHHc---CCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhCCCCEEEECCCCCH
Confidence            34444445 566655 55677777655432   3788765321       122345778888876568999999999999


Q ss_pred             HHHHHHHhcCCcEEEeC
Q 009824          109 KLVMKGINHGACDYLLK  125 (524)
Q Consensus       109 ~~~~~al~~GA~dYL~K  125 (524)
                      +.+.++++.||+.++.=
T Consensus       186 ~~~~~~l~~GadgV~iG  202 (221)
T PRK01130        186 EQAKKALELGAHAVVVG  202 (221)
T ss_pred             HHHHHHHHCCCCEEEEc
Confidence            99999999999998763

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=90.20  E-value=3.7  Score=39.95  Aligned_cols=98  Identities=14%  Similarity=0.114  Sum_probs=69.1

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCC--CHHHHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDM--DGFKLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdm--dGleLLe~Lr~   93 (524)
                      ..+|++.    |-|..=..++..+|+..||+|+..   ...++.++.+.+.+  ||+|-+-..|...  ...++++.++.
T Consensus        82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~~~--~d~v~lS~~~~~~~~~~~~~i~~lr~  159 (201)
T cd02070          82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAVKEHK--PDILGLSALMTTTMGGMKEVIEALKE  159 (201)
T ss_pred             CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccccHHHHHHHHHHHHH
Confidence            3578877    778877889999999999999843   34678888887654  9999998887653  33456677754


Q ss_pred             C-C--CCcEEEEecCCCHHHHHHHHhcCCcEEEeC
Q 009824           94 E-M--DLPVVMLSAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus        94 ~-~--diPVIvlTa~~d~~~~~~al~~GA~dYL~K  125 (524)
                      . +  +++|++=-..-..+   -+-..||+.|-.-
T Consensus       160 ~~~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~d  191 (201)
T cd02070         160 AGLRDKVKVMVGGAPVNQE---FADEIGADGYAED  191 (201)
T ss_pred             CCCCcCCeEEEECCcCCHH---HHHHcCCcEEECC
Confidence            3 3  56666554444433   3456799998763

A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.

>PRK15320 transcriptional activator SprB; Provisional

Probab=89.82  E-value=2.2  Score=41.99  Aligned_cols=98  Identities=16%  Similarity=0.072  Sum_probs=62.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhC--CCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEE
Q 009824           25 RVLAVDDDQTCLKILEKFLREC--QYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVML  102 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~--gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvl  102 (524)
                      +|+|-.|.=.++-.++.++++.  +..|.+|.+-...+..++..   ||.+++=.--|..--+-+-.....-++-||+++
T Consensus         3 ~viiyg~~w~~~~a~~~~~~~~~p~~~~~t~~~l~~ll~~l~~~---p~a~lil~l~p~eh~~lf~~l~~~l~~~~v~vv   79 (251)
T PRK15320          3 NVIIYGINWTNCYALQSIFKQKYPEKCVKTCNSLTALLHSLSDM---PDAGLILALNPHEHVYLFHALLTRLQNRKVLVV   79 (251)
T ss_pred             cEEEEeccchHHHHHHHHHHHHCCccchhhhhhHHHHHHHHhhC---CCceEEEeeCchhHHHHHHHHHHHcCCCceEEE
Confidence            4777788878888899999874  66788888888888888753   665554333344333322222334578899988


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeC
Q 009824          103 SAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~K  125 (524)
                      +..--.....-..-.|+.+|+.|
T Consensus        80 ~d~l~~~dr~vl~~~g~~~~~l~  102 (251)
T PRK15320         80 ADRLYYIDRCVLQYFGVMDYVLK  102 (251)
T ss_pred             ecceeehhhhhhhhhcchhHHHH
Confidence            86543322222234688888876

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=89.71  E-value=3.8  Score=40.54  Aligned_cols=102  Identities=15%  Similarity=0.176  Sum_probs=70.6

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCC-CCH-HHHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPD-MDG-FKLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdG-leLLe~Lr~   93 (524)
                      .-+|++.    |.|..=..++..+|+..||+|+..   ...++.++.+.+.+  ||+|.+-..|+. +.. -++++.++.
T Consensus        88 ~~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~~~~~--~~~V~lS~~~~~~~~~~~~~i~~L~~  165 (213)
T cd02069          88 KGKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGVMVPIEKILEAAKEHK--ADIIGLSGLLVPSLDEMVEVAEEMNR  165 (213)
T ss_pred             CCeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEccchhccHHHHHHHHHHHHh
Confidence            4577777    788888888999999999999854   34788888887765  999999988874 333 346677753


Q ss_pred             -CCCCcEEEEecCCCHHHHHH---HHhcCCcEEEeCC
Q 009824           94 -EMDLPVVMLSAYSDTKLVMK---GINHGACDYLLKP  126 (524)
Q Consensus        94 -~~diPVIvlTa~~d~~~~~~---al~~GA~dYL~KP  126 (524)
                       ..+++|++=-+--+.+...+   +-..||+.|-.-.
T Consensus       166 ~~~~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~da  202 (213)
T cd02069         166 RGIKIPLLIGGAATSRKHTAVKIAPEYDGPVVYVKDA  202 (213)
T ss_pred             cCCCCeEEEEChhcCHHHHhhhhccccCCCceEecCH
Confidence             34666665554444444332   1346998887643

This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=89.47  E-value=9.4  Score=34.98  Aligned_cols=105  Identities=14%  Similarity=0.056  Sum_probs=71.1

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhcC--CCCcEEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGLE--MDLPVVML  102 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~~--~diPVIvl  102 (524)
                      |-|..-..++..+|+..||+|+-   ....++.++...++.  +|+|.+-..|.. +..+ ++.+.++..  .+++ |++
T Consensus        10 D~HdiGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa~~~~--adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~-viv   86 (128)
T cd02072          10 DCHAVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAAIETD--ADAILVSSLYGHGEIDCKGLREKCDEAGLKDIL-LYV   86 (128)
T ss_pred             chhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccCCHHHHHHHHHHHHHCCCCCCe-EEE
Confidence            34445557888899999999983   456788888887764  999998887754 4443 355666533  2544 445


Q ss_pred             ecCC-----C-HHHHHHHHhcCCcEEEeCCCCHHHHHHHHH
Q 009824          103 SAYS-----D-TKLVMKGINHGACDYLLKPVRMEELKNTWQ  137 (524)
Q Consensus       103 Ta~~-----d-~~~~~~al~~GA~dYL~KP~~~eeL~~aI~  137 (524)
                      -+..     + .+...+..++|++..+...-.++++...++
T Consensus        87 GG~~~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~~l~  127 (128)
T cd02072          87 GGNLVVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIADLK  127 (128)
T ss_pred             ECCCCCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHh
Confidence            5442     1 234456778999999987778877766554

Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.

>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]

Probab=89.07  E-value=10  Score=35.38  Aligned_cols=114  Identities=17%  Similarity=0.158  Sum_probs=77.3

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEE---EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHH----HHHHH
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVT---VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFK----LLELV   91 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~---~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGle----LLe~L   91 (524)
                      +.||||.    |-|..-.+.+.+.|+..||+|.   ...+.+|+.+..-++  +.|+|.+-..  .....+    +.+.+
T Consensus        12 rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~~--dv~vIgvSsl--~g~h~~l~~~lve~l   87 (143)
T COG2185          12 RPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVEE--DVDVIGVSSL--DGGHLTLVPGLVEAL   87 (143)
T ss_pred             CceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHhc--CCCEEEEEec--cchHHHHHHHHHHHH
Confidence            4566654    7888888999999999999998   456889998887554  3777665432  222333    34455


Q ss_pred             hcC--CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824           92 GLE--MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus        92 r~~--~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      +..  .++. +++-+.-..+...+..+.|++.|+.--....+...-+...+.
T Consensus        88 re~G~~~i~-v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~~~~v~~~l~  138 (143)
T COG2185          88 REAGVEDIL-VVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEALSDLLTRLG  138 (143)
T ss_pred             HHhCCcceE-EeecCccCchhHHHHHHhCcceeeCCCCCHHHHHHHHHHHHH
Confidence            433  2333 456666666777777789999999877777777665555443

>COG4999 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]

Probab=88.36  E-value=2.2  Score=38.70  Aligned_cols=109  Identities=19%  Similarity=0.189  Sum_probs=75.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHH-HH-hc-CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLE-LV-GL-EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe-~L-r~-~~diP   98 (524)
                      .+-+.+.|+.+.........+|...+.+|+.-....    .+-.  ..+|.+|+.+-.+-.+-+.+.+ ++ +. .+.--
T Consensus        10 ~gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~----~lp~--~hYD~~Ll~vavtfr~n~tm~~~~l~~Al~mtd~   83 (140)
T COG4999          10 AGKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFS----ALPP--AHYDMMLLGVAVTFRENLTMQHERLAKALSMTDF   83 (140)
T ss_pred             ccceeEEecCccHHHHHHHHHHhcCCceEEeccccc----ccCh--hhhceeeecccccccCCchHHHHHHHHHHhhhcc
Confidence            567899999999999999999999999998543322    2211  2399999999888766655553 33 32 12223


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHH
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW  136 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI  136 (524)
                      ||+--.......+.+...-|+.++|.||++...|+-.+
T Consensus        84 vilalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlptl  121 (140)
T COG4999          84 VILALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPTL  121 (140)
T ss_pred             eEEecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHHH
Confidence            44333333445566777889999999999998887643

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=87.93  E-value=7.6  Score=37.27  Aligned_cols=69  Identities=19%  Similarity=0.188  Sum_probs=50.5

Q ss_pred             EECCHHHHHHHHHhcCCCceEEEEeCCCCCC--------CHHHHHHHHhcC-CCCcEEEEecCCCHHHHHHHHhcCCcEE
Q 009824           52 VTNRAITALKMLRENRNNFDLVISDVYMPDM--------DGFKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINHGACDY  122 (524)
Q Consensus        52 ~a~sg~eALe~L~e~~~~pDLVIlDi~MPdm--------dGleLLe~Lr~~-~diPVIvlTa~~d~~~~~~al~~GA~dY  122 (524)
                      .+.+..++.+....   .+|.|.+.-..|..        .|++.++.++.. +++||++..+- +.+.+.+++++||+.+
T Consensus       110 ~~~t~~e~~~a~~~---gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~v~a~GGI-~~~~i~~~~~~Ga~gv  185 (212)
T PRK00043        110 STHTLEEAAAALAA---GADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVGDIPIVAIGGI-TPENAPEVLEAGADGV  185 (212)
T ss_pred             eCCCHHHHHHHhHc---CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcCCCCEEEECCc-CHHHHHHHHHcCCCEE
Confidence            45666777766542   48999887655543        358888877544 34999888777 5788889999999999


Q ss_pred             Ee
Q 009824          123 LL  124 (524)
Q Consensus       123 L~  124 (524)
                      ..
T Consensus       186 ~~  187 (212)
T PRK00043        186 AV  187 (212)
T ss_pred             EE
Confidence            75

>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=86.81  E-value=5  Score=34.35  Aligned_cols=82  Identities=12%  Similarity=0.100  Sum_probs=52.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      +||||...+.....++..+++.|++....   .........+...-...|+||+=...-.=+-...++..-...++|+++
T Consensus         1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~   80 (97)
T PF10087_consen    1 SVLIVGGREDRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIY   80 (97)
T ss_pred             CEEEEcCCcccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEE
Confidence            48999998889999999999999998877   222222212222223478887755444434444444443456889987


Q ss_pred             EecCC
Q 009824          102 LSAYS  106 (524)
Q Consensus       102 lTa~~  106 (524)
                      .-..+
T Consensus        81 ~~~~~   85 (97)
T PF10087_consen   81 SRSRG   85 (97)
T ss_pred             ECCCC
Confidence            75443

>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot

Probab=86.03  E-value=11  Score=32.41  Aligned_cols=107  Identities=21%  Similarity=0.297  Sum_probs=63.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      |||.||.=-..-...+..+++. .+++++ .+....+..+.+.+.. .+. ++.|          +-+.+. ...++-+|
T Consensus         1 i~v~iiG~G~~g~~~~~~~~~~~~~~~v~~v~d~~~~~~~~~~~~~-~~~-~~~~----------~~~ll~~~~~D~V~I   68 (120)
T PF01408_consen    1 IRVGIIGAGSIGRRHLRALLRSSPDFEVVAVCDPDPERAEAFAEKY-GIP-VYTD----------LEELLADEDVDAVII   68 (120)
T ss_dssp             EEEEEESTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHHT-TSE-EESS----------HHHHHHHTTESEEEE
T ss_pred             CEEEEECCcHHHHHHHHHHHhcCCCcEEEEEEeCCHHHHHHHHHHh-ccc-chhH----------HHHHHHhhcCCEEEE
Confidence            4677777766666666666665 466666 3443333333333322 233 4444          112332 23343334


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCC--CHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPV--RMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~--~~eeL~~aI~~vlr~  142 (524)
                      ........+.+..+++.|..=|+-||+  +.+++...++.+-+.
T Consensus        69 ~tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~  112 (120)
T PF01408_consen   69 ATPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEK  112 (120)
T ss_dssp             ESSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHH
T ss_pred             ecCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHh
Confidence            333445567789999999999999997  788888877776554

GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=85.70  E-value=19  Score=36.84  Aligned_cols=98  Identities=14%  Similarity=0.204  Sum_probs=68.0

Q ss_pred             HHHHhCCCeEEE--ECCHHHHHHHHHhcCCCceEEEEeCCCCCCC--HH---HHHHHHhcCCCCcEEEEecCCCHHHHHH
Q 009824           41 KFLRECQYEVTV--TNRAITALKMLRENRNNFDLVISDVYMPDMD--GF---KLLELVGLEMDLPVVMLSAYSDTKLVMK  113 (524)
Q Consensus        41 ~~L~~~gy~V~~--a~sg~eALe~L~e~~~~pDLVIlDi~MPdmd--Gl---eLLe~Lr~~~diPVIvlTa~~d~~~~~~  113 (524)
                      +.|-+.||.|..  ..|..-|.++.+-.   + .++.-+--|=.+  |+   ..++.|...+++|||+=.+-...+.+..
T Consensus       131 e~Lv~eGF~VlPY~~~D~v~a~rLed~G---c-~aVMPlgsPIGSg~Gl~n~~~l~~i~e~~~vpVivdAGIgt~sDa~~  206 (267)
T CHL00162        131 EFLVKKGFTVLPYINADPMLAKHLEDIG---C-ATVMPLGSPIGSGQGLQNLLNLQIIIENAKIPVIIDAGIGTPSEASQ  206 (267)
T ss_pred             HHHHHCCCEEeecCCCCHHHHHHHHHcC---C-eEEeeccCcccCCCCCCCHHHHHHHHHcCCCcEEEeCCcCCHHHHHH
Confidence            345566999984  34555555543321   3 233333334233  33   4567777788999999999999999999


Q ss_pred             HHhcCCcEEEe-----CCCCHHHHHHHHHHHHHh
Q 009824          114 GINHGACDYLL-----KPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       114 al~~GA~dYL~-----KP~~~eeL~~aI~~vlr~  142 (524)
                      +++.|+++.+.     |--++.++..+++.++..
T Consensus       207 AmElGaDgVL~nSaIakA~dP~~mA~a~~~AV~A  240 (267)
T CHL00162        207 AMELGASGVLLNTAVAQAKNPEQMAKAMKLAVQA  240 (267)
T ss_pred             HHHcCCCEEeecceeecCCCHHHHHHHHHHHHHH
Confidence            99999999865     666778888888887764

>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate

Probab=84.85  E-value=13  Score=36.41  Aligned_cols=75  Identities=16%  Similarity=0.227  Sum_probs=53.3

Q ss_pred             CeEE-EECCHHHHHHHHHhcCCCceEEEEeCC-------CCCCCHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCC
Q 009824           48 YEVT-VTNRAITALKMLRENRNNFDLVISDVY-------MPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGA  119 (524)
Q Consensus        48 y~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~-------MPdmdGleLLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA  119 (524)
                      ..+. .+.+.+++......   .+|+|.+...       .....++++++.++...++|||...+-.+.+.+.++++.||
T Consensus       124 ~~iiv~v~t~~ea~~a~~~---G~d~i~~~~~g~t~~~~~~~~~~~~~l~~i~~~~~ipvia~GGI~~~~~~~~~l~~Ga  200 (219)
T cd04729         124 CLLMADISTLEEALNAAKL---GFDIIGTTLSGYTEETAKTEDPDFELLKELRKALGIPVIAEGRINSPEQAAKALELGA  200 (219)
T ss_pred             CeEEEECCCHHHHHHHHHc---CCCEEEccCccccccccCCCCCCHHHHHHHHHhcCCCEEEeCCCCCHHHHHHHHHCCC
Confidence            5443 55677887666543   3888755321       11234578888887655899999999999999999999999


Q ss_pred             cEEEeC
Q 009824          120 CDYLLK  125 (524)
Q Consensus       120 ~dYL~K  125 (524)
                      +..+.=
T Consensus       201 dgV~vG  206 (219)
T cd04729         201 DAVVVG  206 (219)
T ss_pred             CEEEEc
Confidence            998763

This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=83.04  E-value=13  Score=43.22  Aligned_cols=109  Identities=11%  Similarity=0.043  Sum_probs=73.1

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-C-CHHHHHHHHhcCC--CCcEEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-M-DGFKLLELVGLEM--DLPVVML  102 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-m-dGleLLe~Lr~~~--diPVIvl  102 (524)
                      |.|..-...+..+|+..||+|..   ..+.+++.+...+..  +|+|++=..+.. + ..-++++.|+..-  +++ |++
T Consensus       593 d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~~~--a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~-vl~  669 (714)
T PRK09426        593 DGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVEND--VHVVGVSSLAAGHKTLVPALIEALKKLGREDIM-VVV  669 (714)
T ss_pred             cchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHHcC--CCEEEEeccchhhHHHHHHHHHHHHhcCCCCcE-EEE
Confidence            44455556788889989999973   346788888877654  888776554433 2 2345667776442  233 445


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      .+..-++......+.|+++|+..-.+..+++..+...++
T Consensus       670 GG~~~~~~~~~l~~aGvD~~i~~g~d~~~~L~~l~~~l~  708 (714)
T PRK09426        670 GGVIPPQDYDFLYEAGVAAIFGPGTVIADAAIDLLELLS  708 (714)
T ss_pred             eCCCChhhHHHHHhCCCCEEECCCCCHHHHHHHHHHHHH
Confidence            555334444567789999999998999888887777664

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=81.36  E-value=12  Score=36.35  Aligned_cols=90  Identities=16%  Similarity=0.093  Sum_probs=59.4

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhcC---CCCcEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGLE---MDLPVVM  101 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~~---~diPVIv  101 (524)
                      |.|..=..++..+|+..||+|+..   ...++.++.+.+.+  ||+|.+-..|+. +..+ ++++.++..   .+++|++
T Consensus        95 d~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~~~--pd~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~v  172 (197)
T TIGR02370        95 DVHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKKEK--PLMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMV  172 (197)
T ss_pred             chhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcC--CCEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence            455566677888899999999844   35688888887765  999999988764 3333 455666543   2355554


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEe
Q 009824          102 LSAYSDTKLVMKGINHGACDYLL  124 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~  124 (524)
                      =-..-..+   -+.+.||+.|-.
T Consensus       173 GG~~~~~~---~~~~~gad~~~~  192 (197)
T TIGR02370       173 GGAPVTQD---WADKIGADVYGE  192 (197)
T ss_pred             EChhcCHH---HHHHhCCcEEeC
Confidence            33333332   345679999864

This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.

>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II

Probab=80.64  E-value=15  Score=38.37  Aligned_cols=84  Identities=19%  Similarity=0.190  Sum_probs=61.3

Q ss_pred             HHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCC-----CCHHHHHHHHhcCCCCcEEEEecCCCHHHHH
Q 009824           39 LEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD-----MDGFKLLELVGLEMDLPVVMLSAYSDTKLVM  112 (524)
Q Consensus        39 L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-----mdGleLLe~Lr~~~diPVIvlTa~~d~~~~~  112 (524)
                      +-..|+..|..|. .+.+.++|.++.+.   .+|.|++.-.-.+     ..-++++..++...++|||.--+-.+...+.
T Consensus       101 ~i~~lk~~g~~v~~~v~s~~~a~~a~~~---GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaaGGI~~~~~~~  177 (307)
T TIGR03151       101 YIPRLKENGVKVIPVVASVALAKRMEKA---GADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAAGGIADGRGMA  177 (307)
T ss_pred             HHHHHHHcCCEEEEEcCCHHHHHHHHHc---CCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEECCCCCHHHHH
Confidence            4445566677665 56778888766543   4899888443221     2347888888666679999999999999999


Q ss_pred             HHHhcCCcEEEeC
Q 009824          113 KGINHGACDYLLK  125 (524)
Q Consensus       113 ~al~~GA~dYL~K  125 (524)
                      +++..||+....=
T Consensus       178 ~al~~GA~gV~iG  190 (307)
T TIGR03151       178 AAFALGAEAVQMG  190 (307)
T ss_pred             HHHHcCCCEeecc
Confidence            9999999998763

This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	524
1irz_A	64	Solution Structure Of Arr10-B Belonging To The Garp		1e-16
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		1e-11
3nnn_A	122	Bef3 Activated Drrd Receiver Domain Length = 122		8e-11
3t6k_A	136	Crystal Structure Of A Hypothetical Response Regula		1e-10
3jte_A	143	Crystal Structure Of Response Regulator Receiver Do		3e-10
3f6p_A	120	Crystal Structure Of Unphosphorelated Receiver Doma		8e-10
2zwm_A	130	Crystal Structure Of Yycf Receiver Domain From Baci		8e-10
1l5y_A	155	Crystal Structure Of Mg2+ / Bef3-bound Receiver Dom		3e-09
3r0j_A	250	Structure Of Phop From Mycobacterium Tuberculosis L		4e-09
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		4e-09
1ys6_A	233	Crystal Structure Of The Response Regulatory Protei		5e-09
1qkk_A	155	Crystal Structure Of The Receiver Domain And Linker		5e-09
3gt7_A	154	Crystal Structure Of Signal Receiver Domain Of Sign		7e-09
2wb4_A	459	Activated Diguanylate Cyclase Pled In Complex With		9e-09
1w25_A	459	Response Regulator Pled In Complex With C-digmp Len		9e-09
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		2e-08
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		2e-08
1zy2_A	150	Crystal Structure Of The Phosphorylated Receiver Do		4e-08
1m5t_A	124	Crystal Structure Of The Response Regulator Divk Le		4e-08
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		6e-08
1kgs_A	225	Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG		8e-08
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		8e-08
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		8e-08
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		1e-07
1yio_A	208	Crystallographic Structure Of Response Regulator St		1e-07
1dc7_A	124	Structure Of A Transiently Phosphorylated "switch"		1e-07
1krw_A	124	Solution Structure And Backbone Dynamics Of Beryllo		1e-07
1j56_A	124	Minimized Average Structure Of Beryllofluoride-Acti		1e-07
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		1e-07
1dz3_A	130	Domain-Swapping In The Sporulation Response Regulat		2e-07
3q9s_A	249	Crystal Structure Of Rra(1-215) From Deinococcus Ra		2e-07
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		2e-07
1mvo_A	136	Crystal Structure Of The Phop Receiver Domain From		2e-07
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		5e-07
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		5e-07
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		5e-07
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		6e-07
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		8e-07
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		8e-07
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		8e-07
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		8e-07
1nxo_A	120	Micarec Ph7.0 Length = 120		8e-07
1dc8_A	124	Structure Of A Transiently Phosphorylated "switch"		8e-07
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		8e-07
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		9e-07
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		9e-07
2oqr_A	230	The Structure Of The Response Regulator Regx3 From		9e-07
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		1e-06
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		1e-06
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		1e-06
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		1e-06
1qmp_A	130	Phosphorylated Aspartate In The Crystal Structure O		1e-06
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		1e-06
1zit_A	121	Structure Of The Receiver Domain Of Ntrc4 From Aqui		1e-06
1s8n_A	205	Crystal Structure Of Rv1626 From Mycobacterium Tube		1e-06
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		2e-06
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		2e-06
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		2e-06
1dbw_A	126	Crystal Structure Of Fixj-N Length = 126		2e-06
3olx_A	129	Structural And Functional Effects Of Substitution A		2e-06
3olv_A	129	Structural And Functional Effects Of Substitution A		2e-06
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		2e-06
3olw_A	129	Structural And Functional Effects Of Substitution A		3e-06
1p6u_A	129	Nmr Structure Of The Bef3-Activated Structure Of Th		3e-06
2qzj_A	136	Crystal Structure Of A Two-Component Response Regul		3e-06
3dzd_A	368	Crystal Structure Of Sigma54 Activator Ntrc4 In The		3e-06
3oly_A	129	Structural And Functional Effects Of Substitution A		3e-06
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		4e-06
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		4e-06
3eod_A	130	Crystal Structure Of N-Terminal Domain Of E. Coli R		4e-06
2rjn_A	154	Crystal Structure Of An Uncharacterized Protein Q2b		4e-06
1nxt_A	120	Micarec Ph 4.0 Length = 120		4e-06
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		5e-06
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		5e-06
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		5e-06
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		5e-06
3tmy_A	120	Chey From Thermotoga Maritima (Mn-Iii) Length = 120		5e-06
3cfy_A	137	Crystal Structure Of Signal Receiver Domain Of Puta		6e-06
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		6e-06
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		6e-06
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		6e-06
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		6e-06
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		6e-06
1u0s_Y	118	Chemotaxis Kinase Chea P2 Domain In Complex With Re		7e-06
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		1e-05
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		1e-05
1d5w_A	126	Phosphorylated Fixj Receiver Domain Length = 126		2e-05
2qr3_A	140	Crystal Structure Of The N-Terminal Signal Receiver		2e-05
3hv2_A	153	Crystal Structure Of Signal Receiver Domain Of Hd D		2e-05
2qxy_A	142	Crystal Structure Of A Response Regulator From Ther		2e-05
1zh2_A	121	Crystal Structure Of The Calcium-Bound Receiver Dom		3e-05
1f51_E	119	A Transient Interaction Between Two Phosphorelay Pr		4e-05
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		4e-05
1zgz_A	122	Crystal Structure Of The Receiver Domain Of Tmao Re		5e-05
1srr_A	124	Crystal Structure Of A Phosphatase Resistant Mutant		5e-05
1pux_A	124	Nmr Solution Structure Of Bef3-Activated Spo0f, 20		6e-05
3q15_C	126	Crystal Structure Of Raph Complexed With Spo0f Leng		6e-05
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		7e-05
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		7e-05
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		8e-05
1a2o_A	349	Structural Basis For Methylesterase Cheb Regulation		9e-05
3nns_A	117	Bef3 Activated Drrb Receiver Domain Length = 117		1e-04
2gwr_A	238	Crystal Structure Of The Response Regulator Protein		1e-04
2jvj_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		1e-04
2jvi_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		2e-04
1ny5_A	387	Crystal Structure Of Sigm54 Activator (Aaa+ Atpase)		2e-04
2pkx_A	121	E.Coli Response Regulator Phop Receiver Domain Leng		2e-04
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		2e-04
2jvk_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		3e-04
1hey_A	128	Investigating The Structural Determinants Of The P2		3e-04
3cu5_A	141	Crystal Structure Of A Two Component Transcriptiona		3e-04
2ftk_E	124	Berylloflouride Spo0f Complex With Spo0b Length = 1		3e-04
1p2f_A	220	Crystal Structure Analysis Of Response Regulator Dr		3e-04
2jb9_A	127	Phob Response Regulator Receiver Domain Constitutiv		6e-04
3c97_A	140	Crystal Structure Of The Response Regulator Receive		7e-04
3a0u_A	116	Crystal Structure Of Response Regulator Protein Trr		8e-04

>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family Of Plant Myb-Related Dna Binding Motifs Of The Arabidopsis Response Regulators Length = 64

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 41/63 (65%), Positives = 52/63 (82%), Gaps = 5/63 (7%)
Query: 187 TTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSL 241
           T QKKPRV+WT ELH KF+ AV+ LG+++AVPKKILDLMNV+ LTRENV     KFR++L
Sbjct: 1   TAQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVAL 60
Query: 242 KRL 244
           K++
Sbjct: 61  KKV 63

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 38/107 (35%), Positives = 63/107 (58%), Gaps = 2/107 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDDD +  ++L   LR   ++  V      AL  +RE R   DLV+ D+ +P M+G
Sbjct: 7   RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRELRP--DLVLLDLMLPGMNG 64
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
             +  ++  +  +P+VML+A +DT  V+ G+  GA DY++KP + +E
Sbjct: 65  IDVCRVLRADSGVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKE 111

>pdb|3NNN|A Chain A, Bef3 Activated Drrd Receiver Domain Length = 122

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-11,   Method: Composition-based stats.
 Identities = 43/124 (34%), Positives = 73/124 (58%), Gaps = 5/124 (4%)
Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKM-LRENRNNFDLVISDVYMP 80
           + +RVL V+D++    ++ + L++  + V V       + M L E    FD+VI D+ +P
Sbjct: 1   MNVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP---FDVVILDIMLP 57
Query: 81  DMDGFKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
             DG+++L+ +    ++ PV+ML+A SD +  +KG+N GA DYL KP  + EL    + +
Sbjct: 58  VHDGWEILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRAL 117
Query: 140 IRRK 143
           IRRK
Sbjct: 118 IRRK 121

>pdb|3T6K|A Chain A, Crystal Structure Of A Hypothetical Response Regulator (Caur_3799) From Chloroflexus Aurantiacus J-10-Fl At 1.86 A Resolution Length = 136

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 43/125 (34%), Positives = 65/125 (52%), Gaps = 7/125 (5%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNF-DLVISDVYMPDMDG 84
           +L VDDD T  + LE  LR   YEV    RA +  + L++   N  D +I DV +P +DG
Sbjct: 7   LLIVDDDDTVAEXLELVLRGAGYEV---RRAASGEEALQQIYKNLPDALICDVLLPGIDG 63
Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           + L + V    L   LP++ L+A  D    + G   GA DYL KP   +EL    ++++ 
Sbjct: 64  YTLCKRVRQHPLTKTLPILXLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILA 123
Query: 142 RKKVD 146
           R  ++
Sbjct: 124 RTTIE 128

>pdb|3JTE|A Chain A, Crystal Structure Of Response Regulator Receiver Domain Protein From Clostridium Thermocellum Length = 143

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 69/123 (56%), Gaps = 3/123 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQ-YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           ++L +DD+ T L+ + KFL E    EV   + +   L++  EN N+ D+VI+D+ MP + 
Sbjct: 5   KILVIDDESTILQNI-KFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLS 63
Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  +L E+  +   + V++L+ + D    +  +  GA +YL KPV  ++L     + I R
Sbjct: 64  GMDILREIKKITPHMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINR 123
Query: 143 KKV 145
           KK+
Sbjct: 124 KKL 126

>pdb|3F6P|A Chain A, Crystal Structure Of Unphosphorelated Receiver Domain Of Yycf Length = 120

Iteration: 1
 Score = 62.0 bits (149), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 38/119 (31%), Positives = 66/119 (55%), Gaps = 2/119 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    ILE  LR+  YEV   +    A++M+ E +   DL++ D+ +P+ DG
Sbjct: 4   KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQP--DLILLDIMLPNKDG 61
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            ++   V  + D+P++ML+A       + G+  GA DY+ KP    EL    +  +RR+
Sbjct: 62  VEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRRQ 120

>pdb|2ZWM|A Chain A, Crystal Structure Of Yycf Receiver Domain From Bacillus Subtilis Length = 130

Iteration: 1
 Score = 62.0 bits (149), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 38/119 (31%), Positives = 66/119 (55%), Gaps = 2/119 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    ILE  LR+  YEV   +    A++M+ E +   DL++ D+ +P+ DG
Sbjct: 4   KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQP--DLILLDIMLPNKDG 61
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            ++   V  + D+P++ML+A       + G+  GA DY+ KP    EL    +  +RR+
Sbjct: 62  VEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRRQ 120

>pdb|1L5Y|A Chain A, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of Sinorhizobium Meliloti Dctd Length = 155

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 33/121 (27%), Positives = 66/121 (54%), Gaps = 3/121 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  +DDD+   K +++ L    + V+    A  AL  L  +     +VISD+ MP MDG 
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAG--IVISDIRMPGMDGL 63
Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            L  +++ L+ DLP+++++ + D  + ++ I  GA D++ KP   + L  + +   ++++
Sbjct: 64  ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEKKRR 123
Query: 145 V 145
           +
Sbjct: 124 L 124

>pdb|3R0J|A Chain A, Structure Of Phop From Mycobacterium Tuberculosis Length = 250

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 39/119 (32%), Positives = 60/119 (50%), Gaps = 3/119 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL VDD+   +++L   L+   +EV        AL   RE R   D VI DV  P  DG
Sbjct: 25  RVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETRP--DAVILDVXXPGXDG 82
Query: 85  FKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           F +L  +  + +D P + L+A    +  + G+  G  DY+ KP  +EE+    + ++RR
Sbjct: 83  FGVLRRLRADGIDAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRR 141

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 37/123 (30%), Positives = 66/123 (53%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTV-TNRAITALKMLRENRNNFDLVISDVYMPDM 82
           M++L VDD  T  +I++  LR+  +  T   +  +TAL ML+  + +FD V++D  MP M
Sbjct: 13  MKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLK--KGDFDFVVTDWNMPGM 70
Query: 83  DGFKLLELVGLEMDL---PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            G  LL+ +  + +L   PV+M++A +  + +++    G   Y++KP     LK     +
Sbjct: 71  QGIDLLKNIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKI 130
Query: 140 IRR 142
             R
Sbjct: 131 FER 133

>pdb|1YS6|A Chain A, Crystal Structure Of The Response Regulatory Protein Prra From Mycobacterium Tuberculosis Length = 233

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 58/106 (54%), Gaps = 3/106 (2%)
Query: 39  LEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLL-ELVGLEMDL 97
           LE+ LR   +EV        AL+   ENR   D ++ D+ MP +DG  ++  L  ++ D+
Sbjct: 23  LERGLRLSGFEVATAVDGAEALRSATENRP--DAIVLDINMPVLDGVSVVTALRAMDNDV 80
Query: 98  PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
           PV +LSA S     + G+  GA DYL+KP  + EL    + ++RR+
Sbjct: 81  PVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR 126

>pdb|1QKK|A Chain A, Crystal Structure Of The Receiver Domain And Linker Region Of Dctd From Sinorhizobium Meliloti Length = 155

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 33/121 (27%), Positives = 65/121 (53%), Gaps = 3/121 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  +DDD+   K +++ L    + V+    A  AL  L  +     +VISD+ MP MDG 
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAG--IVISDIRMPGMDGL 63
Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            L  +++ L+ DLP+++++ + D  + ++ I  GA D++ KP   + L  + +    +++
Sbjct: 64  ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 123
Query: 145 V 145
           +
Sbjct: 124 L 124

>pdb|3GT7|A Chain A, Crystal Structure Of Signal Receiver Domain Of Signal Transduction Histidine Kinase From Syntrophus Aciditrophicus Length = 154

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 36/106 (33%), Positives = 58/106 (54%), Gaps = 5/106 (4%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L V+D  T  + L+  L E  Y+         A++ L   R   DL+ISDV MP+MDG+
Sbjct: 10  ILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTRP--DLIISDVLMPEMDGY 67
Query: 86  KLLELVGLEMDL---PVVMLSAYSDTKLVMKGINHGACDYLLKPVR 128
            L   +  + DL   PV++L+  SD + V++ +  GA D++ KP +
Sbjct: 68  ALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCK 113

>pdb|2WB4|A Chain A, Activated Diguanylate Cyclase Pled In Complex With C-Di-Gmp Length = 459

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 59/108 (54%), Gaps = 9/108 (8%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDD +  +++LE  L    YEV+      TAL M    R+  D+++ DV MP MDG
Sbjct: 4   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAM--AARDLPDIILLDVMMPGMDG 61
Query: 85  FKLLELVGLEMD-----LPVVMLSAYSDTKLVMKGINHGACDYLLKPV 127
           F +     L+ D     +PVV+++A       ++G+  GA D+L KP+
Sbjct: 62  FTVCR--KLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPI 107

>pdb|1W25|A Chain A, Response Regulator Pled In Complex With C-digmp Length = 459

Iteration: 1
 Score = 58.5 bits (140), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 59/108 (54%), Gaps = 9/108 (8%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDD +  +++LE  L    YEV+      TAL M    R+  D+++ DV MP MDG
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAM--AARDLPDIILLDVMMPGMDG 60
Query: 85  FKLLELVGLEMD-----LPVVMLSAYSDTKLVMKGINHGACDYLLKPV 127
           F +     L+ D     +PVV+++A       ++G+  GA D+L KP+
Sbjct: 61  FTVCR--KLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPI 106

>pdb|2AYX|A Chain A, Solution Structure Of The E.Coli Rcsc C-Terminus (Residues 700-949) Containing Linker Region And Phosphoreceiver Domain Length = 254

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 63/113 (55%), Gaps = 3/113 (2%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M +L VDD     ++L   L    Y+    N  + AL +L  ++N+ D+V+SDV MP+MD
Sbjct: 130 MMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL--SKNHIDIVLSDVNMPNMD 187
Query: 84  GFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           G++L + +  L + LPV+ ++A +  +   + +  G    L KPV ++ +K T
Sbjct: 188 GYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQT 240

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 36/123 (29%), Positives = 61/123 (49%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDQSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWKMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++AY+  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1ZY2|A Chain A, Crystal Structure Of The Phosphorylated Receiver Domain Of The Transcription Regulator Ntrc1 From Aquifex Aeolicus Length = 150

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 33/128 (25%), Positives = 71/128 (55%), Gaps = 3/128 (2%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M VL ++DD+    +LE++L     +V    R   A K+L E   +F++V+  + +PD++
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK--HFNVVLLXLLLPDVN 58
Query: 84  GFKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G ++L+ +     +  V++++ +   K  ++ +  GA D+L KP  +EE++ T    I  
Sbjct: 59  GLEILKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH 118
Query: 143 KKVDPKDQ 150
           +K+  +++
Sbjct: 119 RKLRKENE 126

>pdb|1M5T|A Chain A, Crystal Structure Of The Response Regulator Divk Length = 124

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 36/127 (28%), Positives = 69/127 (54%), Gaps = 15/127 (11%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL V+D++  +K+    L    YE   T   ++AL + REN+   DL++ D+ +P++ G
Sbjct: 3   KVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENKP--DLILMDIQLPEISG 60
Query: 85  FKLLELVGLEMDL---PVVMLSAYSDTKLVMKG----INHGACD-YLLKPVRMEELKNTW 136
            ++ + +  + DL   PVV ++A++     MKG    I  G C+ Y+ KP+ +     T 
Sbjct: 61  LEVTKWLKEDDDLAHIPVVAVTAFA-----MKGDEERIREGGCEAYISKPISVVHFLETI 115
Query: 137 QHVIRRK 143
           + ++ R+
Sbjct: 116 KRLLERQ 122

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 62/123 (50%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWRMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A++  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAHAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1KGS|A Chain A, Crystal Structure At 1.50 A Of An OmprPHOB HOMOLOG FROM THERMOTOGA Maritima Length = 225

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 41/122 (33%), Positives = 68/122 (55%), Gaps = 5/122 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITA-LKMLRENRNNFDLVISDVYMPDM 82
           +RVL V+D++    ++ + L++  + V V           L E    FD+VI D+ +P  
Sbjct: 3   VRVLVVEDERDLADLITEALKKEXFTVDVCYDGEEGXYXALNEP---FDVVILDIXLPVH 59
Query: 83  DGFKLLELVGLE-MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           DG+++L+      ++ PV+ L+A SD +  +KG+N GA DYL KP  + EL    + +IR
Sbjct: 60  DGWEILKSXRESGVNTPVLXLTALSDVEYRVKGLNXGADDYLPKPFDLRELIARVRALIR 119
Query: 142 RK 143
           RK
Sbjct: 120 RK 121

>pdb|2AYZ|A Chain A, Solution Structure Of The E.Coli Rcsc C-Terminus (Residues 817-949) Containing Phosphoreceiver Domain Length = 133

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 63/114 (55%), Gaps = 3/114 (2%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M +L VDD     ++L   L    Y+    N  + AL +L  ++N+ D+V+SDV MP+MD
Sbjct: 9   MMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL--SKNHIDIVLSDVNMPNMD 66
Query: 84  GFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
           G++L + +  L + LPV+ ++A +  +   + +  G    L KPV ++ +K T 
Sbjct: 67  GYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTL 120

>pdb|3RVN|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89y Length = 132

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 36/123 (29%), Positives = 61/123 (49%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 9   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWDMPNM 66
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++AY+  + ++     GA  Y++KP     L+     +
Sbjct: 67  DGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 126
Query: 140 IRR 142
             +
Sbjct: 127 FEK 129

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 61/123 (49%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWMMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTALAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1YIO|A Chain A, Crystallographic Structure Of Response Regulator Styr From Pseudomonas Fluorescens Length = 208

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 66/131 (50%), Gaps = 8/131 (6%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +  + L   LR   +EV   + A T L+  R  ++    ++ D+ MP M G 
Sbjct: 7   VFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHG--CLVLDMRMPGMSGI 64
Query: 86  KLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI---- 140
           +L E L  +   +P+V ++A+ D  + ++ +  GA ++L KP   + L +  +  +    
Sbjct: 65  ELQEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLNA 124
Query: 141 -RRKKVDPKDQ 150
            RR+  + +DQ
Sbjct: 125 ERRQARETQDQ 135

>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/107 (32%), Positives = 52/107 (48%), Gaps = 3/107 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +   +LE+ L       T        L  L       D+++SD+ MP MDG 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP--DVLLSDIRMPGMDGL 63
Query: 86  KLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            LL+ +      LPV++++A+SD    +     GA DYL KP  ++E
Sbjct: 64  ALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of Beryllofluoride- Activated Ntrc Receiver Domain Length = 124

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/107 (32%), Positives = 52/107 (48%), Gaps = 3/107 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +   +LE+ L       T        L  L       D+++SD+ MP MDG 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP--DVLLSDIRMPGMDGL 63
Query: 86  KLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            LL+ +      LPV++++A+SD    +     GA DYL KP  ++E
Sbjct: 64  ALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

>pdb|1J56|A Chain A, Minimized Average Structure Of Beryllofluoride-Activated Ntrc Receiver Domain: Model Structure Incorporating Active Site Contacts Length = 124

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/107 (32%), Positives = 52/107 (48%), Gaps = 3/107 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +   +LE+ L       T        L  L       D+++SD+ MP MDG 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP--DVLLSDIRMPGMDGL 63
Query: 86  KLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            LL+ +      LPV++++A+SD    +     GA DYL KP  ++E
Sbjct: 64  ALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 61/123 (49%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWMMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1DZ3|A Chain A, Domain-Swapping In The Sporulation Response Regulator Spo0a Length = 130

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 66/123 (53%), Gaps = 8/123 (6%)
Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVY 78
           + ++V   DD++  + +L++++   Q ++ V   A      L+ML E R   D+++ D+ 
Sbjct: 1   MSIKVCIADDNRELVSLLDEYISS-QPDMEVIGTAYNGQDCLQMLEEKRP--DILLLDII 57
Query: 79  MPDMDGFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
           MP +DG  +LE +  G E    V+ML+A+    +  K +  GA  ++LKP  ME L +  
Sbjct: 58  MPHLDGLAVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHI 117
Query: 137 QHV 139
           + V
Sbjct: 118 RQV 120

>pdb|3Q9S|A Chain A, Crystal Structure Of Rra(1-215) From Deinococcus Radiodurans Length = 249

Iteration: 1
 Score = 54.3 bits (129), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 58/108 (53%), Gaps = 2/108 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L ++DD     +L   L +  Y V   + A   L   RE+  + DL++ D+ +PD DG
Sbjct: 39  RILVIEDDHDIANVLRXDLTDAGYVVDHADSAXNGLIKARED--HPDLILLDLGLPDFDG 96
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
             +++ +     LP+++L+A    +  ++ +  GA DYL+KP   +EL
Sbjct: 97  GDVVQRLRKNSALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDEL 144

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 61/123 (49%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1MVO|A Chain A, Crystal Structure Of The Phop Receiver Domain From Bacillus Subtilis Length = 136

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 66/122 (54%), Gaps = 3/122 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD+++ + +L+  L    Y+V   +    ALK  +      DL++ DV +P +DG
Sbjct: 5   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALK--KAETEKPDLIVLDVMLPKLDG 62
Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            ++  +L   ++  P++ML+A  +    + G+  GA DY+ KP    E+    + ++RR 
Sbjct: 63  IEVCKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRS 122
Query: 144 KV 145
           ++
Sbjct: 123 EI 124

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 2   LKFLVVDDNSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 59
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M +A +  + ++     GA  Y++KP     L+     +
Sbjct: 60  DGLELLKTIRADGAMSALPVLMTTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 119
Query: 140 IRR 142
             +
Sbjct: 120 FEK 122

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD+ T  +I    L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 2   LKFLVVDDNSTMRRITRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 59
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 60  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 119
Query: 140 IRR 142
             +
Sbjct: 120 FEK 122

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 52.4 bits (124), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + V+     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENVIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1MIH|A Chain A, A Role For Chey Glu 89 In Chez-Mediated Dephosphorylation Of The E. Coli Chemotaxis Response Regulator Chey Length = 129

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWRMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|1UDR|A Chain A, Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Replaced By Ala, Ile 96 Replaced By Lys And Ala 98 Replaced By Leu (Stabilizing Mutations In Helix 4) Length = 129

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +D + +      GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEADAENIKALAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|1CEY|A Chain A, Assignments, Secondary Structure, Global Fold, And Dynamics Of Chemotaxis Y Protein Using Three-And Four-Dimensional Heteronuclear (13c,15n) Nmr Spectroscopy Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|1EAY|A Chain A, Chey-Binding (P2) Domain Of Chea In Complex With Chey From Escherichia Coli Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1NXO|A Chain A, Micarec Ph7.0 Length = 120

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 32/120 (26%), Positives = 63/120 (52%), Gaps = 2/120 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    I++  + +  YEV        AL+     +   D++I D+ +P++DG
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQP--DIIILDLMLPEIDG 60
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            ++ + +     +P++MLSA       + G+  GA DY+ KP    EL+   + ++RR +
Sbjct: 61  LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ 120

>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 34/107 (31%), Positives = 51/107 (47%), Gaps = 3/107 (2%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VDDD +   +LE+ L       T        L  L       D+++S + MP MDG 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP--DVLLSXIRMPGMDGL 63
Query: 86  KLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            LL+ +      LPV++++A+SD    +     GA DYL KP  ++E
Sbjct: 64  ALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 61/118 (51%), Gaps = 6/118 (5%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L +DDD+   + L  +L +  ++V      +  L++    +   DLVI D+  P +DG 
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQP--DLVICDLRXPQIDGL 65
Query: 86  KLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           +L+  +     + P+++LS        ++ +  GA DYL+KP  +E+L    +H +RR
Sbjct: 66  ELIRRIRQTASETPIIVLSGAGVXSDAVEALRLGAADYLIKP--LEDLA-VLEHSVRR 120

>pdb|3RVL|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89r Length = 132

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 9   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWDMPNM 66
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 67  DGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 126
Query: 140 IRR 142
             +
Sbjct: 127 FEK 129

>pdb|1YMV|A Chain A, Signal Transduction Protein Chey Mutant With Phe 14 Replaced By Gly, Ser 15 Replaced By Gly, And Met 17 Replaced By Gly Length = 129

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDGGTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|2OQR|A Chain A, The Structure Of The Response Regulator Regx3 From Mycobacterium Tuberculosis Length = 230

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 35/117 (29%), Positives = 58/117 (49%), Gaps = 2/117 (1%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           VL V+D+++    L   LR+  +E TV      AL     +R   D+V+ D+ +P M G 
Sbjct: 7   VLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEF--DRAGADIVLLDLMLPGMSGT 64
Query: 86  KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
            + + +     +PV+M++A       + G+  GA DY+ KP    EL    + V+RR
Sbjct: 65  DVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRR 121

>pdb|1CYE|A Chain A, Three Dimensional Structure Of Chemotactic Che Y Protein In Aqueous Solution By Nuclear Magnetic Resonance Methods Length = 129

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|3RVJ|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89q Length = 132

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 9   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWDMPNM 66
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 67  DGLELLKTIRADGAMSALPVLMVTAQAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 126
Query: 140 IRR 142
             +
Sbjct: 127 FEK 129

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 34/107 (31%), Positives = 56/107 (52%), Gaps = 6/107 (5%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 110

>pdb|3RVP|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89k Length = 132

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 9   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWDMPNM 66
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 67  DGLELLKTIRADGAMSALPVLMVTAKAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 126
Query: 140 IRR 142
             +
Sbjct: 127 FEK 129

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 34/107 (31%), Positives = 56/107 (52%), Gaps = 6/107 (5%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP 126
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 61/118 (51%), Gaps = 6/118 (5%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L +DDD+   + L  +L +  ++V      +  L++    +   DLVI D+  P +DG 
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQP--DLVICDLRXPQIDGL 65
Query: 86  KLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           +L+  +     + P+++LS        ++ +  GA DYL+KP  +E+L    +H +RR
Sbjct: 66  ELIRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKP--LEDLA-VLEHSVRR 120

>pdb|1QMP|A Chain A, Phosphorylated Aspartate In The Crystal Structure Of The Sporulation Response Regulator, Spo0a Length = 130

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 65/123 (52%), Gaps = 8/123 (6%)
Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVY 78
           + ++V   DD++  + +L++++   Q ++ V   A      L+ML E R   D+++  + 
Sbjct: 1   MSIKVCIADDNRELVSLLDEYISS-QPDMEVIGTAYNGQDCLQMLEEKRP--DILLLXII 57
Query: 79  MPDMDGFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
           MP +DG  +LE +  G E    V+ML+A+    +  K +  GA  ++LKP  ME L +  
Sbjct: 58  MPHLDGLAVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHI 117
Query: 137 QHV 139
           + V
Sbjct: 118 RQV 120

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 7   LKFLVVDDFSTGRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 64
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 65  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 124
Query: 140 IRR 142
             +
Sbjct: 125 FEK 127

>pdb|1ZIT|A Chain A, Structure Of The Receiver Domain Of Ntrc4 From Aquifex Aeolicus Length = 121

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 33/115 (28%), Positives = 55/115 (47%), Gaps = 3/115 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL VDD+++    L   L E  Y          A K ++E    F +++ DV+MPD DG
Sbjct: 3   RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKELF--FPVIVLDVWMPDGDG 60
Query: 85  FKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
              ++ +     D  V++++ +      +K I  GA ++L KP  +E    T +H
Sbjct: 61  VNFIDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKH 115

>pdb|1S8N|A Chain A, Crystal Structure Of Rv1626 From Mycobacterium Tuberculosis Length = 205

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 14/139 (10%)
Query: 8   GSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVT----NRAITALKML 63
           G ++D D  + +     RVL  +D+      L + LRE  YE+         A+   ++ 
Sbjct: 3   GPTTDADAAVPR-----RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL- 56
Query: 64  RENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYL 123
               +  DLVI DV MP  DG      +  +   P+V+L+A+S   LV +  + GA  YL
Sbjct: 57  ----HKPDLVIMDVKMPRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYL 112
Query: 124 LKPVRMEELKNTWQHVIRR 142
           +KP  + +L    +  + R
Sbjct: 113 VKPFSISDLIPAIELAVSR 131

>pdb|2CHE|A Chain A, Structure Of The Mg2+-Bound Form Of Chey And Mechanism Of Phosphoryl Transfer In Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     F  +ISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GFGFIISDWNMPNM 62
Query: 83  DGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +  +     LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|2FKA|A Chain A, Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Chey In Complex With Chez(200-214) Solved From A F432 Crystal Grown In Caps (Ph 10.5) Length = 129

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     F  +ISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GFGFIISDWNMPNM 63
Query: 83  DGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +  +     LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|1VLZ|A Chain A, Uncoupled Phosphorylation And Activation In Bacterial Chemotaxis: The 2.1 Angstrom Structure Of A Threonine To Isoleucine Mutant At Position 87 Of Chey Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 35/123 (28%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M+ A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1DBW|A Chain A, Crystal Structure Of Fixj-N Length = 126

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 31/117 (26%), Positives = 64/117 (54%), Gaps = 7/117 (5%)
Query: 29  VDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLL 88
           VDD++   K L   L    + V +   A   L    + RN   ++++D+ MPDM G +LL
Sbjct: 9   VDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNG--VLVTDLRMPDMSGVELL 66
Query: 89  ELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP----VRMEELKNTWQHVI 140
             +G L++++P ++++ + D  + ++ +  GA D++ KP    V +E ++   +H++
Sbjct: 67  RNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEHLV 123

>pdb|3OLX|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88s-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M+++ +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTSEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|3OLV|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88v-Bef3-Mg Complex Length = 129

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++  +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTVEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 60/123 (48%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  +++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGWVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|3OLW|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88t-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++  +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTTEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|1P6U|A Chain A, Nmr Structure Of The Bef3-Activated Structure Of The Response Regulator Chey2-Mg2+ From Sinorhizobium Meliloti Length = 129

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 37/114 (32%), Positives = 59/114 (51%), Gaps = 6/114 (5%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++VL VDD  T   +L   L++  + ++T        +K++ +N ++  LVISD  MP M
Sbjct: 7   IKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNPHH--LVISDFNMPKM 64
Query: 83  DGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELK 133
           DG  LL+ V           ++L+A  D  LV K    GA + L KP  +E++K
Sbjct: 65  DGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMK 118

>pdb|2QZJ|A Chain A, Crystal Structure Of A Two-Component Response Regulator From Clostridium Difficile Length = 136

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 28/118 (23%), Positives = 61/118 (51%), Gaps = 2/118 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L +D D+   + L+ FL E    + +      A+  +  N+  +DL+  ++ + D DG
Sbjct: 6   KILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSNK--YDLIFLEIILSDGDG 63
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           + L + +      P+V  +  ++ + ++  +N G  DYL+KP+ +E L    + ++RR
Sbjct: 64  WTLCKKIRNVTTCPIVYXTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRR 121

>pdb|3DZD|A Chain A, Crystal Structure Of Sigma54 Activator Ntrc4 In The Inactive State Length = 368

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/129 (27%), Positives = 60/129 (46%), Gaps = 5/129 (3%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL VDD+++    L   L E  Y          A K ++E    F +++ DV+ PD DG
Sbjct: 2   RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKEL--FFPVIVLDVWXPDGDG 59
Query: 85  FKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR- 142
              ++ +     D  V++++ +      +K I  GA ++L KP  +E    T +H     
Sbjct: 60  VNFIDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEY 119
Query: 143 -KKVDPKDQ 150
            KK  P+++
Sbjct: 120 SKKAPPQEE 128

>pdb|3OLY|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88m-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++  +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTMEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 35/125 (28%), Positives = 66/125 (52%), Gaps = 6/125 (4%)
Query: 21  PIG-MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVY 78
           P+G M++L VDD  T  +I++  L    YE V      + A + L  N +   ++I+D  
Sbjct: 2   PLGSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADT-KVLITDWN 60
Query: 79  MPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           MP+M+G  L++ V  +    ++P++M++A      V+  +  G  +Y++KP   + LK  
Sbjct: 61  MPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEK 120
Query: 136 WQHVI 140
            + V+
Sbjct: 121 LEVVL 125

>pdb|1JBE|A Chain A, 1.08 A Structure Of Apo-Chey Reveals Meta-Active Conformation Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +        LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|3EOD|A Chain A, Crystal Structure Of N-Terminal Domain Of E. Coli Rssb Length = 130

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 58/110 (52%), Gaps = 7/110 (6%)
Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNF--DLVISDVYM 79
           +G ++L V+D+Q    +L+ +         +    + AL++L      F  DL+I D+ M
Sbjct: 6   VGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELL----GGFTPDLMICDIAM 61
Query: 80  PDMDGFKLLELVGLEMD-LPVVMLSAYSDTKLVMKGINHGACDYLLKPVR 128
           P M+G KLLE +    D  PV+++SA  +   + K +  G  D LLKPV+
Sbjct: 62  PRMNGLKLLEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVK 111

>pdb|2RJN|A Chain A, Crystal Structure Of An Uncharacterized Protein Q2bku2 From Neptuniibacter Caesariensis Length = 154

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 33/103 (32%), Positives = 54/103 (52%), Gaps = 4/103 (3%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V+ VDD+Q  L  L++ ++     +      + AL+ L+    +  LVISD+ MP+M G 
Sbjct: 10  VMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALK--GTSVQLVISDMRMPEMGGE 67
Query: 86  KLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACD-YLLKP 126
             LE V     D+  V++S Y+D +  +  +N G    +LLKP
Sbjct: 68  VFLEQVAKSYPDIERVVISGYADAQATIDAVNRGKISRFLLKP 110

>pdb|1NXT|A Chain A, Micarec Ph 4.0 Length = 120

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 31/120 (25%), Positives = 62/120 (51%), Gaps = 2/120 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    I++  + +  YEV        AL+     +   D++I  + +P++DG
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQP--DIIILXLMLPEIDG 60
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            ++ + +     +P++MLSA       + G+  GA DY+ KP    EL+   + ++RR +
Sbjct: 61  LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRRSQ 120

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VD   T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/123 (26%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     F  +I D  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GFGFIICDWNMPNM 62
Query: 83  DGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +  +     LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1C4W|A Chain A, 1.9 A Structure Of A-Thiophosphonate Modified Chey D57c Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VIS   MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISXWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VIS   MP+M
Sbjct: 6   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISXWNMPNM 63
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 64  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
Query: 140 IRR 142
             +
Sbjct: 124 FEK 126

>pdb|3TMY|A Chain A, Chey From Thermotoga Maritima (Mn-Iii) Length = 120

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 33/112 (29%), Positives = 60/112 (53%), Gaps = 10/112 (8%)
Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVT--VTN--RAITALKMLRENRNNFDLVISDV 77
           +G RVL VDD      +L+  + +  YEV    TN   A+   K L+      D+V  D+
Sbjct: 1   MGKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELKP-----DIVTMDI 55
Query: 78  YMPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVR 128
            MP+M+G   + E++ ++ +  +++ SA     +V++ I  GA D+++KP +
Sbjct: 56  TMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQ 107

>pdb|3CFY|A Chain A, Crystal Structure Of Signal Receiver Domain Of Putative Luxo Repressor Protein From Vibrio Parahaemolyticus Length = 137

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 68/124 (54%), Gaps = 5/124 (4%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL V+D  +   + ++++++  Y++        A++ +   R+   L+I D+ +PDM G
Sbjct: 6   RVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI--ERSKPQLIILDLKLPDMSG 63
Query: 85  FKLLELVGLEMDLP--VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             +L+ +  + D+P  V++ +A+    L +  I  GA D+L KP+  + LK +    ++R
Sbjct: 64  EDVLDWIN-QNDIPTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKR 122
Query: 143 KKVD 146
            K++
Sbjct: 123 AKLE 126

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VD   T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 4   LKFLVVDAFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 61
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 62  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 121
Query: 140 IRR 142
             +
Sbjct: 122 FEK 124

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 36/118 (30%), Positives = 60/118 (50%), Gaps = 9/118 (7%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MR+L  DD +    +L++ L +  ++V   N A   L  + E   ++D VI D++MP M+
Sbjct: 15  MRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAE--EDYDAVIVDLHMPGMN 72
Query: 84  GFKLLELV------GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           G  +L+ +      G+    PVV+LSA    + +      GA  +L KPV   +L +T
Sbjct: 73  GLDMLKQLRVMQASGMRYT-PVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDT 129

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M+ A +  + ++     GA  +++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VIS   MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISAWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L V D  T  +I+   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 7   LKFLVVADFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNM 64
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 65  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 124
Query: 140 IRR 142
             +
Sbjct: 125 FEK 127

>pdb|1U0S|Y Chain Y, Chemotaxis Kinase Chea P2 Domain In Complex With Response Regulator Chey From The Thermophile Thermotoga Maritima Length = 118

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 33/111 (29%), Positives = 59/111 (53%), Gaps = 10/111 (9%)
Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVT--VTN--RAITALKMLRENRNNFDLVISDVY 78
           G RVL VDD      +L+  + +  YEV    TN   A+   K L+      D+V  D+ 
Sbjct: 1   GKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELKP-----DIVTMDIT 55
Query: 79  MPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVR 128
           MP+M+G   + E++ ++ +  +++ SA     +V++ I  GA D+++KP +
Sbjct: 56  MPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQ 106

>pdb|3GWG|A Chain A, Crystal Structure Of Chey Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 34/125 (27%), Positives = 65/125 (52%), Gaps = 6/125 (4%)
Query: 21  PIG-MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVY 78
           P+G M++L VDD  T  +I++  L    YE V      + A + L  N +   ++I+D  
Sbjct: 2   PLGSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADT-KVLITDWN 60
Query: 79  MPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           MP+M+G  L++ V  +    ++P++M++       V+  +  G  +Y++KP   + LK  
Sbjct: 61  MPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFTPQVLKEK 120
Query: 136 WQHVI 140
            + V+
Sbjct: 121 LEVVL 125

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 34/123 (27%), Positives = 58/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VIS   MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISXWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M+ A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1D5W|A Chain A, Phosphorylated Fixj Receiver Domain Length = 126

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 30/117 (25%), Positives = 63/117 (53%), Gaps = 7/117 (5%)
Query: 29  VDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLL 88
           VDD++   K L   L    + V +   A   L    + RN   ++++ + MPDM G +LL
Sbjct: 9   VDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNG--VLVTXLRMPDMSGVELL 66
Query: 89  ELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP----VRMEELKNTWQHVI 140
             +G L++++P ++++ + D  + ++ +  GA D++ KP    V +E ++   +H++
Sbjct: 67  RNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEHLV 123

>pdb|2QR3|A Chain A, Crystal Structure Of The N-Terminal Signal Receiver Domain Of Two- Component System Response Regulator From Bacteroides Fragilis Length = 140

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 63/116 (54%), Gaps = 8/116 (6%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDV-YMPDMDG 84
           ++ VDD++  L  ++  L+    +V   +  ++   +LRE   N ++V+ D+ +   ++ 
Sbjct: 6   IIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREE--NPEVVLLDMNFTSGINN 63
Query: 85  -----FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
                F L E+     DLPVV+ +AY+D  L ++GI  GA D+++KP   ++L  T
Sbjct: 64  GNEGLFWLHEIKRQYRDLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLET 119

>pdb|3HV2|A Chain A, Crystal Structure Of Signal Receiver Domain Of Hd Domain- Containing Protein From Pseudomonas Fluorescens Pf-5 Length = 153

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 36/109 (33%), Positives = 53/109 (48%), Gaps = 4/109 (3%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           +L VD  +  L+ L++ L    Y +     A  AL++L       DLVIS  ++P MDG 
Sbjct: 17  ILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE--VDLVISAAHLPQMDGP 74
Query: 86  KLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGAC-DYLLKPVRMEEL 132
            LL  +  +      ++L+   D KL+ K IN G    YL KP   +EL
Sbjct: 75  TLLARIHQQYPSTTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQEL 123

>pdb|2QXY|A Chain A, Crystal Structure Of A Response Regulator From Thermotoga Maritima Length = 142

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 34/116 (29%), Positives = 54/116 (46%), Gaps = 4/116 (3%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  VD+ +     ++  L +  + V        A   LR  R   DLV  DV+  + +  
Sbjct: 7   VXVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLR--REKIDLVFVDVFEGE-ESL 63
Query: 86  KLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
            L+  +  E  D  V +LSAY D  L++  +  GA DY+LKP R++ L    + +I
Sbjct: 64  NLIRRIREEFPDTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKII 119

>pdb|1ZH2|A Chain A, Crystal Structure Of The Calcium-Bound Receiver Domain Of Kdp Potassium Transport System Response Regulator Kdpe Length = 121

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 36/124 (29%), Positives = 59/124 (47%), Gaps = 16/124 (12%)
Query: 26  VLAVDDDQTCLKILEKFLRECQ-------YEVTVTNRAITALKMLRENRNNFDLVISDVY 78
           VL V+D+Q     + +FLR          +E     R      +L       DL+I D+ 
Sbjct: 4   VLIVEDEQA----IRRFLRTALEGDGMRVFEAETLQRG-----LLEAATRKPDLIILDLG 54
Query: 79  MPDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
           +PD DG + +  +     +PV++LSA S+    +  ++ GA DYL KP  + EL+   + 
Sbjct: 55  LPDGDGIEFIRDLRQWSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRV 114
Query: 139 VIRR 142
            +RR
Sbjct: 115 ALRR 118

>pdb|1F51|E Chain E, A Transient Interaction Between Two Phosphorelay Proteins Trapped In A Crystal Lattice Reveals The Mechanism Of Molecular Recognition And Phosphotransfer In Singal Transduction Length = 119

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 61/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 3   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 60
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 61  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 111

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 33/123 (26%), Positives = 58/123 (47%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L VDD  T  +I+   L+E  +  V      + AL  L+     +  VIS   MP+M
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISXWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M+ A +  + ++     GA  +++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|1ZGZ|A Chain A, Crystal Structure Of The Receiver Domain Of Tmao Respiratory System Response Regulator Torr Length = 122

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 27/107 (25%), Positives = 57/107 (53%), Gaps = 2/107 (1%)
Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           ++ V+D+      L+ +  +  Y V+VT      L+ + +N++  DL++ D+ +PD +G 
Sbjct: 5   IVIVEDEPVTQARLQSYFTQEGYTVSVTASG-AGLREIXQNQS-VDLILLDINLPDENGL 62
Query: 86  KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            L   +     + +++++  SD    + G+  GA DY+ KP+ + EL
Sbjct: 63  XLTRALRERSTVGIILVTGRSDRIDRIVGLEXGADDYVTKPLELREL 109

>pdb|1SRR|A Chain A, Crystal Structure Of A Phosphatase Resistant Mutant Of Sporulation Response Regulator Spo0f From Bacillus Subtilis Length = 124

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 61/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 113

>pdb|1PUX|A Chain A, Nmr Solution Structure Of Bef3-Activated Spo0f, 20 Conformers Length = 124

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 61/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 113

>pdb|3Q15|C Chain C, Crystal Structure Of Raph Complexed With Spo0f Length = 126

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 61/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 7   KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 64
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 65  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 115

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 5/121 (4%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    +++   L +  ++        +A+  L E     DL++ D  +P   G
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP--DLILLDWMLPGGSG 61
Query: 85  FKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            + ++ +  E    D+PVVML+A  + +  ++G+  GA DY+ KP   +EL    + V+R
Sbjct: 62  IQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
Query: 142 R 142
           R
Sbjct: 122 R 122

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 33/121 (27%), Positives = 62/121 (51%), Gaps = 5/121 (4%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    +++   L +  ++        +A+  L E     DL++ D  +P   G
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP--DLILLDWMLPGGSG 61
Query: 85  FKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            + ++ +  E    D+PVVML+A  + +  ++G+  GA DY+ KP   +EL    + V+R
Sbjct: 62  IQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
Query: 142 R 142
           R
Sbjct: 122 R 122

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 33/125 (26%), Positives = 64/125 (51%), Gaps = 6/125 (4%)
Query: 21  PIG-MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVY 78
           P+G M++L VDD  T  +I++  L    YE V      + A + L  N +   ++I+   
Sbjct: 2   PLGSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADT-KVLITAWN 60
Query: 79  MPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNT 135
           MP+M+G  L++ V  +    ++P++M++       V+  +  G  +Y++KP   + LK  
Sbjct: 61  MPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKPFTPQVLKEK 120
Query: 136 WQHVI 140
            + V+
Sbjct: 121 LEVVL 125

>pdb|1A2O|A Chain A, Structural Basis For Methylesterase Cheb Regulation By A Phosphorylation-Activated Domain Length = 349

Iteration: 1
 Score = 45.4 bits (106), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 31/107 (28%), Positives = 58/107 (54%), Gaps = 6/107 (5%)
Query: 24  MRVLAVDDDQTCLKILEKFL-RECQYEVTVTNR-AITALKMLRENRNNFDLVISDVYMPD 81
           +RVL+VDD     +I+ + +      E+  T    + A  +++  + N D++  DV MP 
Sbjct: 4   IRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIK--KFNPDVLTLDVEMPR 61
Query: 82  MDGFKLLELVGLEMDLPVVMLSAYS--DTKLVMKGINHGACDYLLKP 126
           MDG   LE +     +PVVM+S+ +   +++ ++ +  GA D++ KP
Sbjct: 62  MDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTLRALELGAIDFVTKP 108

>pdb|3NNS|A Chain A, Bef3 Activated Drrb Receiver Domain Length = 117

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 32/109 (29%), Positives = 55/109 (50%), Gaps = 6/109 (5%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++  VDDD+  LK + + L++     T     +T    L +    F +V+ DV +PD  G
Sbjct: 4   KIAVVDDDKNILKKVSEKLQQLGRVKTF----LTGEDFLNDEEA-FHVVVLDVXLPDYSG 58
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           +++   +     +  V++L+  SD + V+KG   GA DY+ KP   E L
Sbjct: 59  YEICRXIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEIL 107

>pdb|2GWR|A Chain A, Crystal Structure Of The Response Regulator Protein Mtra From Mycobacterium Tuberculosis Length = 238

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 56/107 (52%), Gaps = 2/107 (1%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDDD +  + L   LR   ++  V      AL  +RE R +  L+     +P  +G
Sbjct: 7   RILVVDDDASLAEXLTIVLRGEGFDTAVIGDGTQALTAVRELRPDLVLLDL--XLPGXNG 64
Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
             +  ++  +  +P+V L+A +DT  V+ G+  GA DY+ KP + +E
Sbjct: 65  IDVCRVLRADSGVPIVXLTAKTDTVDVVLGLESGADDYIXKPFKPKE 111

>pdb|2JVJ|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant I90a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  +  +    GA  +  KP  ++E+++
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMAQESKELGALTHFAKPFDIDEIRD 113

>pdb|2JVI|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant H101a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 26/111 (23%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA     KP  ++E+++
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTAFAKPFDIDEIRD 113

>pdb|1NY5|A Chain A, Crystal Structure Of Sigm54 Activator (Aaa+ Atpase) In The Inactive State Length = 387

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 34/128 (26%), Positives = 72/128 (56%), Gaps = 3/128 (2%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M VL ++DD+    +LE++L     +V    R   A K+L E   +F++V+ D+ +PD++
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEK--HFNVVLLDLLLPDVN 58
Query: 84  GFKLLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G ++L+ +     +  V++++ +   K  ++ +  GA D+L KP  +EE++ T    I  
Sbjct: 59  GLEILKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH 118
Query: 143 KKVDPKDQ 150
           +K+  +++
Sbjct: 119 RKLRKENE 126

>pdb|2PKX|A Chain A, E.Coli Response Regulator Phop Receiver Domain Length = 121

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 34/119 (28%), Positives = 62/119 (52%), Gaps = 3/119 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL V+D+      L+  +++  ++V     A  A   L E+    D+ I D+ +PD DG
Sbjct: 2   RVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIP--DIAIVDLGLPDEDG 59
Query: 85  FKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             L+      ++ LP+++L+A    +  ++ ++ GA DY+ KP  +EE+    Q + RR
Sbjct: 60  LSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVXARXQALXRR 118

>pdb|3DGE|C Chain C, Structure Of A Histidine Kinase-response Regulator Complex Reveals Insights Into Two-component Signaling And A Novel Cis- Autophosphorylation Mechanism Length = 122

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 34/119 (28%), Positives = 59/119 (49%), Gaps = 5/119 (4%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL VDD     KI+   L++  YEV        AL+ L E     DL++ D+ MP MDG
Sbjct: 4   KVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTP--DLIVLDIMMPVMDG 61
Query: 85  FKLLELVGLEMD---LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           F +L+ +  + +   +PV++L+A    +     ++ GA   + KP    +     +H++
Sbjct: 62  FTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLL 120

>pdb|2JVK|A Chain A, Nmr Solution Structure Of The Hyper-Sporulation Response Regulator Spo0f Mutant L66a From Bacillus Subtilis Length = 132

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLDMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++ + +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 63  IEIAKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 113

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 32/123 (26%), Positives = 57/123 (46%), Gaps = 6/123 (4%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++ L V +  T    +   L+E  +  V      + AL  L+     +  VISD  MP+M
Sbjct: 5   LKFLVVGNGGTGKSTVRNLLKELGFNNVEDAEDGVDALNKLQAG--GYGFVISDWNMPNM 62
Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG +LL+ +   G    LPV+M++A +  + ++     GA  Y++KP     L+     +
Sbjct: 63  DGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 122
Query: 140 IRR 142
             +
Sbjct: 123 FEK 125

>pdb|3CU5|A Chain A, Crystal Structure Of A Two Component Transcriptional Regulator Arac From Clostridium Phytofermentans Isdg Length = 141

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 5/78 (6%)
Query: 71  DLVISDVYMPDMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVR- 128
           +++++DV MP MDG +L++ ++ L  D  V+ +S YSD + +   I   A  Y+ KP+  
Sbjct: 51  NVLLTDVRMPRMDGIELVDNILKLYPDCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDP 110
Query: 129 ---MEELKNTWQHVIRRK 143
              M+ LK + Q V++ +
Sbjct: 111 SEIMDALKQSIQTVLQHQ 128

>pdb|2FTK|E Chain E, Berylloflouride Spo0f Complex With Spo0b Length = 124

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 25/111 (22%), Positives = 60/111 (54%), Gaps = 3/111 (2%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+  + +P MDG
Sbjct: 5   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERP--DLVLLXMKIPGMDG 62
Query: 85  FKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRD 113

>pdb|1P2F|A Chain A, Crystal Structure Analysis Of Response Regulator Drrb, A Thermotoga Maritima OmprPHOB HOMOLOG Length = 220

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 34/124 (27%), Positives = 60/124 (48%), Gaps = 10/124 (8%)
Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITAL--KMLRENRNNFDLVISDVYMPD 81
            ++  VDDD+  LK + + L++         R  T L  +    +   F +V+ DV +PD
Sbjct: 3   WKIAVVDDDKNILKKVSEKLQQL-------GRVKTFLTGEDFLNDEEAFHVVVLDVXLPD 55
Query: 82  MDGFKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
             G+++   +     +  V++L+  SD + V+KG   GA DY+ KP   E L    +  +
Sbjct: 56  YSGYEICRXIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFL 115
Query: 141 RRKK 144
            R+K
Sbjct: 116 EREK 119

>pdb|2JB9|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D10a And D53e. Length = 127

Iteration: 1
 Score = 42.4 bits (98), Expect = 6e-04,   Method: Composition-based stats.
 Identities = 24/75 (32%), Positives = 43/75 (57%), Gaps = 3/75 (4%)
Query: 71  DLVISDVYMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV 127
           DL++ +  +P   G + ++ +  E    D+PVVML+A  + +  ++G+  GA DY+ KP 
Sbjct: 48  DLILLEWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPF 107
Query: 128 RMEELKNTWQHVIRR 142
             +EL    + V+RR
Sbjct: 108 SPKELVARIKAVMRR 122

>pdb|3C97|A Chain A, Crystal Structure Of The Response Regulator Receiver Domain Of A Signal Transduction Histidine Kinase From Aspergillus Oryzae Length = 140

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
          + VL  +D+  C  +  K L +C  ++TV    + AL+   +NR  FD++I D+ MP MD
Sbjct: 11 LSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAY-QNRQ-FDVIIMDIQMPVMD 68
Query: 84 GFK 86
          G +
Sbjct: 69 GLE 71

>pdb|3A0U|A Chain A, Crystal Structure Of Response Regulator Protein Trra (Tm1360) From Thermotoga Maritima In Complex With Mg(2+)- Bef (Wild Type) Length = 116

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-04,   Method: Composition-based stats.
 Identities = 34/110 (30%), Positives = 60/110 (54%), Gaps = 5/110 (4%)
Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDD+    ++L++ L+E  YE+        ALK       N+DLVI D+ MP + G
Sbjct: 3   RILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFS--GNYDLVILDIEMPGISG 60
Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELK 133
            ++  E+   + D  +++L+AYS  +  +   +  A +Y++K    +ELK
Sbjct: 61  LEVAGEIRKKKKDAKIILLTAYSHYRSDLS--SWAADEYVVKSFNFDELK 108

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	524
3hdg_A	137	Uncharacterized protein; two-component sensor acti	2e-30
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	4e-30
1srr_A	124	SPO0F, sporulation response regulatory protein; as	2e-29
2rjn_A	154	Response regulator receiver:metal-dependent phosph	2e-29
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	1e-28
4dad_A	146	Putative pilus assembly-related protein; response	2e-28
3jte_A	143	Response regulator receiver protein; structural ge	2e-28
2qxy_A	142	Response regulator; regulation of transcription, N	2e-28
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	2e-28
3cfy_A	137	Putative LUXO repressor protein; structural genomi	3e-28
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	4e-28
3rqi_A	184	Response regulator protein; structural genomics, s	7e-28
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	1e-27
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	1e-27
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	4e-27
3cg0_A	140	Response regulator receiver modulated diguanylate	8e-27
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	4e-26
3eqz_A	135	Response regulator; structural genomics, unknown f	2e-25
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	2e-25
3bre_A	358	Probable two-component response regulator; protein	2e-25
3i42_A	127	Response regulator receiver domain protein (CHEY-	3e-25
2qr3_A	140	Two-component system response regulator; structura	5e-25
1w25_A	459	Stalked-cell differentiation controlling protein;	7e-25
1w25_A	459	Stalked-cell differentiation controlling protein;	4e-19
3luf_A	259	Two-component system response regulator/ggdef doma	8e-25
3luf_A	259	Two-component system response regulator/ggdef doma	3e-23
3eq2_A	394	Probable two-component response regulator; adaptor	1e-24
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	1e-24
3crn_A	132	Response regulator receiver domain protein, CHEY-;	1e-24
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	2e-24
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	4e-24
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	5e-24
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	1e-23
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	2e-23
3gt7_A	154	Sensor protein; structural genomics, signal receiv	2e-23
3grc_A	140	Sensor protein, kinase; protein structure initiati	2e-23
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	5e-23
3cnb_A	143	DNA-binding response regulator, MERR family; signa	6e-23
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	7e-23
3c3m_A	138	Response regulator receiver protein; structural ge	2e-22
3n53_A	140	Response regulator receiver modulated diguanylate;	2e-22
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	3e-22
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	4e-22
1ys7_A	233	Transcriptional regulatory protein PRRA; response	4e-22
3nhm_A	133	Response regulator; protein structure initiative I	5e-22
3r0j_A	250	Possible two component system response transcript	7e-22
3lua_A	140	Response regulator receiver protein; two-component	8e-22
2zay_A	147	Response regulator receiver protein; structural ge	8e-22
3q9s_A	249	DNA-binding response regulator; DNA binding protei	1e-21
3lte_A	132	Response regulator; structural genomics, PSI, prot	1e-21
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	1e-21
2qv0_A	143	Protein MRKE; structural genomics, transcription,	2e-21
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	2e-21
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	2e-21
1yio_A	208	Response regulatory protein; transcription regulat	3e-21
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	4e-21
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	4e-21
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	1e-20
2rdm_A	132	Response regulator receiver protein; structural ge	2e-20
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	6e-20
2gwr_A	238	DNA-binding response regulator MTRA; two-component	8e-20
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	8e-20
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	1e-19
1mb3_A	124	Cell division response regulator DIVK; signal tran	2e-19
2oqr_A	230	Sensory transduction protein REGX3; response regul	2e-19
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	4e-19
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	5e-19
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	5e-19
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	6e-19
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	7e-19
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	7e-19
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	1e-18
1zgz_A	122	Torcad operon transcriptional regulatory protein;	2e-18
1xhf_A	123	DYE resistance, aerobic respiration control protei	3e-18
2hqr_A	223	Putative transcriptional regulator; phosporylation	1e-17
3heb_A	152	Response regulator receiver domain protein (CHEY);	1e-17
3kto_A	136	Response regulator receiver protein; PSI-II,struct	1e-17
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	2e-17
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	3e-17
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	3e-17
3c97_A	140	Signal transduction histidine kinase; structural g	4e-17
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	7e-17
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	8e-17
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	9e-17
2gkg_A	127	Response regulator homolog; social motility, recei	9e-17
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	3e-16
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	4e-16
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	1e-15
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	1e-15
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	1e-14
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	6e-14
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	5e-13
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	8e-13
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	1e-12
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	2e-12
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	3e-12
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	8e-12
3f6c_A	134	Positive transcription regulator EVGA; structural	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	1e-09
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	3e-09
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	2e-08
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	2e-08
3cz5_A	153	Two-component response regulator, LUXR family; str	3e-08
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	4e-08
3eul_A	152	Possible nitrate/nitrite response transcriptional	5e-07
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	2e-06
3c3w_A	225	Two component transcriptional regulatory protein;	3e-06

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} Length = 137

 Score =  114 bits (288), Expect = 2e-30
 Identities = 28/131 (21%), Positives = 56/131 (42%), Gaps = 3/131 (2%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            +++L V+DD    + L   +     EV          ++   +    D++I+D+ MP +
Sbjct: 7   ALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHA--PDVIITDIRMPKL 64

Query: 83  DGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            G ++L+ +        V+++SA+S+ K  +K I  G   +L KP+    L  T +    
Sbjct: 65  GGLEMLDRIKAGGAKPYVIVISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRH 124

Query: 142 RKKVDPKDQNR 152
            K       + 
Sbjct: 125 IKLAKEGHHHH 135

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score =  114 bits (287), Expect = 4e-30
 Identities = 36/130 (27%), Positives = 57/130 (43%), Gaps = 6/130 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L VD  +  L+ L++ L    Y +     A  AL++L       DLVIS  ++P MDG
Sbjct: 16  EILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE--VDLVISAAHLPQMDG 73

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGAC-DYLLKPVRMEELKNTWQHVIRR 142
             LL  +         ++L+   D KL+ K IN G    YL KP   +EL    +  +  
Sbjct: 74  PTLLARIHQQYPSTTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEH 133

Query: 143 KKVDPKDQNR 152
           +    + +  
Sbjct: 134 QHS--ERERL 141

>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket, two component system; 1.90A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 1pey_A 3q15_C 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A 2jvj_A 2jvk_A 2jvi_A 1f51_E Length = 124

 Score =  111 bits (280), Expect = 2e-29
 Identities = 27/120 (22%), Positives = 64/120 (53%), Gaps = 3/120 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 5   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER--PDLVLLDMKIPGMDG 62

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            ++L+ +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++  +  +  K
Sbjct: 63  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPLK 122

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score =  112 bits (282), Expect = 2e-29
 Identities = 37/150 (24%), Positives = 70/150 (46%), Gaps = 9/150 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V+ VDD+Q  L  L++ ++     +      + AL+ L+       LVISD+ MP+M G
Sbjct: 9   TVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTS--VQLVISDMRMPEMGG 66

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACD-YLLKPVRMEELKNTWQHVIRR 142
              LE V     D+  V++S Y+D +  +  +N G    +LLKP   E++    +  ++ 
Sbjct: 67  EVFLEQVAKSYPDIERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQL 126

Query: 143 KKVDPKDQNRSPHEFEKSYRKRKDQDGEDE 172
             +  +++N      ++    +  Q+G   
Sbjct: 127 AFL--REENL---RLQEETEAKNKQEGHHH 151

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score =  109 bits (275), Expect = 1e-28
 Identities = 30/122 (24%), Positives = 55/122 (45%), Gaps = 5/122 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L VDD+   L  ++  L +  ++V     A  A+ +L E      ++I D  MP   G
Sbjct: 3   AILLVDDEPHSLAAMKLALED-DFDVLTAQGAEAAIAILEEEW--VQVIICDQRMPGRTG 59

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINH-GACDYLLKPVRMEELKNTWQHVIRR 142
              L  V     +   ++++ Y+D+  +M  IN  G   +L KP   E+L ++ ++  R 
Sbjct: 60  VDFLTEVRERWPETVRIIITGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARM 119

Query: 143 KK 144
             
Sbjct: 120 FT 121

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A Length = 146

 Score =  109 bits (274), Expect = 2e-28
 Identities = 21/124 (16%), Positives = 48/124 (38%), Gaps = 3/124 (2%)

Query: 23  GM-RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENR-NNFDLVISDVYMP 80
           GM  +L   +D + L  L + + +             A  + R +  + FD+++ D    
Sbjct: 19  GMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDAFDILMIDGAAL 78

Query: 81  DMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           D      +E L  L   L  ++++  + ++ ++  +  G  D L  P+    L +  +  
Sbjct: 79  DTAELAAIEKLSRLHPGLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRA 138

Query: 140 IRRK 143
             + 
Sbjct: 139 AAQC 142

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver domain, target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405} Length = 143

 Score =  109 bits (274), Expect = 2e-28
 Identities = 36/129 (27%), Positives = 68/129 (52%), Gaps = 3/129 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L +DD+ T L+ ++  L     EV   + +   L++  EN N+ D+VI+D+ MP + G
Sbjct: 5   KILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSG 64

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             +L  +  +   + V++L+ + D    +  +  GA +YL KPV  ++L     + I RK
Sbjct: 65  MDILREIKKITPHMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRK 124

Query: 144 KVDPKDQNR 152
           K+    +N 
Sbjct: 125 KL--LMENE 131

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score =  109 bits (274), Expect = 2e-28
 Identities = 33/138 (23%), Positives = 54/138 (39%), Gaps = 7/138 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V+ VD+ +     ++  L +  + V        A   LR  +   DLV  DV     + 
Sbjct: 6   TVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREK--IDLVFVDV-FEGEES 62

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             L+  +     D  V +LSAY D  L++  +  GA DY+LKP R++ L    + +I   
Sbjct: 63  LNLIRRIREEFPDTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISST 122

Query: 144 KVDP---KDQNRSPHEFE 158
                  +      H   
Sbjct: 123 PRVTVSLRKNIEEGHHHH 140

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score =  109 bits (274), Expect = 2e-28
 Identities = 32/130 (24%), Positives = 63/130 (48%), Gaps = 6/130 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDDD + L  L++ L    +EVT       AL  ++++   F +++ D+ MP M+G
Sbjct: 6   RILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSDP-FSVIMVDMRMPGMEG 63

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHG-ACDYLLKPVRMEELKNTWQHVIRR 142
            ++++    +  +   +ML+   D    M+ +N G    +L KP +M ++K      I++
Sbjct: 64  TEVIQKARLISPNSVYLMLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQ 123

Query: 143 KKVDPKDQNR 152
             +       
Sbjct: 124 YDL--VTSKE 131

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score =  108 bits (272), Expect = 3e-28
 Identities = 31/134 (23%), Positives = 68/134 (50%), Gaps = 5/134 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL V+D  +   + ++++++  Y++        A++ +  ++    L+I D+ +PDM G
Sbjct: 6   RVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERSK--PQLIILDLKLPDMSG 63

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             +L+ +   ++   V++ +A+    L +  I  GA D+L KP+  + LK +    ++R 
Sbjct: 64  EDVLDWINQNDIPTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKRA 123

Query: 144 KVDPKDQNRSPHEF 157
           K+  +D     H  
Sbjct: 124 KL--EDLVEGHHHH 135

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A* Length = 387

 Score =  114 bits (289), Expect = 4e-28
 Identities = 35/131 (26%), Positives = 71/131 (54%), Gaps = 5/131 (3%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M VL ++DD+    +LE++L     +V    R   A K+L E    F++V+ D+ +PD++
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKH--FNVVLLDLLLPDVN 58

Query: 84  GFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G ++L+ +     +  V++++ +   K  ++ +  GA D+L KP  +EE++ T    I  
Sbjct: 59  GLEILKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH 118

Query: 143 KKVDPKDQNRS 153
           +K+  + +N  
Sbjct: 119 RKL--RKENEL 127

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei} Length = 184

 Score =  108 bits (273), Expect = 7e-28
 Identities = 27/136 (19%), Positives = 57/136 (41%), Gaps = 3/136 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
              L +DD++     L + L    Y V   +    ALK+    +  F+ +   +++ +  
Sbjct: 8   KNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAEK--FEFITVXLHLGNDS 65

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  L+  L  L+ D  +++L+ Y+     ++ +  GA +YL KP  +E +    Q     
Sbjct: 66  GLSLIAPLCDLQPDARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASE 125

Query: 143 KKVDPKDQNRSPHEFE 158
            + +   +N      +
Sbjct: 126 VQAEEALENPVVLSVD 141

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A Length = 368

 Score =  112 bits (284), Expect = 1e-27
 Identities = 36/134 (26%), Positives = 59/134 (44%), Gaps = 5/134 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL VDD+++    L   L E  Y          A K ++E    F +++ DV+MPD DG
Sbjct: 2   RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKELF--FPVIVLDVWMPDGDG 59

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
              ++ +     D  V++++ +      +K I  GA ++L KP  +E    T +H     
Sbjct: 60  VNFIDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEY 119

Query: 144 KVDPKDQNRSPHEF 157
               K   +   EF
Sbjct: 120 SK--KAPPQEEIEF 131

>1dc7_A NTRC, nitrogen regulation protein; receiver domain, phosphorylation, signal transduction, conformational rearrangement; NMR {Salmonella typhimurium} SCOP: c.23.1.1 PDB: 1j56_A 1krw_A 1krx_A 1ntr_A 1dc8_A* Length = 124

 Score =  106 bits (266), Expect = 1e-27
 Identities = 36/119 (30%), Positives = 55/119 (46%), Gaps = 7/119 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  VDDD +   +LE+ L       T        L  L       D+++SD+ MP MDG
Sbjct: 5   IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKT--PDVLLSDIRMPGMDG 62

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             LL+ +      LPV++++A+SD    +     GA DYL KP  ++E       ++ R
Sbjct: 63  LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVA----LVER 117

>3hdv_A Response regulator; PSI-II, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.09A {Pseudomonas putida} Length = 136

 Score =  104 bits (263), Expect = 4e-27
 Identities = 27/122 (22%), Positives = 54/122 (44%), Gaps = 3/122 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            VL VDD+    + L  +L+    +    + A  A   L   +    L+I+D+ M    G
Sbjct: 9   LVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHY-QKRIGLMITDLRMQPESG 67

Query: 85  FKLLELVGLE--MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             L+  +       L ++++S  +D +  +  ++ G  D+LLKPV + +L       ++ 
Sbjct: 68  LDLIRTIRASERAALSIIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKI 127

Query: 143 KK 144
            +
Sbjct: 128 GE 129

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score =  104 bits (262), Expect = 8e-27
 Identities = 27/130 (20%), Positives = 56/130 (43%), Gaps = 4/130 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYM-PDM 82
            VL V+D +     L   L    Y+V  V +    A++   + R   D+ + D+ +   +
Sbjct: 11  GVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLR--PDIALVDIMLCGAL 68

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           DG +    +    +LP++ +++  D +   +        YL KPV  + L  + +  I +
Sbjct: 69  DGVETAARLAAGCNLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHK 128

Query: 143 KKVDPKDQNR 152
           KK++    + 
Sbjct: 129 KKLEEGHHHH 138

>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator, structural proteomics in europe, spine, structural genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1p6u_A Length = 129

 Score =  102 bits (256), Expect = 4e-26
 Identities = 39/125 (31%), Positives = 60/125 (48%), Gaps = 6/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++VL VDD  T   +L   L++  ++ +T        +K++ +N     LVISD  MP M
Sbjct: 7   IKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNP--HHLVISDFNMPKM 64

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG  LL+ V           ++L+A  D  LV K    GA + L KP  +E++K   + V
Sbjct: 65  DGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAV 124

Query: 140 IRRKK 144
               K
Sbjct: 125 FGALK 129

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score =  100 bits (252), Expect = 2e-25
 Identities = 29/133 (21%), Positives = 49/133 (36%), Gaps = 9/133 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RV  VDDD     +L+  +      V        A   L  N+   D++I D+ MPDMDG
Sbjct: 5   RVFIVDDDTLTCNLLKTIVEPIFGNVEAFQ-HPRAFLTLSLNK--QDIIILDLMMPDMDG 61

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVM-----KGINHGACDYLLKPVRMEELKNTWQH 138
            +++  L   +    ++++S Y    L               +   KP+  E L      
Sbjct: 62  IEVIRHLAEHKSPASLILISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTS 121

Query: 139 VIRRKKVDPKDQN 151
           +  R+       +
Sbjct: 122 LSNRQAEGHHHHH 134

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score =  100 bits (252), Expect = 2e-25
 Identities = 28/139 (20%), Positives = 59/139 (42%), Gaps = 7/139 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP-DMD 83
           ++L V+D +   K +   L +  Y V +      A++ +       DL++ D+ +   MD
Sbjct: 7   KILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGG-WYPDLILMDIELGEGMD 65

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
           G +    +    +LPVV L+A+++  +V K  +  A  Y++K    + L    +  +R  
Sbjct: 66  GVQTALAIQQISELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLY 125

Query: 144 KVDPKDQNRSPHEFEKSYR 162
           + +         E    + 
Sbjct: 126 EANVHAN-----EGHHHHH 139

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score =  106 bits (266), Expect = 2e-25
 Identities = 28/115 (24%), Positives = 50/115 (43%), Gaps = 6/115 (5%)

Query: 23  GMRVLAVDDDQTCLKILEKFLR-ECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
            + VL VDD     + + + L  E   +    +    A+ +  + +    +++ D+ MP 
Sbjct: 18  AVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQIK--PTVILQDLVMPG 75

Query: 82  MDGFKLLELV-GLEM--DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELK 133
           +DG  LL    G     D+P+++LS   +  +       GA DYL+K     EL 
Sbjct: 76  VDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELV 130

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score =   99 bits (250), Expect = 3e-25
 Identities = 25/124 (20%), Positives = 47/124 (37%), Gaps = 6/124 (4%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
             + L V+D Q   +  ++ L    ++         AL  +      +D V  D+ +PD 
Sbjct: 3   LQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRG--YDAVFIDLNLPDT 60

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            G  L++ +    +E     V +S ++   L  K        YL KP+ +  L+   Q +
Sbjct: 61  SGLALVKQLRALPMEKTSKFVAVSGFAKNDLG-KEACELFDFYLEKPIDIASLEPILQSI 119

Query: 140 IRRK 143
               
Sbjct: 120 EGHH 123

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 99.6 bits (249), Expect = 5e-25
 Identities = 35/138 (25%), Positives = 66/138 (47%), Gaps = 9/138 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD--- 81
            ++ VDD++  L  ++  L+    +V   +  ++   +LRE     ++V+ D+       
Sbjct: 5   TIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREEN--PEVVLLDMNFTSGIN 62

Query: 82  --MDGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
              +G   L  +     DLPVV+ +AY+D  L ++GI  GA D+++KP   ++L  T  +
Sbjct: 63  NGNEGLFWLHEIKRQYRDLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLN 122

Query: 139 VIRRKKVDPKDQNRSPHE 156
              + K D K +    H 
Sbjct: 123 AASQAK-DGKKEGHHHHH 139

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A* Length = 459

 Score =  106 bits (266), Expect = 7e-25
 Identities = 39/125 (31%), Positives = 62/125 (49%), Gaps = 5/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            R+L VDD +  +++LE  L    YEV+      TAL M   +    D+++ DV MP MD
Sbjct: 2   ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL--PDIILLDVMMPGMD 59

Query: 84  GFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           GF +   +        +PVV+++A       ++G+  GA D+L KP+    L    + + 
Sbjct: 60  GFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLT 119

Query: 141 RRKKV 145
           R K V
Sbjct: 120 RFKLV 124

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A* Length = 459

 Score = 88.7 bits (220), Expect = 4e-19
 Identities = 29/124 (23%), Positives = 51/124 (41%), Gaps = 7/124 (5%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            RVL VDD++   + +   L      V  ++     +          DLVI +    + D
Sbjct: 153 GRVLIVDDNERQAQRVAAELGVEHRPVIESDPEKAKI----SAGGPVDLVIVNAAAKNFD 208

Query: 84  GFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           G +    +  E     LPV+ +    D   ++K +  G  D L +P+  +EL    +  I
Sbjct: 209 GLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQI 268

Query: 141 RRKK 144
           +RK+
Sbjct: 269 QRKR 272

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A* Length = 259

 Score =  102 bits (256), Expect = 8e-25
 Identities = 34/126 (26%), Positives = 58/126 (46%), Gaps = 6/126 (4%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            + VL VDD +T        LR+   +V   + A  AL  L ++     LV+ D YMP++
Sbjct: 124 QIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHPA-IRLVLVDYYMPEI 182

Query: 83  DGFKLLELV----GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
           DG  L+ ++      +  L ++ +S      L  + +  GA D+L +P   EEL+    H
Sbjct: 183 DGISLVRMLRERYSKQ-QLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSH 241

Query: 139 VIRRKK 144
            +   +
Sbjct: 242 NLEALE 247

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A* Length = 259

 Score = 97.7 bits (244), Expect = 3e-23
 Identities = 21/108 (19%), Positives = 48/108 (44%), Gaps = 3/108 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L V+D  T  ++L + + +           +   +  + +   + + + D+ +PD   
Sbjct: 6   KILIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARHCQGDE--YVVALVDLTLPDAPS 63

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            + ++++ LE  LPVV+L+A          +  G  DY++K  R    
Sbjct: 64  GEAVKVL-LERGLPVVILTADISEDKREAWLEAGVLDYVMKDSRHSLQ 110

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score =  104 bits (262), Expect = 1e-24
 Identities = 33/155 (21%), Positives = 72/155 (46%), Gaps = 4/155 (2%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
            +   +L +DDD+   + L  +L +  ++V      +  L++    +   DLVI D+ MP
Sbjct: 3   KVSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQ--PDLVICDLRMP 60

Query: 81  DMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQH 138
            +DG +L+  +     + P+++LS        ++ +  GA DYL+KP+  +  L+++ + 
Sbjct: 61  QIDGLELIRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRR 120

Query: 139 VIRRKKVDPKDQNRSPHEFEKSYRKRKDQDGEDED 173
            + R  +  ++Q         +   +   +   ED
Sbjct: 121 ALDRAYLRVENQRYRDKLEAANRELQASLNLLQED 155

>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A Length = 155

 Score = 99.2 bits (248), Expect = 1e-24
 Identities = 35/119 (29%), Positives = 60/119 (50%), Gaps = 7/119 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  +DDD+   K +++ L    + V+    A  AL  L  +     +VISD+ MP MDG
Sbjct: 5   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADF--AGIVISDIRMPGMDG 62

Query: 85  FKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             L   ++ L+ DLP+++++ + D  + ++ I  GA D++ KP   + L        RR
Sbjct: 63  LALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLV----QSARR 117

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1} Length = 132

 Score = 98.3 bits (245), Expect = 1e-24
 Identities = 33/132 (25%), Positives = 62/132 (46%), Gaps = 5/132 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDDD   L   ++ L    YEV +   A   L  +      F+L +  + +PDM+G
Sbjct: 5   RILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENEF--FNLALFXIKLPDMEG 62

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            +LL +   L   +  +M++ Y+  +  +  +N GA  Y++KPV   +L    +  +  +
Sbjct: 63  TELLEKAHKLRPGMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDEQ 122

Query: 144 KVDPKDQNRSPH 155
           +   +  +   H
Sbjct: 123 EK--EGHHHHHH 132

>1jbe_A Chemotaxis protein CHEY; signaling protein; 1.08A {Escherichia coli} SCOP: c.23.1.1 PDB: 3chy_A 1a0o_A 1cey_A 1bdj_A 1eay_A 1f4v_A 1ffg_A 1ffs_A 1ffw_A 1fqw_A 2b1j_A 1chn_A 1djm_A 1kmi_Y* 1d4z_A 3olx_A 3olw_A 1cye_A 2che_A 2chf_A ... Length = 128

 Score = 97.7 bits (244), Expect = 2e-24
 Identities = 34/125 (27%), Positives = 59/125 (47%), Gaps = 10/125 (8%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRA---ITALKMLRENRNNFDLVISDVYMP 80
           ++ L VDD  T  +I+   L+E  +       A   + AL  L+     +  VISD  MP
Sbjct: 5   LKFLVVDDFSTMRRIVRNLLKELGFNNVEE--AEDGVDALNKLQAGG--YGFVISDWNMP 60

Query: 81  DMDGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQ 137
           +MDG +LL+ +        LPV+M++A +  + ++     GA  Y++KP     L+    
Sbjct: 61  NMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLN 120

Query: 138 HVIRR 142
            +  +
Sbjct: 121 KIFEK 125

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 96.5 bits (241), Expect = 4e-24
 Identities = 33/126 (26%), Positives = 59/126 (46%), Gaps = 4/126 (3%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           G ++L V+D+Q    +L+ +         +    + AL++L       DL+I D+ MP M
Sbjct: 7   GKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFT--PDLMICDIAMPRM 64

Query: 83  DGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVR-MEELKNTWQHVI 140
           +G KLL  +       PV+++SA  +   + K +  G  D LLKPV+ +  L+      +
Sbjct: 65  NGLKLLEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACL 124

Query: 141 RRKKVD 146
                +
Sbjct: 125 YPSMFN 130

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 97.0 bits (242), Expect = 5e-24
 Identities = 27/132 (20%), Positives = 51/132 (38%), Gaps = 11/132 (8%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRE--CQYEVTVTNRAITALKMLRE---NRNNFDLVISDV 77
              VL +DDD     +    +R      E+        A+  L E         ++  D+
Sbjct: 9   IDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGRWPSIICIDI 68

Query: 78  YMPDMDGFKLLELV-----GLEMDLPVVMLSAYSDTKLVMKG-INHGACDYLLKPVRMEE 131
            MP ++G++L++L       ++    V +LS+  D +   K   +     Y+ KP+    
Sbjct: 69  NMPGINGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANA 128

Query: 132 LKNTWQHVIRRK 143
           L N +  V+   
Sbjct: 129 LNNLYNKVLNEG 140

>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm, flagellar rotatio magnesium, metal-binding, phosphoprotein; 1.70A {Helicobacter pylori} PDB: 3gwg_A 3h1e_A 3h1f_A Length = 129

 Score = 95.3 bits (238), Expect = 1e-23
 Identities = 32/124 (25%), Positives = 62/124 (50%), Gaps = 5/124 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVT-NRAITALKMLRENRNNFDLVISDVYMPDM 82
           M++L VDD  T  +I++  L    YE  +     + A + L  N +   ++I+D  MP+M
Sbjct: 6   MKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANAD-TKVLITDWNMPEM 64

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           +G  L++ V       ++P++M++A      V+  +  G  +Y++KP   + LK   + V
Sbjct: 65  NGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVV 124

Query: 140 IRRK 143
           +   
Sbjct: 125 LGTN 128

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi} Length = 157

 Score = 95.7 bits (238), Expect = 2e-23
 Identities = 30/123 (24%), Positives = 54/123 (43%), Gaps = 6/123 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRA---ITALKMLRENRNNFDLVISDVYMP 80
             VL VDD    +K L +      + +  T  A     A+   + +  N D+V   + MP
Sbjct: 37  FNVLIVDDSVFTVKQLTQIFTSEGFNIIDT--AADGEEAVIKYKNHYPNIDIVTLXITMP 94

Query: 81  DMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            MDG   L  ++  + +  V+M+SA    +LV   +  GA  +++KP+   ++      V
Sbjct: 95  KMDGITCLSNIMEFDKNARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSV 154

Query: 140 IRR 142
             +
Sbjct: 155 FVK 157

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 95.8 bits (239), Expect = 2e-23
 Identities = 37/137 (27%), Positives = 66/137 (48%), Gaps = 5/137 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L V+D  T  + L+  L E  Y+         A++ L   R   DL+ISDV MP+MDG
Sbjct: 9   EILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTR--PDLIISDVLMPEMDG 66

Query: 85  F---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           +   + L+       +PV++L+  SD + V++ +  GA D++ KP +   L +  + ++ 
Sbjct: 67  YALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLS 126

Query: 142 RKKVDPKDQNRSPHEFE 158
             K   +  +R      
Sbjct: 127 GVKRTEERYSRESITLA 143

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 95.0 bits (237), Expect = 2e-23
 Identities = 27/135 (20%), Positives = 53/135 (39%), Gaps = 6/135 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L  +DD    ++L   L +  ++  + + A  AL+ +      +  +  D+ +PD DG
Sbjct: 8   RILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVARRP--YAAMTVDLNLPDQDG 65

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTK-LVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
             L+  +       DL +V++SA +    L           +L KP+    L  +    I
Sbjct: 66  VSLIRALRRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAI 125

Query: 141 RRKKVDPKDQNRSPH 155
                  +  +   H
Sbjct: 126 DNMAEGKEGHHHHHH 140

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 93.8 bits (234), Expect = 5e-23
 Identities = 31/123 (25%), Positives = 62/123 (50%), Gaps = 6/123 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRA---ITALKMLRENRNNFDLVISDVYMP 80
           +R+L VDD++     L   +          ++A   I A+++  ++    +++++DV MP
Sbjct: 3   LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALKHP--PNVLLTDVRMP 60

Query: 81  DMDGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            MDG +L++ +  L  D  V+ +S YSD + +   I   A  Y+ KP+   E+ +  +  
Sbjct: 61  RMDGIELVDNILKLYPDCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQS 120

Query: 140 IRR 142
           I+ 
Sbjct: 121 IQT 123

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea} Length = 143

 Score = 93.8 bits (234), Expect = 6e-23
 Identities = 27/136 (19%), Positives = 57/136 (41%), Gaps = 7/136 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            +L ++DD+    +L +FL       ++ +      A  +L       D+V+ D+ M  M
Sbjct: 10  SILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHTV--KPDVVMLDLMMVGM 67

Query: 83  DGFKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DGF +   +       ++ V+ ++       V + +  GA     KP+    L+ T + +
Sbjct: 68  DGFSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQL 127

Query: 140 IRRKKVDPKDQNRSPH 155
           + +KK   +  +   H
Sbjct: 128 VEQKKATSEGHHHHHH 143

>1s8n_A Putative antiterminator; RV1626, structural genomics, transcriptional antiterminator, component system, PSI; 1.48A {Mycobacterium tuberculosis} SCOP: c.23.1.1 PDB: 1sd5_A Length = 205

 Score = 95.5 bits (238), Expect = 7e-23
 Identities = 36/121 (29%), Positives = 59/121 (48%), Gaps = 3/121 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           RVL  +D+      L + LRE  YE+         A+++   ++   DLVI DV MP  D
Sbjct: 15  RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHK--PDLVIMDVKMPRRD 72

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
           G      +  +   P+V+L+A+S   LV +  + GA  YL+KP  + +L    +  + R 
Sbjct: 73  GIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRF 132

Query: 144 K 144
           +
Sbjct: 133 R 133

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1} Length = 138

 Score = 92.6 bits (231), Expect = 2e-22
 Identities = 34/135 (25%), Positives = 53/135 (39%), Gaps = 5/135 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L VDD    + +    L    Y           L+ L       DLV+ D+ M  MDG
Sbjct: 5   TILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNATP--PDLVLLDIMMEPMDG 62

Query: 85  F---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           +   + ++      D+PV+ML+A   T            DY+LKP    +L    +HV+ 
Sbjct: 63  WETLERIKTDPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLA 122

Query: 142 RKKVDPKDQNRSPHE 156
           R+     D+    H 
Sbjct: 123 RRHSIAADEGHHHHH 137

>3n53_A Response regulator receiver modulated diguanylate; diguanylate cyclase, protein structure I II(PSI II), NYSGXRC, structural genomics; 2.20A {Pelobacter carbinolicus} Length = 140

 Score = 92.6 bits (231), Expect = 2e-22
 Identities = 28/138 (20%), Positives = 59/138 (42%), Gaps = 6/138 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L +D        L+ FL   +Y V  +     AL+ +  +  + DLVI D+ +   + 
Sbjct: 5   KILIIDQQDFSRIELKNFLDS-EYLVIESKNEKEALEQIDHH--HPDLVILDMDIIGENS 61

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
             L   +       ++P+++L +    + ++ G++ GA DYL KP    +L +  +  +R
Sbjct: 62  PNLCLKLKRSKGLKNVPLILLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLR 121

Query: 142 RKKVDPKDQNRSPHEFEK 159
            +      +    H    
Sbjct: 122 TQNYYSDLRKNEGHHHHH 139

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 91.6 bits (228), Expect = 3e-22
 Identities = 22/110 (20%), Positives = 42/110 (38%), Gaps = 4/110 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQ-YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           +V     D    + +   L     Y+V V+           + R    +VI D+   D+ 
Sbjct: 16  QVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADTR--PGIVILDLGGGDLL 73

Query: 84  GFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G   +     L   +P++ +S    ++     +   A D+L KP+  +EL
Sbjct: 74  GKPGIVEARALWATVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGKEL 123

>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixatio regulation; HET: 15P; 1.60A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A* 1dcm_A 1d5w_A* Length = 126

 Score = 90.6 bits (226), Expect = 4e-22
 Identities = 28/109 (25%), Positives = 55/109 (50%), Gaps = 3/109 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  VDD++   K L   L    + V +   A   L    + R    ++++D+ MPDM G
Sbjct: 5   TVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR--NGVLVTDLRMPDMSG 62

Query: 85  FKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            +LL  L  L++++P ++++ + D  + ++ +  GA D++ KP     +
Sbjct: 63  VELLRNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVI 111

>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA binding domain, phosphorylation; 1.58A {Mycobacterium tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A Length = 233

 Score = 94.1 bits (235), Expect = 4e-22
 Identities = 43/110 (39%), Positives = 60/110 (54%), Gaps = 3/110 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            RVL VDDD   L  LE+ LR   +EV        AL+   ENR   D ++ D+ MP +D
Sbjct: 8   PRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR--PDAIVLDINMPVLD 65

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G  ++  L  ++ D+PV +LSA S     + G+  GA DYL+KP  + EL
Sbjct: 66  GVSVVTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAEL 115

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 90.7 bits (226), Expect = 5e-22
 Identities = 30/131 (22%), Positives = 54/131 (41%), Gaps = 7/131 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL V++  T  + L   L   +++ T      + L+    +    D++ISDV M  MDG
Sbjct: 6   KVLIVENSWTMRETLRLLLSG-EFDCTTAADGASGLQQALAHP--PDVLISDVNMDGMDG 62

Query: 85  FKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           + L      E     +PV+ +S Y+               YL+KPV+   L      ++ 
Sbjct: 63  YALCGHFRSEPTLKHIPVIFVSGYAPRTEG-PADQPVPDAYLVKPVKPPVLIAQLHALLA 121

Query: 142 RKKVDPKDQNR 152
           R + +    + 
Sbjct: 122 RAEAEGHHHHH 132

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis} Length = 250

 Score = 94.0 bits (233), Expect = 7e-22
 Identities = 44/135 (32%), Positives = 64/135 (47%), Gaps = 3/135 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            RVL VDD+   +++L   L+   +EV        AL   RE R   D VI DV MP MD
Sbjct: 24  ARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETR--PDAVILDVXMPGMD 81

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           GF +L  L    +D P + L+A    +  + G+  G  DY+ KP  +EE+    + ++RR
Sbjct: 82  GFGVLRRLRADGIDAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRR 141

Query: 143 KKVDPKDQNRSPHEF 157
                K+       F
Sbjct: 142 AGKGNKEPRNVRLTF 156

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum} Length = 140

 Score = 90.4 bits (225), Expect = 8e-22
 Identities = 20/125 (16%), Positives = 52/125 (41%), Gaps = 6/125 (4%)

Query: 25  RVLAVDDDQTCLKILEKFL-RECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP-DM 82
            VL +D  +   +  +       +Y+            + ++  ++  L+I D+  P + 
Sbjct: 6   TVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKD-LDSITLIIMDIAFPVEK 64

Query: 83  DGFKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           +G ++L  +       + PV++ +   +       +     DY+LKP   + L+N+ + V
Sbjct: 65  EGLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSV 124

Query: 140 IRRKK 144
           ++  +
Sbjct: 125 LKICQ 129

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 90.7 bits (226), Expect = 8e-22
 Identities = 27/129 (20%), Positives = 52/129 (40%), Gaps = 5/129 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R++ VD     L      L +  +++     AI A+ +  +      L+I++  MP + G
Sbjct: 10  RIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVKTH--PHLIITEANMPKISG 67

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
             L   +        +PV+ LS  +  K   + ++ G  D++ KPV    L    + V++
Sbjct: 68  MDLFNSLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLK 127

Query: 142 RKKVDPKDQ 150
               D    
Sbjct: 128 LLYEDLSAP 136

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 93.0 bits (232), Expect = 1e-21
 Identities = 32/109 (29%), Positives = 59/109 (54%), Gaps = 2/109 (1%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            R+L ++DD     +L   L +  Y V   + A+  L   RE+  + DL++ D+ +PD D
Sbjct: 38  QRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKARED--HPDLILLDLGLPDFD 95

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G  +++ +     LP+++L+A    +  ++ +  GA DYL+KP   +EL
Sbjct: 96  GGDVVQRLRKNSALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDEL 144

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 89.5 bits (223), Expect = 1e-21
 Identities = 27/111 (24%), Positives = 51/111 (45%), Gaps = 4/111 (3%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            R+L VDDDQ     +E+ L+   ++V + +    A   L        ++  D+ MP +D
Sbjct: 7   KRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTFE--PAIMTLDLSMPKLD 64

Query: 84  GFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G  ++  +      + P +++ +  D   + + +  GA DYL KP   + L
Sbjct: 65  GLDVIRSLRQNKVANQPKILVVSGLDKAKLQQAVTEGADDYLEKPFDNDAL 115

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A Length = 286

 Score = 94.1 bits (234), Expect = 1e-21
 Identities = 25/126 (19%), Positives = 55/126 (43%), Gaps = 6/126 (4%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYM 79
            +   VL ++D+      +E  +RE  ++VT +      AL+ +        LV++D+ +
Sbjct: 158 ELATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRT--PGLVLADIQL 215

Query: 80  PD-MDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH 138
            D   G   ++ +   MD+PV+ ++A+ +   ++ G        + KP + E +K     
Sbjct: 216 ADGSSGIDAVKDILGRMDVPVIFITAFPER--LLTGERPEPTFLITKPFQPETVKAAIGQ 273

Query: 139 VIRRKK 144
            +    
Sbjct: 274 ALFFHP 279

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 89.6 bits (223), Expect = 2e-21
 Identities = 28/139 (20%), Positives = 60/139 (43%), Gaps = 12/139 (8%)

Query: 24  MRVLAVDDDQTCLKILEKFLREC-QYEV--TVTNRAITALKMLRENRNNFDLVISDVYMP 80
           M+V+ V+D+    + L   +    Q E+  +  +  +  LK L+ N+   D +  D+ +P
Sbjct: 10  MKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDD-GLDVLKFLQHNK--VDAIFLDINIP 66

Query: 81  DMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            +DG  L + +        +V ++A+ +  +  +     A DY+LKP +   + N  Q +
Sbjct: 67  SLDGVLLAQNISQFAHKPFIVFITAWKEHAV--EAFELEAFDYILKPYQESRIINMLQKL 124

Query: 140 IRR---KKVDPKDQNRSPH 155
                 +    +  +   H
Sbjct: 125 TTAWEQQNNAAEGHHHHHH 143

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11 Length = 64

 Score = 86.9 bits (215), Expect = 2e-21
 Identities = 41/63 (65%), Positives = 52/63 (82%), Gaps = 5/63 (7%)

Query: 187 TTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSL 241
           T QKKPRV+WT ELH KF+ AV+ LG+++AVPKKILDLMNV+ LTRENV     KFR++L
Sbjct: 1   TAQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVAL 60

Query: 242 KRL 244
           K++
Sbjct: 61  KKV 63

>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A* Length = 225

 Score = 91.7 bits (229), Expect = 2e-21
 Identities = 37/112 (33%), Positives = 65/112 (58%), Gaps = 3/112 (2%)

Query: 22  IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           + +RVL V+D++    ++ + L++  + V V       + M       FD+VI D+ +P 
Sbjct: 1   MNVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN--EPFDVVILDIMLPV 58

Query: 82  MDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            DG+++L+ +    ++ PV+ML+A SD +  +KG+N GA DYL KP  + EL
Sbjct: 59  HDGWEILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLREL 110

>1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A Length = 208

 Score = 91.2 bits (227), Expect = 3e-21
 Identities = 31/119 (26%), Positives = 59/119 (49%), Gaps = 3/119 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  VDDD +  + L   LR   +EV   + A T L+  R  +     ++ D+ MP M G
Sbjct: 6   TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQ--HGCLVLDMRMPGMSG 63

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
            +L  +L  +   +P+V ++A+ D  + ++ +  GA ++L KP   + L +  +  ++ 
Sbjct: 64  IELQEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL 122

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 88.3 bits (220), Expect = 4e-21
 Identities = 29/133 (21%), Positives = 64/133 (48%), Gaps = 2/133 (1%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            ++L +D D+   + L+ FL E    + +      A+  +  N   +DL+  ++ + D D
Sbjct: 5   TKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSN--KYDLIFLEIILSDGD 62

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
           G+ L + +      P+V ++  ++ + ++  +N G  DYL+KP+ +E L    + ++RR 
Sbjct: 63  GWTLCKKIRNVTTCPIVYMTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRM 122

Query: 144 KVDPKDQNRSPHE 156
                ++    H 
Sbjct: 123 NSYVNNEGHHHHH 135

>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A Length = 121

 Score = 87.9 bits (219), Expect = 4e-21
 Identities = 35/120 (29%), Positives = 64/120 (53%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MRVL V+D+      L+  +++  ++V     A  A   L E+    D+ I D+ +PD D
Sbjct: 1   MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI--PDIAIVDLGLPDED 58

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  L+      ++ LP+++L+A    +  ++ ++ GA DY+ KP  +EE+    Q ++RR
Sbjct: 59  GLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR 118

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 86.3 bits (215), Expect = 1e-20
 Identities = 34/109 (31%), Positives = 58/109 (53%), Gaps = 5/109 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDD+    ++L++ L+E  YE+        ALK       N+DLVI D+ MP + G
Sbjct: 3   RILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFS--GNYDLVILDIEMPGISG 60

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            ++  E+   + D  +++L+AYS  +  M      A +Y++K    +EL
Sbjct: 61  LEVAGEIRKKKKDAKIILLTAYSHYRSDMSSW--AADEYVVKSFNFDEL 107

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae} Length = 132

 Score = 86.1 bits (214), Expect = 2e-20
 Identities = 25/125 (20%), Positives = 55/125 (44%), Gaps = 7/125 (5%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD- 81
            + +L  DD+   L   E  L +  + VT  +    A++ML+      D V++D+     
Sbjct: 5   AVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGA-AIDGVVTDIRFCQP 63

Query: 82  MDGFKLLELVGLEM--DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
            DG+++  +   E+  ++P+V +S ++  +    G+       L KP    +L      +
Sbjct: 64  PDGWQVARVA-REIDPNMPIVYISGHAALEWASNGVPDSI--ILEKPFTSAQLITAVSQL 120

Query: 140 IRRKK 144
           +  ++
Sbjct: 121 LNARE 125

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 85.3 bits (212), Expect = 6e-20
 Identities = 29/134 (21%), Positives = 57/134 (42%), Gaps = 5/134 (3%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V+ VDDD      ++  L +  + +   +     + +L++      +V+ D+ MP MDG
Sbjct: 9   DVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGF--SGVVLLDIMMPGMDG 66

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
           +  +  +    LE  + +VML+A +     M G+     DY+ KP   E+L       + 
Sbjct: 67  WDTIRAILDNSLEQGIAIVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMG 126

Query: 142 RKKVDPKDQNRSPH 155
             +    ++    H
Sbjct: 127 FVRNQTGNEGHHHH 140

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A Length = 238

 Score = 87.6 bits (218), Expect = 8e-20
 Identities = 42/125 (33%), Positives = 71/125 (56%), Gaps = 2/125 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L VDDD +  ++L   LR   ++  V      AL  +RE R   DLV+ D+ +P M+G
Sbjct: 7   RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRELR--PDLVLLDLMLPGMNG 64

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
             +  ++  +  +P+VML+A +DT  V+ G+  GA DY++KP + +EL    +  +RR  
Sbjct: 65  IDVCRVLRADSGVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRRND 124

Query: 145 VDPKD 149
            +P +
Sbjct: 125 DEPAE 129

>1tmy_A CHEY protein, TMY; chemotaxis, phosphoryl transfer, signal transduction; 1.90A {Thermotoga maritima} SCOP: c.23.1.1 PDB: 2tmy_A 3tmy_A 4tmy_A 1u0s_Y Length = 120

 Score = 84.1 bits (209), Expect = 8e-20
 Identities = 33/122 (27%), Positives = 61/122 (50%), Gaps = 10/122 (8%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEV--TVTN--RAITALKMLRENRNNFDLVISDVYMP 80
           RVL VDD      +L+  + +  YEV    TN   A+   K L+      D+V  D+ MP
Sbjct: 4   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELKP-----DIVTMDITMP 58

Query: 81  DMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           +M+G   + E++ ++ +  +++ SA     +V++ I  GA D+++KP +   +      V
Sbjct: 59  EMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 118

Query: 140 IR 141
            +
Sbjct: 119 SK 120

>2b4a_A BH3024; flavodoxin-like fold, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 2.42A {Bacillus halodurans} SCOP: c.23.1.1 Length = 138

 Score = 83.8 bits (208), Expect = 1e-19
 Identities = 25/110 (22%), Positives = 46/110 (41%), Gaps = 5/110 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            RV  V+D+ +   +++  L +   EVTV        +   +  +  DL+I    + D+ 
Sbjct: 16  FRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQL-STCDLLIVSDQLVDLS 74

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            F LL  +        V++L+       +++   H    YL KP  + EL
Sbjct: 75  IFSLLDIVKEQTKQPSVLILTTGRHE--LIESSEHNL-SYLQKPFAISEL 121

>1mb3_A Cell division response regulator DIVK; signal transduction protein, structural proteomics in europe, spine, structural genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1 PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A Length = 124

 Score = 83.3 bits (207), Expect = 2e-19
 Identities = 34/127 (26%), Positives = 62/127 (48%), Gaps = 15/127 (11%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL V+D++  +K+    L    YE   T   ++AL + REN+   DL++ D+ +P++ G
Sbjct: 3   KVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK--PDLILMDIQLPEISG 60

Query: 85  F---KLLELVGLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRMEELKNTW 136
               K L+       +PVV ++A+      MKG        G   Y+ KP+ +     T 
Sbjct: 61  LEVTKWLKEDDDLAHIPVVAVTAF-----AMKGDEERIREGGCEAYISKPISVVHFLETI 115

Query: 137 QHVIRRK 143
           + ++ R+
Sbjct: 116 KRLLERQ 122

>2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV} Length = 230

 Score = 86.4 bits (215), Expect = 2e-19
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 2/133 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            VL V+D+++    L   LR+  +E TV      AL          D+V+ D+ +P M G
Sbjct: 6   SVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRA--GADIVLLDLMLPGMSG 63

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
             + + +     +PV+M++A       + G+  GA DY+ KP    EL    + V+RR  
Sbjct: 64  TDVCKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGG 123

Query: 145 VDPKDQNRSPHEF 157
            D  + +    E 
Sbjct: 124 DDDSEMSDGVLES 136

>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A Length = 121

 Score = 82.1 bits (204), Expect = 4e-19
 Identities = 32/108 (29%), Positives = 50/108 (46%), Gaps = 2/108 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            VL V+D+Q   + L   L      V         L      +   DL+I D+ +PD DG
Sbjct: 3   NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK--PDLIILDLGLPDGDG 60

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            + +  +     +PV++LSA S+    +  ++ GA DYL KP  + EL
Sbjct: 61  IEFIRDLRQWSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGEL 108

>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver domain, cytoplasm, DNA-binding, phosphoprotein, transcription regulation; 1.95A {Bacillus subtilis} PDB: 2zwm_A Length = 120

 Score = 82.1 bits (204), Expect = 5e-19
 Identities = 36/108 (33%), Positives = 60/108 (55%), Gaps = 2/108 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    ILE  LR+  YEV   +    A++M+ E     DL++ D+ +P+ DG
Sbjct: 4   KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEEL--QPDLILLDIMLPNKDG 61

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            ++   V  + D+P++ML+A       + G+  GA DY+ KP    EL
Sbjct: 62  VEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTREL 109

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 83.1 bits (206), Expect = 5e-19
 Identities = 24/128 (18%), Positives = 57/128 (44%), Gaps = 10/128 (7%)

Query: 25  RVLAVDDDQTCLKILEKFLREC--QYEVTVTNRAITALKMLRE-----NRNNFDLVISDV 77
            +L V+D +   +++++ L+     +E+ +    + A+  L++     N    +L++ D+
Sbjct: 10  VILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDL 69

Query: 78  YMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            +P  DG ++L  +        +PVV+L+   +   V+         YL K   +++L  
Sbjct: 70  NLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFK 129

Query: 135 TWQHVIRR 142
             Q +   
Sbjct: 130 MVQGIESF 137

>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1 PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A 2a9q_A 1nxt_A* 2a9r_A* Length = 120

 Score = 81.7 bits (203), Expect = 6e-19
 Identities = 31/110 (28%), Positives = 57/110 (51%), Gaps = 6/110 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    I++  + +  YEV        AL+         D++I D+ +P++DG
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAE--QPDIIILDLMLPEIDG 60

Query: 85  FKLLELVGLEMDLPVVMLSAYSDT--KLVMKGINHGACDYLLKPVRMEEL 132
            ++ + +     +P++MLSA      K++  G+  GA DY+ KP    EL
Sbjct: 61  LEVAKTIRKTSSVPILMLSAKDSEFDKVI--GLELGADDYVTKPFSNREL 108

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus} Length = 119

 Score = 81.4 bits (202), Expect = 7e-19
 Identities = 19/113 (16%), Positives = 41/113 (36%), Gaps = 8/113 (7%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
              +L ++++     ++ + L    ++V       TAL  L   +    +++     PD 
Sbjct: 1   AGHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDLLQ--PIVILMAWPPPDQ 58

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
               LL+ +     +   P+V+         V   +   A   L KP+  + L
Sbjct: 59  SCLLLLQHLREHQADPHPPLVLFLGEPP---VDPLLTAQASAILSKPLDPQLL 108

>3t6k_A Response regulator receiver; flavodoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: MSE; 1.86A {Chloroflexus aurantiacus} Length = 136

 Score = 81.8 bits (203), Expect = 7e-19
 Identities = 43/116 (37%), Positives = 59/116 (50%), Gaps = 8/116 (6%)

Query: 23  GM---RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM 79
           GM    +L VDDD T  ++LE  LR   YEV        AL+ + +N    D +I DV +
Sbjct: 1   GMKPHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYKNL--PDALICDVLL 58

Query: 80  PDMDGF---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           P +DG+   K +    L   LP++ML+A  D    + G   GA DYL KP   +EL
Sbjct: 59  PGIDGYTLCKRVRQHPLTKTLPILMLTAQGDISAKIAGFEAGANDYLAKPFEPQEL 114

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 81.5 bits (202), Expect = 1e-18
 Identities = 25/120 (20%), Positives = 57/120 (47%), Gaps = 11/120 (9%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLR----ENRNNFDLVISD 76
            + +L ++DD+  ++ +E+   +     ++ +      AL ML     EN+ +  L++ D
Sbjct: 7   KVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLD 66

Query: 77  VYMPDMDGFKLLELV----GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           + +P M+G + L+ +        D+ V +L+A   +K  +   +     +L+KP+   E 
Sbjct: 67  INIPKMNGIEFLKELRDDSSFT-DIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEA 125

>1zgz_A Torcad operon transcriptional regulatory protein; two-component system, gene regulation, transcription factor, respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1 Length = 122

 Score = 80.2 bits (199), Expect = 2e-18
 Identities = 26/110 (23%), Positives = 56/110 (50%), Gaps = 6/110 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            ++ V+D+      L+ +  +  Y V+VT       ++++      DL++ D+ +PD +G
Sbjct: 4   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQS--VDLILLDINLPDENG 61

Query: 85  FKLLELVGLEMDLPVVMLSAYSDT--KLVMKGINHGACDYLLKPVRMEEL 132
             L   +     + +++++  SD   ++V  G+  GA DY+ KP+ + EL
Sbjct: 62  LMLTRALRERSTVGIILVTGRSDRIDRIV--GLEMGADDYVTKPLELREL 109

>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A Length = 123

 Score = 79.8 bits (198), Expect = 3e-18
 Identities = 26/110 (23%), Positives = 50/110 (45%), Gaps = 6/110 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L V+D+      L+       Y+V          ++L E   + +LVI D+ +P  +G
Sbjct: 5   HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE--YDINLVIMDINLPGKNG 62

Query: 85  FKLLELVGLEMDLPVVMLSAYSDT--KLVMKGINHGACDYLLKPVRMEEL 132
             L   +  + ++ ++ L+   +   K++  G+  GA DY+ KP    EL
Sbjct: 63  LLLARELREQANVALMFLTGRDNEVDKIL--GLEIGADDYITKPFNPREL 110

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori} Length = 223

 Score = 81.4 bits (202), Expect = 1e-17
 Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MRVL ++ +      +EK L    +   VT        ++     N+DLV+    + D +
Sbjct: 1   MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI--RNYDLVM----VSDKN 54

Query: 84  GFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP-VRMEEL 132
               +  +      + V++ S    ++  +     GA DY+ KP   ++ L
Sbjct: 55  ALSFVSRIKEKHSSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKAL 105

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 78.9 bits (195), Expect = 1e-17
 Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 12/121 (9%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRE-------NRNNFDLVI 74
           + ++ ++DD    +++EK +R      E+       +AL  L         +     LV+
Sbjct: 5   VTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVL 64

Query: 75  SDVYMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            D+ +PDM G  +L+LV         PVV+L+   D + + +  + GA  Y+ KPV  E 
Sbjct: 65  LDLNLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYEN 124

Query: 132 L 132
            
Sbjct: 125 F 125

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 78.4 bits (194), Expect = 1e-17
 Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 5/110 (4%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM--D 83
           +  VD  +     L K L      +     A + ++    +      +I + ++ D    
Sbjct: 9   IYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISDD--AIGMIIEAHLEDKKDS 66

Query: 84  GFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G +LLE LV     LP +++++ SD    ++ +   A D++ KP     L
Sbjct: 67  GIELLETLVKRGFHLPTIVMASSSDIPTAVRAMRASAADFIEKPFIEHVL 116

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 78.0 bits (193), Expect = 2e-17
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 19/133 (14%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            MR+L  DD +    +L++ L +  ++V   N A   L  + E    +D VI D++MP M
Sbjct: 14  SMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEED--YDAVIVDLHMPGM 71

Query: 83  DGF------KLLELVGLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRMEE 131
           +G       ++++  G+    PVV+LSA      V           GA  +L KPV   +
Sbjct: 72  NGLDMLKQLRVMQASGMR-YTPVVVLSAD-----VTPEAIRACEQAGARAFLAKPVVAAK 125

Query: 132 LKNTWQHVIRRKK 144
           L +T   +    +
Sbjct: 126 LLDTLADLAVSTR 138

>1k66_A Phytochrome response regulator RCPB; CHEY homologue, homodimer, APO-protein, (beta/alpha)5, signaling protein; 1.75A {Tolypothrix SP} SCOP: c.23.1.1 Length = 149

 Score = 77.7 bits (192), Expect = 3e-17
 Identities = 24/130 (18%), Positives = 56/130 (43%), Gaps = 13/130 (10%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRENRNNF--------DLVI 74
            +L V+D        ++ L+       +        AL  L +  +           +++
Sbjct: 8   PLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVIL 67

Query: 75  SDVYMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
            D+ +P  DG ++L+ +  +     +PVV+++  S+ K +    ++    Y++KP+ ++ 
Sbjct: 68  LDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDR 127

Query: 132 LKNTWQHVIR 141
           L  T Q  I+
Sbjct: 128 LTETVQTFIK 137

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A Length = 137

 Score = 77.2 bits (191), Expect = 3e-17
 Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 8/111 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MRVL ++ +      +EK L    +   VT        ++     N+DLV+    + D +
Sbjct: 19  MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI--RNYDLVM----VSDKN 72

Query: 84  GFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP-VRMEEL 132
               +  +      + V++ S    ++  +     GA DY+ KP   ++ L
Sbjct: 73  ALSFVSRIKEKHSSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKAL 123

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 76.9 bits (190), Expect = 4e-17
 Identities = 26/141 (18%), Positives = 55/141 (39%), Gaps = 23/141 (16%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            + VL  +D+  C  +  K L +C  ++TV    + AL+  +  +  FD++I D+ MP M
Sbjct: 10  PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNRQ--FDVIIMDIQMPVM 67

Query: 83  DGF------KLLELVGLEMDLPVVMLSAYSDTKLVMK------GINHGACDYLLKPVRME 130
           DG       +  E         ++ ++A       +        ++    +Y+ KP+   
Sbjct: 68  DGLEAVSEIRNYERTHNTKRASIIAITAD-----TIDDDRPGAELD----EYVSKPLNPN 118

Query: 131 ELKNTWQHVIRRKKVDPKDQN 151
           +L++                +
Sbjct: 119 QLRDVVLTCHSEGAEGHHHHH 139

>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A* Length = 220

 Score = 78.7 bits (195), Expect = 7e-17
 Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 6/109 (5%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++  VDDD+  LK + + L +    V         L     +   F +V+ DV +PD  G
Sbjct: 4   KIAVVDDDKNILKKVSEKL-QQLGRVKTFLTGEDFL----NDEEAFHVVVLDVMLPDYSG 58

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           +++   +     +  V++L+  SD + V+KG   GA DY+ KP   E L
Sbjct: 59  YEICRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEIL 107

>1mvo_A PHOP response regulator; phosphate regulon, transcriptional regulatory protein, alpha/beta doubly wound fold, phosphorylation; 1.60A {Bacillus subtilis} SCOP: c.23.1.1 Length = 136

 Score = 76.0 bits (188), Expect = 8e-17
 Identities = 34/133 (25%), Positives = 66/133 (49%), Gaps = 3/133 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD+++ + +L+  L    Y+V   +    ALK         DL++ DV +P +DG
Sbjct: 5   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETE--KPDLIVLDVMLPKLDG 62

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            ++  +L   ++  P++ML+A  +    + G+  GA DY+ KP    E+    + ++RR 
Sbjct: 63  IEVCKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRS 122

Query: 144 KVDPKDQNRSPHE 156
           ++          E
Sbjct: 123 EIRAPSSEMKNDE 135

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A Length = 254

 Score = 79.0 bits (195), Expect = 9e-17
 Identities = 37/128 (28%), Positives = 61/128 (47%), Gaps = 13/128 (10%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            M +L VDD     ++L   L    Y+    N  + AL +L +N    D+V+SDV MP+M
Sbjct: 129 DMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH--IDIVLSDVNMPNM 186

Query: 83  DGFKLLELV-GLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRMEELKNTW 136
           DG++L + +  L + LPV+ ++A       +       +  G    L KPV ++ +K T 
Sbjct: 187 DGYRLTQRIRQLGLTLPVIGVTAN-----ALAEEKQRCLESGMDSCLSKPVTLDVIKQTL 241

Query: 137 QHVIRRKK 144
                R +
Sbjct: 242 TLYAERVR 249

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A Length = 127

 Score = 75.6 bits (187), Expect = 9e-17
 Identities = 24/112 (21%), Positives = 49/112 (43%), Gaps = 7/112 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM-PDMD 83
           ++L V+ D      L   L    + V  T     +++ +R +R   DLV+  V +    +
Sbjct: 7   KILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRRDR--PDLVVLAVDLSAGQN 64

Query: 84  GF---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           G+     L+      ++P+V++    D     + +   A +Y+ KPV  ++L
Sbjct: 65  GYLICGKLKKDDDLKNVPIVIIGN-PDGFAQHRKLKAHADEYVAKPVDADQL 115

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 76.3 bits (187), Expect = 3e-16
 Identities = 20/161 (12%), Positives = 45/161 (27%), Gaps = 15/161 (9%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            ++VL ++        L   L      V        A           D+V + ++    
Sbjct: 12  ELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF------DVPVDVVFTSIFQNRH 65

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
                  L        +V L  Y    ++ + I       + +P+    +        R 
Sbjct: 66  HDEIAALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRI 125

Query: 143 KKVDPKDQNRSPHEFEKSYRKRK---------DQDGEDEDE 174
            +   K + ++    ++   + +          + G DE E
Sbjct: 126 SEEMAKLKQKTEQLQDRIAGQARINQAKVLLMQRHGWDERE 166

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 74.1 bits (183), Expect = 4e-16
 Identities = 24/136 (17%), Positives = 54/136 (39%), Gaps = 19/136 (13%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           G++VL +D++     + +  L     EVT  +     L+++    +   +V  DV MP +
Sbjct: 7   GLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS---HEHKVVFMDVCMPGV 63

Query: 83  DGFKL------LELVGLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRMEE 131
           + +++                 +V LS         K      ++ G    LLKPV ++ 
Sbjct: 64  ENYQIALRIHEKFTKQRHQRPLLVALSGN-----TDKSTKEKCMSFGLDGVLLKPVSLDN 118

Query: 132 LKNTWQHVIRRKKVDP 147
           +++    ++  + +  
Sbjct: 119 IRDVLSDLLEPRVLYE 134

>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH sides, signaling protein; HET: BFD; 1.80A {Thermotoga maritima} PDB: 3dgf_C 3dge_C Length = 122

 Score = 72.5 bits (178), Expect = 1e-15
 Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 5/111 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL VDD     KI+   L++  YEV        AL+ L E     DL++  + MP MDG
Sbjct: 4   KVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEF--TPDLIVLXIMMPVMDG 61

Query: 85  FKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           F +L+ +  +     +PV++L+A    +     ++ GA   + KP    + 
Sbjct: 62  FTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQF 112

>2jba_A Phosphate regulon transcriptional regulatory PROT; transcription factor, sensory transduction, phosphate regula transcription regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A 2iyn_A 2jb9_A 1zes_A Length = 127

 Score = 72.5 bits (179), Expect = 1e-15
 Identities = 29/111 (26%), Positives = 53/111 (47%), Gaps = 5/111 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    +++   L +  ++        +A+  L E     DL++    +P   G
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPW--PDLILLAWMLPGGSG 61

Query: 85  F---KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
               K L    +  D+PVVML+A  + +  ++G+  GA D + KP   +EL
Sbjct: 62  IQFIKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKEL 112

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A* Length = 130

 Score = 69.5 bits (171), Expect = 1e-14
 Identities = 33/114 (28%), Positives = 61/114 (53%), Gaps = 8/114 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRA---ITALKMLRENRNNFDLVISDVYMP 80
           ++V   DD++  + +L++++   Q ++ V   A      L+ML E R   D+++ D+ MP
Sbjct: 3   IKVCIADDNRELVSLLDEYI-SSQPDMEVIGTAYNGQDCLQMLEEKRP--DILLLDIIMP 59

Query: 81  DMDGFKLLELVGLEMDLP--VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            +DG  +LE +    +    V+ML+A+    +  K +  GA  ++LKP  ME L
Sbjct: 60  HLDGLAVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENL 113

>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY homologue, homodimer, (beta/alpha)5, signaling protein; HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1 Length = 140

 Score = 68.0 bits (166), Expect = 6e-14
 Identities = 23/127 (18%), Positives = 57/127 (44%), Gaps = 10/127 (7%)

Query: 25  RVLAVDDDQTCLKILEKFLREC--QYEVTVTNRAITALKMLRE-----NRNNFDLVISDV 77
           ++  V+D++  ++++++ L      +EV      + A+  LR+     N +  DL++  +
Sbjct: 4   KIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXL 63

Query: 78  YMPDMDGFKLLELVGLE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            +P  DG ++L  +  +     +PVV+LS   +   +    +     Y+ K   + +L  
Sbjct: 64  NLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQ 123

Query: 135 TWQHVIR 141
             + +  
Sbjct: 124 IVKGIEE 130

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B* Length = 145

 Score = 65.7 bits (161), Expect = 5e-13
 Identities = 29/107 (27%), Positives = 46/107 (42%), Gaps = 7/107 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLREC-QYEV--TVTNRAITALKMLRENRNNFDLVISDVYMPD 81
            V+ VDD       +  F++    ++V     N    AL  L   + N DL++ D+ MP 
Sbjct: 15  NVMIVDDAAMMRLYIASFIKTLPDFKVVAQAAN-GQEALDKLAA-QPNVDLILLDIEMPV 72

Query: 82  MDGFKLLELVGLEMDLPVVMLSAY--SDTKLVMKGINHGACDYLLKP 126
           MDG + L    L+    + MLS+   S +    +    GA   + KP
Sbjct: 73  MDGMEFLRHAKLKTRAKICMLSSVAVSGSPHAARARELGADGVVAKP 119

>3kht_A Response regulator; PSI-II, 11023K, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.10A {Hahella chejuensis} Length = 144

 Score = 65.0 bits (159), Expect = 8e-13
 Identities = 23/145 (15%), Positives = 52/145 (35%), Gaps = 22/145 (15%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRENRNNFDLVISDVYMP 80
             RVL V+D+   + ++ + L       ++   +    AL  +++ +  +DL+I D+ +P
Sbjct: 5   SKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQAK--YDLIILDIGLP 62

Query: 81  DMDGF---KLLELVGLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVR---- 128
             +GF     +   G     P+V+L+       V        +  GA   + K       
Sbjct: 63  IANGFEVMSAVRKPGANQHTPIVILTDN-----VSDDRAKQCMAAGASSVVDKSSNNVTD 117

Query: 129 -MEELKNTWQHVIRRKKVDPKDQNR 152
               +   + + +          + 
Sbjct: 118 FYGRIYAIFSYWLTVNHCQEGHHHH 142

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1 Length = 349

 Score = 68.3 bits (168), Expect = 1e-12
 Identities = 31/108 (28%), Positives = 59/108 (54%), Gaps = 8/108 (7%)

Query: 24  MRVLAVDDDQTCLKILEKFLREC-QYEV--TVTNRAITALKMLRENRNNFDLVISDVYMP 80
           +RVL+VDD     +I+ + +      E+  T  +  + A  +++  + N D++  DV MP
Sbjct: 4   IRVLSVDDSALMRQIMTEIINSHSDMEMVATAPD-PLVARDLIK--KFNPDVLTLDVEMP 60

Query: 81  DMDGFKLLELVGLEMDLPVVMLSAYS--DTKLVMKGINHGACDYLLKP 126
            MDG   LE +     +PVVM+S+ +   +++ ++ +  GA D++ KP
Sbjct: 61  RMDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTLRALELGAIDFVTKP 108

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 64.6 bits (158), Expect = 2e-12
 Identities = 25/107 (23%), Positives = 55/107 (51%), Gaps = 8/107 (7%)

Query: 25  RVLAVDDDQTCLKILEKFLREC-QYEV--TVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           RVL VDD      +L+  +      +V     +  + A++   E +   D++  D+ MP+
Sbjct: 27  RVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKD-GLEAVEKAIELK--PDVITMDIEMPN 83

Query: 82  MDGFKLLELVGLEMDLPVVMLSAYS--DTKLVMKGINHGACDYLLKP 126
           ++G + L+L+  +    V+M+S+ +     + ++ + +GA D++ KP
Sbjct: 84  LNGIEALKLIMKKAPTRVIMVSSLTEEGAAITIEALRNGAVDFITKP 130

>2r25_B Osmosensing histidine protein kinase SLN1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: c.23.1.1 PDB: 1oxk_B 1oxb_B Length = 133

 Score = 62.9 bits (154), Expect = 3e-12
 Identities = 26/135 (19%), Positives = 55/135 (40%), Gaps = 20/135 (14%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYE-VTVTN---RAITALKMLRENRNNFDLVISDVY 78
            +++L V+D+    +++++ L     E + +      A   +K L     N++++  DV 
Sbjct: 2   SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQ 61

Query: 79  MPDMDGF----KLLELVGLEMDLPVVMLSAYSDTKLVMKG-----INHGACDYLLKPVRM 129
           MP +DG      +   +G     P+V L+A+              +  G   +L KP++ 
Sbjct: 62  MPKVDGLLSTKMIRRDLGY--TSPIVALTAF-----ADDSNIKECLESGMNGFLSKPIKR 114

Query: 130 EELKNTWQHVIRRKK 144
            +LK          +
Sbjct: 115 PKLKTILTEFCAAYQ 129

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3} Length = 154

 Score = 62.2 bits (152), Expect = 8e-12
 Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 2/75 (2%)

Query: 59  ALKMLRENRNNFDLVISDVYMPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINH 117
           AL  L    N  DL++ DV +PD +    L  L   +    V ++S  +D +L+   +  
Sbjct: 41  ALAFLEA-DNTVDLILLDVNLPDAEAIDGLVRLKRFDPSNAVALISGETDHELIRAALEA 99

Query: 118 GACDYLLKPVRMEEL 132
           GA  ++ K    + L
Sbjct: 100 GADGFIPKSADPQVL 114

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12} Length = 134

 Score = 57.9 bits (141), Expect = 2e-10
 Identities = 22/112 (19%), Positives = 51/112 (45%), Gaps = 6/112 (5%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEV--TVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           +  + +DD    +  +   L +   E+   +T    +A++ +   +   D+VI DV +P 
Sbjct: 2   LNAIIIDDHPLAIAAIRNLLIKNDIEILAELTE-GGSAVQRVETLK--PDIVIIDVDIPG 58

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           ++G ++L  L   +    ++++SA +D        + GA  ++ K   M  +
Sbjct: 59  VNGIQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNI 110

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 62.9 bits (152), Expect = 2e-10
 Identities = 49/361 (13%), Positives = 91/361 (25%), Gaps = 120/361 (33%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVY-----M 79
             L V  +    K    F   C+  + +T R           +   D + +         
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCK--ILLTTR----------FKQVTDFLSAATTTHISLD 292

Query: 80  PDMDGF---KLLELVG--LEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE 131
                    ++  L+   L+    DLP  +L+        +  I             + +
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT---NPRRLSII--AE--------SIRD 339

Query: 132 LKNTWQHVIRRKKVDPKDQNR---------SPHEFEKSYRK----RKDQD---------- 168
              TW +    K V+                P E+ K + +                   
Sbjct: 340 GLATWDNW---KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396

Query: 169 GEDEDEDGDD-----------DGHENENSTT------QKKPRVVWTTELHTKFIGAVNLL 211
            +    D              +    E++ +      + K ++     LH   +   N+ 
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP 456

Query: 212 -GLDK-AVPKKILD----------LMNVEGLTRENVKFR---LSLKRLGNK----TLEAG 252
              D   +    LD          L N+E        FR   L  + L  K    +    
Sbjct: 457 KTFDSDDLIPPYLDQYFYSHIGHHLKNIE-HPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

Query: 253 MVASVGS--------------KDSSYLR-IGALDGF---GGSHSVNSP-GRLSSSALSSS 293
              S+ +               D  Y R + A+  F      + + S    L   AL + 
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAE 575

Query: 294 Y 294
            
Sbjct: 576 D 576

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 53.7 bits (128), Expect = 1e-07
 Identities = 57/325 (17%), Positives = 92/325 (28%), Gaps = 103/325 (31%)

Query: 4   EEKGGSSSDE-DGVIDKFPIGMRVLAVDDD---QTC------LKILEKFLREC------- 46
                 + DE   ++ K+ +  R      D   +        L I+ + +R+        
Sbjct: 293 HHSMTLTPDEVKSLLLKY-LDCRP----QDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347

Query: 47  -QYEVTVTNRAI-TALKMLR--ENRNNF-DLVI--SDVYMPDMDGFKLLELVGLEMDLPV 99
                      I ++L +L   E R  F  L +     ++P      LL L+  ++    
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT----ILLSLIWFDVIKSD 403

Query: 100 VM-----LSAYS----DTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDPKDQ 150
           VM     L  YS      K     I     +  +K      L     H   R  VD    
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-----H---RSIVD---- 451

Query: 151 NRSPHEFEKSYRKRKDQDGEDEDEDGDDD------GH---ENENSTTQKKPRVVWTTELH 201
                     Y   K  D +D      D       GH     E+       R+V+   L 
Sbjct: 452 ---------HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF---LD 499

Query: 202 TKFIGA-VNLLGLDKAVPKKILDLMNV---------------EGLTRENVKFRLSLKRLG 245
            +F+   +            IL+ +                 E L    + F   L ++ 
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF---LPKIE 556

Query: 246 NKTLEAGMVASVGSKDSSYLRIGAL 270
              +         SK +  LRI AL
Sbjct: 557 ENLIC--------SKYTDLLRI-AL 572

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus} Length = 133

 Score = 55.6 bits (135), Expect = 1e-09
 Identities = 24/129 (18%), Positives = 56/129 (43%), Gaps = 8/129 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVYMPD 81
            ++  +D     + + + + +   +  +         A+K++ E     ++VI D+ MP 
Sbjct: 5   SLIIAEDQNMLRQAMVQLI-KLHGDFEILADTDNGLDAMKLIEEYN--PNVVILDIEMPG 61

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           M G ++L E+    +++ V++++ +       K + +    Y+LK   +EEL  T   V 
Sbjct: 62  MTGLEVLAEIRKKHLNIKVIIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVN 121

Query: 141 R-RKKVDPK 148
              K+    
Sbjct: 122 NGEKEGHHH 130

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A Length = 206

 Score = 56.3 bits (136), Expect = 3e-09
 Identities = 30/154 (19%), Positives = 59/154 (38%), Gaps = 34/154 (22%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLREN-----------RNNF 70
           G RVL VDD+    K+    L++    EV   +    AL+++ E            +  F
Sbjct: 61  GKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPF 120

Query: 71  DLVISDVYMPDMDGF-------KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGAC--- 120
           D +  D  MP+MDG+       K+ +  G+    P++ +S +                  
Sbjct: 121 DYIFMDCQMPEMDGYEATREIRKVEKSYGVR--TPIIAVSGHD-----PGSEEARETIQA 173

Query: 121 ---DYLLKPVRMEELKNTWQHVIRRKKVDPKDQN 151
               +L K +   +L N  + +  ++ ++    +
Sbjct: 174 GMDAFLDKSLN--QLANVIREIESKRHLEHHHHH 205

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 55.8 bits (135), Expect = 2e-08
 Identities = 25/118 (21%), Positives = 48/118 (40%), Gaps = 8/118 (6%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVT-NRAITALKMLRENRNNFDLVISDVYMPDM 82
           + VL ++D+     +    L++      +       A+ +L E+  + D+ I D+ M  M
Sbjct: 4   LNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAIL-ESCGHVDIAICDLQMSGM 62

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKL------VMKGINHGACDYLLKPVRMEELKN 134
           DG   L    L   +  V+LS+  D  L      +++ +       L KP  +E +  
Sbjct: 63  DGLAFLRHASLSGKVHSVILSSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITA 120

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A Length = 150

 Score = 52.6 bits (127), Expect = 2e-08
 Identities = 26/113 (23%), Positives = 52/113 (46%), Gaps = 7/113 (6%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVYMP 80
           M+VL  +D       + + L   Q +V    +A     A+++L +     D+ I DV MP
Sbjct: 21  MKVLVAEDQSMLRDAMCQLL-TLQPDVESVLQAKNGQEAIQLLEKES--VDIAILDVEMP 77

Query: 81  DMDGFKLLE-LVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
              G ++LE +   +++  VV+++ +       + +  G   Y+LK   + +L
Sbjct: 78  VKTGLEVLEWIRSEKLETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADL 130

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP} Length = 153

 Score = 51.8 bits (125), Expect = 3e-08
 Identities = 24/115 (20%), Positives = 46/115 (40%), Gaps = 13/115 (11%)

Query: 25  RVLAVDDDQTCLKILEKFLR---ECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVY 78
           R++ VDD      I+ +  R   E +    V   A     A ++ RE     D+V+ D+ 
Sbjct: 7   RIMLVDDHP----IVREGYRRLIERRPGYAVVAEAADAGEAYRLYRETTP--DIVVMDLT 60

Query: 79  MPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
           +P   G +    +   +    +++ + +  +   +K    GA  Y+ K     EL
Sbjct: 61  LPGPGGIEATRHIRQWDGAARILIFTMHQGSAFALKAFEAGASGYVTKSSDPAEL 115

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A* Length = 225

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 14/117 (11%), Positives = 31/117 (26%), Gaps = 13/117 (11%)

Query: 24  MRVLAVDDDQ---TCLK-ILEKFLRECQYEVTVT--NRAITALKMLRENRNNFDLVISDV 77
           + V  + D       LK  LE    +    + +T  +                 +++ D 
Sbjct: 8   LNVRMLSDVCMQSRLLKEALE---SKLPLALEITPFSELWLEENKPESRSI--QMLVIDY 62

Query: 78  YMPDMDGFK-LLELVGLEM-DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
                D          +   D   V+++   D +  +    +           M+ L
Sbjct: 63  SRISDDVLTDYSSFKHISCPDAKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTL 119

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis} Length = 152

 Score = 48.7 bits (117), Expect = 5e-07
 Identities = 29/142 (20%), Positives = 56/142 (39%), Gaps = 27/142 (19%)

Query: 1   MTAEEKGGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLR---ECQYEVTVTNRA- 56
           M       S+   +       +  RV+  DD      +  + +         V V   A 
Sbjct: 1   MHHHHHHMSNPQPE------KV--RVVVGDDHP----LFREGVVRALSLSGSVNVVGEAD 48

Query: 57  --ITALKMLRENRNNFDLVISDVYMPDMDGFKLLE----LVGLEMDLPVVMLSAYSDTKL 110
               AL++++ +    D+ + D  MP MDG    +    +   E+   V+++SA+ +  +
Sbjct: 49  DGAAALELIKAHLP--DVALLDYRMPGMDG---AQVAAAVRSYELPTRVLLISAHDEPAI 103

Query: 111 VMKGINHGACDYLLKPVRMEEL 132
           V + +  GA  +LLK     E+
Sbjct: 104 VYQALQQGAAGFLLKDSTRTEI 125

>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A Length = 215

 Score = 47.9 bits (115), Expect = 2e-06
 Identities = 27/116 (23%), Positives = 53/116 (45%), Gaps = 9/116 (7%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRA---ITALKMLRENRNNFDLVISDV 77
           P    +L +DD       +++ +     ++TV   A      +++        DL++ D+
Sbjct: 5   PA--TILLIDDHPMLRTGVKQLI-SMAPDITVVGEASNGEQGIELAESLDP--DLILLDL 59

Query: 78  YMPDMDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            MP M+G + L +L    +   +V+ S  +  + V+  +  GA  YLLK +  E+L
Sbjct: 60  NMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDL 115

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis} Length = 225

 Score = 47.5 bits (114), Expect = 3e-06
 Identities = 30/112 (26%), Positives = 56/112 (50%), Gaps = 7/112 (6%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAIT---ALKMLRENRNNFDLVISDVYMPD 81
           +V  VDD +   + L   L     E+ V   A +   A+  +   R   D+ + DV +PD
Sbjct: 3   KVFLVDDHEVVRRGLVDLL-GADPELDVVGEAGSVAEAMARVPAARP--DVAVLDVRLPD 59

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            +G +L  +L+    DL  ++L++Y+  + ++  I  GA  Y++K ++  EL
Sbjct: 60  GNGIELCRDLLSRMPDLRCLILTSYTSDEAMLDAILAGASGYVVKDIKGMEL 111

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	524
3to5_A	134	CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, p	99.93
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	99.88
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.88
2lpm_A	123	Two-component response regulator; transcription re	99.87
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.87
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.86
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.86
1yio_A	208	Response regulatory protein; transcription regulat	99.85
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.85
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.84
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.84
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.84
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.84
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.84
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.84
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.84
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.84
3rqi_A	184	Response regulator protein; structural genomics, s	99.84
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.83
3lua_A	140	Response regulator receiver protein; two-component	99.83
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.83
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.83
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.83
3c3w_A	225	Two component transcriptional regulatory protein;	99.83
3jte_A	143	Response regulator receiver protein; structural ge	99.83
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.83
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.83
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.83
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.83
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.83
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.83
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.83
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.82
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.82
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.82
3f6c_A	134	Positive transcription regulator EVGA; structural	99.82
3r0j_A	250	Possible two component system response transcript	99.82
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.82
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.82
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.82
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.82
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.82
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.82
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.82
3nhm_A	133	Response regulator; protein structure initiative I	99.82
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.82
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.82
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.82
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.81
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.81
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.81
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.81
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.81
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.81
2zay_A	147	Response regulator receiver protein; structural ge	99.81
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.81
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.81
3c3m_A	138	Response regulator receiver protein; structural ge	99.8
4dad_A	146	Putative pilus assembly-related protein; response	99.8
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.8
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.8
3luf_A	259	Two-component system response regulator/ggdef doma	99.8
3cg0_A	140	Response regulator receiver modulated diguanylate	99.8
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.8
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.8
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.8
2qxy_A	142	Response regulator; regulation of transcription, N	99.8
3n53_A	140	Response regulator receiver modulated diguanylate;	99.8
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.79
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.79
2qr3_A	140	Two-component system response regulator; structura	99.79
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.79
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.79
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.79
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.79
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.78
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.78
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.78
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.78
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.78
3cz5_A	153	Two-component response regulator, LUXR family; str	99.78
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.77
2gkg_A	127	Response regulator homolog; social motility, recei	99.77
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.77
3eq2_A	394	Probable two-component response regulator; adaptor	99.77
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.77
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.77
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.76
1w25_A	459	Stalked-cell differentiation controlling protein;	99.76
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.76
3c97_A	140	Signal transduction histidine kinase; structural g	99.75
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.75
2rdm_A	132	Response regulator receiver protein; structural ge	99.75
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.75
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.75
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.74
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.74
3eqz_A	135	Response regulator; structural genomics, unknown f	99.74
3bre_A	358	Probable two-component response regulator; protein	99.74
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.73
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.72
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.71
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.71
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.7
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.7
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.65
3luf_A	259	Two-component system response regulator/ggdef doma	99.64
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.59
1irz_A	64	ARR10-B; helix-turn-helix, DNA binding protein; NM	99.21
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	98.99
1w25_A	459	Stalked-cell differentiation controlling protein;	98.98
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	97.33
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	97.09
3tm8_A	328	BD1817, uncharacterized protein; HD-GYP, phosphodi	96.68
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	95.99
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	95.95
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	95.12
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	93.34
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	92.53
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	91.98
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	90.06
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	89.29
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	87.96
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	87.08
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	85.49
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	84.87
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	84.83
3qja_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	84.75
4fo4_A	366	Inosine 5'-monophosphate dehydrogenase; structural	81.44
1yad_A	221	Regulatory protein TENI; TIM barrel, transcription	80.6
2gjl_A	328	Hypothetical protein PA1024; 2-nitropropane dioxyg	80.39
1xi3_A	215	Thiamine phosphate pyrophosphorylase; structural g	80.06

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.93  E-value=1.1e-25  Score=203.71  Aligned_cols=121  Identities=30%  Similarity=0.556  Sum_probs=111.5

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EM   95 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~   95 (524)
                      +..++|||||||++.++..++.+|+..||+ |.+|.+|.+|++.+++..  ||+||+|++||+|||+++++.||.   .+
T Consensus         9 m~k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~~~~--~DlillD~~MP~mdG~el~~~ir~~~~~~   86 (134)
T 3to5_A            9 LNKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKGD--FDFVVTDWNMPGMQGIDLLKNIRADEELK   86 (134)
T ss_dssp             CCTTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHSTTTT
T ss_pred             hCCCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHHhCC--CCEEEEcCCCCCCCHHHHHHHHHhCCCCC
Confidence            456799999999999999999999999997 568999999999998765  999999999999999999999974   36


Q ss_pred             CCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           96 DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        96 diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|||++|++.+.+...+++++||++||.|||+.++|..++++++++
T Consensus        87 ~ipvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~R  133 (134)
T 3to5_A           87 HLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFER  133 (134)
T ss_dssp             TCCEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC-
T ss_pred             CCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            89999999999999999999999999999999999999999988754

>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH sides, signaling protein; HET: BFD; 1.80A {Thermotoga maritima} SCOP: c.23.1.0 PDB: 3dgf_C 3dge_C

Probab=99.88  E-value=1.6e-21  Score=168.93  Aligned_cols=116  Identities=28%  Similarity=0.400  Sum_probs=108.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++..   +++|||
T Consensus         3 ~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l~~~~--~dlvllD~~~p~~~g~~~~~~l~~~~~~~~~pii   80 (122)
T 3gl9_A            3 KKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFT--PDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVI   80 (122)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTBC--CSEEEECSCCSSSCHHHHHHHHHTSTTTTTSCEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhcC--CCEEEEeccCCCCcHHHHHHHHHhcccccCCCEE
Confidence            58999999999999999999999999999999999999997654  9999999999999999999999643   689999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      ++|+..+.+...++++.||++||.||++.++|..+++++++
T Consensus        81 ~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~  121 (122)
T 3gl9_A           81 VLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLLN  121 (122)
T ss_dssp             EEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             EEecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999998764

>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver domain, cytoplasm, DNA-binding, phosphoprotein, transcription regulation; 1.95A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 2zwm_A

Probab=99.88  E-value=1.5e-21  Score=168.34  Aligned_cols=117  Identities=32%  Similarity=0.503  Sum_probs=110.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++...++|||++|
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlii~D~~~p~~~g~~~~~~lr~~~~~~ii~~t   80 (120)
T 3f6p_A            3 KKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQ--PDLILLDIMLPNKDGVEVCREVRKKYDMPIIMLT   80 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTC--CSEEEEETTSTTTHHHHHHHHHHTTCCSCEEEEE
T ss_pred             CeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHHhhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCEEEEE
Confidence            58999999999999999999999999999999999999998654  9999999999999999999999877789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +..+.....++++.||++||.||++.++|..+++.++++
T Consensus        81 ~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l~~  119 (120)
T 3f6p_A           81 AKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRR  119 (120)
T ss_dssp             ESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTC
T ss_pred             CCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999988764

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.87  E-value=5.2e-24  Score=190.21  Aligned_cols=113  Identities=24%  Similarity=0.386  Sum_probs=101.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      .++|||||||++.++..++.+|+..||+|+ ++.++++|++++++..  ||+||+|++||+|||+++++.++. .++|||
T Consensus         7 r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~~~~~--~DlvllDi~mP~~~G~el~~~lr~-~~ipvI   83 (123)
T 2lpm_A            7 RRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIARKGQ--FDIAIIDVNLDGEPSYPVADILAE-RNVPFI   83 (123)
T ss_dssp             CCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHHHHCC--SSEEEECSSSSSCCSHHHHHHHHH-TCCSSC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHhCC--CCEEEEecCCCCCCHHHHHHHHHc-CCCCEE
Confidence            358999999999999999999999999986 7899999999998765  999999999999999999999975 579999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      ++|++.+...   +.++|+++||.|||+.++|..+++++.
T Consensus        84 ~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~~  120 (123)
T 2lpm_A           84 FATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQIS  120 (123)
T ss_dssp             CBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTTC
T ss_pred             EEecCccHHH---HHhCCCCcEEECCCCHHHHHHHHHHHH
Confidence            9999987653   346899999999999999999887654

>3t6k_A Response regulator receiver; flavodoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: MSE; 1.86A {Chloroflexus aurantiacus} SCOP: c.23.1.0

Probab=99.87  E-value=4e-21  Score=169.57  Aligned_cols=120  Identities=35%  Similarity=0.527  Sum_probs=111.2

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPV   99 (524)
                      ..+||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++.   .+.+||
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvl~D~~lp~~~g~~~~~~lr~~~~~~~~pi   81 (136)
T 3t6k_A            4 PHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYKNL--PDALICDVLLPGIDGYTLCKRVRQHPLTKTLPI   81 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHSGGGTTCCE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHcCCCcCCccE
Confidence            478999999999999999999999999999999999999998764  999999999999999999999964   458999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.....++++.||++||.||++.++|..+++.++++..
T Consensus        82 i~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~~~~  126 (136)
T 3t6k_A           82 LMLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILARTT  126 (136)
T ss_dssp             EEEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHHC--
T ss_pred             EEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHhccC
Confidence            999999999999999999999999999999999999999987654

>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A

Probab=99.86  E-value=3.4e-21  Score=182.57  Aligned_cols=121  Identities=19%  Similarity=0.301  Sum_probs=111.2

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhC-CCeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLREC-QYEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~-gy~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diP   98 (524)
                      .+++||||||++..+..++.+|+.. +|.| ..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+.+|
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~~~~--~dlvllD~~lp~~~g~~~~~~lr~~~~~~~   81 (215)
T 1a04_A            4 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD--PDLILLDLNMPGMNGLETLDKLREKSLSGR   81 (215)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHHC--CSEEEEETTSTTSCHHHHHHHHHHSCCCSE
T ss_pred             CceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCcHHHHHHHHHHhCCCCc
Confidence            3579999999999999999999876 5888 58999999999998765  999999999999999999999964 57899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ||++|+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        82 ii~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~  127 (215)
T 1a04_A           82 IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEM  127 (215)
T ss_dssp             EEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHSCC
T ss_pred             EEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHcCCe
Confidence            9999999999999999999999999999999999999999998754

>2r25_B Osmosensing histidine protein kinase SLN1; alpha5-BETA5, response regulator, four helix bundle, histidine phosphotransfer (HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP: c.23.1.1 PDB: 1oxk_B 1oxb_B

Probab=99.86  E-value=8.2e-21  Score=166.91  Aligned_cols=120  Identities=21%  Similarity=0.436  Sum_probs=107.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHhc---CCCceEEEEeCCCCCCCHHHHHHHHhc--CCC
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLREN---RNNFDLVISDVYMPDMDGFKLLELVGL--EMD   96 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e~---~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~d   96 (524)
                      .++||||||++..+..++.+|+..||. |..+.++.+|++.+...   ...||+||+|+.||+++|+++++.++.  .+.
T Consensus         2 ~~~ILivdD~~~~~~~l~~~L~~~g~~~v~~~~~~~~al~~~~~~~~~~~~~dlvllD~~mp~~~G~~~~~~lr~~~~~~   81 (133)
T 2r25_B            2 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYT   81 (133)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHHHTCCCSEEEECSCCSSSCHHHHHHHHHHHSCCC
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHHHHhcCCCCCEEEEeCCCCCCChHHHHHHHHhhcCCC
Confidence            378999999999999999999988875 77899999999998761   124999999999999999999999964  457


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|||++|+..+.....++++.||++||.||++.++|..+++.++..
T Consensus        82 ~~ii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  127 (133)
T 2r25_B           82 SPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCAA  127 (133)
T ss_dssp             SCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCTT
T ss_pred             CCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999988654

>1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A

Probab=99.85  E-value=2.5e-21  Score=182.18  Aligned_cols=119  Identities=26%  Similarity=0.436  Sum_probs=110.4

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      ..+||||||++..+..++.+|+..||+|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++ ..+++|||+
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~--~~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~   81 (208)
T 1yio_A            4 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPE--QHGCLVLDMRMPGMSGIELQEQLTAISDGIPIVF   81 (208)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCTT--SCEEEEEESCCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEcCCHHHHHHhhhcc--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            46899999999999999999999999999999999999988654  499999999999999999999996 457899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        82 ls~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~  123 (208)
T 1yio_A           82 ITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLN  123 (208)
T ss_dssp             EESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHhhh
Confidence            999999989999999999999999999999999999998764

>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm, flagellar rotatio magnesium, metal-binding, phosphoprotein; 1.70A {Helicobacter pylori} SCOP: c.23.1.1 PDB: 3gwg_A 3h1e_A 3h1f_A

Probab=99.85  E-value=2.2e-20  Score=162.70  Aligned_cols=119  Identities=28%  Similarity=0.498  Sum_probs=108.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      +++||||||++..+..++.+|+..||. |..+.++.+|++.+... ..||+||+|+.||+++|+++++.++.   .+.+|
T Consensus         5 ~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~-~~~dlvi~D~~~p~~~g~~~~~~lr~~~~~~~~p   83 (129)
T 3h1g_A            5 SMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDAN-ADTKVLITDWNMPEMNGLDLVKKVRSDSRFKEIP   83 (129)
T ss_dssp             -CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHC-TTCCEEEECSCCSSSCHHHHHHHHHTSTTCTTCC
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHHhC-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCCCe
Confidence            479999999999999999999999995 88999999999988764 25999999999999999999999974   35899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+..+.....++++.||++||.||++.++|..+++.++.+
T Consensus        84 ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l~~  127 (129)
T 3h1g_A           84 IIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLGT  127 (129)
T ss_dssp             EEEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHCC
T ss_pred             EEEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999988754

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.84  E-value=3.4e-20  Score=165.18  Aligned_cols=119  Identities=29%  Similarity=0.419  Sum_probs=105.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-----CCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-----EMD   96 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-----~~d   96 (524)
                      .+++||||||++..+..++.+|+..||.|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++.     .+.
T Consensus        13 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvl~D~~mp~~~g~~~~~~lr~~~~~~~~~   90 (143)
T 3m6m_D           13 RSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEED--YDAVIVDLHMPGMNGLDMLKQLRVMQASGMRY   90 (143)
T ss_dssp             --CEEEEECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHHHHTTCCC
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhchhccCCC
Confidence            4689999999999999999999999999999999999999998754  999999999999999999998862     356


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|||++|+..+.+...++++.||++||.||++.++|..++..+...
T Consensus        91 ~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~~~  136 (143)
T 3m6m_D           91 TPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLAVS  136 (143)
T ss_dssp             CCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC--
T ss_pred             CeEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999999999887644

>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A

Probab=99.84  E-value=9.4e-20  Score=155.53  Aligned_cols=118  Identities=30%  Similarity=0.420  Sum_probs=110.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      ++||||||++..+..++..|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~~--~dlil~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   78 (121)
T 2pl1_A            1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI--PDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVL   78 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEECSCCSSSCHHHHHHHHHHTTCCSCEEEE
T ss_pred             CeEEEEeCcHHHHHHHHHHHhhcCCEEEEeCCHHHHHHHHhccC--CCEEEEecCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            58999999999999999999999999999999999999998754  99999999999999999999886 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....++++.||++|+.||++.++|..+++.++++.
T Consensus        79 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  119 (121)
T 2pl1_A           79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN  119 (121)
T ss_dssp             ESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999988753

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.84  E-value=6.9e-20  Score=164.91  Aligned_cols=120  Identities=29%  Similarity=0.476  Sum_probs=112.4

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPV   99 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+.+.  .||+||+|+.||+++|+++++.++..   +.+||
T Consensus         7 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~--~~dlii~D~~l~~~~g~~~~~~lr~~~~~~~~pi   84 (154)
T 3gt7_A            7 AGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLT--RPDLIISDVLMPEMDGYALCRWLKGQPDLRTIPV   84 (154)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHTTC--CCSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCE
T ss_pred             CCcEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhC--CCCEEEEeCCCCCCCHHHHHHHHHhCCCcCCCCE
Confidence            58999999999999999999999999999999999999999765  49999999999999999999999753   68999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.+...++++.||++||.||++.++|..+++.++++.+
T Consensus        85 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~  129 (154)
T 3gt7_A           85 ILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSGVK  129 (154)
T ss_dssp             EEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHHHTC
T ss_pred             EEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999988754

>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1 PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A 2a9q_A 1nxt_A* 2a9r_A*

Probab=99.84  E-value=6.9e-20  Score=155.84  Aligned_cols=117  Identities=27%  Similarity=0.466  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..++..|+..||+|..+.++.++++.+....  ||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~--~dlvl~D~~l~~~~g~~~~~~l~~~~~~~ii~~s   79 (120)
T 2a9o_A            2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQ--PDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLS   79 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEECSSCSSSCHHHHHHHHHHHCCCCEEEEE
T ss_pred             ceEEEEcCCHHHHHHHHHHHHhcCcEEEEecCHHHHHHHHHhCC--CCEEEEeccCCCCCHHHHHHHHHhCCCCCEEEEe
Confidence            48999999999999999999999999999999999999998764  9999999999999999999999766889999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +..+.....++++.||++||.||++.++|..+++.++++
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  118 (120)
T 2a9o_A           80 AKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  118 (120)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             cCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999988764

>1zgz_A Torcad operon transcriptional regulatory protein; two-component system, gene regulation, transcription factor, respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1

Probab=99.84  E-value=1.1e-19  Score=155.68  Aligned_cols=117  Identities=22%  Similarity=0.432  Sum_probs=110.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..++.+|+..||.|..+.++.++++.+....  ||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~ii~~s   80 (122)
T 1zgz_A            3 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQS--VDLILLDINLPDENGLMLTRALRERSTVGIILVT   80 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHTTCCCEEEEEE
T ss_pred             cEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHHhcCC--CCEEEEeCCCCCCChHHHHHHHHhcCCCCEEEEE
Confidence            58999999999999999999999999999999999999988654  9999999999999999999999777889999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +..+.....++++.||++|+.||++.++|..+++.++++
T Consensus        81 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  119 (122)
T 1zgz_A           81 GRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  119 (122)
T ss_dssp             SSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCChhhHHHHHHhCHHHHccCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999998875

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.84  E-value=9e-20  Score=159.47  Aligned_cols=119  Identities=28%  Similarity=0.444  Sum_probs=111.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      .++||||||++..+..++.+|+..||+|..+.++.++++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~   80 (132)
T 3crn_A            3 LKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENEF--FNLALFXIKLPDMEGTELLEKAHKLRPGMKKIM   80 (132)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEECSBCSSSBHHHHHHHHHHHCTTSEEEE
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhcCC--CCEEEEecCCCCCchHHHHHHHHhhCCCCcEEE
Confidence            368999999999999999999999999999999999999998754  99999999999999999999886 467899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        81 ~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  122 (132)
T 3crn_A           81 VTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDEQ  122 (132)
T ss_dssp             EESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EeccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999988764

>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixatio regulation; HET: 15P; 1.60A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A* 1dcm_A 1d5w_A*

Probab=99.84  E-value=1.2e-19  Score=156.92  Aligned_cols=119  Identities=22%  Similarity=0.394  Sum_probs=110.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      +.+||||||++..+..++.+|+..||.|..+.++.++++.+...  .||+||+|+.||+++|+++++.++. .+.+|||+
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~   80 (126)
T 1dbw_A            3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDV--RNGVLVTDLRMPDMSGVELLRNLGDLKINIPSIV   80 (126)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGGC--CSEEEEEECCSTTSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhcC--CCCEEEEECCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            46899999999999999999999999999999999999998764  4999999999999999999998864 57899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        81 ~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~  122 (126)
T 1dbw_A           81 ITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEHL  122 (126)
T ss_dssp             EECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTTC
T ss_pred             EECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999987653

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.84  E-value=2.1e-20  Score=183.19  Aligned_cols=120  Identities=28%  Similarity=0.466  Sum_probs=113.5

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVML  102 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvl  102 (524)
                      .++||||||++..+..++.+|+..||.|..+.++.+|++.+....  |||||+|+.||+++|+++++.++..+.+|||++
T Consensus        37 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~DlvllD~~lp~~~G~~l~~~lr~~~~~~iI~l  114 (249)
T 3q9s_A           37 EQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKAREDH--PDLILLDLGLPDFDGGDVVQRLRKNSALPIIVL  114 (249)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC--CSEEEEECCSCHHHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcCC--CCEEEEcCCCCCCCHHHHHHHHHcCCCCCEEEE
Confidence            478999999999999999999999999999999999999998764  999999999999999999999987889999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |+..+.+.+.+++++||++||.||++.++|..+|+.++++..
T Consensus       115 t~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~~~~  156 (249)
T 3q9s_A          115 TARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLRQRT  156 (249)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHCCCC
T ss_pred             ECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhhcc
Confidence            999999999999999999999999999999999999987654

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.84  E-value=1.3e-20  Score=175.44  Aligned_cols=119  Identities=21%  Similarity=0.377  Sum_probs=110.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+++|||+
T Consensus         7 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~   84 (184)
T 3rqi_A            7 DKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAEK--FEFITVXLHLGNDSGLSLIAPLCDLQPDARILV   84 (184)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHTTSC--CSEEEECSEETTEESHHHHHHHHHHCTTCEEEE
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhCC--CCEEEEeccCCCccHHHHHHHHHhcCCCCCEEE
Confidence            479999999999999999999999999999999999999997654  99999999999999999999886 467899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        85 lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~~~~  126 (184)
T 3rqi_A           85 LTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASEV  126 (184)
T ss_dssp             EESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTHHHH
T ss_pred             EeCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999998877653

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.83  E-value=8e-20  Score=161.17  Aligned_cols=119  Identities=24%  Similarity=0.466  Sum_probs=111.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVML  102 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvl  102 (524)
                      .++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++....+|||++
T Consensus         4 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvllD~~l~~~~g~~l~~~l~~~~~~~ii~l   81 (136)
T 2qzj_A            4 QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSNK--YDLIFLEIILSDGDGWTLCKKIRNVTTCPIVYM   81 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHCC--CSEEEEESEETTEEHHHHHHHHHTTCCCCEEEE
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHccCCCCCEEEE
Confidence            579999999999999999999998999999999999999998754  999999999999999999999976568999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        82 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  122 (136)
T 2qzj_A           82 TYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRM  122 (136)
T ss_dssp             ESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999988754

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.83  E-value=2.5e-20  Score=164.04  Aligned_cols=122  Identities=16%  Similarity=0.324  Sum_probs=112.0

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHh-CCCeEEEECCHHHHHHHHHh-cCCCceEEEEeCCCC-CCCHHHHHHHHhc---CC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRE-CQYEVTVTNRAITALKMLRE-NRNNFDLVISDVYMP-DMDGFKLLELVGL---EM   95 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~-~gy~V~~a~sg~eALe~L~e-~~~~pDLVIlDi~MP-dmdGleLLe~Lr~---~~   95 (524)
                      .+++||||||++..+..++.+|+. .||+|..+.++.+|++.+.+ .  .||+||+|+.|| +++|+++++.++.   .+
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l~~~~--~~dlvi~D~~l~~~~~g~~~~~~l~~~~~~~   80 (140)
T 3lua_A            3 LDGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLD--SITLIIMDIAFPVEKEGLEVLSAIRNNSRTA   80 (140)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTTCC--CCSEEEECSCSSSHHHHHHHHHHHHHSGGGT
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHHhcCC--CCcEEEEeCCCCCCCcHHHHHHHHHhCcccC
Confidence            458999999999999999999999 99999999999999999876 4  499999999999 9999999999864   67


Q ss_pred             CCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           96 DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        96 diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ++|||++|+..+.+...++++.||++||.||++.++|..+++.++++...
T Consensus        81 ~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~  130 (140)
T 3lua_A           81 NTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKICQR  130 (140)
T ss_dssp             TCCEEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC---
T ss_pred             CCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHhccc
Confidence            89999999999999999999999999999999999999999999887543

>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A

Probab=99.83  E-value=1.5e-19  Score=154.93  Aligned_cols=118  Identities=22%  Similarity=0.374  Sum_probs=110.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.++++.+....  ||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~ii~~s   81 (123)
T 1xhf_A            4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYD--INLVIMDINLPGKNGLLLARELREQANVALMFLT   81 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC--CSEEEECSSCSSSCHHHHHHHHHHHCCCEEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHHhcCC--CCEEEEcCCCCCCCHHHHHHHHHhCCCCcEEEEE
Confidence            58999999999999999999988999999999999999998754  9999999999999999999999755789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        82 ~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  121 (123)
T 1xhf_A           82 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRT  121 (123)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999987653

>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A

Probab=99.83  E-value=1.1e-19  Score=154.75  Aligned_cols=118  Identities=29%  Similarity=0.392  Sum_probs=110.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      ++||||||++..+..++.+|+..||+|..+.++.+++..+....  ||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~ii~~s   79 (121)
T 1zh2_A            2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK--PDLIILDLGLPDGDGIEFIRDLRQWSAVPVIVLS   79 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC--CSEEEEESEETTEEHHHHHHHHHTTCCCCEEEEE
T ss_pred             cEEEEEeCCHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCcHHHHHHHHHhCCCCcEEEEE
Confidence            68999999999999999999999999999999999999887654  9999999999999999999999877889999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||++|+.||++.++|..+++.++++.
T Consensus        80 ~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~  119 (121)
T 1zh2_A           80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH  119 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999988753

>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket, two component system; 1.90A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 1pey_A 3q15_C 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A 2jvj_A 2jvk_A 2jvi_A 1f51_E

Probab=99.83  E-value=1e-19  Score=156.58  Aligned_cols=117  Identities=22%  Similarity=0.473  Sum_probs=109.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+.+|||++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~--~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (124)
T 1srr_A            4 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER--PDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIM   81 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC--CSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhccC--CCEEEEecCCCCCCHHHHHHHHHHhCCCCCEEEE
Confidence            58999999999999999999999999999999999999998764  999999999999999999998864 678999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |+..+.....++++.||++||.||++.++|..++++++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1srr_A           82 TAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPL  121 (124)
T ss_dssp             ESSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHSCC
T ss_pred             EccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999887643

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.83  E-value=8.3e-21  Score=182.47  Aligned_cols=120  Identities=23%  Similarity=0.350  Sum_probs=111.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCC-CeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQ-YEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~g-y~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ++||||||++..+..++.+|+..+ |.++ .+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||
T Consensus         2 ~~ILivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~l~~~~--~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii   79 (225)
T 3c3w_A            2 VKVFLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVPAAR--PDVAVLDVRLPDGNGIELCRDLLSRMPDLRCL   79 (225)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTCTTEEEEEEESSHHHHHHHHHHHC--CSEEEECSEETTEEHHHHHHHHHHHCTTCEEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHhcCCCcEEEEEECCHHHHHHHHhhcC--CCEEEEeCCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            789999999999999999999876 8855 7999999999998765  99999999999999999999886 46889999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ++|+..+.+...++++.||++||.||++.++|..+++.++++...
T Consensus        80 ~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~  124 (225)
T 3c3w_A           80 ILTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGAGRSL  124 (225)
T ss_dssp             EGGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHGGG
T ss_pred             EEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcCCee
Confidence            999999999999999999999999999999999999999987643

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.83  E-value=2.3e-19  Score=158.17  Aligned_cols=122  Identities=29%  Similarity=0.497  Sum_probs=113.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      .++||||||++..+..++.+|+..||+|..+.++.+|++.+.+....||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~~~~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii~   82 (143)
T 3jte_A            3 LAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSGMDILREIKKITPHMAVII   82 (143)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHTTTTCCEEEEESCCSSSCHHHHHHHHHHHCTTCEEEE
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHHhCCCCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCeEEE
Confidence            4799999999999999999999999999999999999999985334699999999999999999999885 467899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        83 ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~~  125 (143)
T 3jte_A           83 LTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRKK  125 (143)
T ss_dssp             EECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988654

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5}

Probab=99.83  E-value=1.9e-19  Score=161.32  Aligned_cols=122  Identities=30%  Similarity=0.424  Sum_probs=113.8

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCc
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diP   98 (524)
                      ...+++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  |||||+|+.||+++|+++++.++ ..+.+|
T Consensus        11 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~   88 (153)
T 3hv2_A           11 VTRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE--VDLVISAAHLPQMDGPTLLARIHQQYPSTT   88 (153)
T ss_dssp             CCSCCEEEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHHCTTSE
T ss_pred             ccCCceEEEECCCHHHHHHHHHHhcccCcEEEEECCHHHHHHHHHcCC--CCEEEEeCCCCcCcHHHHHHHHHhHCCCCe
Confidence            445689999999999999999999999999999999999999998764  99999999999999999999886 467899


Q ss_pred             EEEEecCCCHHHHHHHHhcC-CcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           99 VVMLSAYSDTKLVMKGINHG-ACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~G-A~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ||++|+..+.....++++.| |++||.||++.++|..+|+.++++.
T Consensus        89 ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~~~  134 (153)
T 3hv2_A           89 RILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQ  134 (153)
T ss_dssp             EEEECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999999 9999999999999999999998764

>1jbe_A Chemotaxis protein CHEY; signaling protein; 1.08A {Escherichia coli} SCOP: c.23.1.1 PDB: 3chy_A 1a0o_A 1cey_A 1bdj_A 1eay_A 1f4v_A 1ffg_A 1ffs_A 1ffw_A 1fqw_A 2b1j_A 1chn_A 1djm_A 1kmi_Y* 1d4z_A 3olx_A 3olw_A 1cye_A 2che_A 2chf_A ...

Probab=99.83  E-value=2.3e-19  Score=154.90  Aligned_cols=119  Identities=29%  Similarity=0.525  Sum_probs=109.6

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCC-eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDL   97 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy-~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~di   97 (524)
                      ..++||||||++..+..++.+|+..|| .|..+.++.++++.+...  .||+||+|+.||+++|+++++.++.   .+.+
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~~~~--~~dlvi~D~~l~~~~g~~l~~~l~~~~~~~~~   80 (128)
T 1jbe_A            3 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG--GYGFVISDWNMPNMDGLELLKTIRAXXAMSAL   80 (128)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHTTC--CCCEEEEESCCSSSCHHHHHHHHHC--CCTTC
T ss_pred             CccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHHHhc--CCCEEEEeCCCCCCCHHHHHHHHHhhcccCCC
Confidence            357899999999999999999999899 688999999999998754  4999999999999999999999975   3679


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |||++|+..+.....++++.||++|+.||++.++|..+++.++++
T Consensus        81 ~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  125 (128)
T 1jbe_A           81 PVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  125 (128)
T ss_dssp             CEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cEEEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998765

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.83  E-value=3.1e-21  Score=184.88  Aligned_cols=122  Identities=9%  Similarity=0.015  Sum_probs=106.4

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHh-CCCeEEE-ECCHHHHHHH-HHhcCCCceEEEEeCCCCCCCHHHHHHHHhc--CCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRE-CQYEVTV-TNRAITALKM-LRENRNNFDLVISDVYMPDMDGFKLLELVGL--EMD   96 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~-~gy~V~~-a~sg~eALe~-L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~d   96 (524)
                      ..++||||||++..+..++.+|+. .||.|+. +.++.+++.. +...  .||+||+|+.||++||+++++.++.  .++
T Consensus         6 ~~~~IlivdD~~~~~~~l~~~L~~~~~~~v~~~~~~~~~~~~~~~~~~--~~dlvllD~~mp~~~G~~~~~~lr~~~~~~   83 (225)
T 3klo_A            6 NKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPESR--SIQMLVIDYSRISDDVLTDYSSFKHISCPD   83 (225)
T ss_dssp             SSEEEEEESCCSHHHHHHHHHHHHHSSEEEEEECGGGHHHHTTCSGGG--GCCEEEEEGGGCCHHHHHHHHHHHHHHCTT
T ss_pred             CceEEEEEcCcHHHHHHHHHHHhhCCCceEEEEeCCcHHHHHHHhhcc--CCCEEEEeCCCCCCCHHHHHHHHHHhhCCC
Confidence            358999999999999999999984 6898864 4556666553 4443  4999999999999999999999965  789


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      +|||++|+..+......+++.||++||.||++.++|..+++.++++...
T Consensus        84 ~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~  132 (225)
T 3klo_A           84 AKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQDEMW  132 (225)
T ss_dssp             CEEEEEEECTTCCHHHHTTSTTEEEEEETTCCHHHHHHHHHHHHTTCCB
T ss_pred             CcEEEEECCcchhHHHHHHHhCCCEEEecCCCHHHHHHHHHHHHCCCEe
Confidence            9999999999999999999999999999999999999999999987543

>1tmy_A CHEY protein, TMY; chemotaxis, phosphoryl transfer, signal transduction; 1.90A {Thermotoga maritima} SCOP: c.23.1.1 PDB: 2tmy_A 3tmy_A 4tmy_A 1u0s_Y

Probab=99.83  E-value=1.6e-19  Score=154.25  Aligned_cols=115  Identities=25%  Similarity=0.446  Sum_probs=106.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      ++||||||++..+..++.+|+..||++ ..+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~~~~--~dlil~D~~l~~~~g~~~~~~l~~~~~~~~ii~   80 (120)
T 1tmy_A            3 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELK--PDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIV   80 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC--CSEEEEECSCGGGCHHHHHHHHHHHCTTCCEEE
T ss_pred             ceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCcHHHHHHHHHhhCCCCeEEE
Confidence            689999999999999999999999995 58999999999998765  99999999999999999999885 457899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      +|+..+.....++++.||++||.||++.++|..++++++
T Consensus        81 ~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (120)
T 1tmy_A           81 CSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVS  119 (120)
T ss_dssp             EECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHC
T ss_pred             EeCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999998763

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} SCOP: c.23.1.0

Probab=99.83  E-value=2.8e-19  Score=159.74  Aligned_cols=124  Identities=27%  Similarity=0.424  Sum_probs=111.3

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHh-------cCCCceEEEEeCCCCCCCHHHHHHHHh
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRE-------NRNNFDLVISDVYMPDMDGFKLLELVG   92 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e-------~~~~pDLVIlDi~MPdmdGleLLe~Lr   92 (524)
                      .+++||||||++..+..++.+|+..|+  +|..+.++.+|++.++.       ....||+||+|+.||+++|+++++.++
T Consensus         3 ~~~~ILivddd~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~~~~~~~~dliilD~~l~~~~g~~~~~~lr   82 (152)
T 3heb_A            3 LSVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVLLDLNLPDMTGIDILKLVK   82 (152)
T ss_dssp             --CEEEEECCCHHHHHHHHHHHHHTTCCCCEEEESSHHHHHHHHHCTTSSSGGGTTCBEEEEECSBCSSSBHHHHHHHHH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHhccccccccccCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            358999999999999999999999998  89999999999999961       124599999999999999999999996


Q ss_pred             c---CCCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           93 L---EMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        93 ~---~~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      .   .+++|||++|+..+.....++++.||++||.||++.++|..+++++.+....
T Consensus        83 ~~~~~~~~pii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~  138 (152)
T 3heb_A           83 ENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFANAIRQLGLFFSV  138 (152)
T ss_dssp             HSTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHTT
T ss_pred             hcccccCCCEEEEecCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHHHHHH
Confidence            5   4689999999999999999999999999999999999999999999776543

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.83  E-value=7e-20  Score=160.87  Aligned_cols=122  Identities=20%  Similarity=0.317  Sum_probs=112.2

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      ..++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++.   .+++|
T Consensus         5 ~~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~~~   82 (140)
T 3grc_A            5 PRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVARRP--YAAMTVDLNLPDQDGVSLIRALRRDSRTRDLA   82 (140)
T ss_dssp             CCSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHSC--CSEEEECSCCSSSCHHHHHHHHHTSGGGTTCE
T ss_pred             CCCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhCcccCCCC
Confidence            4589999999999999999999999999999999999999998765  999999999999999999999964   57899


Q ss_pred             EEEEecCCCHHHHH-HHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           99 VVMLSAYSDTKLVM-KGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        99 VIvlTa~~d~~~~~-~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ||++|+..+..... ++++.||++||.||++.++|..++++++++...
T Consensus        83 ii~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~~~~~  130 (140)
T 3grc_A           83 IVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDNMAE  130 (140)
T ss_dssp             EEEECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHHHHC-
T ss_pred             EEEEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHHhcCC
Confidence            99999998887777 899999999999999999999999999987654

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} SCOP: c.23.1.0

Probab=99.83  E-value=4e-20  Score=162.55  Aligned_cols=122  Identities=20%  Similarity=0.255  Sum_probs=111.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC--CCHHHHHHHHh-cCCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD--MDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd--mdGleLLe~Lr-~~~diP   98 (524)
                      ..++||||||++..+..++.+|+..||+|..+.++.+|++.+.+.  .||+||+|+.||+  ++|+++++.++ ..+++|
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~--~~dlvi~D~~l~~~~~~g~~~~~~l~~~~~~~~   82 (136)
T 3kto_A            5 HHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISD--DAIGMIIEAHLEDKKDSGIELLETLVKRGFHLP   82 (136)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSCCCT--TEEEEEEETTGGGBTTHHHHHHHHHHHTTCCCC
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhcc--CCCEEEEeCcCCCCCccHHHHHHHHHhCCCCCC
Confidence            457999999999999999999999999999999999999988654  4999999999999  99999999986 457899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ||++|+..+.+...++++.||++||.||++.++|..++++++.+...
T Consensus        83 ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~~~~  129 (136)
T 3kto_A           83 TIVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIINGAKE  129 (136)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHHHHC-
T ss_pred             EEEEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHhccCC
Confidence            99999999999999999999999999999999999999999887643

>3hdv_A Response regulator; PSI-II, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.09A {Pseudomonas putida} SCOP: c.23.1.0

Probab=99.82  E-value=2.7e-19  Score=156.41  Aligned_cols=123  Identities=22%  Similarity=0.323  Sum_probs=110.9

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc--CCCCc
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL--EMDLP   98 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~diP   98 (524)
                      +.+.+||||||++..+..++.+|+..||+|..+.++.+++..+.+. ..||+||+|+.||+++|+++++.++.  .+.+|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~-~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~   83 (136)
T 3hdv_A            5 AARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQ-KRIGLMITDLRMQPESGLDLIRTIRASERAALS   83 (136)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHC-TTEEEEEECSCCSSSCHHHHHHHHHTSTTTTCE
T ss_pred             CCCCeEEEECCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHhC-CCCcEEEEeccCCCCCHHHHHHHHHhcCCCCCC
Confidence            3468999999999999999999999999999999999999998764 25999999999999999999999975  47899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ||++|+..+.+...++++.||++||.||++.++|..+++++..+..
T Consensus        84 ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~  129 (136)
T 3hdv_A           84 IIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKIGE  129 (136)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC---
T ss_pred             EEEEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhcCch
Confidence            9999999999999999999999999999999999999999887653

>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator, structural proteomics in europe, spine, structural genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1p6u_A

Probab=99.82  E-value=9.8e-20  Score=157.44  Aligned_cols=119  Identities=32%  Similarity=0.474  Sum_probs=109.5

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCC-eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDL   97 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy-~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~di   97 (524)
                      ..++||||||++..+..++.+|+..|| .|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++.   .+.+
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~--~~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~~   82 (129)
T 1p6q_A            5 EKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQN--PHHLVISDFNMPKMDGLGLLQAVRANPATKKA   82 (129)
T ss_dssp             SCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHTS--CCSEEEECSSSCSSCHHHHHHHHTTCTTSTTC
T ss_pred             ccCeEEEEcCCHHHHHHHHHHHHHCCCcEEEecCCHHHHHHHHHcC--CCCEEEEeCCCCCCCHHHHHHHHhcCccccCC
Confidence            347899999999999999999999899 788899999999999865  4999999999999999999999975   3689


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |||++|+..+.....++++.||++||.||++.++|..+++.++++
T Consensus        83 ~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (129)
T 1p6q_A           83 AFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             EEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             CEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999988764

>1mb3_A Cell division response regulator DIVK; signal transduction protein, structural proteomics in europe, spine, structural genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1 PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A

Probab=99.82  E-value=1.2e-19  Score=155.53  Aligned_cols=117  Identities=25%  Similarity=0.462  Sum_probs=103.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPVI  100 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++.   .+.+|||
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~~~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii   79 (124)
T 1mb3_A            2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK--PDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVV   79 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC--CSEEEEESBCSSSBHHHHHHHHHHSTTTTTSCEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHcCccccCCcEE
Confidence            58999999999999999999999999999999999999988764  999999999999999999999974   3589999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....++++.||++||.||++.++|..+++.++++
T Consensus        80 ~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1mb3_A           80 AVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (124)
T ss_dssp             EEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             EEECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            999999988899999999999999999999999999988754

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.82  E-value=6.9e-20  Score=159.41  Aligned_cols=123  Identities=18%  Similarity=0.256  Sum_probs=111.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .++||||||++..+..++.+|+..||+++ .+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+++|||
T Consensus         1 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~~~ii   78 (134)
T 3f6c_A            1 SLNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLK--PDIVIIDVDIPGVNGIQVLETLRKRQYSGIII   78 (134)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHHHC--CSEEEEETTCSSSCHHHHHHHHHHTTCCSEEE
T ss_pred             CeEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHhcC--CCEEEEecCCCCCChHHHHHHHHhcCCCCeEE
Confidence            37999999999999999999999999998 8999999999998765  99999999999999999999986 56789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCCC
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVDP  147 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~~  147 (524)
                      ++|+..+.....++++.||++||.||++.++|..+++.++++....+
T Consensus        79 ~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~~~~  125 (134)
T 3f6c_A           79 IVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFP  125 (134)
T ss_dssp             EEECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHTTCCBCC
T ss_pred             EEeCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCCCEEeC
Confidence            99999999999999999999999999999999999999998766543

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.82  E-value=2.1e-19  Score=175.06  Aligned_cols=121  Identities=34%  Similarity=0.509  Sum_probs=113.5

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVI  100 (524)
                      ..++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+++|||
T Consensus        22 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii   99 (250)
T 3r0j_A           22 PEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETR--PDAVILDVXMPGMDGFGVLRRLRADGIDAPAL   99 (250)
T ss_dssp             SSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHTTCCCCEE
T ss_pred             CCceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEE
Confidence            4689999999999999999999999999999999999999998765  999999999999999999999964 5789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.....+++++||++||.||++.++|..+++.++++..
T Consensus       100 ~lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~  143 (250)
T 3r0j_A          100 FLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRRAG  143 (250)
T ss_dssp             EEECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHHHC
T ss_pred             EEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999998643

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.82  E-value=2.4e-19  Score=160.27  Aligned_cols=122  Identities=19%  Similarity=0.304  Sum_probs=109.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhc-----CCCceEEEEeCCCCCCCHHHHHHHHhcC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLREN-----RNNFDLVISDVYMPDMDGFKLLELVGLE   94 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~-----~~~pDLVIlDi~MPdmdGleLLe~Lr~~   94 (524)
                      ..++||||||++..+..++.+|+..|+  .|..+.++.+|++.+...     ...||+||+|+.||+++|+++++.++..
T Consensus         7 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~~~~~~~dlillD~~lp~~~g~~l~~~l~~~   86 (149)
T 1i3c_A            7 PPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNLPKKDGREVLAEIKQN   86 (149)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGGTTCCCCSEEEECSCCSSSCHHHHHHHHHHC
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhccccccCCCCCEEEEeCCCCCCcHHHHHHHHHhC
Confidence            358999999999999999999998877  788999999999998742     1359999999999999999999999753


Q ss_pred             ---CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           95 ---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        95 ---~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                         +.+|||++|+..+...+.++++.||++||.||++.++|..+++.+++..
T Consensus        87 ~~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  138 (149)
T 1i3c_A           87 PDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESFW  138 (149)
T ss_dssp             TTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             cCcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHHH
Confidence               5799999999999999999999999999999999999999999987654

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.82  E-value=2.3e-19  Score=157.06  Aligned_cols=120  Identities=20%  Similarity=0.352  Sum_probs=107.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCC--CeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~g--y~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPV   99 (524)
                      .++||||||++..+..++.+|+..+  +.|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+.+||
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~al~~~~~~~--~dlvilD~~lp~~~g~~~~~~l~~~~~~~~i   80 (133)
T 3b2n_A            3 LTSLIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEEYN--PNVVILDIEMPGMTGLEVLAEIRKKHLNIKV   80 (133)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHSSEEEEEEESCHHHHHHHHHHHC--CSEEEECSSCSSSCHHHHHHHHHHTTCSCEE
T ss_pred             ceEEEEECCCHHHHHHHHHHHhhCCCcEEEEEcCCHHHHHHHHhhcC--CCEEEEecCCCCCCHHHHHHHHHHHCCCCcE
Confidence            3689999999999999999999866  45668999999999998765  999999999999999999999964 578999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.....++++.||++||.||++.++|..++++++++..
T Consensus        81 i~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~  125 (133)
T 3b2n_A           81 IIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNNGEK  125 (133)
T ss_dssp             EEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC---
T ss_pred             EEEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999999999887644

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.82  E-value=5.1e-20  Score=162.65  Aligned_cols=121  Identities=22%  Similarity=0.307  Sum_probs=111.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHHHHHHHHhcCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD-MDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGleLLe~Lr~~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+.+. ..||+||+|+.||+ ++|+++++.++..+++|||+
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~-~~~dlvi~D~~l~~~~~g~~~~~~l~~~~~~~ii~   83 (140)
T 3h5i_A            5 DKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGG-WYPDLILMDIELGEGMDGVQTALAIQQISELPVVF   83 (140)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTT-CCCSEEEEESSCSSSCCHHHHHHHHHHHCCCCEEE
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHHcCCEEEEecChHHHHHHHhcC-CCCCEEEEeccCCCCCCHHHHHHHHHhCCCCCEEE
Confidence            47999999999999999999999999999999999999999762 25999999999995 99999999997678999999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++.+
T Consensus        84 ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~  126 (140)
T 3h5i_A           84 LTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLYE  126 (140)
T ss_dssp             EESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHHHHH
T ss_pred             EECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999998888999999999999999999999999999987643

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.82  E-value=1.5e-19  Score=156.73  Aligned_cols=120  Identities=28%  Similarity=0.462  Sum_probs=103.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+..||.|..+.++.+|++.+.+.  .||+||+|+.||+++|+++++.++ ..+.+|||
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~--~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii   83 (130)
T 3eod_A            6 VGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGF--TPDLMICDIAMPRMNGLKLLEHIRNRGDQTPVL   83 (130)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTTC--CCSEEEECCC-----CHHHHHHHHHTTCCCCEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhcC--CCCEEEEecCCCCCCHHHHHHHHHhcCCCCCEE
Confidence            357999999999999999999999999999999999999999765  499999999999999999999886 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCC-CHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.....++++.||++||.||+ +.++|..+++.++++.
T Consensus        84 ~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~~~  127 (130)
T 3eod_A           84 VISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYPS  127 (130)
T ss_dssp             EEECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC--
T ss_pred             EEEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhchh
Confidence            999999999999999999999999999 8999999999998764

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A

Probab=99.82  E-value=1.4e-19  Score=172.26  Aligned_cols=122  Identities=25%  Similarity=0.396  Sum_probs=107.8

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCC-eEEEECCHHHHHHHHHhc-----------CCCceEEEEeCCCCCCCHHHHH
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQY-EVTVTNRAITALKMLREN-----------RNNFDLVISDVYMPDMDGFKLL   88 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy-~V~~a~sg~eALe~L~e~-----------~~~pDLVIlDi~MPdmdGleLL   88 (524)
                      ..+++||||||++..+..++.+|+..|| .|..+.++.+|++.+.+.           ...|||||+|+.||+++|++++
T Consensus        59 ~~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el~  138 (206)
T 3mm4_A           59 LRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEAT  138 (206)
T ss_dssp             TTTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccccccccCCCCCEEEEcCCCCCCCHHHHH
Confidence            3568999999999999999999999998 899999999999999864           1259999999999999999999


Q ss_pred             HHHhc-----CCCCcEEEEecCC-CHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           89 ELVGL-----EMDLPVVMLSAYS-DTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        89 e~Lr~-----~~diPVIvlTa~~-d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +.|+.     .+++|||++|+.. +.+...++++.||++||.||++  +|..+|+.++++.+
T Consensus       139 ~~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~~~~  198 (206)
T 3mm4_A          139 REIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIESKRH  198 (206)
T ss_dssp             HHHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC----
T ss_pred             HHHHhhhhhcCCCCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHhhhH
Confidence            99875     4789999999998 8888999999999999999999  89999998876543

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.82  E-value=2e-19  Score=156.29  Aligned_cols=118  Identities=29%  Similarity=0.548  Sum_probs=108.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc--CCCCcE
Q 009824           24 MRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL--EMDLPV   99 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~diPV   99 (524)
                      ++||||||++..+..++.+|+.. ||+++ .+.++.+|++.+....  ||+||+|+.||+++|+++++.++.  .+.+||
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~~~~--~dlvllD~~l~~~~g~~~~~~l~~~~~~~~~i   80 (130)
T 1dz3_A            3 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKR--PDILLLDIIMPHLDGLAVLERIRAGFEHQPNV   80 (130)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHHCSSCCEE
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHhcCC--CCEEEEecCCCCCCHHHHHHHHHhcCCCCCcE
Confidence            68999999999999999999987 88876 7899999999998765  999999999999999999999864  467899


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.....++++.||++||.||++.++|..++++++++.
T Consensus        81 i~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~~  124 (130)
T 1dz3_A           81 IMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGKT  124 (130)
T ss_dssp             EEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHHCC
T ss_pred             EEEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999988754

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.82  E-value=3.4e-19  Score=156.62  Aligned_cols=124  Identities=22%  Similarity=0.284  Sum_probs=111.5

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhcC---CCceEEEEeCCCCCCCHHHHHHHHhc--
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRENR---NNFDLVISDVYMPDMDGFKLLELVGL--   93 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~~---~~pDLVIlDi~MPdmdGleLLe~Lr~--   93 (524)
                      ...++||||||++..+..++.+|+..|+  .|..+.++.+|++.+.+..   ..||+||+|+.||+++|+++++.++.  
T Consensus         7 ~~~~~iLivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~   86 (146)
T 3ilh_A            7 RKIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGRWPSIICIDINMPGINGWELIDLFKQHF   86 (146)
T ss_dssp             CCEEEEEEECSCHHHHHHHHHHHHTTCCEEEEEEESSHHHHHHHHHHHHTSSCCCSEEEEESSCSSSCHHHHHHHHHHHC
T ss_pred             CccceEEEEeCCHHHHHHHHHHHHhcCCCeeeeecCCHHHHHHHHHHhhccCCCCCEEEEcCCCCCCCHHHHHHHHHHhh
Confidence            3568999999999999999999999999  8889999999999998710   24999999999999999999998864  


Q ss_pred             ---CCCCcEEEEecCCCHHHHHHHHhcC-CcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           94 ---EMDLPVVMLSAYSDTKLVMKGINHG-ACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        94 ---~~diPVIvlTa~~d~~~~~~al~~G-A~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                         .+.+|||++|+..+.....+++..| |++||.||++.++|..+|+++.....
T Consensus        87 ~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~~~~  141 (146)
T 3ilh_A           87 QPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLNEGH  141 (146)
T ss_dssp             GGGTTTCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHCC--
T ss_pred             hhccCCCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHHhcc
Confidence               5789999999999999999999999 99999999999999999999876543

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.82  E-value=2e-19  Score=156.35  Aligned_cols=120  Identities=24%  Similarity=0.337  Sum_probs=104.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      ..++||||||++..+..++.+|+ .+|+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++.   .+.+|
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~-~~~~v~~~~~~~~a~~~l~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~~p   79 (133)
T 3nhm_A            3 LKPKVLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQALAHP--PDVLISDVNMDGMDGYALCGHFRSEPTLKHIP   79 (133)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHT-TTSEEEEESSHHHHHHHHHHSC--CSEEEECSSCSSSCHHHHHHHHHHSTTTTTCC
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHh-CCcEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhCCccCCCC
Confidence            45799999999999999999998 7999999999999999998765  999999999999999999999975   45899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      ||++|+..+... .++++.||++||.||++.++|..+++.++++...
T Consensus        80 ii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~~  125 (133)
T 3nhm_A           80 VIFVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLARAEA  125 (133)
T ss_dssp             EEEEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHHHHC-
T ss_pred             EEEEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHhhhcc
Confidence            999999988877 8999999999999999999999999999987643

>3kht_A Response regulator; PSI-II, 11023K, structural genomics, Pro structure initiative, NEW YORK SGX research center for STRU genomics, nysgxrc; 2.10A {Hahella chejuensis} SCOP: c.23.1.0

Probab=99.82  E-value=2.6e-19  Score=158.21  Aligned_cols=120  Identities=18%  Similarity=0.331  Sum_probs=111.8

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCe--EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCC
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYE--VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDL   97 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~--V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~di   97 (524)
                      +++||||||++..+..++.+|+..||.  |..+.++.+|++.+...  .||+||+|+.||+++|+++++.++.   .+.+
T Consensus         5 ~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~--~~dlii~D~~l~~~~g~~~~~~lr~~~~~~~~   82 (144)
T 3kht_A            5 SKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQA--KYDLIILDIGLPIANGFEVMSAVRKPGANQHT   82 (144)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHHTTC--CCSEEEECTTCGGGCHHHHHHHHHSSSTTTTC
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHhhcC--CCCEEEEeCCCCCCCHHHHHHHHHhcccccCC
Confidence            579999999999999999999999987  88999999999999765  4999999999999999999999975   5789


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCC-CHHHHHHHHHHHHHhcc
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHVIRRKK  144 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~~~  144 (524)
                      |||++|+..+.+...++++.||++||.||+ +.++|..+|+.++++..
T Consensus        83 pii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~~~~  130 (144)
T 3kht_A           83 PIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSYWL  130 (144)
T ss_dssp             CEEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999 99999999999998754

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} SCOP: c.23.1.0

Probab=99.82  E-value=2.1e-19  Score=157.20  Aligned_cols=121  Identities=23%  Similarity=0.375  Sum_probs=112.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+..+|.|..+.++.+|++.+++..  ||+||+|+.||+++|+++++.++ ..+.+|||
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii   83 (137)
T 3hdg_A            6 VALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHA--PDVIITDIRMPKLGGLEMLDRIKAGGAKPYVI   83 (137)
T ss_dssp             -CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHHHHC--CSEEEECSSCSSSCHHHHHHHHHHTTCCCEEE
T ss_pred             cccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHhccC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEE
Confidence            3589999999999999999999998999999999999999998765  99999999999999999999886 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.+...++++.||++||.||++.++|..++++++++..
T Consensus        84 ~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  127 (137)
T 3hdg_A           84 VISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHIKL  127 (137)
T ss_dssp             ECCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHHHHH
T ss_pred             EEecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999988654

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} SCOP: c.23.1.0

Probab=99.82  E-value=9.9e-20  Score=157.30  Aligned_cols=118  Identities=21%  Similarity=0.298  Sum_probs=106.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPV   99 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++.   .+.+||
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlii~D~~l~~~~g~~~~~~l~~~~~~~~~~i   80 (127)
T 3i42_A            3 LQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRG--YDAVFIDLNLPDTSGLALVKQLRALPMEKTSKF   80 (127)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHSC--CSEEEEESBCSSSBHHHHHHHHHHSCCSSCCEE
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhhhccCCCCE
Confidence            479999999999999999999999999999999999999998765  999999999999999999999964   578999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+... .+++..||++||.||++.++|..++++..+..
T Consensus        81 i~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~~  123 (127)
T 3i42_A           81 VAVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEGHH  123 (127)
T ss_dssp             EEEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC---
T ss_pred             EEEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhccC
Confidence            99999998888 88999999999999999999999999876543

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea}

Probab=99.81  E-value=6.8e-19  Score=154.18  Aligned_cols=121  Identities=22%  Similarity=0.392  Sum_probs=111.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHh-CCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRE-CQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMD   96 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~-~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~d   96 (524)
                      .+++||||||++..+..++.+|+. .||+ |..+.++.+|++.+++..  ||+||+|+.||+++|+++++.++.   .+.
T Consensus         7 ~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~~~   84 (143)
T 3cnb_A            7 NDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHTVK--PDVVMLDLMMVGMDGFSICHRIKSTPATAN   84 (143)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHHHTC--CSEEEEETTCTTSCHHHHHHHHHTSTTTTT
T ss_pred             CCceEEEEECCHHHHHHHHHHHHhccCccEEEEECCHHHHHHHHHhcC--CCEEEEecccCCCcHHHHHHHHHhCccccC
Confidence            468999999999999999999998 8999 889999999999998764  999999999999999999999975   578


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|||++|+..+.....++++.||++||.||++.++|..++++++++..
T Consensus        85 ~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  132 (143)
T 3cnb_A           85 IIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQKK  132 (143)
T ss_dssp             SEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHTTC
T ss_pred             CcEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhhc
Confidence            999999999999999999999999999999999999999999988754

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.81  E-value=3.6e-19  Score=158.96  Aligned_cols=123  Identities=22%  Similarity=0.361  Sum_probs=111.7

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCC--CeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMD   96 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~g--y~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~d   96 (524)
                      ...+++||||||++..+..++.+|+..+  +.|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+.
T Consensus        17 ~~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~--~dlii~D~~l~~~~g~~~~~~l~~~~~~   94 (150)
T 4e7p_A           17 RGSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLLEKES--VDIAILDVEMPVKTGLEVLEWIRSEKLE   94 (150)
T ss_dssp             ---CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHTTSC--CSEEEECSSCSSSCHHHHHHHHHHTTCS
T ss_pred             CCCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHhhccC--CCEEEEeCCCCCCcHHHHHHHHHHhCCC
Confidence            3346899999999999999999999876  78889999999999997654  99999999999999999999886 4678


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|||++|+..+.+...++++.||++||.||++.++|..++++++++..
T Consensus        95 ~~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~~  142 (150)
T 4e7p_A           95 TKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLEGRK  142 (150)
T ss_dssp             CEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHTTCC
T ss_pred             CeEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHcCCE
Confidence            999999999999999999999999999999999999999999988754

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.81  E-value=2.8e-20  Score=187.47  Aligned_cols=118  Identities=20%  Similarity=0.328  Sum_probs=108.4

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCC-CCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMP-DMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MP-dmdGleLLe~Lr~~~diPVI  100 (524)
                      +.+||||||++.++..++.+|+..||+|+ .+.++.+|++.+.+..  |||||+|+.|| +|||+++++.|+..+++|||
T Consensus       160 ~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~~~~~--~dlvl~D~~MPd~mdG~e~~~~ir~~~~~piI  237 (286)
T 3n0r_A          160 ATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRT--PGLVLADIQLADGSSGIDAVKDILGRMDVPVI  237 (286)
T ss_dssp             CCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHCC--CSEEEEESCCTTSCCTTTTTHHHHHHTTCCEE
T ss_pred             CCcEEEEcCCHHHHHHHHHHhhccCceEEEEeCCHHHHHHHHHhCC--CCEEEEcCCCCCCCCHHHHHHHHHhcCCCCEE
Confidence            35899999999999999999999999999 9999999999998765  99999999999 79999999999765599999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|++.+  ...+++++||++||.||++.++|..+|+.++++..
T Consensus       238 ~lT~~~~--~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~~~  279 (286)
T 3n0r_A          238 FITAFPE--RLLTGERPEPTFLITKPFQPETVKAAIGQALFFHP  279 (286)
T ss_dssp             EEESCGG--GGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHHSC
T ss_pred             EEeCCHH--HHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHhCC
Confidence            9999864  46778999999999999999999999999998753

>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY homologue, homodimer, (beta/alpha)5, signaling protein; HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1

Probab=99.81  E-value=5.2e-19  Score=153.72  Aligned_cols=122  Identities=18%  Similarity=0.322  Sum_probs=111.5

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhc-----CCCceEEEEeCCCCCCCHHHHHHHHhcC-
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLREN-----RNNFDLVISDVYMPDMDGFKLLELVGLE-   94 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~-----~~~pDLVIlDi~MPdmdGleLLe~Lr~~-   94 (524)
                      +++||||||++..+..++.+|+..||  .|..+.++.+|++.+.+.     ...||+||+|+.||+++|+++++.++.. 
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   81 (140)
T 1k68_A            2 HKKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXLNLPKKDGREVLAEIKSDP   81 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGGSCCCCSEEEECSSCSSSCHHHHHHHHHHST
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHcccccccCCCCcEEEEecCCCcccHHHHHHHHHcCc
Confidence            57999999999999999999999988  899999999999999751     0359999999999999999999999754 


Q ss_pred             --CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           95 --MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        95 --~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                        +.+|||++|+..+.+...++++.||++||.||++.++|..++++++++..
T Consensus        82 ~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  133 (140)
T 1k68_A           82 TLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEFWL  133 (140)
T ss_dssp             TGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHH
T ss_pred             ccccccEEEEecCCcHHHHHHHHHhchhheecCCCCHHHHHHHHHHHHHHHc
Confidence              68999999999999999999999999999999999999999999987653

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi}

Probab=99.81  E-value=3.1e-19  Score=161.12  Aligned_cols=119  Identities=24%  Similarity=0.368  Sum_probs=110.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      +++||||||++..+..++.+|+..||+|+ .+.++.+|++.+.+....|||||+|+.||+++|+++++.++ ..+.+|||
T Consensus        36 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~l~~~~~~~dliilD~~l~~~~g~~~~~~lr~~~~~~~ii  115 (157)
T 3hzh_A           36 PFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYPNIDIVTLXITMPKMDGITCLSNIMEFDKNARVI  115 (157)
T ss_dssp             ECEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHGGGCCEEEECSSCSSSCHHHHHHHHHHHCTTCCEE
T ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHhcCCCCCEEEEeccCCCccHHHHHHHHHhhCCCCcEE
Confidence            47999999999999999999999999998 99999999999987621389999999999999999999886 46789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      ++|+..+.+...+++++||++||.||++.++|..+|+.+++
T Consensus       116 ~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~  156 (157)
T 3hzh_A          116 MISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVFV  156 (157)
T ss_dssp             EEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTTC
T ss_pred             EEeccCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999988754

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.81  E-value=3.3e-19  Score=157.36  Aligned_cols=118  Identities=24%  Similarity=0.470  Sum_probs=110.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+.+|||++
T Consensus         5 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlvllD~~l~~~~g~~l~~~l~~~~~~~~ii~l   82 (137)
T 3cfy_A            5 PRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERSK--PQLIILDLKLPDMSGEDVLDWINQNDIPTSVIIA   82 (137)
T ss_dssp             CEEEEECSCTTHHHHHHHHTTTSSSEEEEESSHHHHHHHHHHHC--CSEEEECSBCSSSBHHHHHHHHHHTTCCCEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhcCceEEEeCCHHHHHHHHHhcC--CCEEEEecCCCCCCHHHHHHHHHhcCCCCCEEEE
Confidence            48999999999999999999988999999999999999998765  999999999999999999999964 578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        83 s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  123 (137)
T 3cfy_A           83 TAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKRA  123 (137)
T ss_dssp             ESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988654

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.81  E-value=4.3e-19  Score=157.12  Aligned_cols=121  Identities=21%  Similarity=0.329  Sum_probs=112.8

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++.   .+.+|
T Consensus         7 ~~~~iLivd~~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~p   84 (147)
T 2zay_A            7 KWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVKTH--PHLIITEANMPKISGMDLFNSLKKNPQTASIP   84 (147)
T ss_dssp             -CEEEEEECTTGGGGHHHHHHHHHHTEEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHTSTTTTTSC
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHHcCC--CCEEEEcCCCCCCCHHHHHHHHHcCcccCCCC
Confidence            3589999999999999999999999999999999999999998765  999999999999999999999975   57899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ||++|+..+.....++++.||++||.||++.++|..+++.++++.+
T Consensus        85 ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~~  130 (147)
T 2zay_A           85 VIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLLY  130 (147)
T ss_dssp             EEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHHC
T ss_pred             EEEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987654

>1mvo_A PHOP response regulator; phosphate regulon, transcriptional regulatory protein, alpha/beta doubly wound fold, phosphorylation; 1.60A {Bacillus subtilis} SCOP: c.23.1.1

Probab=99.81  E-value=5.5e-19  Score=154.09  Aligned_cols=118  Identities=27%  Similarity=0.500  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      .+||||||++..+..++.+|+..||+|..+.++.++++.+....  ||+||+|+.||+++|+++++.++. .+.+|||++
T Consensus         4 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~--~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   81 (136)
T 1mvo_A            4 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEK--PDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILML   81 (136)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhhcC--CCEEEEecCCCCCCHHHHHHHHHcCCCCCCEEEE
Confidence            68999999999999999999999999999999999999988764  999999999999999999999964 478999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  122 (136)
T 1mvo_A           82 TAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRS  122 (136)
T ss_dssp             ECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHTC
T ss_pred             ECCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHHhh
Confidence            99999888899999999999999999999999999988764

>2jba_A Phosphate regulon transcriptional regulatory PROT; transcription factor, sensory transduction, phosphate regula transcription regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A 2iyn_A 2jb9_A 1zes_A

Probab=99.81  E-value=9.5e-20  Score=156.79  Aligned_cols=118  Identities=26%  Similarity=0.397  Sum_probs=109.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      ++||||||++..+..++.+|+..||+|..+.++.++++.+...  .||+||+|+.||+++|+++++.++..   +++|||
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~--~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~ii   80 (127)
T 2jba_A            3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP--WPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVV   80 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTCSSS--CCSEEEEESEETTEEHHHHHHHHHTSTTTTTSCEE
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhcc--CCCEEEEecCCCCCCHHHHHHHHHhCcccCCCCEE
Confidence            6899999999999999999999999999999999999988654  49999999999999999999999753   689999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        81 ~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~  123 (127)
T 2jba_A           81 MLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRRI  123 (127)
T ss_dssp             EEEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHHHCC
T ss_pred             EEeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999999999999999988764

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.80  E-value=6.2e-19  Score=155.27  Aligned_cols=119  Identities=29%  Similarity=0.411  Sum_probs=106.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPV   99 (524)
                      .++||||||++..+..++.+|+..||.|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++..   +.+||
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~i   80 (138)
T 3c3m_A            3 LYTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNATP--PDLVLLDIMMEPMDGWETLERIKTDPATRDIPV   80 (138)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCE
T ss_pred             cceEEEEeCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHhccC--CCEEEEeCCCCCCCHHHHHHHHHcCcccCCCCE
Confidence            368999999999999999999999999999999999999998754  9999999999999999999999643   57999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+......++..|+++||.||++.++|..+++.++++.
T Consensus        81 i~ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~~~~  124 (138)
T 3c3m_A           81 LMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLARR  124 (138)
T ss_dssp             EEEESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHHSCC
T ss_pred             EEEECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHHHHh
Confidence            99999887666666667788999999999999999999988654

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.80  E-value=2.2e-19  Score=159.10  Aligned_cols=122  Identities=16%  Similarity=0.273  Sum_probs=110.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCC-CeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQ-YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~g-y~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      .+.+||||||++..+..++.+|+..| |+|..+.++.+++..+.+....|||||+|+.||+++|+++++.++ ..+.+||
T Consensus        19 ~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~i   98 (146)
T 4dad_A           19 GMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDAFDILMIDGAALDTAELAAIEKLSRLHPGLTC   98 (146)
T ss_dssp             GGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCHHHHTTCSEEEEECTTCCHHHHHHHHHHHHHCTTCEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHHhcCCCCCEEEEeCCCCCccHHHHHHHHHHhCCCCcE
Confidence            46899999999999999999999988 999999999988887654202499999999999999999999885 4678999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.+...++++.||++||.||++.++|..+|+.++++.
T Consensus        99 i~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~  142 (146)
T 4dad_A           99 LLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAAQC  142 (146)
T ss_dssp             EEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHHTC
T ss_pred             EEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999998864

>1k66_A Phytochrome response regulator RCPB; CHEY homologue, homodimer, APO-protein, (beta/alpha)5, signaling protein; 1.75A {Tolypothrix SP} SCOP: c.23.1.1

Probab=99.80  E-value=8.1e-19  Score=154.40  Aligned_cols=122  Identities=20%  Similarity=0.323  Sum_probs=111.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhcC--------CCceEEEEeCCCCCCCHHHHHHHHh
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRENR--------NNFDLVISDVYMPDMDGFKLLELVG   92 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~~--------~~pDLVIlDi~MPdmdGleLLe~Lr   92 (524)
                      +++||||||++..+..++.+|+..||  .|..+.++.+|++.+....        ..||+||+|+.||+++|+++++.++
T Consensus         6 ~~~iLivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~~~~~~~~~dlvi~D~~l~~~~g~~~~~~l~   85 (149)
T 1k66_A            6 TQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLDLNLPGTDGREVLQEIK   85 (149)
T ss_dssp             TSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSCGGGCCCCSEEEECSCCSSSCHHHHHHHHT
T ss_pred             CccEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHHHHHHHHhcccccCcccCCCCcEEEEECCCCCCCHHHHHHHHH
Confidence            47899999999999999999999988  8999999999999998510        3599999999999999999999997


Q ss_pred             cC---CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           93 LE---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        93 ~~---~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ..   +.+|||++|+..+.....++++.||++||.||++.++|..+++.++++..
T Consensus        86 ~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  140 (149)
T 1k66_A           86 QDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYWL  140 (149)
T ss_dssp             TSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHH
T ss_pred             hCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHhh
Confidence            54   68999999999999999999999999999999999999999999987653

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.80  E-value=3.3e-20  Score=162.59  Aligned_cols=120  Identities=18%  Similarity=0.097  Sum_probs=109.1

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCC-CeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCc
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQ-YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLP   98 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~g-y~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diP   98 (524)
                      ...++||||||++..+..++.+|+..| |+|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++. .+++|
T Consensus        12 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~l~~~--~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~   89 (135)
T 3snk_A           12 TKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADT--RPGIVILDLGGGDLLGKPGIVEARALWATVP   89 (135)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHHTSSEEEEEECGGGGGGCCCTTC--CCSEEEEEEETTGGGGSTTHHHHHGGGTTCC
T ss_pred             CCCcEEEEEcCCHHHHHHHHHHHhhcCCeEEEEeccHHHHHHHHhcc--CCCEEEEeCCCCCchHHHHHHHHHhhCCCCc
Confidence            345799999999999999999999999 9999999999999988654  4999999999999999999999864 46899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|+..+.+...++++.||++||.||++.++|..+++.++++
T Consensus        90 ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~  133 (135)
T 3snk_A           90 LIAVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHDTG  133 (135)
T ss_dssp             EEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC--
T ss_pred             EEEEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999987654

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*

Probab=99.80  E-value=4.7e-19  Score=175.17  Aligned_cols=122  Identities=28%  Similarity=0.410  Sum_probs=111.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diP   98 (524)
                      ..++||||||++..+..+...|+..+|.|..+.++.+|++.+.+. ..||+||+|+.||++||+++++.++..   ..+|
T Consensus       123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~~~-~~~dlvllD~~mP~~dG~~l~~~lr~~~~~~~~~  201 (259)
T 3luf_A          123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQH-PAIRLVLVDYYMPEIDGISLVRMLRERYSKQQLA  201 (259)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHC-TTEEEEEECSCCSSSCHHHHHHHHHHHCCTTTSE
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcC-CCCCEEEEcCCCCCCCHHHHHHHHHhccCCCCCe
Confidence            358999999999999999999999999999999999999999764 248999999999999999999999642   3689


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ||++|+..+.....+++++||++||.||++.++|..++++++++..
T Consensus       202 ii~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~  247 (259)
T 3luf_A          202 IIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLEALE  247 (259)
T ss_dssp             EEEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHHhHh
Confidence            9999999999999999999999999999999999999999987653

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.80  E-value=9.7e-19  Score=152.94  Aligned_cols=121  Identities=22%  Similarity=0.344  Sum_probs=112.3

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCC-CCCHHHHHHHHhcCCCCcE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMP-DMDGFKLLELVGLEMDLPV   99 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MP-dmdGleLLe~Lr~~~diPV   99 (524)
                      .+++||||||++..+..++.+|+..||+|. .+.++.+|++.+.+..  ||+||+|+.|| +++|+++++.++..+.+||
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~~~--~dlii~d~~~~~~~~g~~~~~~l~~~~~~~i   85 (140)
T 3cg0_A            8 DLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLR--PDIALVDIMLCGALDGVETAARLAAGCNLPI   85 (140)
T ss_dssp             CCCEEEEECCBHHHHHHHHHHHHHHTCEEEEEESSHHHHHHHHHHHC--CSEEEEESSCCSSSCHHHHHHHHHHHSCCCE
T ss_pred             CCceEEEEECCHHHHHHHHHHHHHCCCeeEEEECCHHHHHHHHHhCC--CCEEEEecCCCCCCCHHHHHHHHHhCCCCCE
Confidence            458999999999999999999999999999 5999999999998765  99999999999 7999999998864488999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.....++++.||++||.||++.++|..+++.++++..
T Consensus        86 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~  130 (140)
T 3cg0_A           86 IFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKKK  130 (140)
T ss_dssp             EEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHhccc
Confidence            999999999999999999999999999999999999999988654

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.80  E-value=1.4e-18  Score=155.24  Aligned_cols=125  Identities=23%  Similarity=0.325  Sum_probs=111.2

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCe--EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYE--VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMD   96 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~--V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~d   96 (524)
                      .+.+.+||||||++..+..++.+|+..|+.  |..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+.
T Consensus        12 ~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~   89 (152)
T 3eul_A           12 QPEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKAHL--PDVALLDYRMPGMDGAQVAAAVRSYELP   89 (152)
T ss_dssp             --CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHHHHC--CSEEEEETTCSSSCHHHHHHHHHHTTCS
T ss_pred             CCceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhcCCC
Confidence            446789999999999999999999988854  448999999999998765  99999999999999999999886 4678


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCC
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVD  146 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~  146 (524)
                      +|||++|+..+.....++++.||++||.||++.++|..+++.++++....
T Consensus        90 ~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~~~~  139 (152)
T 3eul_A           90 TRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKGRDVV  139 (152)
T ss_dssp             CEEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHCC---
T ss_pred             CeEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCeee
Confidence            99999999999999999999999999999999999999999999876543

>1s8n_A Putative antiterminator; RV1626, structural genomics, transcriptional antiterminator, component system, PSI; 1.48A {Mycobacterium tuberculosis} SCOP: c.23.1.1 PDB: 1sd5_A

Probab=99.80  E-value=6.6e-19  Score=165.83  Aligned_cols=119  Identities=30%  Similarity=0.436  Sum_probs=111.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      .++||||||++..+..++.+|+..||+|+ .+.++.+|++.+....  ||+||+|+.||+++|+++++.++.....|||+
T Consensus        13 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~~~~--~dlvi~D~~~p~~~g~~~~~~l~~~~~~pii~   90 (205)
T 1s8n_A           13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHK--PDLVIMDVKMPRRDGIDAASEIASKRIAPIVV   90 (205)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHHTTCSCEEE
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHhhcC--CCEEEEeCCCCCCChHHHHHHHHhcCCCCEEE
Confidence            37999999999999999999999999998 8999999999998765  99999999999999999999997655579999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        91 lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  132 (205)
T 1s8n_A           91 LTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRF  132 (205)
T ss_dssp             EEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998764

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.80  E-value=1.3e-18  Score=150.90  Aligned_cols=119  Identities=22%  Similarity=0.391  Sum_probs=103.2

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCC---CCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEM---DLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~---diP   98 (524)
                      .+++||||||++..+..++.+|++.||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++...   ..+
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~~   82 (132)
T 3lte_A            5 QSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTFE--PAIMTLDLSMPKLDGLDVIRSLRQNKVANQPK   82 (132)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHTC--CSEEEEESCBTTBCHHHHHHHHHTTTCSSCCE
T ss_pred             CCccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhcC--CCEEEEecCCCCCCHHHHHHHHHhcCccCCCe
Confidence            4589999999999999999999999999999999999999998764  99999999999999999999997543   455


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ||+++...+. ...++++.||++||.||++.++|..+|+++....
T Consensus        83 ii~~~~~~~~-~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  126 (132)
T 3lte_A           83 ILVVSGLDKA-KLQQAVTEGADDYLEKPFDNDALLDRIHDLVNEG  126 (132)
T ss_dssp             EEEECCSCSH-HHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC--
T ss_pred             EEEEeCCChH-HHHHHHHhChHHHhhCCCCHHHHHHHHHHHcCCC
Confidence            6666665554 7889999999999999999999999999987654

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.80  E-value=7.1e-19  Score=154.77  Aligned_cols=120  Identities=27%  Similarity=0.456  Sum_probs=110.5

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+.+.  .||+||+|+ ||+++|+++++.++ ..+++|||
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~--~~dlvi~d~-~~~~~g~~~~~~l~~~~~~~pii   79 (142)
T 2qxy_A            3 LTPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRRE--KIDLVFVDV-FEGEESLNLIRRIREEFPDTKVA   79 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTS--CCSEEEEEC-TTTHHHHHHHHHHHHHCTTCEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhcc--CCCEEEEeC-CCCCcHHHHHHHHHHHCCCCCEE
Confidence            457999999999999999999999999999999999999999765  499999999 99999999999885 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        80 ~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  123 (142)
T 2qxy_A           80 VLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISSTP  123 (142)
T ss_dssp             EEESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC--
T ss_pred             EEECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHhhcc
Confidence            99999999999999999999999999999999999999987654

>3n53_A Response regulator receiver modulated diguanylate; diguanylate cyclase, protein structure I II(PSI II), NYSGXRC, structural genomics; 2.20A {Pelobacter carbinolicus} SCOP: c.23.1.0

Probab=99.80  E-value=2.7e-19  Score=157.41  Aligned_cols=120  Identities=23%  Similarity=0.333  Sum_probs=101.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPV   99 (524)
                      +++||||||++..+..++.+|+.. |.|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++..   +.+||
T Consensus         3 ~~~iLivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~~~--~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~~~i   79 (140)
T 3n53_A            3 LKKILIIDQQDFSRIELKNFLDSE-YLVIESKNEKEALEQIDHHH--PDLVILDMDIIGENSPNLCLKLKRSKGLKNVPL   79 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTT-SEEEEESSHHHHHHHHHHHC--CSEEEEETTC------CHHHHHHTSTTCTTCCE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhc-ceEEEeCCHHHHHHHHhcCC--CCEEEEeCCCCCCcHHHHHHHHHcCcccCCCCE
Confidence            478999999999999999999887 99999999999999998765  9999999999999999999999754   78999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      |++|+..+.+...++++.||++||.||++.++|..+++.++++...
T Consensus        80 i~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~  125 (140)
T 3n53_A           80 ILLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLRTQNY  125 (140)
T ss_dssp             EEEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHhhHHH
Confidence            9999999999999999999999999999999999999999887543

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.79  E-value=1.4e-18  Score=155.39  Aligned_cols=121  Identities=26%  Similarity=0.472  Sum_probs=111.1

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+. +|+|..+.++.+|++.+.+.. .||+||+|+.||+++|+++++.++ ..+.+|||
T Consensus         3 ~~~~ILivdd~~~~~~~l~~~L~~-~~~v~~~~~~~~a~~~l~~~~-~~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii   80 (151)
T 3kcn_A            3 LNERILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSD-PFSVIMVDMRMPGMEGTEVIQKARLISPNSVYL   80 (151)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHTT-TSEEEEESSHHHHHHHHHHSC-CCSEEEEESCCSSSCHHHHHHHHHHHCSSCEEE
T ss_pred             CCCeEEEEeCCHHHHHHHHHHhcc-CceEEEeCCHHHHHHHHHcCC-CCCEEEEeCCCCCCcHHHHHHHHHhcCCCcEEE
Confidence            458999999999999999999976 999999999999999998753 369999999999999999999886 46889999


Q ss_pred             EEecCCCHHHHHHHHhcC-CcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHG-ACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~G-A~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.....++++.| |++||.||++.++|..+|+.++++..
T Consensus        81 ~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~~~~  125 (151)
T 3kcn_A           81 MLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQYD  125 (151)
T ss_dssp             EEECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999 99999999999999999999987653

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.79  E-value=4.1e-19  Score=156.02  Aligned_cols=121  Identities=22%  Similarity=0.366  Sum_probs=112.0

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.++...  ||+||+|+.||+++|+++++.++.   .+.+|
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlii~d~~l~~~~g~~~~~~l~~~~~~~~~p   83 (142)
T 3cg4_A            6 HKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGF--SGVVLLDIMMPGMDGWDTIRAILDNSLEQGIA   83 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTCC--CEEEEEESCCSSSCHHHHHHHHHHTTCCTTEE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCeEEEEeCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHhhcccCCCC
Confidence            4589999999999999999999999999999999999999998654  999999999999999999999964   57899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ||++|+..+.....++++.||++||.||++.++|..+++.++++.+
T Consensus        84 ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~  129 (142)
T 3cg4_A           84 IVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGFVR  129 (142)
T ss_dssp             EEEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHHHHh
Confidence            9999999988888899999999999999999999999999987654

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.79  E-value=2e-18  Score=150.96  Aligned_cols=120  Identities=27%  Similarity=0.444  Sum_probs=110.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCC-----CCCHHHHHHHHh-cCCC
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP-----DMDGFKLLELVG-LEMD   96 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MP-----dmdGleLLe~Lr-~~~d   96 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||     +++|+++++.++ ..+.
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlvi~d~~~~~~~~~~~~g~~~~~~l~~~~~~   80 (140)
T 2qr3_A            3 LGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREEN--PEVVLLDMNFTSGINNGNEGLFWLHEIKRQYRD   80 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHHHHSC--EEEEEEETTTTC-----CCHHHHHHHHHHHCTT
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHHcCC--CCEEEEeCCcCCCCCCCccHHHHHHHHHhhCcC
Confidence            479999999999999999999999999999999999999998764  99999999999     999999999885 4678


Q ss_pred             CcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824           97 LPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus        97 iPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|||++|+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        81 ~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~~  128 (140)
T 2qr3_A           81 LPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAASQAK  128 (140)
T ss_dssp             CCEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTCC-
T ss_pred             CCEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999999999999999999987654

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.79  E-value=5.1e-19  Score=184.64  Aligned_cols=119  Identities=28%  Similarity=0.448  Sum_probs=111.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+||||||++.++..++.+|+..||.|..+.++.+|++.+....  ||+||+|+.||+|||+++++.++ ..+++|||++
T Consensus         1 ~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~--~DlvllDi~mP~~dG~ell~~lr~~~~~~pvI~l   78 (368)
T 3dzd_A            1 KRVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKELF--FPVIVLDVWMPDGDGVNFIDFIKENSPDSVVIVI   78 (368)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHBC--CSEEEEESEETTEETTTHHHHHHHHCTTCEEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCCeEEEE
Confidence            37999999999999999999999999999999999999998765  99999999999999999999886 4688999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++.+.+.+.++++.||++||.||++.++|..++++++....
T Consensus        79 T~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~  120 (368)
T 3dzd_A           79 TGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEYS  120 (368)
T ss_dssp             ECSSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHHS
T ss_pred             eCCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999987653

>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A*

Probab=99.79  E-value=1.6e-18  Score=164.65  Aligned_cols=120  Identities=34%  Similarity=0.564  Sum_probs=112.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+++|||+
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~--~dlvllD~~l~~~~g~~~~~~lr~~~~~~~ii~   79 (225)
T 1kgs_A            2 NVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP--FDVVILDIMLPVHDGWEILKSMRESGVNTPVLM   79 (225)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            379999999999999999999999999999999999999998754  999999999999999999999964 57899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.....++++.||++||.||++.++|..+++.++++..
T Consensus        80 ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~~  122 (225)
T 1kgs_A           80 LTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRKS  122 (225)
T ss_dssp             EESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHHHC
T ss_pred             EeCCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHhhcc
Confidence            9999999999999999999999999999999999999988754

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.79  E-value=8.8e-19  Score=148.68  Aligned_cols=113  Identities=28%  Similarity=0.488  Sum_probs=103.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      ++||||||++..+..++..|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~--~dlvl~D~~l~~~~g~~~~~~l~~~~~~~~ii~~   79 (116)
T 3a10_A            2 KRILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSGN--YDLVILDIEMPGISGLEVAGEIRKKKKDAKIILL   79 (116)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEECSCCSSSCHHHHHHHHHHHCTTCCEEEE
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcCC--CCEEEEECCCCCCCHHHHHHHHHccCCCCeEEEE
Confidence            58999999999999999999999999999999999999998754  99999999999999999999886 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      |+..+..  .++++.||++||.||++.++|..++++++
T Consensus        80 s~~~~~~--~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~  115 (116)
T 3a10_A           80 TAYSHYR--SDMSSWAADEYVVKSFNFDELKEKVKKLL  115 (116)
T ss_dssp             ESCGGGG--GCGGGGGSSEEEECCSSTHHHHHHHHHHT
T ss_pred             ECCcchH--HHHHhccccceEECCCCHHHHHHHHHHHh
Confidence            9987655  67889999999999999999999998764

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.79  E-value=1.6e-18  Score=151.64  Aligned_cols=119  Identities=21%  Similarity=0.368  Sum_probs=105.8

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CC----C
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EM----D   96 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~----d   96 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+...   +|+||+|+.||+++|+++++.++. .+    .
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~---~dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~   82 (136)
T 1dcf_A            6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHE---HKVVFMDVCMPGVENYQIALRIHEKFTKQRHQ   82 (136)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCTT---CSEEEEECCSSTTTTTHHHHHHHHHHC-CCSC
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcc---CCEEEEeCCCCCCcHHHHHHHHHHhhhhccCC
Confidence            358999999999999999999999999999999999999987532   499999999999999999998862 22    3


Q ss_pred             C-cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           97 L-PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        97 i-PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      . +||++|+..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        83 ~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  130 (136)
T 1dcf_A           83 RPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEPR  130 (136)
T ss_dssp             CCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSCC
T ss_pred             CceEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhchh
Confidence            3 5888999999999999999999999999999999999999987653

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.78  E-value=2.9e-18  Score=153.49  Aligned_cols=120  Identities=28%  Similarity=0.463  Sum_probs=111.4

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+.+|||
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~ii   83 (154)
T 2rjn_A            6 KNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTS--VQLVISDMRMPEMGGEVFLEQVAKSYPDIERV   83 (154)
T ss_dssp             SCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTTSC--CSEEEEESSCSSSCHHHHHHHHHHHCTTSEEE
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcCC--CCEEEEecCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            3589999999999999999999999999999999999999997654  99999999999999999999886 45789999


Q ss_pred             EEecCCCHHHHHHHHhcC-CcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHG-ACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~G-A~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.....++++.| |++||.||++.++|..+++.++++.
T Consensus        84 ~ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~~~  127 (154)
T 2rjn_A           84 VISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLA  127 (154)
T ss_dssp             EEECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999998 9999999999999999999998764

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A

Probab=99.78  E-value=1.2e-18  Score=171.36  Aligned_cols=120  Identities=30%  Similarity=0.475  Sum_probs=111.9

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVI  100 (524)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  ||+||+|+.||++||+++++.++. .+++|||
T Consensus       128 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~--~dlvl~D~~mp~~~G~~l~~~ir~~~~~~piI  205 (254)
T 2ayx_A          128 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH--IDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVI  205 (254)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHHSC--CSEEEEEESSCSSCCHHHHHHHHHHHCCSCEE
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhCC--CCEEEEcCCCCCCCHHHHHHHHHhcCCCCcEE
Confidence            4689999999999999999999999999999999999999998764  999999999999999999999864 5789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.+...++++.||++||.||++.++|..++++++++.
T Consensus       206 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~~  248 (254)
T 2ayx_A          206 GVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERV  248 (254)
T ss_dssp             EEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999887653

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.78  E-value=9.6e-19  Score=155.16  Aligned_cols=118  Identities=25%  Similarity=0.440  Sum_probs=101.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHH--hCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           24 MRVLAVDDDQTCLKILEKFLR--ECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~--~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      ++||||||++..+..++..|+  ..+|.++ .+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+||
T Consensus         3 ~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~~~~--~~dlvllD~~lp~~~g~~l~~~l~~~~~~~~i   80 (141)
T 3cu5_A            3 LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALKH--PPNVLLTDVRMPRMDGIELVDNILKLYPDCSV   80 (141)
T ss_dssp             CEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHHTTS--CCSEEEEESCCSSSCHHHHHHHHHHHCTTCEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHHhcC--CCCEEEEeCCCCCCCHHHHHHHHHhhCCCCcE
Confidence            689999999999999999997  3688888 899999999998754  499999999999999999999886 4678999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        81 i~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  124 (141)
T 3cu5_A           81 IFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQTV  124 (141)
T ss_dssp             EEECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999998888899999999999999999999999999887653

>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A

Probab=99.78  E-value=2.8e-18  Score=153.68  Aligned_cols=120  Identities=28%  Similarity=0.481  Sum_probs=110.8

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+...  .||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~--~~dliild~~l~~~~g~~~~~~l~~~~~~~pii~   80 (155)
T 1qkk_A            3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD--FAGIVISDIRMPGMDGLALFRKILALDPDLPMIL   80 (155)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCTT--CCSEEEEESCCSSSCHHHHHHHHHHHCTTSCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCcEEEEECCHHHHHHHHHhC--CCCEEEEeCCCCCCCHHHHHHHHHhhCCCCCEEE
Confidence            57999999999999999999999999999999999999988754  499999999999999999999885 467899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.....++++.||++||.||++.++|..+++.++++.+
T Consensus        81 ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~~  123 (155)
T 1qkk_A           81 VTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR  123 (155)
T ss_dssp             EECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987643

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.78  E-value=5e-18  Score=149.23  Aligned_cols=121  Identities=19%  Similarity=0.288  Sum_probs=108.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhc----CCCceEEEEeCCCCCCCHHHHHHHHhcC-
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLREN----RNNFDLVISDVYMPDMDGFKLLELVGLE-   94 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~----~~~pDLVIlDi~MPdmdGleLLe~Lr~~-   94 (524)
                      ..++||||||++..+..++.+|+..||  .|..+.++.+|++.+++.    ...||+||+|+.||+++|+++++.++.. 
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~~~~~~dlii~D~~l~~~~g~~~~~~l~~~~   85 (143)
T 2qvg_A            6 DKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIPKMNGIEFLKELRDDS   85 (143)
T ss_dssp             -CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTCCCCCCSEEEEETTCTTSCHHHHHHHHTTSG
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccccCCCCCEEEEecCCCCCCHHHHHHHHHcCc
Confidence            357899999999999999999999888  899999999999999851    1359999999999999999999999754 


Q ss_pred             --CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           95 --MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        95 --~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                        +.+|||++|+..+.+...++++.||++||.||++.++|..++......
T Consensus        86 ~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~~~~~  135 (143)
T 2qvg_A           86 SFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWILQSM  135 (143)
T ss_dssp             GGTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHHHHHC
T ss_pred             cccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHHh
Confidence              789999999999999999999999999999999999999987765543

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.78  E-value=3.8e-18  Score=152.53  Aligned_cols=120  Identities=18%  Similarity=0.334  Sum_probs=111.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHh-CCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRE-CQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~-~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      +++||||||++..+..++.+|+. .||.++ .+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+.+||
T Consensus         5 ~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l~~~~--~dlii~D~~l~~~~g~~~~~~l~~~~~~~~i   82 (153)
T 3cz5_A            5 TARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYRETT--PDIVVMDLTLPGPGGIEATRHIRQWDGAARI   82 (153)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHHHTTC--CSEEEECSCCSSSCHHHHHHHHHHHCTTCCE
T ss_pred             ccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHhcCC--CCEEEEecCCCCCCHHHHHHHHHHhCCCCeE
Confidence            57999999999999999999998 799998 8999999999998654  99999999999999999999886 4578999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.....++++.||++||.||++.++|..+++.++++..
T Consensus        83 i~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~~  127 (153)
T 3cz5_A           83 LIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILAGRR  127 (153)
T ss_dssp             EEEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTTTCC
T ss_pred             EEEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHhCCc
Confidence            999999999999999999999999999999999999999887654

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B

Probab=99.77  E-value=6.4e-18  Score=148.68  Aligned_cols=117  Identities=26%  Similarity=0.393  Sum_probs=106.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+||||||++..+..++.+|+.. |+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         2 ~~Ilivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~~~--~dlvl~D~~lp~~~g~~~~~~l~~~~~~~~ii~~   78 (139)
T 2jk1_A            2 PAILLVDDEPHSLAAMKLALEDD-FDVLTAQGAEAAIAILEEEW--VQVIICDQRMPGRTGVDFLTEVRERWPETVRIII   78 (139)
T ss_dssp             CEEEEECSSHHHHHHHHHHHTTT-SCEEEESSHHHHHHHHHHSC--EEEEEEESCCSSSCHHHHHHHHHHHCTTSEEEEE
T ss_pred             CeEEEEcCCHHHHHHHHHHhhcC-ceEEEcCCHHHHHHHHhcCC--CCEEEEeCCCCCCcHHHHHHHHHHhCCCCcEEEE
Confidence            47999999999999999999875 99999999999999998754  99999999999999999999886 4578999999


Q ss_pred             ecCCCHHHHHHHHhc-CCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINH-GACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~-GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.....+++.. ||++||.||++.++|..+++.++++.
T Consensus        79 s~~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  120 (139)
T 2jk1_A           79 TGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARMF  120 (139)
T ss_dssp             ESCTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             eCCCChHHHHHHHHhhchhhhccCCCCHHHHHHHHHHHHHHH
Confidence            999998888899876 59999999999999999999988754

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A

Probab=99.77  E-value=3.7e-18  Score=145.90  Aligned_cols=116  Identities=21%  Similarity=0.311  Sum_probs=107.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCC-CCCHHHHHHHHhc---CCCCcE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMP-DMDGFKLLELVGL---EMDLPV   99 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MP-dmdGleLLe~Lr~---~~diPV   99 (524)
                      ++||||||++..+..++..|+..||+|..+.++.+|++.+.+..  ||+||+|+.|| +++|+++++.++.   .+++||
T Consensus         6 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~--~dlvi~d~~~~~~~~g~~~~~~l~~~~~~~~~~i   83 (127)
T 2gkg_A            6 KKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRRDR--PDLVVLAVDLSAGQNGYLICGKLKKDDDLKNVPI   83 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHHHHC--CSEEEEESBCGGGCBHHHHHHHHHHSTTTTTSCE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHhcC--CCEEEEeCCCCCCCCHHHHHHHHhcCccccCCCE
Confidence            58999999999999999999999999999999999999998765  99999999999 9999999999975   478999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++ +..+.....++++.||++|+.||++.++|..+++++++.
T Consensus        84 i~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  125 (127)
T 2gkg_A           84 VII-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIGF  125 (127)
T ss_dssp             EEE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHHCC
T ss_pred             EEE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHHcC
Confidence            999 888888999999999999999999999999999988753

>2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV}

Probab=99.77  E-value=2.1e-18  Score=164.65  Aligned_cols=118  Identities=29%  Similarity=0.428  Sum_probs=111.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      ++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++..+++|||++|
T Consensus         5 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~--~dlvllD~~l~~~~g~~~~~~l~~~~~~~ii~lt   82 (230)
T 2oqr_A            5 TSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAG--ADIVLLDLMLPGMSGTDVCKQLRARSSVPVIMVT   82 (230)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHHHCSCSEEEEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhccC--CCEEEEECCCCCCCHHHHHHHHHcCCCCCEEEEe
Confidence            68999999999999999999999999999999999999998765  9999999999999999999999766889999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        83 ~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~  122 (230)
T 2oqr_A           83 ARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRG  122 (230)
T ss_dssp             CCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTTT
T ss_pred             CCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999998764

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.77  E-value=1.4e-18  Score=180.87  Aligned_cols=119  Identities=25%  Similarity=0.520  Sum_probs=107.2

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||+|..+.++.+|++.+.+..  |||||+|++||++||+++++.++ ..+++|||+
T Consensus         5 ~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~--~dlvllD~~mp~~~G~~~~~~lr~~~~~~pii~   82 (394)
T 3eq2_A            5 SATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQ--PDLVICDLRMPQIDGLELIRRIRQTASETPIIV   82 (394)
T ss_dssp             EEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHHSC--CSEEEECCCSSSSCTHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhhCC--CCEEEEcCCCCCCCHHHHHHHHHhhCCCCcEEE
Confidence            479999999999999999999999999999999999999998764  99999999999999999999996 457899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCC-CHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.+.+.++++.||++||.||+ ..++|..++++++++.
T Consensus        83 lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~~~~  125 (394)
T 3eq2_A           83 LSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALDRA  125 (394)
T ss_dssp             C---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999 6888988888887643

>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA binding domain, phosphorylation; 1.58A {Mycobacterium tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A

Probab=99.77  E-value=2.6e-18  Score=164.11  Aligned_cols=120  Identities=37%  Similarity=0.537  Sum_probs=112.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      .++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++. .+++|||+
T Consensus         7 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~--~dlvllD~~l~~~~g~~~~~~l~~~~~~~~ii~   84 (233)
T 1ys7_A            7 SPRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR--PDAIVLDINMPVLDGVSVVTALRAMDNDVPVCV   84 (233)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCCCCEEE
Confidence            479999999999999999999999999999999999999998754  999999999999999999999964 57899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        85 lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~  127 (233)
T 1ys7_A           85 LSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRRG  127 (233)
T ss_dssp             EECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhcc
Confidence            9999998888999999999999999999999999999988754

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.77  E-value=2.5e-18  Score=165.99  Aligned_cols=118  Identities=35%  Similarity=0.571  Sum_probs=111.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      ++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++..+.+|||++|
T Consensus         6 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~--~dlvilD~~l~~~~g~~~~~~lr~~~~~~ii~lt   83 (238)
T 2gwr_A            6 QRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRELR--PDLVLLDLMLPGMNGIDVCRVLRADSGVPIVMLT   83 (238)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHTTCCCCEEEEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhCCCCcEEEEe
Confidence            68999999999999999999999999999999999999998764  9999999999999999999999876799999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +..+.....++++.||++||.||++.++|..+++.++++.
T Consensus        84 ~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~  123 (238)
T 2gwr_A           84 AKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRRN  123 (238)
T ss_dssp             ETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCCCC
T ss_pred             CCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence            9999989999999999999999999999999999988764

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.76  E-value=5.1e-18  Score=178.01  Aligned_cols=118  Identities=28%  Similarity=0.534  Sum_probs=110.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      |+||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||+|+.||++||+++++.++ ..+++|||++
T Consensus         1 m~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~--~DlvllD~~mp~~dG~ell~~lr~~~~~~pvIvl   78 (387)
T 1ny5_A            1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKH--FNVVLLDLLLPDVNGLEILKWIKERSPETEVIVI   78 (387)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHSC--CSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCCcEEEE
Confidence            58999999999999999999988999999999999999998754  99999999999999999999986 4678999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++.+.+.+.++++.||+|||.||++.++|..+++++++..
T Consensus        79 T~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  119 (387)
T 1ny5_A           79 TGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR  119 (387)
T ss_dssp             EETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             eCCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988653

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*

Probab=99.76  E-value=6e-18  Score=178.91  Aligned_cols=118  Identities=32%  Similarity=0.470  Sum_probs=110.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPVI  100 (524)
                      .+||||||++..+..++.+|+..||.|..+.++.+|++.+....  |||||+|+.||++||+++++.++.   .+++|||
T Consensus         2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~~~~~--~dlvllD~~mp~~~G~~~~~~l~~~~~~~~~pii   79 (459)
T 1w25_A            2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL--PDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVV   79 (459)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEE
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcCC--CCEEEEcCCCCCCCHHHHHHHHhcCcccCCCCEE
Confidence            58999999999999999999999999999999999999998765  999999999999999999999975   3579999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|+..+.+...++++.||++||.||++.++|..+++.+++..
T Consensus        80 ~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~~~  122 (459)
T 1w25_A           80 LITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (459)
T ss_dssp             EEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988754

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.76  E-value=4.7e-18  Score=151.80  Aligned_cols=122  Identities=21%  Similarity=0.262  Sum_probs=100.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CC-eEEEECCHHHHHHHHHh-cCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QY-EVTVTNRAITALKMLRE-NRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy-~V~~a~sg~eALe~L~e-~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diP   98 (524)
                      .++||||||++..+..++.+|+.. || .|..+.++.+|++.+.+ .  .||+||+|+.||+++|+++++.++ ..+.+|
T Consensus         3 ~~~iLivdd~~~~~~~l~~~L~~~~g~~~v~~~~~~~~a~~~l~~~~--~~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~   80 (154)
T 2qsj_A            3 LTVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADN--TVDLILLDVNLPDAEAIDGLVRLKRFDPSNA   80 (154)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHCTTEEEEEESSHHHHHHHHHTTC--CCSEEEECC------CHHHHHHHHHHCTTSE
T ss_pred             ccEEEEEcCCHHHHHHHHHHHHhCCCceEEEEecCHHHHHHHHhccC--CCCEEEEeCCCCCCchHHHHHHHHHhCCCCe
Confidence            479999999999999999999987 88 67799999999999986 4  499999999999999999999886 457899


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCC
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVD  146 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~  146 (524)
                      ||++|+..+.....++++.||++||.||++.++|..+++.++++....
T Consensus        81 ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~~~~~~  128 (154)
T 2qsj_A           81 VALISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILEGEIFL  128 (154)
T ss_dssp             EEEC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHTTCCBC
T ss_pred             EEEEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHcCCEEc
Confidence            999999999999999999999999999999999999999998876543

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.75  E-value=5.4e-18  Score=149.33  Aligned_cols=117  Identities=21%  Similarity=0.388  Sum_probs=101.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc------CCCC
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL------EMDL   97 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~------~~di   97 (524)
                      ++||||||++..+..++.+|+..||.|..+.++.+|++.+....  ||+||+|+.||+++|+++++.++.      .+.+
T Consensus        11 ~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l~~~~--~dlvllD~~lp~~~g~~~~~~l~~~~~~~~~~~~   88 (140)
T 3c97_A           11 LSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNRQ--FDVIIMDIQMPVMDGLEAVSEIRNYERTHNTKRA   88 (140)
T ss_dssp             CEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHHHHSC--CSEEEECTTCCSSCHHHHHHHHHHHHHHHTCCCC
T ss_pred             ceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHHhcCC--CCEEEEeCCCCCCcHHHHHHHHHhhhhhcCCCce
Confidence            68999999999999999999988999999999999999998754  999999999999999999998864      3688


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccC
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKV  145 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~  145 (524)
                      |||++|+........   ++||++||.||++.++|..+++.++.+...
T Consensus        89 ~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~~~~~  133 (140)
T 3c97_A           89 SIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHSEGAE  133 (140)
T ss_dssp             CCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC----
T ss_pred             EEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhCCCCC
Confidence            999999876544332   789999999999999999999998876543

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B*

Probab=99.75  E-value=3.2e-18  Score=151.64  Aligned_cols=117  Identities=24%  Similarity=0.314  Sum_probs=96.3

Q ss_pred             CCCCccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCC
Q 009824           19 KFPIGMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMD   96 (524)
Q Consensus        19 ~~p~~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~d   96 (524)
                      ..+...+||||||++..+..++.+|+.. ||.++ .+.++.+|++.+.+.. .||+||+|+.||+++|+++++.++....
T Consensus         9 ~~~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~-~~dlvilD~~l~~~~g~~~~~~lr~~~~   87 (145)
T 3kyj_B            9 HHGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQP-NVDLILLDIEMPVMDGMEFLRHAKLKTR   87 (145)
T ss_dssp             --CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHCT-TCCEEEECTTSCCCTTCHHHHHHHHHCC
T ss_pred             CCCCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHhcCC-CCCEEEEeCCCCCCCHHHHHHHHHhcCC
Confidence            3445689999999999999999999987 89875 8999999999998751 4999999999999999999999976556


Q ss_pred             CcEEEEec--CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHH
Q 009824           97 LPVVMLSA--YSDTKLVMKGINHGACDYLLKPVRMEELKNTW  136 (524)
Q Consensus        97 iPVIvlTa--~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI  136 (524)
                      +|||++++  ..+.+.+.++++.||++||.||++.++|...+
T Consensus        88 ~~iiil~~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i  129 (145)
T 3kyj_B           88 AKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHDLEE  129 (145)
T ss_dssp             CEEC-CBSSCSTTSSHHHHHHHTTCSCCCBCCCSCC------
T ss_pred             CCeEEEEEeccCChHHHHHHHhCCCCEEEeCCCCHHHHHHHH
Confidence            99999998  66677788999999999999999966554443

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.75  E-value=2.6e-17  Score=142.45  Aligned_cols=119  Identities=20%  Similarity=0.377  Sum_probs=107.7

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHHHHHHHHh-cCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD-MDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGleLLe~Lr-~~~diPVI  100 (524)
                      +++||||||++..+..++..|+..||+|..+.++.+|++.+.+. ..||+||+|+.||+ ++|+++++.++ ..+.+|||
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~-~~~dlvi~d~~l~~~~~g~~~~~~l~~~~~~~~ii   83 (132)
T 2rdm_A            5 AVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSG-AAIDGVVTDIRFCQPPDGWQVARVAREIDPNMPIV   83 (132)
T ss_dssp             SCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTT-CCCCEEEEESCCSSSSCHHHHHHHHHHHCTTCCEE
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHcC-CCCCEEEEeeeCCCCCCHHHHHHHHHhcCCCCCEE
Confidence            47999999999999999999999999999999999999999864 14999999999998 99999999886 45789999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.....++++.|  +||.||++.++|..+++++++...
T Consensus        84 ~~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~~~~  125 (132)
T 2rdm_A           84 YISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNARE  125 (132)
T ss_dssp             EEESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHHTTC
T ss_pred             EEeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHhcCC
Confidence            999999988888887776  899999999999999999988654

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.75  E-value=2.3e-17  Score=144.48  Aligned_cols=117  Identities=20%  Similarity=0.262  Sum_probs=106.9

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCC-CCcE
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEM-DLPV   99 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~-diPV   99 (524)
                      ..+++||||||++..+..++.+|+..||+|..+.++.+|++.+....  ||+||    ||+++|+++++.++..+ .+||
T Consensus        16 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~--~dlvi----~~~~~g~~~~~~l~~~~~~~~i   89 (137)
T 2pln_A           16 RGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN--YDLVM----VSDKNALSFVSRIKEKHSSIVV   89 (137)
T ss_dssp             TTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHSC--CSEEE----ECSTTHHHHHHHHHHHSTTSEE
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHHcCC--CCEEE----EcCccHHHHHHHHHhcCCCccE
Confidence            45689999999999999999999999999999999999999998754  99999    99999999999886447 8999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCC-CHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.+...++++.||++||.||+ +.++|..+++.++++.
T Consensus        90 i~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~~~  134 (137)
T 2pln_A           90 LVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRFW  134 (137)
T ss_dssp             EEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC--
T ss_pred             EEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999 9999999999887653

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.75  E-value=3.4e-17  Score=144.12  Aligned_cols=118  Identities=23%  Similarity=0.398  Sum_probs=104.0

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-~diPV   99 (524)
                      .++||||||++..+..++.+|+.. +|.++ .+.++.+|++.+....  ||+||+|+.||+++|+++++.++.. +.+||
T Consensus         9 ~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~--~dlvi~d~~l~~~~g~~~~~~l~~~~~~~~i   86 (143)
T 2qv0_A            9 KMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQHNK--VDAIFLDINIPSLDGVLLAQNISQFAHKPFI   86 (143)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHHHHHCC--CSEEEECSSCSSSCHHHHHHHHTTSTTCCEE
T ss_pred             ceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhCC--CCEEEEecCCCCCCHHHHHHHHHccCCCceE
Confidence            589999999999999999999875 89855 8999999999998754  9999999999999999999999754 45678


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+  ...++++.||++||.||++.++|..++++++++.+
T Consensus        87 i~~s~~~~--~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~  129 (143)
T 2qv0_A           87 VFITAWKE--HAVEAFELEAFDYILKPYQESRIINMLQKLTTAWE  129 (143)
T ss_dssp             EEEESCCT--THHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEEeCCHH--HHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHHH
Confidence            99998754  57789999999999999999999999999887643

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.74  E-value=2.2e-17  Score=150.52  Aligned_cols=119  Identities=23%  Similarity=0.402  Sum_probs=101.8

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCC-CeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQ-YEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPV   99 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~g-y~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPV   99 (524)
                      ..++||||||++..+..++.+|+..+ +.++ .+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++....+||
T Consensus        24 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~--~dlvilD~~l~~~~g~~l~~~lr~~~~~~i  101 (164)
T 3t8y_A           24 RVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIELK--PDVITMDIEMPNLNGIEALKLIMKKAPTRV  101 (164)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC--CSEEEECSSCSSSCHHHHHHHHHHHSCCEE
T ss_pred             CccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhccCC--CCEEEEeCCCCCCCHHHHHHHHHhcCCceE
Confidence            35799999999999999999999874 4444 7899999999998765  999999999999999999999975444999


Q ss_pred             EEEecCCCHH--HHHHHHhcCCcEEEeCCCC---------HHHHHHHHHHHHHh
Q 009824          100 VMLSAYSDTK--LVMKGINHGACDYLLKPVR---------MEELKNTWQHVIRR  142 (524)
Q Consensus       100 IvlTa~~d~~--~~~~al~~GA~dYL~KP~~---------~eeL~~aI~~vlr~  142 (524)
                      |++|+..+..  .+.++++.||++||.||++         .++|..+++.++.+
T Consensus       102 i~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~r~~~~~l~~~i~~~~~~  155 (164)
T 3t8y_A          102 IMVSSLTEEGAAITIEALRNGAVDFITKPHGSISLTFRQVAPELLEKIRQAMNV  155 (164)
T ss_dssp             EEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCGGGGGGHHHHHHHHHHHTTS
T ss_pred             EEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHHHHHhhhHHHHHHHHHHhCC
Confidence            9999977754  6779999999999999999         57777777766554

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.74  E-value=9.6e-18  Score=140.72  Aligned_cols=112  Identities=18%  Similarity=0.182  Sum_probs=103.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      ++||||||++..+..++.+|+..||+|..+.++.++++.+....  ||+||+|+.||+++|+++++.++..   +.+|||
T Consensus         2 ~~iliv~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~l~~~~--~dlii~d~~~~~~~~~~~~~~l~~~~~~~~~~ii   79 (119)
T 2j48_A            2 GHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDLLQ--PIVILMAWPPPDQSCLLLLQHLREHQADPHPPLV   79 (119)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC--CSEEEEECSTTCCTHHHHHHHHHHTCCCSSCCCE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHhCCcEEEEecCHHHHHHHHHhcC--CCEEEEecCCCCCCHHHHHHHHHhccccCCCCEE
Confidence            68999999999999999999999999999999999999998765  9999999999999999999999654   689999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      ++|+..+..   ++++.|+++|+.||++.++|..+++.++
T Consensus        80 ~~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~~~  116 (119)
T 2j48_A           80 LFLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQGLC  116 (119)
T ss_dssp             EEESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHTTC
T ss_pred             EEeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHHHh
Confidence            999988766   8899999999999999999999887654

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.74  E-value=4.4e-18  Score=147.56  Aligned_cols=119  Identities=21%  Similarity=0.326  Sum_probs=106.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..++.|..+.++.++++.+..  . ||+||+|+.||+++|+++++.++ ..+.+|||+
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~--~-~dlvi~D~~l~~~~g~~~~~~l~~~~~~~~ii~   79 (135)
T 3eqz_A            3 LNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLN--K-QDIIILDLMMPDMDGIEVIRHLAEHKSPASLIL   79 (135)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTCSCEEEESCHHHHTTSCCC--T-TEEEEEECCTTTTHHHHHHHHHHHTTCCCEEEE
T ss_pred             cceEEEEeCCHHHHHHHHHHHHhhcceeeeecCHHHHHHhhcc--C-CCEEEEeCCCCCCCHHHHHHHHHhCCCCCCEEE
Confidence            4799999999999999999999888899999999999987653  3 99999999999999999999886 457899999


Q ss_pred             EecCCCH-----HHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDT-----KLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~-----~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.     +...++++.||++||.||++.++|..+++++..+..
T Consensus        80 ~s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~~~~  127 (135)
T 3eqz_A           80 ISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSNRQA  127 (135)
T ss_dssp             EESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSCCC-
T ss_pred             EEeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHhhcc
Confidence            9999885     667788899999999999999999999999876543

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.74  E-value=1.2e-17  Score=170.16  Aligned_cols=117  Identities=24%  Similarity=0.339  Sum_probs=107.6

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHH-hCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLR-ECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~-~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diP   98 (524)
                      .++||||||++..+..++.+|+ ..||+|..+.++.+|++.+....  ||+||+|+.||++||+++++.++.   .+++|
T Consensus        18 ~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~~~~--~dlvl~D~~mp~~~G~~~~~~l~~~~~~~~~~   95 (358)
T 3bre_A           18 AVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQIK--PTVILQDLVMPGVDGLTLLAAYRGNPATRDIP   95 (358)
T ss_dssp             CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHHHHC--CSEEEEESBCSSSBHHHHHHHHTTSTTTTTSC
T ss_pred             CceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHHhCC--CCEEEEeCCCCCCCHHHHHHHHhcCcccCCCc
Confidence            3679999999999999999996 46899999999999999998765  999999999999999999999975   35799


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      ||++|+..+...+.++++.||++||.||++.++|..++..+++
T Consensus        96 ii~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~~~  138 (358)
T 3bre_A           96 IIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHSR  138 (358)
T ss_dssp             EEEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999987754

>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A*

Probab=99.73  E-value=2e-17  Score=157.14  Aligned_cols=116  Identities=28%  Similarity=0.437  Sum_probs=107.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      ++||||||++..+..++.+|+..| .|..+.++.+|++.+  .  .||+||+|+.||+++|+++++.++. .+++|||++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~--~--~~dlvllD~~lp~~~g~~~~~~lr~~~~~~~ii~l   77 (220)
T 1p2f_A            3 WKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE--E--AFHVVVLDVMLPDYSGYEICRMIKETRPETWVILL   77 (220)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC--S--CCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEE
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc--C--CCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEEE
Confidence            689999999999999999999888 888999999999876  2  4999999999999999999999864 489999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |+..+.+...++++.||++||.||++.++|..+++.++++..
T Consensus        78 t~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~  119 (220)
T 1p2f_A           78 TLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLEREK  119 (220)
T ss_dssp             ESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHCC
T ss_pred             EcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcccc
Confidence            999999999999999999999999999999999999998753

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.72  E-value=1.1e-17  Score=156.37  Aligned_cols=114  Identities=13%  Similarity=0.136  Sum_probs=103.6

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC-CCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE-MDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~-~diPVIv  101 (524)
                      +++||||||++..+..++.+|+..||.|+.+.++.+|+    .  ..||+||+|+.||+++|+ +++.++.. +++|||+
T Consensus        12 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al----~--~~~dlvl~D~~mp~~~g~-l~~~~~~~~~~~~ii~   84 (196)
T 1qo0_D           12 ELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF----D--VPVDVVFTSIFQNRHHDE-IAALLAAGTPRTTLVA   84 (196)
T ss_dssp             GCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC----S--SCCSEEEEECCSSTHHHH-HHHHHHHSCTTCEEEE
T ss_pred             CCeEEEEcCChhHHHHHHHHHHHcCCeEEEecCchhhC----C--CCCCEEEEeCCCCccchH-HHHHHhccCCCCCEEE
Confidence            57999999999999999999998999999888877765    2  259999999999999999 88888765 8999999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|+..+.+...++++.||++||.||++.++|..+++.++++.
T Consensus        85 lt~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  126 (196)
T 1qo0_D           85 LVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRIS  126 (196)
T ss_dssp             EECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHHH
T ss_pred             EEcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887654

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.71  E-value=5.2e-17  Score=154.53  Aligned_cols=114  Identities=21%  Similarity=0.293  Sum_probs=106.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCC-CCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEM-DLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~-diPVIvl  102 (524)
                      |+||||||++..+..++.+|+..||+|..+.++.+|++.+...  .||+||    ||+++|+++++.++..+ ++|||++
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~--~~dlvi----lp~~~g~~~~~~lr~~~~~~~ii~l   74 (223)
T 2hqr_A            1 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIR--NYDLVM----VSDKNALSFVSRIKEKHSSIVVLVS   74 (223)
T ss_dssp             CCEEEECSCHHHHHHHHHHHGGGTCCEEEESSHHHHHHHHTTS--CCSEEE----ECCTTHHHHHHHHHHHCTTSEEEEE
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHCCcEEEEECCHHHHHHHHhcC--CCCEEE----eCCCCHHHHHHHHHhCCCCCcEEEE
Confidence            5899999999999999999999999999999999999998765  499999    99999999999886446 8999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCC-CHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPV-RMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~-~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.+...++++.||++||.||+ +.++|..+++.++++.
T Consensus        75 t~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~~L~~~i~~~~~~~  116 (223)
T 2hqr_A           75 SDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRFW  116 (223)
T ss_dssp             ESSCCHHHHHHHHHHTCSEEEETTCSCTHHHHHHHHHHTSSC
T ss_pred             ECCCCHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHHhccc
Confidence            9999999999999999999999999 9999999999998764

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.71  E-value=3.4e-17  Score=171.55  Aligned_cols=121  Identities=18%  Similarity=0.249  Sum_probs=106.8

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHh-CCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRE-CQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~-~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVI  100 (524)
                      +++||||||++..+..++.+|+. .+|+|..+.++.+|++.+... ..|||||+|++||+|||+++++.++. .+.++||
T Consensus         3 ~~~ILivDD~~~~~~~l~~~L~~~~~~~v~~a~~g~eal~~l~~~-~~~DlvllDi~mP~~dG~ell~~l~~~~~~~~ii   81 (400)
T 3sy8_A            3 DLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESC-GHVDIAICDLQMSGMDGLAFLRHASLSGKVHSVI   81 (400)
T ss_dssp             CEEEEEECSSHHHHHHHHHHHHHHCSEEEEEESSHHHHHHHHHHH-SCEEEEEECSSCSSSCHHHHHHHHHHHTCEEEEE
T ss_pred             CceEEEEcCCHHHHHHHHHHHHhcCCcEEEEecCHHHHHHHHhhC-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCceEE
Confidence            37999999999999999999998 588999999999999999863 24999999999999999999998864 4566777


Q ss_pred             EEecCCCH-----HHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          101 MLSAYSDT-----KLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       101 vlTa~~d~-----~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++|+..+.     ..+.++++.||++||.||++.++|..++++++++..
T Consensus        82 ~~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~~~~~  130 (400)
T 3sy8_A           82 LSSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYNARRQ  130 (400)
T ss_dssp             ESCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHHHHTT
T ss_pred             EEcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHHHhhh
Confidence            77777776     677889999999999999999999999999987654

>2b4a_A BH3024; flavodoxin-like fold, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 2.42A {Bacillus halodurans} SCOP: c.23.1.1

Probab=99.70  E-value=2.7e-17  Score=144.21  Aligned_cols=117  Identities=21%  Similarity=0.257  Sum_probs=101.8

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHh-cCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRE-NRNNFDLVISDVYMPDMDGFKLLELVGL-EMDL   97 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e-~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~di   97 (524)
                      .+.+++||||||++..+..++.+|+..||+|..+.++.+|++.+.. ..  ||+||+|+.||+++|+++++.++. .+.+
T Consensus        12 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~--~dlvilD~~l~~~~g~~~~~~l~~~~~~~   89 (138)
T 2b4a_A           12 HMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLST--CDLLIVSDQLVDLSIFSLLDIVKEQTKQP   89 (138)
T ss_dssp             --CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGGGS--CSEEEEETTCTTSCHHHHHHHHTTSSSCC
T ss_pred             CCCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCCC--CCEEEEeCCCCCCCHHHHHHHHHhhCCCC
Confidence            4467899999999999999999999999999999999999999876 54  999999999999999999999964 5689


Q ss_pred             cEEEEe-cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           98 PVVMLS-AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        98 PVIvlT-a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |||++| +..+... .+++   |++||.||++.++|..+++.++++
T Consensus        90 ~ii~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~~~  131 (138)
T 2b4a_A           90 SVLILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHKPS  131 (138)
T ss_dssp             EEEEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTCCC
T ss_pred             CEEEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHHHh
Confidence            999999 8877665 5665   999999999999999999887654

>1dc7_A NTRC, nitrogen regulation protein; receiver domain, phosphorylation, signal transduction, conformational rearrangement; NMR {Salmonella typhimurium} SCOP: c.23.1.1 PDB: 1j56_A 1krw_A 1krx_A 1ntr_A 1dc8_A*

Probab=99.70  E-value=6.3e-19  Score=150.40  Aligned_cols=118  Identities=31%  Similarity=0.423  Sum_probs=108.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+||||||++..+..++..|+..||.|..+.++.++++.+...  .||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~--~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~ii~~   81 (124)
T 1dc7_A            4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK--TPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIM   81 (124)
T ss_dssp             CCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHSSSC--CCSCEEECSCSSHHHHCSTHHHHHHHCTTSCCCCB
T ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhcC--CCCEEEEeeecCCCCHHHHHHHHHhhCCCCCEEEE
Confidence            5799999999999999999998899999999999999988654  499999999999999999999885 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |+..+.+...++++.||++|+.||++.++|..+++.+++++
T Consensus        82 s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  122 (124)
T 1dc7_A           82 TAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHY  122 (124)
T ss_dssp             CCSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHHHT
T ss_pred             ecCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHHhh
Confidence            99998888899999999999999999999999999988754

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.65  E-value=1.1e-15  Score=158.35  Aligned_cols=118  Identities=26%  Similarity=0.440  Sum_probs=104.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhC-CCeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLREC-QYEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~-gy~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      +++||||||++..+..++.+|+.. +|++ ..+.++.+|++.+.+..  ||+||+|+.||++||+++++.++....+|||
T Consensus         3 ~~rVLIVDD~~~~r~~L~~~L~~~~g~~vv~~a~~~~eAl~~l~~~~--pDlVllDi~mp~~dGlell~~l~~~~p~pVI   80 (349)
T 1a2o_A            3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFN--PDVLTLDVEMPRMDGLDFLEKLMRLRPMPVV   80 (349)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC--CSEEEEECCCSSSCHHHHHHHHHHSSCCCEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHhccC--CCEEEEECCCCCCCHHHHHHHHHhcCCCcEE
Confidence            479999999999999999999985 8995 58999999999998765  9999999999999999999999755459999


Q ss_pred             EEecCCCH--HHHHHHHhcCCcEEEeCCCCH---------HHHHHHHHHHHHh
Q 009824          101 MLSAYSDT--KLVMKGINHGACDYLLKPVRM---------EELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~--~~~~~al~~GA~dYL~KP~~~---------eeL~~aI~~vlr~  142 (524)
                      ++|+..+.  +...++++.||+|||.||++.         ++|..+++.+.+.
T Consensus        81 vlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~l~~~~~~L~~~I~~~~~~  133 (349)
T 1a2o_A           81 MVSSLTGKGSEVTLRALELGAIDFVTKPQLGIREGMLAYSEMIAEKVRTAARA  133 (349)
T ss_dssp             EEECCTHHHHHHHHHHHHHTCCEEEECSSSSCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             EEECCCcccHHHHHHHHhCCceEEEECCCCccchhHHHHHHHHHHHHHHHHhh
Confidence            99998876  458899999999999999983         7788888887654

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*

Probab=99.64  E-value=3e-16  Score=155.06  Aligned_cols=103  Identities=19%  Similarity=0.322  Sum_probs=86.6

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHh-CCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRE-CQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~-~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      +.+||||||++..+..|...|+. .+|.|..+ ++.+++..+..  ..||+||+|++||++||+++++.++.. .+|||+
T Consensus         4 ~~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~-~~~~~~~~~~~--~~~dlvllD~~mP~~~G~~~~~~lr~~-~~pvi~   79 (259)
T 3luf_A            4 KQKILIVEDSMTIRRMLIQAIAQQTGLEIDAF-DTLEGARHCQG--DEYVVALVDLTLPDAPSGEAVKVLLER-GLPVVI   79 (259)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHHHHCCEEEEE-SSTGGGTTCCT--TTEEEEEEESCBTTBTTSHHHHHHHHT-TCCEEE
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCeEEEEe-ChHHHHHHhhc--CCCcEEEEeCCCCCCCHHHHHHHHHhC-CCCEEE
Confidence            36899999999999999999976 47777544 55555555433  359999999999999999999999753 699999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCH
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRM  129 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~  129 (524)
                      +|+..+.+...+++++||+|||.||+..
T Consensus        80 lt~~~~~~~~~~a~~~Ga~dyl~Kp~~~  107 (259)
T 3luf_A           80 LTADISEDKREAWLEAGVLDYVMKDSRH  107 (259)
T ss_dssp             EECC-CHHHHHHHHHTTCCEEEECSSHH
T ss_pred             EEccCCHHHHHHHHHCCCcEEEeCCchh
Confidence            9999999999999999999999999643

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.59  E-value=1.6e-15  Score=171.93  Aligned_cols=119  Identities=13%  Similarity=0.153  Sum_probs=108.7

Q ss_pred             cEEEEEeCCH-HH-------HHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCC----CCHHHHHHHH
Q 009824           24 MRVLAVDDDQ-TC-------LKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD----MDGFKLLELV   91 (524)
Q Consensus        24 irVLIVDDdp-~~-------~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPd----mdGleLLe~L   91 (524)
                      |+||||||++ ..       ++.|+..|++.||+|..+.++++|++.+... ..+|+||+|++||+    +||+++++.|
T Consensus         1 m~ILiVdDd~~~~~~~~~~~~~~L~~~L~~~g~~v~~a~~g~~al~~~~~~-~~~d~vilDi~lp~~~~~~~G~~ll~~i   79 (755)
T 2vyc_A            1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSN-EAIDCLMFSYQMEHPDEHQNVRQLIGKL   79 (755)
T ss_dssp             CEEEEECCTTSTTSHHHHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTT-CCCSEEEEECCCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCccccccccHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhcC-CCCcEEEEeCCCCcccccccHHHHHHHH
Confidence            5899999999 88       9999999999999999999999999998754 24999999999999    9999999999


Q ss_pred             hc-CCCCcEEEEecCCC-HHHHHHHHhcCCcEEEeCCCCHHH-HHHHHHHHHHhc
Q 009824           92 GL-EMDLPVVMLSAYSD-TKLVMKGINHGACDYLLKPVRMEE-LKNTWQHVIRRK  143 (524)
Q Consensus        92 r~-~~diPVIvlTa~~d-~~~~~~al~~GA~dYL~KP~~~ee-L~~aI~~vlr~~  143 (524)
                      |. .+++||||+|+..+ .+....++..||+||+.||++..| |..+|+++++++
T Consensus        80 R~~~~~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~rr~  134 (755)
T 2vyc_A           80 HERQQNVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMTRY  134 (755)
T ss_dssp             HHHSTTCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHHHh
Confidence            64 46899999999887 777888999999999999999999 888999998875

>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11

Probab=99.21  E-value=1.3e-11  Score=97.40  Aligned_cols=54  Identities=67%  Similarity=1.025  Sum_probs=49.2

Q ss_pred             cCCCCceEeeHHHHHHHHHHHHHcCCCCCchHHHHhhcCCCCCCHHhHHhhhhh
Q 009824          188 TQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRLSL  241 (524)
Q Consensus       188 ~~kk~rvvw~veLh~kflaavn~LGl~~avPk~IL~lmk~~~LT~eevk~rL~m  241 (524)
                      +.+++|+.|+.+||.+|+.|+++||.++++|+.||++|++++||.++|+.++++
T Consensus         2 ~~~k~r~~WT~elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~gLT~~~VkSHLQK   55 (64)
T 1irz_A            2 AQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQK   55 (64)
T ss_dssp             CCCCSSCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHHHH
T ss_pred             CCCCCCCcCCHHHHHHHHHHHHHhCCCCCCcHHHHHHcCCCCCCHHHHHHHHHH
Confidence            467899999999999999999999999999999999999999999999555533

>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF, half barrel, de novo protein; 3.10A {Thermotoga maritima} PDB: 2lle_A

Probab=98.99  E-value=3.7e-10  Score=107.19  Aligned_cols=92  Identities=21%  Similarity=0.366  Sum_probs=77.5

Q ss_pred             eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEecCCCHHHHHHHHhcCCcEEEeCC-
Q 009824           49 EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKP-  126 (524)
Q Consensus        49 ~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP-  126 (524)
                      .|..+.++.+|++.+.+..  ||+||+|+.||+++|+++++.++ ..+..++++++.....+...++++.||++|+.|| 
T Consensus         7 ~v~~~~~~~~a~~~~~~~~--~dlvl~D~~~p~~~g~~~~~~l~~~~~~~~i~vi~~~~~~~~~~~~~~~Ga~~~l~kp~   84 (237)
T 3cwo_X            7 IVDDATNGREAVEKYKELK--PDIVTMDITMPEMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVNTA   84 (237)
T ss_dssp             EEECCCSSSTTHHHHHHHC--CSCEEEECCSTTSSHHHHHHHHHHHSSSCCEEEECCSSTHHHHHHHHHTTCCEEEESHH
T ss_pred             EEEECCCHHHHHHHHHhcC--CCEEEEeCCCCCCCHHHHHHHHHHhCCCCCEEEEECCCCHHHHHHHHHCCHHheEeCCc
Confidence            4445788999999988765  99999999999999999999886 3456677777777778899999999999999999 


Q ss_pred             -CCHHHHHHHHHHHHHh
Q 009824          127 -VRMEELKNTWQHVIRR  142 (524)
Q Consensus       127 -~~~eeL~~aI~~vlr~  142 (524)
                       ++..++...+...+..
T Consensus        85 ~~~~~~l~~~i~~~~~~  101 (237)
T 3cwo_X           85 AVENPSLITQIAQTFGS  101 (237)
T ss_dssp             HHHCTHHHHHHHHHHTG
T ss_pred             ccChHHHHHHHHHHhCC
Confidence             7888888888776653

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A*

Probab=98.98  E-value=8.1e-09  Score=108.83  Aligned_cols=117  Identities=26%  Similarity=0.340  Sum_probs=99.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPV   99 (524)
                      ..+|++|||+...+..+...|.. .+.+....+..+++. ....  .||+|++|+.||+|+|+++++.++..   ..+||
T Consensus       152 ~~~ilivdd~~~~~~~i~~~L~~-~~~~~~~~~~~~~~~-~~~~--~~dlil~D~~mp~~dG~~~~~~ir~~~~~~~~pi  227 (459)
T 1w25_A          152 GGRVLIVDDNERQAQRVAAELGV-EHRPVIESDPEKAKI-SAGG--PVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPV  227 (459)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTT-TSEEEEECCHHHHHH-HHHS--SCSEEEEETTCSSSCHHHHHHHHHTSGGGTTCCE
T ss_pred             CCeEEEECCchhhHHHHHHHHhc-ccceeeccCHHHHhh-hccC--CCCEEEEecCCCCCcHHHHHHHHHhCccccCCcE
Confidence            46899999999988888888865 467777888888763 3333  48999999999999999999988643   47899


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++|+..+.....++++.|++||+.||+..+++...+..+++..
T Consensus       228 i~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~~~~~  271 (459)
T 1w25_A          228 LAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQRK  271 (459)
T ss_dssp             EEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998887776543

>2ayx_A Sensor kinase protein RCSC; two independent structural domains, transferase; NMR {Escherichia coli} SCOP: c.23.1.1 c.23.1.6 PDB: 2ayz_A 2ayy_A

Probab=97.33  E-value=0.0003  Score=68.38  Aligned_cols=97  Identities=14%  Similarity=0.084  Sum_probs=72.0

Q ss_pred             CCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEE
Q 009824           21 PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVV  100 (524)
Q Consensus        21 p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVI  100 (524)
                      ..+.+||||||++..+..|+.+|+..|++|..+.+         .....+|++|+|+.||+..+.           ..+|
T Consensus         9 l~~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~---------~~~~~~~~ii~d~~~~~~~~~-----------~~~i   68 (254)
T 2ayx_A            9 LSGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEG---------QEPTPEDVLITDEVVSKKWQG-----------RAVV   68 (254)
T ss_dssp             TTTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSS---------CCCCTTCEEEEESSCSCCCCS-----------SEEE
T ss_pred             cCCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecC---------CCCCcCcEEEEcCCCcccccc-----------ceEE
Confidence            45789999999999999999999999999987764         112459999999999976442           1256


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR  141 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr  141 (524)
                      .++......    ....+...++.||+...++...+.++..
T Consensus        69 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~l~~~~~  105 (254)
T 2ayx_A           69 TFCRRHIGI----PLEKAPGEWVHSVAAPHELPALLARIYL  105 (254)
T ss_dssp             EECSSCCCS----CCTTSTTEEEECSSCCSHHHHHHHHHHT
T ss_pred             EEecccCCC----cccccCCceeccccchHHHHHHHHHHhh
Confidence            666543210    1133556899999999888888877654

>3n75_A LDC, lysine decarboxylase, inducible; pyridoxal-5'-phosphate dependent decarboxylase, acid stress stringent response; HET: LLP G4P P6G; 2.00A {Escherichia coli} PDB: 3q16_A*

Probab=97.09  E-value=0.00053  Score=77.30  Aligned_cols=105  Identities=16%  Similarity=0.164  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEecCCCHHHHHH
Q 009824           35 CLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLSAYSDTKLVMK  113 (524)
Q Consensus        35 ~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlTa~~d~~~~~~  113 (524)
                      ..+.|...|++.||+|+.+.+.++|+..++++ ..+++||+|+.|+   +.++++.|+ ...++||++++.......+..
T Consensus        18 ~i~~L~~~Le~~g~~V~~a~s~~Da~~~i~~~-~~i~avIld~d~~---~~~ll~~Ir~~~~~iPVFl~~~~~~~~~~~~   93 (715)
T 3n75_A           18 PIRELHRALERLNFQIVYPNDRDDLLKLIENN-ARLCGVIFDWDKY---NLELCEEISKMNENLPLYAFANTYSTLDVSL   93 (715)
T ss_dssp             HHHHHHHHHHHTTCEEECCSSHHHHHHHHHHC-TTEEEEEEEHHHH---HHHHHHHHHHHCTTCEEEEECCTTCCCCGGG
T ss_pred             HHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhC-CCceEEEEecccc---HHHHHHHHHHhCCCCCEEEEecCCcccccch
Confidence            34556688888899999999999999999876 4799999999986   788999885 678999999998854332221


Q ss_pred             HHhcCCcEEEeCCCC-HHHHHHHHHHHHHhc
Q 009824          114 GINHGACDYLLKPVR-MEELKNTWQHVIRRK  143 (524)
Q Consensus       114 al~~GA~dYL~KP~~-~eeL~~aI~~vlr~~  143 (524)
                      ..-.++++|+.+..+ .+.+...|.++++++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y  124 (715)
T 3n75_A           94 NDLRLQISFFEYALGAAEDIANKIKQTTDEY  124 (715)
T ss_dssp             TTSCCEEEEECCCTTCHHHHHHHHHHHHHHH
T ss_pred             hhhhccCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence            123578899998864 444545665555443

>3tm8_A BD1817, uncharacterized protein; HD-GYP, phosphodiesterase, unknown function, hydrolase,signa protein; 1.28A {Bdellovibrio bacteriovorus} PDB: 3tmb_A 3tmc_A 3tmd_A

Probab=96.68  E-value=0.00039  Score=71.09  Aligned_cols=56  Identities=13%  Similarity=0.075  Sum_probs=43.6

Q ss_pred             CchHHHHhhcCCCCCCHHhHHhhhhhcccchhhhhhhHHH-hhcCCCchhhhhhhhhccCCCcccCCCC
Q 009824          216 AVPKKILDLMNVEGLTRENVKFRLSLKRLGNKTLEAGMVA-SVGSKDSSYLRIGALDGFGGSHSVNSPG  283 (524)
Q Consensus       216 avPk~IL~lmk~~~LT~eevk~rL~mKr~t~~~q~~~~~~-~L~~sd~~ll~~aa~igl~hhe~~dGsG  283 (524)
                      .+|++|+  .|++.||.+|  +++ +++|+.     .|+. ++...  ++......+.+.|||+|||+|
T Consensus       209 ~ip~~il--~k~~~L~~~E--~~~-~~~H~~-----~G~~~ll~~~--~~~~~v~~~i~~HHEr~dGsG  265 (328)
T 3tm8_A          209 HSPLNLN--QPLDSMSPED--LAL-WKKHPI-----EGAQKVQDKK--HFDQTVINIIGQHEETINGTG  265 (328)
T ss_dssp             TCSCCCS--SCGGGSCHHH--HHH-HHHHHH-----HHHHHHTTCT--TSCHHHHHHHHHTTCCTBSCS
T ss_pred             cCCHHHH--hCCCCCCHHH--HHH-HHHHHH-----HHHHHHHHhC--CCcHHHHHHHHHhcCCCCCCC
Confidence            6788888  7889999999  777 788887     6666 44433  344666778899999999999

>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF, half barrel, de novo protein; 3.10A {Thermotoga maritima} PDB: 2lle_A

Probab=95.99  E-value=0.043  Score=51.13  Aligned_cols=82  Identities=12%  Similarity=0.225  Sum_probs=63.0

Q ss_pred             CHHHHHHHHHhcCCCceEEEEeC-CCCCCCHH--HHHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCCcEEE------eC
Q 009824           55 RAITALKMLRENRNNFDLVISDV-YMPDMDGF--KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYL------LK  125 (524)
Q Consensus        55 sg~eALe~L~e~~~~pDLVIlDi-~MPdmdGl--eLLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA~dYL------~K  125 (524)
                      +..+.++.+... ...++++.++ .++.++|+  ++++.++...++|||.+++....+...++++.||++++      .+
T Consensus       131 ~~~~~i~~~~~~-~~~~vli~~~~~~g~~~g~~~~~i~~~~~~~~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~  209 (237)
T 3cwo_X          131 LLRDWVVEVEKR-GAGEILLTSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFR  209 (237)
T ss_dssp             EHHHHHHHHHHH-TCSEEEEEETTTTTCCSCCCHHHHHHHGGGCCSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTT
T ss_pred             CHHHHHHHHhhc-CCCeEEEEecCCCCccccccHHHHHHHHHhcCCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcC
Confidence            455666666544 2356999997 66667774  46677766678999999999999999999999999996      57


Q ss_pred             CCCHHHHHHHHH
Q 009824          126 PVRMEELKNTWQ  137 (524)
Q Consensus       126 P~~~eeL~~aI~  137 (524)
                      |++..+++..++
T Consensus       210 ~~~~~~~~~~l~  221 (237)
T 3cwo_X          210 EIDVRELKEYLK  221 (237)
T ss_dssp             SSCHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
Confidence            888888876543

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=95.95  E-value=0.038  Score=47.23  Aligned_cols=102  Identities=19%  Similarity=0.272  Sum_probs=79.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCC-CCCCHHHHHHHHh---cCCCCcE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYM-PDMDGFKLLELVG---LEMDLPV   99 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~M-PdmdGleLLe~Lr---~~~diPV   99 (524)
                      -.||+|-.|-..-..+++++....|+++......        ....-|+|+|.+.+ |.        .+.   .....-+
T Consensus        13 ~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~~~--------~e~~AdlIfCEYlLLPe--------~ifS~k~~~~~dl   76 (121)
T 3q7r_A           13 KHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQYK--------QELSADLVVCEYSLLPR--------EIRSPKSLEGSFV   76 (121)
T ss_dssp             EEEEEECSCHHHHHHHHHHSCTTTEEEEEESSCC--------CCTTEEEEEEEGGGSCT--------TCCCCTTCCSCEE
T ss_pred             cEEEEEecCchhhHHHHHhcCCcceeEEeccccC--------CcccceeEEEeeecChH--------HhcCCCCCCcccE
Confidence            4588898888888889999977889988765321        11347999999854 32        121   1233458


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |++-..-+.+...+.+..||. ||..|+.+.-+..+|++.++.
T Consensus        77 iVLfD~F~EEa~v~vLd~Ga~-yLlrPIT~kvldAvIraFLrq  118 (121)
T 3q7r_A           77 LVLLDFFDEETSVDLLDRGFW-YLIRPITPRILKSAISLFLSQ  118 (121)
T ss_dssp             EEEESSCCHHHHHHHHHTTCE-EEESCCCHHHHHHHHHHHHHH
T ss_pred             EEEehhhchHHHHHHHhCCce-eEeccCcHHHHHHHHHHHHhc
Confidence            888888899999999999999 999999999999999988874

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=95.12  E-value=0.37  Score=43.96  Aligned_cols=117  Identities=15%  Similarity=0.175  Sum_probs=81.1

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-CC-HHHHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-MD-GFKLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-md-GleLLe~Lr~   93 (524)
                      ..+|++.    |-|..-...+..+|+..||+|+.   ....++.++.+.+.+  +|+|.+-..|.. +. --++++.++.
T Consensus        18 ~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa~~~~--~diV~lS~~~~~~~~~~~~~i~~L~~   95 (161)
T 2yxb_A           18 RYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQED--VDVIGVSILNGAHLHLMKRLMAKLRE   95 (161)
T ss_dssp             SCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHHHHTT--CSEEEEEESSSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcC--CCEEEEEeechhhHHHHHHHHHHHHh
Confidence            4678888    88888899999999999999984   346788888887764  999998877653 22 2335556654


Q ss_pred             C--CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           94 E--MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        94 ~--~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      .  .+++|++ .+..-.+....+.+.|++.++..--+..+....++.++..
T Consensus        96 ~g~~~i~v~v-GG~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~~~~  145 (161)
T 2yxb_A           96 LGADDIPVVL-GGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAEE  145 (161)
T ss_dssp             TTCTTSCEEE-EECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHHHH
T ss_pred             cCCCCCEEEE-eCCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHHHHH
Confidence            3  3677654 4555444454566899998665545556666666666544

>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel, ribulose-phosphate binding barrel, carbohydrate metabolic process; HET: BTB; 1.80A {Salmonella enterica subsp}

Probab=93.34  E-value=0.49  Score=45.76  Aligned_cols=98  Identities=12%  Similarity=0.164  Sum_probs=69.4

Q ss_pred             cEEEEEeC----CHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCC------CCCCCHHHHHHHHh
Q 009824           24 MRVLAVDD----DQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVY------MPDMDGFKLLELVG   92 (524)
Q Consensus        24 irVLIVDD----dp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~------MPdmdGleLLe~Lr   92 (524)
                      ..++++|-    +|.....+.+.+++.|..+. .+.+.+++.++.+.   .+|+|.+-..      .+...++++++.++
T Consensus       102 ad~I~l~~~~~~~p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~---Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~  178 (229)
T 3q58_A          102 ADIIAFDASFRSRPVDIDSLLTRIRLHGLLAMADCSTVNEGISCHQK---GIEFIGTTLSGYTGPITPVEPDLAMVTQLS  178 (229)
T ss_dssp             CSEEEEECCSSCCSSCHHHHHHHHHHTTCEEEEECSSHHHHHHHHHT---TCSEEECTTTTSSSSCCCSSCCHHHHHHHH
T ss_pred             CCEEEECccccCChHHHHHHHHHHHHCCCEEEEecCCHHHHHHHHhC---CCCEEEecCccCCCCCcCCCCCHHHHHHHH
Confidence            44555553    34344444455566677765 66788888877653   3898864322      23345788898886


Q ss_pred             cCCCCcEEEEecCCCHHHHHHHHhcCCcEEEeC
Q 009824           93 LEMDLPVVMLSAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus        93 ~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~K  125 (524)
                      .. ++|||.-.+-.+.+.+.+++++||+++++=
T Consensus       179 ~~-~ipvIA~GGI~t~~d~~~~~~~GadgV~VG  210 (229)
T 3q58_A          179 HA-GCRVIAEGRYNTPALAANAIEHGAWAVTVG  210 (229)
T ss_dssp             TT-TCCEEEESSCCSHHHHHHHHHTTCSEEEEC
T ss_pred             Hc-CCCEEEECCCCCHHHHHHHHHcCCCEEEEc
Confidence            55 899999999999999999999999999873

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=92.53  E-value=1.7  Score=43.06  Aligned_cols=99  Identities=14%  Similarity=0.087  Sum_probs=67.8

Q ss_pred             HHHHHHhCCCeEE--EECCHHHHHHHHHhcCCCceEEEEeCCCCC-----CCHHHHHHHHhcCCCCcEEEEecCCCHHHH
Q 009824           39 LEKFLRECQYEVT--VTNRAITALKMLRENRNNFDLVISDVYMPD-----MDGFKLLELVGLEMDLPVVMLSAYSDTKLV  111 (524)
Q Consensus        39 L~~~L~~~gy~V~--~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-----mdGleLLe~Lr~~~diPVIvlTa~~d~~~~  111 (524)
                      ..+.|.+.||.|.  ++.+...|.++. +.  .+++| ..+-.|-     ..-+++++.++...++|||+=.+-..++.+
T Consensus       127 aa~~L~~~Gf~Vlpy~~dd~~~akrl~-~~--G~~aV-mPlg~pIGsG~Gi~~~~lI~~I~e~~~vPVI~eGGI~TPsDA  202 (265)
T 1wv2_A          127 AAEQLVKDGFDVMVYTSDDPIIARQLA-EI--GCIAV-MPLAGLIGSGLGICNPYNLRIILEEAKVPVLVDAGVGTASDA  202 (265)
T ss_dssp             HHHHHHTTTCEEEEEECSCHHHHHHHH-HS--CCSEE-EECSSSTTCCCCCSCHHHHHHHHHHCSSCBEEESCCCSHHHH
T ss_pred             HHHHHHHCCCEEEEEeCCCHHHHHHHH-Hh--CCCEE-EeCCccCCCCCCcCCHHHHHHHHhcCCCCEEEeCCCCCHHHH
Confidence            3444556699987  445666665554 33  37777 4444431     223788888877789999998899999999


Q ss_pred             HHHHhcCCcEEEeC-----CCCHHHHHHHHHHHHH
Q 009824          112 MKGINHGACDYLLK-----PVRMEELKNTWQHVIR  141 (524)
Q Consensus       112 ~~al~~GA~dYL~K-----P~~~eeL~~aI~~vlr  141 (524)
                      ..+++.||++.++=     --++..+..++..++.
T Consensus       203 a~AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av~  237 (265)
T 1wv2_A          203 AIAMELGCEAVLMNTAIAHAKDPVMMAEAMKHAIV  237 (265)
T ss_dssp             HHHHHHTCSEEEESHHHHTSSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEChHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999863     3345555555555443

>3igs_A N-acetylmannosamine-6-phosphate 2-epimerase 2; energy metabolism, sugars, csgid, carbohydrate metabolism, isomerase; HET: MSE 16G; 1.50A {Salmonella enterica subsp} SCOP: c.1.2.0

Probab=91.98  E-value=0.87  Score=44.00  Aligned_cols=97  Identities=15%  Similarity=0.181  Sum_probs=68.0

Q ss_pred             cEEEEEeC----CHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCC------CCCCCHHHHHHHHh
Q 009824           24 MRVLAVDD----DQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVY------MPDMDGFKLLELVG   92 (524)
Q Consensus        24 irVLIVDD----dp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~------MPdmdGleLLe~Lr   92 (524)
                      ..++++|-    +|.....+.+.+++.|..+. .+.+.+++.++...   .+|+|.+-..      .+...++++++.++
T Consensus       102 ad~V~l~~~~~~~p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~---Gad~Ig~~~~g~t~~~~~~~~~~~~i~~l~  178 (232)
T 3igs_A          102 AAIIAVDGTARQRPVAVEALLARIHHHHLLTMADCSSVDDGLACQRL---GADIIGTTMSGYTTPDTPEEPDLPLVKALH  178 (232)
T ss_dssp             CSEEEEECCSSCCSSCHHHHHHHHHHTTCEEEEECCSHHHHHHHHHT---TCSEEECTTTTSSSSSCCSSCCHHHHHHHH
T ss_pred             CCEEEECccccCCHHHHHHHHHHHHHCCCEEEEeCCCHHHHHHHHhC---CCCEEEEcCccCCCCCCCCCCCHHHHHHHH
Confidence            44555543    34344444455566677765 66788888777653   3898864321      12345688888886


Q ss_pred             cCCCCcEEEEecCCCHHHHHHHHhcCCcEEEe
Q 009824           93 LEMDLPVVMLSAYSDTKLVMKGINHGACDYLL  124 (524)
Q Consensus        93 ~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~  124 (524)
                      .. ++|||.-.+-.+.+.+.+++++||+++++
T Consensus       179 ~~-~ipvIA~GGI~t~~d~~~~~~~GadgV~V  209 (232)
T 3igs_A          179 DA-GCRVIAEGRYNSPALAAEAIRYGAWAVTV  209 (232)
T ss_dssp             HT-TCCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             hc-CCcEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence            55 89999999999999999999999999986

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=90.06  E-value=4.7  Score=39.29  Aligned_cols=110  Identities=15%  Similarity=0.159  Sum_probs=75.0

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~   93 (524)
                      +-+||++    |-|..-..++..+|+..||+|+.   -...++.++.+.+.+  ||+|.+-..|+. +..+ ++++.++.
T Consensus       123 ~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~~~~~--~d~V~lS~l~~~~~~~~~~~i~~l~~  200 (258)
T 2i2x_B          123 KGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAVQKEK--PIMLTGTALMTTTMYAFKEVNDMLLE  200 (258)
T ss_dssp             SCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHHHHHC--CSEEEEECCCTTTTTHHHHHHHHHHT
T ss_pred             CCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEEeeccCCHHHHHHHHHHHHh
Confidence            4577777    77788888999999999999873   345677778877665  999999887763 5544 46677753


Q ss_pred             -CCCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824           94 -EMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus        94 -~~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                       .+++||++--.....+..   -+.||+.|....   .+....++.++
T Consensus       201 ~~~~~~v~vGG~~~~~~~~---~~igad~~~~da---~~av~~~~~l~  242 (258)
T 2i2x_B          201 NGIKIPFACGGGAVNQDFV---SQFALGVYGEEA---ADAPKIADAII  242 (258)
T ss_dssp             TTCCCCEEEESTTCCHHHH---HTSTTEEECSST---THHHHHHHHHH
T ss_pred             cCCCCcEEEECccCCHHHH---HHcCCeEEECCH---HHHHHHHHHHH
Confidence             456787766555554432   367987776533   44445555544

>1ccw_A Protein (glutamate mutase); coenzyme B12, radical reaction, TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A {Clostridium cochlearium} SCOP: c.23.6.1 PDB: 1cb7_A* 1b1a_A 1i9c_A* 1be1_A 1fmf_A 1id8_A*

Probab=89.29  E-value=7.6  Score=34.06  Aligned_cols=107  Identities=11%  Similarity=-0.009  Sum_probs=71.3

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEE---EECCHHHHHHHHHhcCCCceEEEEeCCCCC-CC-HHHHHHHHhc-CC-CCcEEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVT---VTNRAITALKMLRENRNNFDLVISDVYMPD-MD-GFKLLELVGL-EM-DLPVVML  102 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~---~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-md-GleLLe~Lr~-~~-diPVIvl  102 (524)
                      |-|..-...+..+|+..||+|+   .....++.++.+.+.+  +|+|.+-..|.. +. --++++.++. .. +++|+ +
T Consensus        14 d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~~~--~d~v~lS~~~~~~~~~~~~~i~~l~~~g~~~i~v~-v   90 (137)
T 1ccw_A           14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETK--ADAILVSSLYGQGEIDCKGLRQKCDEAGLEGILLY-V   90 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHT--CSEEEEEECSSTHHHHHTTHHHHHHHTTCTTCEEE-E
T ss_pred             chhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcC--CCEEEEEecCcCcHHHHHHHHHHHHhcCCCCCEEE-E
Confidence            4556666788899999999998   3467888888888765  999998887743 22 2234555543 22 56664 4


Q ss_pred             ecCC-----CHH-HHHHHHhcCCcEEEeCCCCHHHHHHHHHHH
Q 009824          103 SAYS-----DTK-LVMKGINHGACDYLLKPVRMEELKNTWQHV  139 (524)
Q Consensus       103 Ta~~-----d~~-~~~~al~~GA~dYL~KP~~~eeL~~aI~~v  139 (524)
                      .+..     +.. ....+.+.|++.|...--+..++...+...
T Consensus        91 GG~~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~~~l~~~  133 (137)
T 1ccw_A           91 GGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKD  133 (137)
T ss_dssp             EESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHH
T ss_pred             ECCCcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHHHHHHHH
Confidence            4432     222 244567899998887667777776666543

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=87.96  E-value=2.2  Score=40.00  Aligned_cols=98  Identities=11%  Similarity=0.064  Sum_probs=68.7

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCC-CCHH-HHHHHHhc
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPD-MDGF-KLLELVGL   93 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPd-mdGl-eLLe~Lr~   93 (524)
                      +-+|+++    |-|..-...+..+|+..||+|...   ...++.++.+++.+  ||+|.+-..|+. +..+ ++++.++.
T Consensus        88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~~~--~d~v~lS~~~~~~~~~~~~~i~~l~~  165 (210)
T 1y80_A           88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKKYQ--PDIVGMSALLTTTMMNMKSTIDALIA  165 (210)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHHHC--CSEEEEECCSGGGTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC--CCEEEEeccccccHHHHHHHHHHHHh
Confidence            3478887    778888899999999999999854   24677777777665  999999887763 3333 35566653


Q ss_pred             C---CCCcEEEEecCCCHHHHHHHHhcCCcEEEeC
Q 009824           94 E---MDLPVVMLSAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus        94 ~---~diPVIvlTa~~d~~~~~~al~~GA~dYL~K  125 (524)
                      .   +++||++--...+.+..   .+.||+.|..-
T Consensus       166 ~~~~~~~~v~vGG~~~~~~~~---~~~gad~~~~d  197 (210)
T 1y80_A          166 AGLRDRVKVIVGGAPLSQDFA---DEIGADGYAPD  197 (210)
T ss_dssp             TTCGGGCEEEEESTTCCHHHH---HHHTCSEECSS
T ss_pred             cCCCCCCeEEEECCCCCHHHH---HHcCCeEEECC
Confidence            2   35887766555554433   45699887653

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=87.08  E-value=5.8  Score=40.39  Aligned_cols=104  Identities=14%  Similarity=0.139  Sum_probs=74.7

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHh---CCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCc
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRE---CQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLP   98 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~---~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diP   98 (524)
                      .++|+.|+|.|+...+.|..+|..   ..|+|..+++.+.+.+.+++.+  +|++|+|-.++...       .......+
T Consensus        20 ~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~~~~--~dilli~e~~~~~~-------~~~~~~~~   90 (373)
T 3fkq_A           20 MKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVKEYR--IDVLIAEEDFNIDK-------SEFKRNCG   90 (373)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHHHHT--CSEEEEETTCCCCG-------GGGCSSCE
T ss_pred             ceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHhcCC--CCEEEEcchhhhhh-------hhhcccCc
Confidence            358999999999999999999964   3678999999999999988764  99999998775421       11223456


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      +++++.....+      ...-...+.|--+.+++...+....
T Consensus        91 v~~l~~~~~~~------~~~~~~~i~kyq~~~~i~~ei~~~~  126 (373)
T 3fkq_A           91 LAYFTGTPGIE------LIKDEIAICKYQRVDVIFKQILGVY  126 (373)
T ss_dssp             EEEEESCTTCC------EETTEEEEETTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCC------cCCCCceeeccCCHHHHHHHHHHHH
Confidence            77776543221      1122346788888888877665554

>3ezx_A MMCP 1, monomethylamine corrinoid protein 1; N terminal all helical bundle C terminal rossmann fold, cobalt, metal-binding; HET: HCB; 2.56A {Methanosarcina barkeri}

Probab=85.49  E-value=1.9  Score=41.15  Aligned_cols=98  Identities=12%  Similarity=0.114  Sum_probs=68.6

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEE--eCCCC-CCCHH-HHHHHH
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVIS--DVYMP-DMDGF-KLLELV   91 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIl--Di~MP-dmdGl-eLLe~L   91 (524)
                      +-+|++.    |-|..=..++..+|+..||+|+..   ...++.++.+.+.+  ||+|.+  -..|. .+..+ ++++.+
T Consensus        92 ~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~~~--~d~v~l~~S~l~~~~~~~~~~~i~~l  169 (215)
T 3ezx_A           92 AGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEAAKHK--GEKVLLVGSALMTTSMLGQKDLMDRL  169 (215)
T ss_dssp             CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHHTT--TSCEEEEEECSSHHHHTHHHHHHHHH
T ss_pred             CCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHHcC--CCEEEEEchhcccCcHHHHHHHHHHH
Confidence            4577777    777888889999999999999854   35677778888765  999998  77774 34433 355666


Q ss_pred             hcC-C--CCcEEEEecCCCHHHHHHHHhcCCcEEEeC
Q 009824           92 GLE-M--DLPVVMLSAYSDTKLVMKGINHGACDYLLK  125 (524)
Q Consensus        92 r~~-~--diPVIvlTa~~d~~~~~~al~~GA~dYL~K  125 (524)
                      +.. .  ++||++=-+.-..+.+   -+.||+.|-..
T Consensus       170 ~~~~~~~~v~v~vGG~~~~~~~a---~~iGad~~~~d  203 (215)
T 3ezx_A          170 NEEKLRDSVKCMFGGAPVSDKWI---EEIGADATAEN  203 (215)
T ss_dssp             HHTTCGGGSEEEEESSSCCHHHH---HHHTCCBCCSS
T ss_pred             HHcCCCCCCEEEEECCCCCHHHH---HHhCCeEEECC
Confidence            533 3  6787766555565433   35699988653

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=84.87  E-value=4.7  Score=39.97  Aligned_cols=103  Identities=18%  Similarity=0.178  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHhCCCeEE--EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCH-----HHHHHHHhc-CCC-CcEEEEec
Q 009824           34 TCLKILEKFLRECQYEVT--VTNRAITALKMLRENRNNFDLVISDVYMPDMDG-----FKLLELVGL-EMD-LPVVMLSA  104 (524)
Q Consensus        34 ~~~~~L~~~L~~~gy~V~--~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdG-----leLLe~Lr~-~~d-iPVIvlTa  104 (524)
                      ...+..+. |.+.||.|.  +..+...|-++. +.  .+++| ..+-.|-..|     .++++.++. ..+ +|||+=.+
T Consensus       112 ~tv~aa~~-L~k~Gf~Vlpy~~~D~~~ak~l~-~~--G~~aV-mPlg~pIGsG~Gi~~~~~L~~i~~~~~~~vPVI~~GG  186 (268)
T 2htm_A          112 ETLKAAER-LIEEDFLVLPYMGPDLVLAKRLA-AL--GTATV-MPLAAPIGSGWGVRTRALLELFAREKASLPPVVVDAG  186 (268)
T ss_dssp             HHHHHHHH-HHHTTCEECCEECSCHHHHHHHH-HH--TCSCB-EEBSSSTTTCCCSTTHHHHHHHHHTTTTSSCBEEESC
T ss_pred             HHHHHHHH-HHHCCCEEeeccCCCHHHHHHHH-hc--CCCEE-EecCccCcCCcccCCHHHHHHHHHhcCCCCeEEEeCC
Confidence            33333333 445599977  445665554443 33  26766 4444432222     456777765 677 99999999


Q ss_pred             CCCHHHHHHHHhcCCcEEEe-----CCCCHHHHHHHHHHHHH
Q 009824          105 YSDTKLVMKGINHGACDYLL-----KPVRMEELKNTWQHVIR  141 (524)
Q Consensus       105 ~~d~~~~~~al~~GA~dYL~-----KP~~~eeL~~aI~~vlr  141 (524)
                      -..++.+..+++.||++.++     |--++..+..++..++.
T Consensus       187 I~tpsDAa~AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av~  228 (268)
T 2htm_A          187 LGLPSHAAEVMELGLDAVLVNTAIAEAQDPPAMAEAFRLAVE  228 (268)
T ss_dssp             CCSHHHHHHHHHTTCCEEEESHHHHTSSSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHcCCCEEEEChHHhCCCCHHHHHHHHHHHHH
Confidence            99999999999999999886     43345555555555443

>1r8j_A KAIA; circadian clock protein; 2.03A {Synechococcus elongatus pcc 7942} SCOP: a.186.1.1 c.23.1.5 PDB: 1m2e_A 1m2f_A

Probab=84.83  E-value=9.2  Score=37.93  Aligned_cols=120  Identities=10%  Similarity=0.075  Sum_probs=81.2

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHH-hcCCCCc
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELV-GLEMDLP   98 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~L-r~~~diP   98 (524)
                      +...+.|.+.-.++.....+..+|....|.++.+.+.++.++.+++++..+|++|+...  +..-..+...+ ....-.|
T Consensus         6 ~~~~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~~~e~iDcLvle~~--~~~~~~~~~~L~~~g~lLP   83 (289)
T 1r8j_A            6 VLSQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA--NPSFRAVVQQLCFEGVVVP   83 (289)
T ss_dssp             CCCCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT--STTHHHHHHHHHHTTCCCC
T ss_pred             cccceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHhccccCCEEEEEeC--CCccHHHHHHHHHcCcccc
Confidence            45568888999999999999999988899999999999999999988889999998761  22355566666 4556789


Q ss_pred             EEEEecCCCHHHHHH---HHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMK---GINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~---al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|++..... ..-.+   .+-+-..+.-...-..+++-..|.+++.+
T Consensus        84 ~vil~~~~~-~~~~~~~~~~~yh~aEv~l~~~ql~~l~~~Id~AI~~  129 (289)
T 1r8j_A           84 AIVVGDRDS-EDPDEPAKEQLYHSAELHLGIHQLEQLPYQVDAALAE  129 (289)
T ss_dssp             EEEESCCC-------CCSSCSSBTTCEEECTTCGGGHHHHHHHHHHH
T ss_pred             EEEeccCcc-ccCCCCccceeccHHHHcCCHhHHHHHHHHHHHHHHH
Confidence            998865422 00000   01111122223334456677777766654

>3qja_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, T structural genomics consortium, TBSGC, lyase; 1.29A {Mycobacterium tuberculosis} PDB: 3t40_A* 3t44_A* 3t55_A* 3t78_A* 4fb7_A*

Probab=84.75  E-value=12  Score=37.03  Aligned_cols=90  Identities=10%  Similarity=-0.069  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCC--CCHHHHHHHHh-cCC-CCcEEEEecCCC
Q 009824           33 QTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD--MDGFKLLELVG-LEM-DLPVVMLSAYSD  107 (524)
Q Consensus        33 p~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPd--mdGleLLe~Lr-~~~-diPVIvlTa~~d  107 (524)
                      +.....+....+..|..+. .+.+.+++..++..   .+|+|-+.-.-..  .-+++.++.+. ..+ ++|||..++-.+
T Consensus       148 ~~~l~~l~~~a~~lGl~~lvev~t~ee~~~A~~~---Gad~IGv~~r~l~~~~~dl~~~~~l~~~v~~~~pvVaegGI~t  224 (272)
T 3qja_A          148 QSVLVSMLDRTESLGMTALVEVHTEQEADRALKA---GAKVIGVNARDLMTLDVDRDCFARIAPGLPSSVIRIAESGVRG  224 (272)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH---TCSEEEEESBCTTTCCBCTTHHHHHGGGSCTTSEEEEESCCCS
T ss_pred             HHHHHHHHHHHHHCCCcEEEEcCCHHHHHHHHHC---CCCEEEECCCcccccccCHHHHHHHHHhCcccCEEEEECCCCC
Confidence            3334444555566788765 67888887776653   3788777532111  11345555553 333 799999999999


Q ss_pred             HHHHHHHHhcCCcEEEeC
Q 009824          108 TKLVMKGINHGACDYLLK  125 (524)
Q Consensus       108 ~~~~~~al~~GA~dYL~K  125 (524)
                      .+.+.++.++||+++++=
T Consensus       225 ~edv~~l~~~GadgvlVG  242 (272)
T 3qja_A          225 TADLLAYAGAGADAVLVG  242 (272)
T ss_dssp             HHHHHHHHHTTCSEEEEC
T ss_pred             HHHHHHHHHcCCCEEEEc
Confidence            999999999999999883

>4fo4_A Inosine 5'-monophosphate dehydrogenase; structural genomics, IMPDH, IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.03A {Vibrio cholerae o1 biovar el tor} PDB: 4ff0_A* 4hlv_A* 4fez_A

Probab=81.44  E-value=13  Score=38.34  Aligned_cols=98  Identities=17%  Similarity=0.216  Sum_probs=66.8

Q ss_pred             ccEEEEEe----CCHHHHHHHHHHHHhC-CCeEE--EECCHHHHHHHHHhcCCCceEEEEeCCCCC------------CC
Q 009824           23 GMRVLAVD----DDQTCLKILEKFLREC-QYEVT--VTNRAITALKMLRENRNNFDLVISDVYMPD------------MD   83 (524)
Q Consensus        23 ~irVLIVD----Ddp~~~~~L~~~L~~~-gy~V~--~a~sg~eALe~L~e~~~~pDLVIlDi~MPd------------md   83 (524)
                      +..+++||    +.+...+.++.+-+.. +..|.  .+.+.++|.++.+..   .|.|.+.+. |+            ..
T Consensus       120 Gvd~I~idta~G~~~~~~~~I~~ik~~~p~v~Vi~G~v~t~e~A~~a~~aG---AD~I~vG~g-pGs~~~tr~~~g~g~p  195 (366)
T 4fo4_A          120 GVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIGGNVATAEGARALIEAG---VSAVKVGIG-PGSICTTRIVTGVGVP  195 (366)
T ss_dssp             TCSEEEEECSCTTSHHHHHHHHHHHHHCTTCEEEEEEECSHHHHHHHHHHT---CSEEEECSS-CSTTBCHHHHHCCCCC
T ss_pred             CCCEEEEeCCCCCCHHHHHHHHHHHHhcCCCceEeeeeCCHHHHHHHHHcC---CCEEEEecC-CCCCCCcccccCcccc
Confidence            45677776    3445555566655554 55654  478899998877643   788888421 22            23


Q ss_pred             HHHHHHHHh---cCCCCcEEEEecCCCHHHHHHHHhcCCcEEEe
Q 009824           84 GFKLLELVG---LEMDLPVVMLSAYSDTKLVMKGINHGACDYLL  124 (524)
Q Consensus        84 GleLLe~Lr---~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~  124 (524)
                      .++++..+.   ...++|||.--+-.+...+.+++.+||+....
T Consensus       196 ~~~~l~~v~~~~~~~~iPVIA~GGI~~~~di~kala~GAd~V~v  239 (366)
T 4fo4_A          196 QITAIADAAGVANEYGIPVIADGGIRFSGDISKAIAAGASCVMV  239 (366)
T ss_dssp             HHHHHHHHHHHHGGGTCCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             hHHHHHHHHHHHhhcCCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            445554442   24579999998998999999999999998865

>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A {Bacillus subtilis} PDB: 3qh2_A*

Probab=80.60  E-value=6.9  Score=36.64  Aligned_cols=74  Identities=15%  Similarity=0.201  Sum_probs=52.9

Q ss_pred             CCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCC-------CCHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHhcC
Q 009824           47 QYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD-------MDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHG  118 (524)
Q Consensus        47 gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-------mdGleLLe~Lr~~~diPVIvlTa~~d~~~~~~al~~G  118 (524)
                      +..+- .+.+.+++.+....   ..|.|+++-..+.       .-|++.++.++...++|||+..+- +.+.+.++++.|
T Consensus       110 ~~~ig~sv~t~~~~~~a~~~---gaD~i~~~~~f~~~~~~g~~~~~~~~l~~~~~~~~~pvia~GGI-~~~nv~~~~~~G  185 (221)
T 1yad_A          110 HLHIGRSVHSLEEAVQAEKE---DADYVLFGHVFETDCKKGLEGRGVSLLSDIKQRISIPVIAIGGM-TPDRLRDVKQAG  185 (221)
T ss_dssp             TCEEEEEECSHHHHHHHHHT---TCSEEEEECCC----------CHHHHHHHHHHHCCSCEEEESSC-CGGGHHHHHHTT
T ss_pred             CCEEEEEcCCHHHHHHHHhC---CCCEEEECCccccCCCCCCCCCCHHHHHHHHHhCCCCEEEECCC-CHHHHHHHHHcC
Confidence            44443 56788887776543   3899999765432       236777877754458999988887 788899999999


Q ss_pred             CcEEEe
Q 009824          119 ACDYLL  124 (524)
Q Consensus       119 A~dYL~  124 (524)
                      |+.+..
T Consensus       186 a~gv~v  191 (221)
T 1yad_A          186 ADGIAV  191 (221)
T ss_dssp             CSEEEE
T ss_pred             CCEEEE
Confidence            998765

>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase, 2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A {Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*

Probab=80.39  E-value=23  Score=35.24  Aligned_cols=81  Identities=20%  Similarity=0.238  Sum_probs=58.9

Q ss_pred             HHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCC-------CCHHHHHHHHhcCCCCcEEEEecCCCHHHHH
Q 009824           41 KFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPD-------MDGFKLLELVGLEMDLPVVMLSAYSDTKLVM  112 (524)
Q Consensus        41 ~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-------mdGleLLe~Lr~~~diPVIvlTa~~d~~~~~  112 (524)
                      +.+++.+..|. .+.+.+++..+...   .+|.|+++-.-++       ...+++++.++...++|||+-.+-.+.+.+.
T Consensus       112 ~~l~~~gi~vi~~v~t~~~a~~~~~~---GaD~i~v~g~~~GG~~G~~~~~~~~~l~~v~~~~~iPviaaGGI~~~~~v~  188 (328)
T 2gjl_A          112 AEFRRHGVKVIHKCTAVRHALKAERL---GVDAVSIDGFECAGHPGEDDIPGLVLLPAAANRLRVPIIASGGFADGRGLV  188 (328)
T ss_dssp             HHHHHTTCEEEEEESSHHHHHHHHHT---TCSEEEEECTTCSBCCCSSCCCHHHHHHHHHTTCCSCEEEESSCCSHHHHH
T ss_pred             HHHHHcCCCEEeeCCCHHHHHHHHHc---CCCEEEEECCCCCcCCCCccccHHHHHHHHHHhcCCCEEEECCCCCHHHHH
Confidence            34444566665 46777877766543   3788888532221       2467788888766689999999998999999


Q ss_pred             HHHhcCCcEEEe
Q 009824          113 KGINHGACDYLL  124 (524)
Q Consensus       113 ~al~~GA~dYL~  124 (524)
                      +++..||+....
T Consensus       189 ~al~~GAdgV~v  200 (328)
T 2gjl_A          189 AALALGADAINM  200 (328)
T ss_dssp             HHHHHTCSEEEE
T ss_pred             HHHHcCCCEEEE
Confidence            999999998876

>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics, southeast collaboratory for structural genomics, hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP: c.1.3.1

Probab=80.06  E-value=13  Score=34.19  Aligned_cols=69  Identities=14%  Similarity=0.174  Sum_probs=50.5

Q ss_pred             EECCHHHHHHHHHhcCCCceEEEEeCCCCC-------CCHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHhcCCcEEEe
Q 009824           52 VTNRAITALKMLRENRNNFDLVISDVYMPD-------MDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLL  124 (524)
Q Consensus        52 ~a~sg~eALe~L~e~~~~pDLVIlDi~MPd-------mdGleLLe~Lr~~~diPVIvlTa~~d~~~~~~al~~GA~dYL~  124 (524)
                      .+.+..++.+....   .+|.|+++-..|.       ..+++.++.++...++||++..+-. .+.+.++++.||+.+..
T Consensus       114 ~~~t~~e~~~~~~~---g~d~i~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~pvia~GGI~-~~nv~~~~~~Ga~gv~v  189 (215)
T 1xi3_A          114 SVYSLEEALEAEKK---GADYLGAGSVFPTKTKEDARVIGLEGLRKIVESVKIPVVAIGGIN-KDNAREVLKTGVDGIAV  189 (215)
T ss_dssp             EESSHHHHHHHHHH---TCSEEEEECSSCC----CCCCCHHHHHHHHHHHCSSCEEEESSCC-TTTHHHHHTTTCSEEEE
T ss_pred             ecCCHHHHHHHHhc---CCCEEEEcCCccCCCCCCCCCcCHHHHHHHHHhCCCCEEEECCcC-HHHHHHHHHcCCCEEEE
Confidence            46777777665432   3899998865553       3478888877654589998877776 77788889999999865

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	524
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	6e-29
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	8e-27
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	8e-27
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	2e-26
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	3e-26
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	9e-26
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	2e-25
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	7e-25
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	7e-25
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	1e-24
d1peya_	119	c.23.1.1 (A:) Sporulation response regulator Spo0F	2e-24
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	2e-24
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	4e-24
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	6e-24
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	8e-24
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	2e-23
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	3e-23
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	3e-23
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	3e-23
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	3e-23
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	8e-23
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	9e-23
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	1e-22
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	2e-22
d1irza_	64	a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis th	4e-22
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	4e-22
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	1e-21
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	1e-21
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	2e-21
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	3e-21
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	2e-20
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	5e-20
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	6e-20
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	1e-19
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	3e-16

>d1dz3a_ c.23.1.1 (A:) Sporulation response regulator Spo0A {Bacillus stearothermophilus [TaxId: 1422]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0A
species: Bacillus stearothermophilus [TaxId: 1422]

 Score =  108 bits (272), Expect = 6e-29
 Identities = 33/123 (26%), Positives = 62/123 (50%), Gaps = 6/123 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRE--CQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           ++V   DD++  + +L++++        +         L+ML E R   D+++ D+ MP 
Sbjct: 2   IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKR--PDILLLDIIMPH 59

Query: 82  MDGFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           +DG  +LE +  G E    V+ML+A+    +  K +  GA  ++LKP  ME L +  + V
Sbjct: 60  LDGLAVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQV 119

Query: 140 IRR 142
             +
Sbjct: 120 YGK 122

>d1dcfa_ c.23.1.2 (A:) Receiver domain of the ethylene receptor {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 134

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Receiver domain of the ethylene receptor
domain: Receiver domain of the ethylene receptor
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  103 bits (257), Expect = 8e-27
 Identities = 25/129 (19%), Positives = 57/129 (44%), Gaps = 9/129 (6%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           G++VL +D++     + +  L     EVT  +     L++     +   +V  DV MP +
Sbjct: 7   GLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRV---VSHEHKVVFMDVCMPGV 63

Query: 83  DGFKLLELVGLEM------DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTW 136
           + +++   +  +          +V LS  +D     K ++ G    LLKPV ++ +++  
Sbjct: 64  ENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVL 123

Query: 137 QHVIRRKKV 145
             ++  + +
Sbjct: 124 SDLLEPRVL 132

>d1zesa1 c.23.1.1 (A:3-123) PhoB receiver domain {Escherichia coli [TaxId: 562]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Escherichia coli [TaxId: 562]

 Score =  102 bits (256), Expect = 8e-27
 Identities = 32/121 (26%), Positives = 62/121 (51%), Gaps = 5/121 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           R+L V+D+    +++   L +  ++        +A+  L E     DL++ D  +P   G
Sbjct: 2   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPW--PDLILLDWMLPGGSG 59

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            + ++ +    +  D+PVVML+A  + +  ++G+  GA DY+ KP   +EL    + V+R
Sbjct: 60  IQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 119

Query: 142 R 142
           R
Sbjct: 120 R 120

>d1zgza1 c.23.1.1 (A:2-121) TorCAD operon transcriptional regulator TorD, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 120

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: TorCAD operon transcriptional regulator TorD, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score =  101 bits (253), Expect = 2e-26
 Identities = 26/119 (21%), Positives = 60/119 (50%), Gaps = 2/119 (1%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
             ++ V+D+      L+ +  +  Y V+VT       ++++    + DL++ D+ +PD +
Sbjct: 2   HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQ--SVDLILLDINLPDEN 59

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G  L   +     + +++++  SD    + G+  GA DY+ KP+ + EL    ++++ R
Sbjct: 60  GLMLTRALRERSTVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR 118

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]} Length = 117

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

 Score =  100 bits (251), Expect = 3e-26
 Identities = 32/118 (27%), Positives = 62/118 (52%), Gaps = 2/118 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD++    I++  + +  YEV        AL+     +   D++I D+ +P++DG
Sbjct: 2   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQ--PDIIILDLMLPEIDG 59

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
            ++ + +     +P++MLSA       + G+  GA DY+ KP    EL+   + ++RR
Sbjct: 60  LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR 117

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]} Length = 118

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

 Score = 98.5 bits (245), Expect = 2e-25
 Identities = 30/119 (25%), Positives = 59/119 (49%), Gaps = 4/119 (3%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           G RVL VDD      +L+  + +  YE          A++  +E +   D+V  D+ MP+
Sbjct: 1   GKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELK--PDIVTMDITMPE 58

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           M+G   + E++ ++ +  +++ SA     +V++ I  GA D+++KP +   +      V
Sbjct: 59  MNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 117

>d1a04a2 c.23.1.1 (A:5-142) Nitrate/nitrite response regulator (NarL), receiver domain {Escherichia coli [TaxId: 562]} Length = 138

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Nitrate/nitrite response regulator (NarL), receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 98.0 bits (244), Expect = 7e-25
 Identities = 25/125 (20%), Positives = 51/125 (40%), Gaps = 5/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLREC--QYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
             +L +DD       +++ +        V   +     +++        DL++ D+ MP 
Sbjct: 3   ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD--PDLILLDLNMPG 60

Query: 82  MDGFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI 140
           M+G + L +L    +   +V+ S  +  + V+  +  GA  YLLK +  E+L        
Sbjct: 61  MNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAA 120

Query: 141 RRKKV 145
             + V
Sbjct: 121 AGEMV 125

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 97.4 bits (242), Expect = 7e-25
 Identities = 26/118 (22%), Positives = 53/118 (44%), Gaps = 2/118 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            +L V+D+      L+       Y+V          ++L E   + +LVI D+ +P  +G
Sbjct: 4   HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEY--DINLVIMDINLPGKNG 61

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
             L   +  + ++ ++ L+   +    + G+  GA DY+ KP    EL    ++++ R
Sbjct: 62  LLLARELREQANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR 119

>d2r25b1 c.23.1.1 (B:1087-1214) Response regulator Sin1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 128

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator Sin1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.6 bits (240), Expect = 1e-24
 Identities = 27/125 (21%), Positives = 57/125 (45%), Gaps = 6/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVT----NRAITALKMLRENRNNFDLVISDVYM 79
           +++L V+D+    +++++ L     E          A   +K L     N++++  DV M
Sbjct: 2   VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQM 61

Query: 80  PDMDGFKLLELV--GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQ 137
           P +DG    +++   L    P+V L+A++D   + + +  G   +L KP++  +LK    
Sbjct: 62  PKVDGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILT 121

Query: 138 HVIRR 142
                
Sbjct: 122 EFCAA 126

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

 Score = 95.8 bits (238), Expect = 2e-24
 Identities = 26/118 (22%), Positives = 62/118 (52%), Gaps = 3/118 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD      +L +   +  Y+       + AL ++ + R   DLV+ D+ +P MDG
Sbjct: 3   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER--PDLVLLDMKIPGMDG 60

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            ++L  +  ++ ++ V++++AY +  ++ +    GA  +  KP  ++E+++  +  + 
Sbjct: 61  IEILKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP 118

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 137

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 96.3 bits (239), Expect = 2e-24
 Identities = 30/129 (23%), Positives = 59/129 (45%), Gaps = 3/129 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M VL ++DD+    +LE++L     +V    R   A K+L E   N   ++  +      
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKHFNVV-LLDLLLPDVNG 59

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
              L  +     +  V++++ +   K  ++ +  GA D+L KP  +EE++ T    I  +
Sbjct: 60  LEILKWIKERSPETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR 119

Query: 144 KVDPKDQNR 152
           K+  + +N 
Sbjct: 120 KL--RKENE 126

>d1p6qa_ c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti, CheY2 [TaxId: 382]} Length = 129

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Sinorhizobium meliloti, CheY2 [TaxId: 382]

 Score = 95.4 bits (237), Expect = 4e-24
 Identities = 39/125 (31%), Positives = 60/125 (48%), Gaps = 6/125 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
           ++VL VDD  T   +L   L++  ++ +T        +K++ +N     LVISD  MP M
Sbjct: 7   IKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNP--HHLVISDFNMPKM 64

Query: 83  DGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           DG  LL+ V           ++L+A  D  LV K    GA + L KP  +E++K   + V
Sbjct: 65  DGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAV 124

Query: 140 IRRKK 144
               K
Sbjct: 125 FGALK 129

>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus halodurans [TaxId: 86665]} Length = 118

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Hypothetical protein BH3024
species: Bacillus halodurans [TaxId: 86665]

 Score = 94.6 bits (235), Expect = 6e-24
 Identities = 25/110 (22%), Positives = 46/110 (41%), Gaps = 5/110 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            RV  V+D+ +   +++  L +   EVTV        +   +  +  DL+I    + D+ 
Sbjct: 3   FRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQL-STCDLLIVSDQLVDLS 61

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEEL 132
            F LL  +        V++L+       +++   H    YL KP  + EL
Sbjct: 62  IFSLLDIVKEQTKQPSVLILTTGRHE--LIESSEHNL-SYLQKPFAISEL 108

>d1mb3a_ c.23.1.1 (A:) Cell division response regulator DivK {Caulobacter crescentus [TaxId: 155892]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Cell division response regulator DivK
species: Caulobacter crescentus [TaxId: 155892]

 Score = 94.3 bits (234), Expect = 8e-24
 Identities = 29/122 (23%), Positives = 62/122 (50%), Gaps = 5/122 (4%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           +VL V+D++  +K+    L    YE   T   ++AL + REN+   DL++ D+ +P++ G
Sbjct: 3   KVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK--PDLILMDIQLPEISG 60

Query: 85  FKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIR 141
            ++ + +        +PVV ++A++      +    G   Y+ KP+ +     T + ++ 
Sbjct: 61  LEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE 120

Query: 142 RK 143
           R+
Sbjct: 121 RQ 122

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

 Score = 93.2 bits (231), Expect = 2e-23
 Identities = 36/121 (29%), Positives = 55/121 (45%), Gaps = 3/121 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  VDDD +   +LE+ L       T        L  L       D+++SD+ MP MDG
Sbjct: 5   IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKT--PDVLLSDIRMPGMDG 62

Query: 85  FKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             LL ++      LPV++++A+SD    +     GA DYL KP  ++E     +  I   
Sbjct: 63  LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHY 122

Query: 144 K 144
           +
Sbjct: 123 Q 123

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]} Length = 122

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 92.9 bits (230), Expect = 3e-23
 Identities = 39/121 (32%), Positives = 64/121 (52%), Gaps = 3/121 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM- 82
           +RVL V+D++    ++ + L++  + V V       + M       FD+VI D+ +P   
Sbjct: 2   VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNE--PFDVVILDIMLPVHD 59

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
               L  +    ++ PV+ML+A SD +  +KG+N GA DYL KP  + EL    + +IRR
Sbjct: 60  GWEILKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR 119

Query: 143 K 143
           K
Sbjct: 120 K 120

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

 Score = 93.6 bits (232), Expect = 3e-23
 Identities = 36/129 (27%), Positives = 69/129 (53%), Gaps = 5/129 (3%)

Query: 26  VLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGF 85
           V  +DDD+   K +++ L    + V+    A  AL  L    +   +VISD+ MP MDG 
Sbjct: 3   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLS--ADFAGIVISDIRMPGMDGL 60

Query: 86  KLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK 144
            L  +++ L+ DLP+++++ + D  + ++ I  GA D++ KP   + L  + +    +++
Sbjct: 61  ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR 120

Query: 145 VDPKDQNRS 153
           +    +NRS
Sbjct: 121 L--VMENRS 127

>d1k68a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpA [TaxId: 1188]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpA [TaxId: 1188]

 Score = 93.2 bits (231), Expect = 3e-23
 Identities = 24/128 (18%), Positives = 58/128 (45%), Gaps = 10/128 (7%)

Query: 25  RVLAVDDDQTCLKILEKFLRE--CQYEVTVTNRAITALKMLRE-----NRNNFDLVISDV 77
           ++  V+D++  ++++++ L      +EV      + A+  LR+     N +  DL++ D+
Sbjct: 4   KIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLDL 63

Query: 78  YMPDMDGFKLLELVGLEM---DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            +P  DG ++L  +  +     +PVV+LS   +   +    +     Y+ K   + +L  
Sbjct: 64  NLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQ 123

Query: 135 TWQHVIRR 142
             + +   
Sbjct: 124 IVKGIEEF 131

>d1s8na_ c.23.1.1 (A:) Probable two-component system transcriptional regulator Rv1626 {Mycobacterium tuberculosis [TaxId: 1773]} Length = 190

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Probable two-component system transcriptional regulator Rv1626
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 94.9 bits (235), Expect = 3e-23
 Identities = 38/140 (27%), Positives = 63/140 (45%), Gaps = 5/140 (3%)

Query: 21  PIGMRVLAVDDDQTCLKILEKFLRECQYEVTVT-NRAITALKMLRENRNNFDLVISDVYM 79
           P   RVL  +D+      L + LRE  YE+         A+++   ++   DLVI DV M
Sbjct: 3   PR--RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHK--PDLVIMDVKM 58

Query: 80  PDMDGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV 139
           P  DG      +  +   P+V+L+A+S   LV +  + GA  YL+KP  + +L    +  
Sbjct: 59  PRRDGIDAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELA 118

Query: 140 IRRKKVDPKDQNRSPHEFEK 159
           + R +     +       E+
Sbjct: 119 VSRFREITALEGEVATLSER 138

>d1i3ca_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]} Length = 144

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]

 Score = 92.1 bits (228), Expect = 8e-23
 Identities = 24/128 (18%), Positives = 57/128 (44%), Gaps = 10/128 (7%)

Query: 25  RVLAVDDDQTCLKILEKFLRE--CQYEVTVTNRAITALKMLRE-----NRNNFDLVISDV 77
            +L V+D +   +++++ L+     +E+ +    + A+  L++     N    +L++ D+
Sbjct: 5   VILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDL 64

Query: 78  YMPDMDGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKN 134
            +P  DG ++L  +        +PVV+L+   +   V+         YL K   +++L  
Sbjct: 65  NLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFK 124

Query: 135 TWQHVIRR 142
             Q +   
Sbjct: 125 MVQGIESF 132

>d1a2oa1 c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal domain {Salmonella typhimurium [TaxId: 90371]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Methylesterase CheB, N-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

 Score = 91.9 bits (228), Expect = 9e-23
 Identities = 32/125 (25%), Positives = 61/125 (48%), Gaps = 7/125 (5%)

Query: 24  MRVLAVDDDQTCLKILEKFLREC--QYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD 81
           +RVL+VDD     +I+ + +        V      + A  ++++     D++  DV MP 
Sbjct: 4   IRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFN--PDVLTLDVEMPR 61

Query: 82  MDGFKLLELVGLEMDLPVVMLSAYS--DTKLVMKGINHGACDYLLKPVR-MEELKNTWQH 138
           MDG   LE +     +PVVM+S+ +   +++ ++ +  GA D++ KP   + E    +  
Sbjct: 62  MDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQLGIREGMLAYSE 121

Query: 139 VIRRK 143
           +I  K
Sbjct: 122 MIAEK 126

>d2ayxa1 c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 133

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sensor kinase protein RcsC, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 91.7 bits (227), Expect = 1e-22
 Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 3/122 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           M +L VDD     ++L   L    Y+    N  + AL +L +N  +  +V+SDV MP+MD
Sbjct: 9   MMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHID--IVLSDVNMPNMD 66

Query: 84  GFKLL-ELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G++L   +  L + LPV+ ++A +  +   + +  G    L KPV ++ +K T      R
Sbjct: 67  GYRLTQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAER 126

Query: 143 KK 144
            +
Sbjct: 127 VR 128

>d1yioa2 c.23.1.1 (A:3-130) Response regulatory protein StyR, N-terminal domain {Pseudomonas fluorescens [TaxId: 294]} Length = 128

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulatory protein StyR, N-terminal domain
species: Pseudomonas fluorescens [TaxId: 294]

 Score = 90.5 bits (224), Expect = 2e-22
 Identities = 31/121 (25%), Positives = 59/121 (48%), Gaps = 3/121 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            V  VDDD +  + L   LR   +EV   + A T L+  R  +     ++ D+ MP M G
Sbjct: 4   TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQ--HGCLVLDMRMPGMSG 61

Query: 85  FKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
            +L E +  +   +P+V ++A+ D  + ++ +  GA ++L KP   + L +  +  ++  
Sbjct: 62  IELQEQLTAISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLN 121

Query: 144 K 144
            
Sbjct: 122 A 122

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 64

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 87.7 bits (217), Expect = 4e-22
 Identities = 41/63 (65%), Positives = 52/63 (82%), Gaps = 5/63 (7%)

Query: 187 TTQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENV-----KFRLSL 241
           T QKKPRV+WT ELH KF+ AV+ LG+++AVPKKILDLMNV+ LTRENV     KFR++L
Sbjct: 1   TAQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVAL 60

Query: 242 KRL 244
           K++
Sbjct: 61  KKV 63

>d1zh2a1 c.23.1.1 (A:2-120) Transcriptional regulatory protein KdpE, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein KdpE, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 89.8 bits (222), Expect = 4e-22
 Identities = 34/118 (28%), Positives = 55/118 (46%), Gaps = 2/118 (1%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
            VL V+D+Q   + L   L      V         L      +   DL+I D+ +PD DG
Sbjct: 2   NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK--PDLIILDLGLPDGDG 59

Query: 85  FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
            + +  +     +PV++LSA S+    +  ++ GA DYL KP  + EL+   +  +RR
Sbjct: 60  IEFIRDLRQWSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR 117

>d1dbwa_ c.23.1.1 (A:) Transcriptional regulatory protein FixJ, receiver domain {Rhizobium meliloti [TaxId: 382]} Length = 123

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein FixJ, receiver domain
species: Rhizobium meliloti [TaxId: 382]

 Score = 88.6 bits (219), Expect = 1e-21
 Identities = 27/120 (22%), Positives = 54/120 (45%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
             V  VDD++   K L   L    + V +   A   L    + R    ++++D+ MPDM 
Sbjct: 4   YTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR--NGVLVTDLRMPDMS 61

Query: 84  GF-KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G   L  L  L++++P ++++ + D  + ++ +  GA D++ KP     +    +     
Sbjct: 62  GVELLRNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH 121

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 88.2 bits (218), Expect = 1e-21
 Identities = 33/119 (27%), Positives = 62/119 (52%), Gaps = 3/119 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           ++L VDD+++ + +L+  L    Y+V   +    ALK     +   DL++ DV +P +DG
Sbjct: 4   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEK--PDLIVLDVMLPKLDG 61

Query: 85  -FKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
                +L   ++  P++ML+A  +    + G+  GA DY+ KP    E+    + ++RR
Sbjct: 62  IEVCKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR 120

>d1ys7a2 c.23.1.1 (A:7-127) Transcriptional regulatory protein PrrA, N-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein PrrA, N-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 87.8 bits (217), Expect = 2e-21
 Identities = 45/120 (37%), Positives = 65/120 (54%), Gaps = 3/120 (2%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDG 84
           RVL VDDD   L  LE+ LR   +EV        AL+   ENR   D ++ D+ MP +DG
Sbjct: 3   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR--PDAIVLDINMPVLDG 60

Query: 85  F-KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
              +  L  ++ D+PV +LSA S     + G+  GA DYL+KP  + EL    + ++RR+
Sbjct: 61  VSVVTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR 120

>d2pl1a1 c.23.1.1 (A:1-119) PhoP receiver domain {Escherichia coli [TaxId: 562]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 87.1 bits (215), Expect = 3e-21
 Identities = 34/120 (28%), Positives = 63/120 (52%), Gaps = 3/120 (2%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
           MRVL V+D+      L+  +++  ++V     A  A   L E+    D+ I D+ +PD D
Sbjct: 1   MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI--PDIAIVDLGLPDED 58

Query: 84  GF-KLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G   +      ++ LP+++L+A    +  ++ ++ GA DY+ KP  +EE+    Q ++RR
Sbjct: 59  GLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR 118

>d1p2fa2 c.23.1.1 (A:1-120) Response regulator DrrB {Thermotoga maritima [TaxId: 2336]} Length = 120

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator DrrB
species: Thermotoga maritima [TaxId: 2336]

 Score = 85.1 bits (210), Expect = 2e-20
 Identities = 33/122 (27%), Positives = 59/122 (48%), Gaps = 6/122 (4%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMD 83
            ++  VDDD+  LK + + L++     T        L     +   F +V+ DV +PD  
Sbjct: 3   WKIAVVDDDKNILKKVSEKLQQLGRVKTFLT-GEDFL----NDEEAFHVVVLDVMLPDYS 57

Query: 84  GFKLLELV-GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
           G+++  ++     +  V++L+  SD + V+KG   GA DY+ KP   E L    +  + R
Sbjct: 58  GYEICRMIKETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLER 117

Query: 143 KK 144
           +K
Sbjct: 118 EK 119

>d1w25a2 c.23.1.1 (A:141-293) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]} Length = 153

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

 Score = 84.7 bits (209), Expect = 5e-20
 Identities = 36/155 (23%), Positives = 63/155 (40%), Gaps = 13/155 (8%)

Query: 7   GGSSSDEDGVIDKFPIGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLREN 66
            G+++  DG+      G RVL VDD++   + +   L      V  ++      K+    
Sbjct: 3   AGAAARLDGL------GGRVLIVDDNERQAQRVAAELGVEHRPVIESDPE--KAKISAGG 54

Query: 67  RNNFDLVISDVYMPDMDGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYL 123
               DLVI +    + DG +    +        LPV+ +    D   ++K +  G  D L
Sbjct: 55  P--VDLVIVNAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDIL 112

Query: 124 LKPVRMEELKNTWQHVIRRKKVDPKDQNRSPHEFE 158
            +P+  +EL    +  I+RK+     +N   H  E
Sbjct: 113 SRPIDPQELSARVKTQIQRKRYTDYLRNNLDHSLE 147

>d1k66a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpB [TaxId: 1188]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpB [TaxId: 1188]

 Score = 84.5 bits (208), Expect = 6e-20
 Identities = 25/133 (18%), Positives = 56/133 (42%), Gaps = 15/133 (11%)

Query: 24  MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNN-----------FDL 72
             +L V+D        ++ L+       +  R IT  + L                   +
Sbjct: 7   QPLLVVEDSDEDFSTFQRLLQREGVVNPIY-RCITGDQALDFLYQTGSYCNPDIAPRPAV 65

Query: 73  VISDVYMPDMDGFKLLELV---GLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRM 129
           ++ D+ +P  DG ++L+ +    +   +PVV+++  S+ K +    ++    Y++KP+ +
Sbjct: 66  ILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEI 125

Query: 130 EELKNTWQHVIRR 142
           + L  T Q  I+ 
Sbjct: 126 DRLTETVQTFIKY 138

>d1w25a1 c.23.1.1 (A:2-140) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]} Length = 139

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

 Score = 83.0 bits (204), Expect = 1e-19
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 1/122 (0%)

Query: 25  RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPD-MD 83
           R+L VDD +  +++LE  L    YEV+      TAL M   +  +  L+   +   D   
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPDIILLDVMMPGMDGFT 62

Query: 84  GFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK 143
             + L+       +PVV+++A       ++G+  GA D+L KP+    L    + + R K
Sbjct: 63  VCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK 122

Query: 144 KV 145
            V
Sbjct: 123 LV 124

>d1qo0d_ c.23.1.3 (D:) Positive regulator of the amidase operon AmiR {Pseudomonas aeruginosa [TaxId: 287]} Length = 189

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Positive regulator of the amidase operon AmiR
domain: Positive regulator of the amidase operon AmiR
species: Pseudomonas aeruginosa [TaxId: 287]

 Score = 74.7 bits (182), Expect = 3e-16
 Identities = 16/147 (10%), Positives = 41/147 (27%), Gaps = 6/147 (4%)

Query: 23  GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDM 82
            ++VL ++        L   L      V        A  +        D+V + ++    
Sbjct: 11  ELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFDVP------VDVVFTSIFQNRH 64

Query: 83  DGFKLLELVGLEMDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR 142
                  L        +V L  Y    ++ + I       + +P+    +        R 
Sbjct: 65  HDEIAALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRI 124

Query: 143 KKVDPKDQNRSPHEFEKSYRKRKDQDG 169
            +   K + ++    ++   + +    
Sbjct: 125 SEEMAKLKQKTEQLQDRIAGQARINQA 151

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	524
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	99.94
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.93
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.93
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.93
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.92
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.92
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.92
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.92
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.92
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.92
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.92
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.92
d1s8na_	190	Probable two-component system transcriptional regu	99.92
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.92
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.92
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.91
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.91
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.91
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.91
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.91
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.91
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.91
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.9
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.9
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.9
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.9
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.9
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.89
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.89
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.89
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.88
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	99.86
d1a2oa1	140	Methylesterase CheB, N-terminal domain {Salmonella	99.84
d1qo0d_	189	Positive regulator of the amidase operon AmiR {Pse	99.83
d1irza_	64	Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId	98.95
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	92.91
d1r8ja2	135	N-terminal domain of the circadian clock protein K	89.97
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	86.08
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	84.89

>d2pl1a1 c.23.1.1 (A:1-119) PhoP receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.94  E-value=6.8e-26  Score=198.40  Aligned_cols=117  Identities=30%  Similarity=0.424  Sum_probs=111.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIvl  102 (524)
                      ||||||||++..+..++.+|+..||+|.++.++.+|++++++..  ||+||+|+.||++||++++++++. .+++|||++
T Consensus         1 mrILvVDDd~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~--~dliilD~~mP~~~G~e~~~~i~~~~~~~pvi~l   78 (119)
T d2pl1a1           1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI--PDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVL   78 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEECSCCSSSCHHHHHHHHHHTTCCSCEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcc--cceeehhccCCCchhHHHHHHHHhcCcccceEee
Confidence            79999999999999999999999999999999999999999865  999999999999999999999964 578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |+..+.+...+++++||++||.||++.++|..+++++++|
T Consensus        79 t~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lrR  118 (119)
T d2pl1a1          79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (119)
T ss_dssp             ESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             eccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999875

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=99.93  E-value=1.7e-25  Score=195.05  Aligned_cols=116  Identities=28%  Similarity=0.474  Sum_probs=111.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEec
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSA  104 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlTa  104 (524)
                      |||||||++..+..++.+|+..||+|..+.++++|++.+++..  ||+||+|+.||+++|+++++.++..+++|||++|+
T Consensus         2 rILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~--~dlillD~~mp~~~G~~~~~~i~~~~~~pvI~lt~   79 (117)
T d2a9pa1           2 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQ--PDIIILDLMLPEIDGLEVAKTIRKTSSVPILMLSA   79 (117)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEECSSCSSSCHHHHHHHHHTTCCCCEEEEES
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC--CCEEEeccccCCCCccHHHHHHHhCCCCCEEEEec
Confidence            7999999999999999999999999999999999999998865  99999999999999999999998888999999999


Q ss_pred             CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          105 YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       105 ~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ..+.+...+++++||+|||.|||+.++|..+++++++|
T Consensus        80 ~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lrR  117 (117)
T d2a9pa1          80 KDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  117 (117)
T ss_dssp             CCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999998874

>d1zh2a1 c.23.1.1 (A:2-120) Transcriptional regulatory protein KdpE, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein KdpE, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.93  E-value=1.2e-25  Score=196.60  Aligned_cols=117  Identities=29%  Similarity=0.397  Sum_probs=112.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEec
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLSA  104 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlTa  104 (524)
                      +||||||++..++.++.+|+..||+|..+.++++|++.+++..  ||+||+|+.||+++|+++++.++..+.+|||++|+
T Consensus         2 nILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~--~dliilD~~mP~~~G~e~~~~ir~~~~~piI~lt~   79 (119)
T d1zh2a1           2 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK--PDLIILDLGLPDGDGIEFIRDLRQWSAVPVIVLSA   79 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC--CSEEEEESEETTEEHHHHHHHHHTTCCCCEEEEES
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhcC--CCEEEeccccCCCCCchHHHHHHhccCCcEEEEec
Confidence            6999999999999999999999999999999999999998865  99999999999999999999999888999999999


Q ss_pred             CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          105 YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       105 ~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ..+.+...++++.||+|||.||++.++|..+|++++++.
T Consensus        80 ~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrr~  118 (119)
T d1zh2a1          80 RSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH  118 (119)
T ss_dssp             CCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhhh
Confidence            999999999999999999999999999999999999864

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.93  E-value=1.7e-25  Score=196.39  Aligned_cols=119  Identities=34%  Similarity=0.571  Sum_probs=113.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      .||||||||++..+..++.+|+..||+|.++.++++|++.+++..  ||+||+|+.||+++|++++++++ ..+.+|||+
T Consensus         1 nirILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~--~dlillD~~mp~~~g~~~~~~lr~~~~~~piI~   78 (122)
T d1kgsa2           1 NVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP--FDVVILDIMLPVHDGWEILKSMRESGVNTPVLM   78 (122)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHHHhhC--ccccccccccccchhHHHHHHHHhcCCCCcEEE
Confidence            489999999999999999999999999999999999999998765  99999999999999999999996 456899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|++.+.....++++.||++||.||++.++|..+|+++++++
T Consensus        79 lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~r~  120 (122)
T d1kgsa2          79 LTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRK  120 (122)
T ss_dssp             EESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EcCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999875

>d1dbwa_ c.23.1.1 (A:) Transcriptional regulatory protein FixJ, receiver domain {Rhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein FixJ, receiver domain
species: Rhizobium meliloti [TaxId: 382]

Probab=99.92  E-value=6.1e-25  Score=193.32  Aligned_cols=118  Identities=24%  Similarity=0.438  Sum_probs=111.4

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      ..|||||||++..++.++.+|+..||+|..+.++++|++.+++..  ||+||+|++||++||++++++++ ..+++|||+
T Consensus         3 ~~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~--~dlvi~D~~mp~~~G~e~~~~lr~~~~~~~iI~   80 (123)
T d1dbwa_           3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR--NGVLVTDLRMPDMSGVELLRNLGDLKINIPSIV   80 (123)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGGCC--SEEEEEECCSTTSCHHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhcC--CcEEEEeccCccccchHHHHHHHhcCCCCeEEE
Confidence            479999999999999999999999999999999999999998754  99999999999999999999996 468999999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|++.+.+...+|++.||++||.||++.++|..++++++++
T Consensus        81 lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~e~  121 (123)
T d1dbwa_          81 ITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH  121 (123)
T ss_dssp             EECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTT
T ss_pred             EEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999988754

>d1zgza1 c.23.1.1 (A:2-121) TorCAD operon transcriptional regulator TorD, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: TorCAD operon transcriptional regulator TorD, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=9e-25  Score=190.82  Aligned_cols=118  Identities=22%  Similarity=0.422  Sum_probs=113.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      +|||||||++..+..++.+|+..||+|..+.++++|++++.+..  ||+||+|+.||+++|+++++.++....+|||++|
T Consensus         2 ~rILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~~~~~--~dliilD~~mp~~~g~~~~~~~~~~~~~piI~lt   79 (120)
T d1zgza1           2 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQS--VDLILLDINLPDENGLMLTRALRERSTVGIILVT   79 (120)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESCCSSSCHHHHHHHHHTTCCCEEEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC--CCEEeeehhhccchhHHHHHHHhccCCCeEEEEE
Confidence            79999999999999999999999999999999999999998765  9999999999999999999999888899999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++.+.....+|+++||+|||.||++.++|..+|++++++.
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrR~  119 (120)
T d1zgza1          80 GRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWRI  119 (120)
T ss_dssp             SSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHccc
Confidence            9999999999999999999999999999999999999863

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.92  E-value=4.1e-25  Score=197.79  Aligned_cols=118  Identities=28%  Similarity=0.534  Sum_probs=112.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      ||||||||++..+..++.+|+..||+|..|.++++|++++.+..  ||+||+|++||+++|++++++++ ..+++|||++
T Consensus         1 mkILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eAl~~l~~~~--~dlvilD~~mp~~~G~e~~~~lr~~~~~~piI~l   78 (137)
T d1ny5a1           1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKH--FNVVLLDLLLPDVNGLEILKWIKERSPETEVIVI   78 (137)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHSC--CSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEEE
T ss_pred             CEEEEEecCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhccc--cccchHHHhhhhhhHHHHHHHHHHhCCCCCEEEE
Confidence            79999999999999999999999999999999999999998764  99999999999999999999996 5689999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++.+.+.+.+|+++||+|||.||+..++|..++++++++.
T Consensus        79 T~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  119 (137)
T d1ny5a1          79 TGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR  119 (137)
T ss_dssp             EETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             ECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988754

>d1xhfa1 c.23.1.1 (A:2-122) Aerobic respiration control protein ArcA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Aerobic respiration control protein ArcA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=5.8e-25  Score=192.94  Aligned_cols=117  Identities=22%  Similarity=0.377  Sum_probs=112.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEEEe
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVMLS  103 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIvlT  103 (524)
                      -|||||||++..++.+..+|+..||+|..+.++++|++.+.+..  ||+||+|++||+++|+++++.++..+++|||++|
T Consensus         3 p~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~--~dlii~D~~mp~~~G~~~~~~~r~~~~~pii~lt   80 (121)
T d1xhfa1           3 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYD--INLVIMDINLPGKNGLLLARELREQANVALMFLT   80 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC--CSEEEECSSCSSSCHHHHHHHHHHHCCCEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHhcC--CCEEEeecccCCccCcHHHHHHHhcCCCcEEEEE
Confidence            38999999999999999999999999999999999999998765  9999999999999999999999888899999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++.+.....+++++||+|||.|||+.++|..+++++++|
T Consensus        81 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~R  119 (121)
T d1xhfa1          81 GRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  119 (121)
T ss_dssp             SCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999876

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

Probab=99.92  E-value=6.6e-25  Score=192.05  Aligned_cols=115  Identities=23%  Similarity=0.493  Sum_probs=109.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      -|||||||++..+..++.+|+..||+|.++.++.+|++.+++..  ||+||+|+.||++||+++++.++ ..+++|||++
T Consensus         2 krILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~~~--~dlillD~~mP~~~G~el~~~lr~~~~~~pvi~l   79 (119)
T d1peya_           2 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER--PDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIM   79 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESCCTTCCHHHHHHHHHHHCTTCEEEEE
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCC--CCEEEEeccCCCCCHHHHHHHHHHhCCCCcEEEE
Confidence            38999999999999999999999999999999999999999875  99999999999999999999996 4678999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      |++.+.+.+.+|+++||++||.|||+.++|..++++++
T Consensus        80 t~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~L  117 (119)
T d1peya_          80 TAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL  117 (119)
T ss_dssp             ESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHS
T ss_pred             ecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHC
Confidence            99999999999999999999999999999999998764

>d1ys7a2 c.23.1.1 (A:7-127) Transcriptional regulatory protein PrrA, N-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein PrrA, N-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.92  E-value=2.2e-25  Score=195.84  Aligned_cols=117  Identities=38%  Similarity=0.571  Sum_probs=111.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEe
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLS  103 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlT  103 (524)
                      |||||||++..+..+..+|+..||+|.++.++.+|++++++..  ||+||+|++||++||+++++.++ ..+++|||++|
T Consensus         3 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~--~dlvl~D~~mP~~~G~el~~~ir~~~~~~piI~lt   80 (121)
T d1ys7a2           3 RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR--PDAIVLDINMPVLDGVSVVTALRAMDNDVPVCVLS   80 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC--CSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEEE
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC--CCEEEEEeeccCcccHHHHHHHHhcCCCCEEEEEE
Confidence            8999999999999999999999999999999999999998765  99999999999999999999996 45789999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++.+.+...+++++||+|||.|||+.++|..+++++++++
T Consensus        81 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~rr  120 (121)
T d1ys7a2          81 ARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR  120 (121)
T ss_dssp             CCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             eeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999864

>d1zesa1 c.23.1.1 (A:3-123) PhoB receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=7.7e-25  Score=191.85  Aligned_cols=116  Identities=28%  Similarity=0.442  Sum_probs=109.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcEEE
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPVVM  101 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPVIv  101 (524)
                      |||||||++..++.+..+|+..||+|..+.++++|++++.+.  .||+||+|+.||++||+++++.++.   .+++|||+
T Consensus         2 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~--~~dlil~D~~mp~~~G~~l~~~lr~~~~~~~~pvi~   79 (121)
T d1zesa1           2 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP--WPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVM   79 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHSSSS--CCSEEEECSSCTTSCHHHHHHHHHHSTTTTTSCEEE
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHcc--CCCEEEeecCCCCCCHHHHHHHHHhCccCCCCeEEE
Confidence            799999999999999999999999999999999999999765  4999999999999999999999964   35799999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      +|++.+.+...++++.||+|||.||++.++|..+++.+++|
T Consensus        80 lt~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lrR  120 (121)
T d1zesa1          80 LTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  120 (121)
T ss_dssp             EESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             EECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999875

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.92  E-value=9.2e-25  Score=191.18  Aligned_cols=117  Identities=27%  Similarity=0.504  Sum_probs=110.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      -|||||||++..+..++.+|+..||+|.++.++.+|++.+++..  ||+||+|++||+++|++++++++ ..+.+|||++
T Consensus         3 krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~--~dlillD~~mp~~~G~~~~~~~r~~~~~~~ii~l   80 (121)
T d1mvoa_           3 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEK--PDLIVLDVMLPKLDGIEVCKQLRQQKLMFPILML   80 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhccc--ccEEEecccccCCCCchhhhhhhccCCCCEEEEE
Confidence            37999999999999999999999999999999999999998865  99999999999999999999886 4567999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |+..+.+...+++++||++||.|||+.++|..+|+++++|
T Consensus        81 t~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lrR  120 (121)
T d1mvoa_          81 TAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  120 (121)
T ss_dssp             ECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             EeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999875

>d1s8na_ c.23.1.1 (A:) Probable two-component system transcriptional regulator Rv1626 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Probable two-component system transcriptional regulator Rv1626
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=99.92  E-value=5.1e-25  Score=206.74  Aligned_cols=120  Identities=30%  Similarity=0.440  Sum_probs=113.2

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      .+|||||||++.++..|+.+|+..||+|+ .|.++.+|+++++...  |||||+|++||+|||+++++.++..+++|||+
T Consensus         3 p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~~~~~--pDlvllDi~mP~~dG~e~~~~ir~~~~~pIi~   80 (190)
T d1s8na_           3 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHK--PDLVIMDVKMPRRDGIDAASEIASKRIAPIVV   80 (190)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC--CSEEEEESSCSSSCHHHHHHHHHHTTCSCEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHhcCC--CCEEEEeccccCcchHHHHHHHHhcCCCCEEE
Confidence            48999999999999999999999999987 7899999999999875  99999999999999999999998778899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|++++.+.+.+|+++||+|||.||++.++|..+|+.++.+.+
T Consensus        81 lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~~~~~~  123 (190)
T d1s8na_          81 LTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFR  123 (190)
T ss_dssp             EEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHHHHhhH
Confidence            9999999999999999999999999999999999998887643

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

Probab=99.92  E-value=6.7e-25  Score=197.24  Aligned_cols=118  Identities=28%  Similarity=0.494  Sum_probs=111.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEEe
Q 009824           25 RVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVMLS  103 (524)
Q Consensus        25 rVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvlT  103 (524)
                      +||||||++.++..++.+|+..||+|..+.++.+|++.+.+.  .||+||+|+.||+|||+++++.++ ..+++|||++|
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~--~~dlil~D~~mP~~~G~el~~~lr~~~~~~pvI~lT   79 (140)
T d1qkka_           2 SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD--FAGIVISDIRMPGMDGLALFRKILALDPDLPMILVT   79 (140)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCTT--CCSEEEEESCCSSSCHHHHHHHHHHHCTTSCEEEEE
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCChHHHHHHHhcc--CcchHHHhhccCCCCHHHHHHHHHHhCCCCcEEEEE
Confidence            699999999999999999999999999999999999999765  499999999999999999999886 46899999999


Q ss_pred             cCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          104 AYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       104 a~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      ++.+.+.+.+|++.||+|||.||++.++|..++++++++.+
T Consensus        80 ~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~~~  120 (140)
T d1qkka_          80 GHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR  120 (140)
T ss_dssp             CGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999987653

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.92  E-value=3.8e-25  Score=194.49  Aligned_cols=118  Identities=31%  Similarity=0.421  Sum_probs=111.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      -+||||||++.++..++.+|+..||+|.++.++.+|++.+++..  ||+||+|++||++||++++++++ ..+++|||++
T Consensus         4 ~~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~l~~~~--~dlii~D~~mp~~~G~el~~~l~~~~~~~piI~~   81 (123)
T d1krwa_           4 GIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKT--PDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIM   81 (123)
T ss_dssp             CEEEEESSSHHHHHHHHHHHHHTTCEEEEESSSHHHHHHHTTCC--CSEEEECCSSSSSTTHHHHHHHHHHSSSCCEEES
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC--CCEEEehhhcCCchHHHHHHHHHHhCCCCeEEEE
Confidence            46999999999999999999999999999999999999998654  99999999999999999999885 5789999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++.+.+.+.+|++.||++||.||++.++|..+++++++++
T Consensus        82 t~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~~~  122 (123)
T d1krwa_          82 TAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHY  122 (123)
T ss_dssp             CCCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHHHH
T ss_pred             ecCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999864

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=3.1e-24  Score=187.42  Aligned_cols=115  Identities=26%  Similarity=0.475  Sum_probs=108.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEE-EECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVT-VTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~-~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      |.|||||||++.+++.++.+|+..||+|+ .|.++.+|++.+++..  ||+||+|++||++||+++++.++ ..+++|||
T Consensus         1 GkrILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~~~~~--~dliilD~~mp~~~G~e~~~~ir~~~~~~pvi   78 (118)
T d1u0sy_           1 GKRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELK--PDIVTMDITMPEMNGIDAIKEIMKIDPNAKII   78 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC--CSEEEEECSCGGGCHHHHHHHHHHHCTTCCEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHhcc--CCEEEEecCCCCCCHHHHHHHHHHhCCCCcEE
Confidence            46899999999999999999999999987 6899999999999865  99999999999999999999885 56889999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHH
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHV  139 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~v  139 (524)
                      ++|++.+...+.++++.||++||.||++.++|..+++++
T Consensus        79 ~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          79 VCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             EEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             EEEccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            999999999999999999999999999999999999865

>d1mb3a_ c.23.1.1 (A:) Cell division response regulator DivK {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Cell division response regulator DivK
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.91  E-value=2.2e-24  Score=189.17  Aligned_cols=117  Identities=25%  Similarity=0.478  Sum_probs=104.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPVI  100 (524)
                      -|||||||++..+..++.+|+..||+|..+.++.+|++++++..  ||+||+|+.||++||+++++.++..   .++|||
T Consensus         2 krILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~--~dlil~D~~mp~~dG~el~~~ir~~~~~~~iPii   79 (123)
T d1mb3a_           2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK--PDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVV   79 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC--CSEEEEESBCSSSBHHHHHHHHHHSTTTTTSCEE
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC--CCEEEEEeccCCCcHHHHHHHHHhCCCcCCCCeE
Confidence            37999999999999999999999999999999999999998865  9999999999999999999999743   578999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|+..+.....+++++||++||.||++.++|..++++++++
T Consensus        80 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~r  121 (123)
T d1mb3a_          80 AVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (123)
T ss_dssp             EEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             EEEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999865

>d1p6qa_ c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti, CheY2 [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Sinorhizobium meliloti, CheY2 [TaxId: 382]

Probab=99.91  E-value=2.6e-24  Score=190.68  Aligned_cols=121  Identities=31%  Similarity=0.471  Sum_probs=112.1

Q ss_pred             CCCccEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CC
Q 009824           20 FPIGMRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EM   95 (524)
Q Consensus        20 ~p~~irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~   95 (524)
                      ++.++|||||||++..+..++.+|+..||. |..+.++++|++++.++.  ||+||+|++||++||+++++.+|.   ..
T Consensus         3 ~~~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l~~~~--~dlii~D~~mP~~~G~el~~~lr~~~~~~   80 (129)
T d1p6qa_           3 LAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNP--HHLVISDFNMPKMDGLGLLQAVRANPATK   80 (129)
T ss_dssp             CSSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHTSC--CSEEEECSSSCSSCHHHHHHHHTTCTTST
T ss_pred             CCCCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHhCC--CCeEEeeeecCCCChHHHHHHHHhCcccC
Confidence            346799999999999999999999999995 778899999999998764  999999999999999999999975   35


Q ss_pred             CCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           96 DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        96 diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ++|||++|+..+.+...++++.||++||.||++.++|..++++++.+
T Consensus        81 ~~pii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~~  127 (129)
T d1p6qa_          81 KAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             TCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             CCeEEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            79999999999999999999999999999999999999999999865

>d2ayxa1 c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sensor kinase protein RcsC, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.91  E-value=3.1e-24  Score=191.22  Aligned_cols=120  Identities=31%  Similarity=0.491  Sum_probs=112.6

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVV  100 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVI  100 (524)
                      ..++||||||++..+..++.+|+..||+|.++.++.+|++++....  ||+||+|+.||++||++++++++ ..+.+|||
T Consensus         7 ~~~~ILiVDD~~~~~~~l~~~L~~~g~~v~~a~~g~ea~~~~~~~~--~dlillD~~mP~~dG~el~~~ir~~~~~~pii   84 (133)
T d2ayxa1           7 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH--IDIVLSDVNMPNMDGYRLTQRIRQLGLTLPVI   84 (133)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHHSC--CSEEEEEESSCSSCCHHHHHHHHHHHCCSCEE
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHcCCEEEEECcHHHHHHHHhccC--ceEEEEeccCCCCCHHHHHHHHHHhCCCCCEE
Confidence            3589999999999999999999999999999999999999998765  99999999999999999999996 45689999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|++.+.+...+++++||++||.|||+.++|..+++.++++.
T Consensus        85 ~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~r~  127 (133)
T d2ayxa1          85 GVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERV  127 (133)
T ss_dssp             EEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999888653

>d2r25b1 c.23.1.1 (B:1087-1214) Response regulator Sin1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator Sin1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.91  E-value=6.5e-24  Score=188.19  Aligned_cols=119  Identities=21%  Similarity=0.449  Sum_probs=108.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCe-EEEECCHHHHHHHHHh---cCCCceEEEEeCCCCCCCHHHHHHHHhc--CCCC
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYE-VTVTNRAITALKMLRE---NRNNFDLVISDVYMPDMDGFKLLELVGL--EMDL   97 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~-V~~a~sg~eALe~L~e---~~~~pDLVIlDi~MPdmdGleLLe~Lr~--~~di   97 (524)
                      +|||||||++.+++.++.+|+..||+ |..+.+|++|++.+++   ....||+||+|+.||++||+++++++|.  ...+
T Consensus         2 irVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~~~~~~dlillD~~mP~~dG~el~~~ir~~~~~~~   81 (128)
T d2r25b1           2 VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYTS   81 (128)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHHHTCCCSEEEECSCCSSSCHHHHHHHHHHHSCCCS
T ss_pred             eEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhhccCCCCEEEEEeCCCCCCHHHHHHHHHHccCCCC
Confidence            79999999999999999999999996 7789999999999864   2346999999999999999999999963  4578


Q ss_pred             cEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           98 PVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        98 PVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      |||++|++.+.....+++++||++||.||++.++|..++++++..
T Consensus        82 piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  126 (128)
T d2r25b1          82 PIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCAA  126 (128)
T ss_dssp             CEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCTT
T ss_pred             eEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999987654

>d1w25a1 c.23.1.1 (A:2-140) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.91  E-value=8.1e-24  Score=189.71  Aligned_cols=118  Identities=32%  Similarity=0.470  Sum_probs=111.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc---CCCCcEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL---EMDLPVV  100 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~---~~diPVI  100 (524)
                      .|||||||++..++.++.+|+..||+|..+.++.+|++.+.+..  |||||+|+.||+++|+++++.++.   ..++|||
T Consensus         2 arILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~--~dlil~D~~~p~~~G~~~~~~ir~~~~~~~~piI   79 (139)
T d1w25a1           2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL--PDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVV   79 (139)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHSTTTTTSCEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEEccchhhhhhhhccc--ceeeeeeccccCCCchHHHHHhhhcccccCCCEE
Confidence            58999999999999999999999999999999999999999875  999999999999999999998864   3579999


Q ss_pred             EEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          101 MLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       101 vlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      ++|++.+.+...+++++||+|||.||++..+|..+|+++++.+
T Consensus        80 ~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr~~  122 (139)
T d1w25a1          80 LITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (139)
T ss_dssp             EEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999988764

>d1a04a2 c.23.1.1 (A:5-142) Nitrate/nitrite response regulator (NarL), receiver domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Nitrate/nitrite response regulator (NarL), receiver domain
species: Escherichia coli [TaxId: 562]

Probab=99.90  E-value=1.8e-23  Score=186.86  Aligned_cols=122  Identities=20%  Similarity=0.295  Sum_probs=111.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCC--CeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~g--y~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPV   99 (524)
                      .+|||||||++.++..++.+|+..+  +.|..+.++.+|++++++..  ||+||+|+.||++||+++++.++ ..+++||
T Consensus         2 Pi~VLiVDD~~~~r~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~~~--~DlvllD~~mP~~~G~el~~~ir~~~~~~~v   79 (138)
T d1a04a2           2 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD--PDLILLDLNMPGMNGLETLDKLREKSLSGRI   79 (138)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHHC--CSEEEEETTSTTSCHHHHHHHHHHSCCCSEE
T ss_pred             CCEEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC--CCEEEEecCCCCCCHHHHHHHHHhhCCCCCE
Confidence            4899999999999999999998765  44668999999999998765  99999999999999999999996 5679999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhccCC
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKKVD  146 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~~~  146 (524)
                      |++|+..+.+.+.+++++||++||.||++.++|..+|++++++....
T Consensus        80 ivlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~g~~~~  126 (138)
T d1a04a2          80 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVL  126 (138)
T ss_dssp             EEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHSCCCC
T ss_pred             EEEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHCCCCcC
Confidence            99999999999999999999999999999999999999999876543

>d1p2fa2 c.23.1.1 (A:1-120) Response regulator DrrB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator DrrB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.90  E-value=1.3e-23  Score=184.07  Aligned_cols=117  Identities=28%  Similarity=0.431  Sum_probs=106.9

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIv  101 (524)
                      +.|||||||++.++..++.+|+..|| |.++.++.+|++.    ...||+||+|+.||++||++++++++ ..+.+|||+
T Consensus         2 M~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~~----~~~~dlillD~~mP~~~G~~~~~~lr~~~~~~~ii~   76 (120)
T d1p2fa2           2 MWKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLND----EEAFHVVVLDVMLPDYSGYEICRMIKETRPETWVIL   76 (120)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHHC----CSCCSEEEEESBCSSSBHHHHHHHHHHHCTTSEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHhc----CCCCCEEEEeCcccccchhHHHHHHhhcCCCCcEEE
Confidence            36899999999999999999998875 8889999998762    23599999999999999999999996 568999999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      +|+..+.+...+|++.||+|||.||++.++|..++++++++.+
T Consensus        77 it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~r~r  119 (120)
T d1p2fa2          77 LTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLEREK  119 (120)
T ss_dssp             EESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHCC
T ss_pred             EecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999998753

>d1dz3a_ c.23.1.1 (A:) Sporulation response regulator Spo0A {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0A
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.90  E-value=1.4e-23  Score=184.45  Aligned_cols=118  Identities=28%  Similarity=0.521  Sum_probs=106.6

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCC-CeE-EEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CC-CCc
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQ-YEV-TVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EM-DLP   98 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~g-y~V-~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~-diP   98 (524)
                      .||||||||++.++..++.+|+..+ +++ .++.++.+|++.+++..  ||+||+|+.||+|||++++++++. .+ ..|
T Consensus         1 sirILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~~~~~--~dlillD~~mP~~dG~e~~~~ir~~~~~~~~   78 (123)
T d1dz3a_           1 SIKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKR--PDILLLDIIMPHLDGLAVLERIRAGFEHQPN   78 (123)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC--CSEEEEESCCSSSCHHHHHHHHHHHCSSCCE
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC--CCEEEEcCCCCCCCHHHHHHHHHhcCCCCCe
Confidence            3899999999999999999998765 454 47999999999998765  999999999999999999999974 23 457


Q ss_pred             EEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           99 VVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        99 VIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                      ||++|++.+.....+++++||++||.||++.++|..++++++++
T Consensus        79 ii~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~~k  122 (123)
T d1dz3a_          79 VIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGK  122 (123)
T ss_dssp             EEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHHC
T ss_pred             EEEEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999998864

>d1yioa2 c.23.1.1 (A:3-130) Response regulatory protein StyR, N-terminal domain {Pseudomonas fluorescens [TaxId: 294]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulatory protein StyR, N-terminal domain
species: Pseudomonas fluorescens [TaxId: 294]

Probab=99.90  E-value=7.9e-24  Score=186.93  Aligned_cols=118  Identities=26%  Similarity=0.443  Sum_probs=110.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      .+||||||++.+++.+..+|+..||+|.++.++++|++++++.  .||+||+|+.||+++|+++++.++ ..+.+|||++
T Consensus         3 P~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~--~~dliilD~~mp~~~G~~~~~~i~~~~~~~~ii~l   80 (128)
T d1yioa2           3 PTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPE--QHGCLVLDMRMPGMSGIELQEQLTAISDGIPIVFI   80 (128)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCTT--SCEEEEEESCCSSSCHHHHHHHHHHTTCCCCEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHHHcCCCccccccHHHHHHHHHhc--CCCEeehhhhcccchhHHHHHHHHhhCCCCeEEEE
Confidence            3899999999999999999999999999999999999998764  499999999999999999999886 4578999999


Q ss_pred             ecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      |++++.+...++++.||+|||.||++.++|..+++++++..
T Consensus        81 t~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  121 (128)
T d1yioa2          81 TAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLN  121 (128)
T ss_dssp             ESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             EEECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988753

>d1dcfa_ c.23.1.2 (A:) Receiver domain of the ethylene receptor {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Receiver domain of the ethylene receptor
domain: Receiver domain of the ethylene receptor
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.90  E-value=1.9e-23  Score=186.32  Aligned_cols=119  Identities=21%  Similarity=0.375  Sum_probs=109.3

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc------CC
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL------EM   95 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~------~~   95 (524)
                      .++|||||||++.++..++.+|+..||+|..+.++.+|++.+++   .||+||+|++||++||+++++.++.      .+
T Consensus         6 ~g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~---~~dlillD~~mP~~dG~el~~~ir~~~~~~~~~   82 (134)
T d1dcfa_           6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH---EHKVVFMDVCMPGVENYQIALRIHEKFTKQRHQ   82 (134)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCT---TCSEEEEECCSSTTTTTHHHHHHHHHHC-CCSC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhc---CCCeEEEEeccCCCchHHHHHHHHHhcccccCC
Confidence            46999999999999999999999999999999999999998742   4999999999999999999998852      24


Q ss_pred             CCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           96 DLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        96 diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      .+|||++|++.+.+...+++++|+++||.||++.++|..+++++++.+
T Consensus        83 ~~~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~~r  130 (134)
T d1dcfa_          83 RPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEPR  130 (134)
T ss_dssp             CCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSCC
T ss_pred             CCeEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhhhh
Confidence            578999999999999999999999999999999999999999988653

>d1k68a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpA [TaxId: 1188]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpA [TaxId: 1188]

Probab=99.89  E-value=5.8e-23  Score=184.45  Aligned_cols=119  Identities=19%  Similarity=0.358  Sum_probs=108.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCC--CeEEEECCHHHHHHHHHhc-----CCCceEEEEeCCCCCCCHHHHHHHHhcC--
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLREN-----RNNFDLVISDVYMPDMDGFKLLELVGLE--   94 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~g--y~V~~a~sg~eALe~L~e~-----~~~pDLVIlDi~MPdmdGleLLe~Lr~~--   94 (524)
                      -|||||||++..+..++.+|++.|  |+|..+.++.+|++.+.+.     ...||+||+|++||+|||+++++++|..  
T Consensus         3 krILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~pdlillD~~mP~~dG~el~~~ir~~~~   82 (140)
T d1k68a_           3 KKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLDLNLPKKDGREVLAEIKSDPT   82 (140)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGGSCCCCSEEEECSSCSSSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHhHHhhccCCCCEEEEeeccccccChHHHHHHHhCcc
Confidence            389999999999999999999754  7999999999999999652     2358999999999999999999999754  


Q ss_pred             -CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           95 -MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        95 -~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                       .++|||++|+..+.+.+.+++++||++||.||++.++|..+++.+++.
T Consensus        83 ~~~iPvI~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~i~~~  131 (140)
T d1k68a_          83 LKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEF  131 (140)
T ss_dssp             GGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence             378999999999999999999999999999999999999999998764

>d1k66a_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Calothrix sp. pcc 7601, RcpB [TaxId: 1188]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Calothrix sp. pcc 7601, RcpB [TaxId: 1188]

Probab=99.89  E-value=5.9e-23  Score=186.24  Aligned_cols=120  Identities=20%  Similarity=0.338  Sum_probs=110.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhc--------CCCceEEEEeCCCCCCCHHHHHHHHhc
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLREN--------RNNFDLVISDVYMPDMDGFKLLELVGL   93 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~--------~~~pDLVIlDi~MPdmdGleLLe~Lr~   93 (524)
                      -+||||||++..+..++.+|++.||  +|..+.++.+|++++++.        ...||+||+|++||+|||++++++||.
T Consensus         7 ~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~~~~pdlillD~~mP~~~G~el~~~ir~   86 (149)
T d1k66a_           7 QPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVILLDLNLPGTDGREVLQEIKQ   86 (149)
T ss_dssp             SCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSCGGGCCCCSEEEECSCCSSSCHHHHHHHHTT
T ss_pred             CcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhccccccccccCCCeEEccccccCCCcHHHHHHHHh
Confidence            4699999999999999999999888  788999999999999753        125999999999999999999999975


Q ss_pred             C---CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           94 E---MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        94 ~---~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      .   +++|||++|+..+.+...+++++||++||.||++.++|..+++.+++.+
T Consensus        87 ~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~~~  139 (149)
T d1k66a_          87 DEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYW  139 (149)
T ss_dssp             STTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             ccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            4   4799999999999999999999999999999999999999999998764

>d1i3ca_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]

Probab=99.89  E-value=2e-22  Score=181.74  Aligned_cols=120  Identities=19%  Similarity=0.317  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCC--CeEEEECCHHHHHHHHHhc-----CCCceEEEEeCCCCCCCHHHHHHHHhcC--
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQ--YEVTVTNRAITALKMLREN-----RNNFDLVISDVYMPDMDGFKLLELVGLE--   94 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~g--y~V~~a~sg~eALe~L~e~-----~~~pDLVIlDi~MPdmdGleLLe~Lr~~--   94 (524)
                      .+||||||++..+..++.+|++.|  |+|.++.++.+|++.+++.     ...||+||+|++||++||++++++||..  
T Consensus         4 k~ILiVdD~~~~~~~l~~~L~~~g~~~~v~~a~~g~~Al~~l~~~~~~~~~~~pdlIllD~~mP~~~G~el~~~ir~~~~   83 (144)
T d1i3ca_           4 KVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPRPNLILLDLNLPKKDGREVLAEIKQNPD   83 (144)
T ss_dssp             EEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGGTTCCCCSEEEECSCCSSSCHHHHHHHHHHCTT
T ss_pred             CEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHhchhhhccCCCCEEEEECccccccchHHHHHHHhCcc
Confidence            589999999999999999998765  5888999999999999753     1259999999999999999999999754  


Q ss_pred             -CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824           95 -MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus        95 -~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                       .++||||+|+..+.+...+|+++||++||.||++.++|..+++.+.+..
T Consensus        84 ~~~iPvi~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~l~~~~  133 (144)
T d1i3ca_          84 LKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESFW  133 (144)
T ss_dssp             TTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence             4799999999999999999999999999999999999999999887653

>d1w25a2 c.23.1.1 (A:141-293) Response regulator PleD, receiver domain {Caulobacter crescentus [TaxId: 155892]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator PleD, receiver domain
species: Caulobacter crescentus [TaxId: 155892]

Probab=99.88  E-value=9.3e-23  Score=185.94  Aligned_cols=118  Identities=26%  Similarity=0.345  Sum_probs=105.8

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcC---CCCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLE---MDLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~---~diPV   99 (524)
                      +.|||||||++..+..+...|+..||.|+.  ++.++++++...  .|||||+|++||++||+++++.||..   +++||
T Consensus        13 ~~rILiVDD~~~~~~~l~~~L~~~g~~v~~--~~~~~~~~~~~~--~~DlillD~~mP~~dG~el~~~ir~~~~~~~iPi   88 (153)
T d1w25a2          13 GGRVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKISAGG--PVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPV   88 (153)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTTTSEEEEE--CCHHHHHHHHHS--SCSEEEEETTCSSSCHHHHHHHHHTSGGGTTCCE
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEE--ccHHHHHHHhcC--CCCEEEEECccccccchHHHHHHHhcccccccee
Confidence            579999999999999999999999998743  456777777655  49999999999999999999999743   58999


Q ss_pred             EEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhcc
Q 009824          100 VMLSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRKK  144 (524)
Q Consensus       100 IvlTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~~  144 (524)
                      |++|+..+.....+|+++||+|||.|||+.++|..+|+.++++++
T Consensus        89 I~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~~~  133 (153)
T d1w25a2          89 LAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQRKR  133 (153)
T ss_dssp             EEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             EEeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999987643

>d2b4aa1 c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Hypothetical protein BH3024
species: Bacillus halodurans [TaxId: 86665]

Probab=99.86  E-value=3e-22  Score=175.03  Aligned_cols=112  Identities=23%  Similarity=0.343  Sum_probs=98.1

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhc-CCCCcEEE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGL-EMDLPVVM  101 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~-~~diPVIv  101 (524)
                      .+|||||||++.+++.++.+|+..||+|+++.++.+|++.+.+. ..||+||+|++||+++|+++++++|. .+++|||+
T Consensus         2 p~rILvVdDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~-~~~dliilD~~lp~~~G~el~~~ir~~~~~~pii~   80 (118)
T d2b4aa1           2 PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQL-STCDLLIVSDQLVDLSIFSLLDIVKEQTKQPSVLI   80 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGG-GSCSEEEEETTCTTSCHHHHHHHHTTSSSCCEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCCeEEECCHHHHHHHHHhc-CCCCEEEEeCCCCCCCHHHHHHHHHhcCCCCcEEE
Confidence            48999999999999999999999999999999999999977543 24999999999999999999999974 46899999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHH
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQH  138 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~  138 (524)
                      +|+..+.  ..++...|+ |||.|||+.++|..+|++
T Consensus        81 lt~~~~~--~~~~~~~~~-dyl~KP~~~~eL~~~i~~  114 (118)
T d2b4aa1          81 LTTGRHE--LIESSEHNL-SYLQKPFAISELRAAIDY  114 (118)
T ss_dssp             EESCC----CCCCSSSCE-EEEESSCCHHHHHHHHHH
T ss_pred             EECCccH--HHHHhhcCC-CEEECCCCHHHHHHHHHH
Confidence            9998753  345666777 899999999999999875

>d1a2oa1 c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Methylesterase CheB, N-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.84  E-value=1.1e-20  Score=169.09  Aligned_cols=104  Identities=25%  Similarity=0.372  Sum_probs=88.3

Q ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCC--eEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCC-CCcE
Q 009824           23 GMRVLAVDDDQTCLKILEKFLRECQY--EVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEM-DLPV   99 (524)
Q Consensus        23 ~irVLIVDDdp~~~~~L~~~L~~~gy--~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~-diPV   99 (524)
                      ++|||||||++.+++.|+.+|+..|+  .|.++.++.+|++.+++..  ||+||+|++||+|||+++++.++... ..+|
T Consensus         3 kirVLiVDD~~~~r~~l~~~L~~~g~~~~v~~a~~g~~al~~~~~~~--pDlvllDi~MP~~dG~e~~~~ir~~~~~~~i   80 (140)
T d1a2oa1           3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFN--PDVLTLDVEMPRMDGLDFLEKLMRLRPMPVV   80 (140)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC--CSEEEEECCCSSSCHHHHHHHHHHSSCCCEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhCCCeEEEEEECCHHHHHHHHHhcC--CCEEEEcCCCCCCCHHHHHHHHHHhCCCCcE
Confidence            48999999999999999999998884  5668999999999998765  99999999999999999999997554 4455


Q ss_pred             EEEecCC-CHHHHHHHHhcCCcEEEeCCCC
Q 009824          100 VMLSAYS-DTKLVMKGINHGACDYLLKPVR  128 (524)
Q Consensus       100 IvlTa~~-d~~~~~~al~~GA~dYL~KP~~  128 (524)
                      ++++... +.+.+.+|++.||+|||.||+.
T Consensus        81 ~i~~~~~~~~~~~~~al~~Ga~~yl~KP~~  110 (140)
T d1a2oa1          81 MVSSLTGKGSEVTLRALELGAIDFVTKPQL  110 (140)
T ss_dssp             EEECCTHHHHHHHHHHHHHTCCEEEECSSS
T ss_pred             EEEEecCCChHHHHHHHHcCCCEEEECCCC
Confidence            5555543 2356789999999999999964

>d1qo0d_ c.23.1.3 (D:) Positive regulator of the amidase operon AmiR {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Positive regulator of the amidase operon AmiR
domain: Positive regulator of the amidase operon AmiR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=99.83  E-value=3.3e-21  Score=179.19  Aligned_cols=116  Identities=13%  Similarity=0.083  Sum_probs=107.2

Q ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHhcCCCCcEEE
Q 009824           22 IGMRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVGLEMDLPVVM  101 (524)
Q Consensus        22 ~~irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr~~~diPVIv  101 (524)
                      .++|||||||++.+++.|+..|++.||+|+.+.++.+|++      ..||+||+|++||+++|+.+.+..+..+++|||+
T Consensus        10 ~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al~------~~~Dlvl~D~~mp~~~~~~~~~~~~~~p~~pvI~   83 (189)
T d1qo0d_          10 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD------VPVDVVFTSIFQNRHHDEIAALLAAGTPRTTLVA   83 (189)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSCS------SCCSEEEEECCSSTHHHHHHHHHHHSCTTCEEEE
T ss_pred             cCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhcc------CCCCEEEEcCCCCCcHHHHHHHHHHcCCCCCEEE
Confidence            4589999999999999999999999999999999998873      2599999999999999988877777889999999


Q ss_pred             EecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhc
Q 009824          102 LSAYSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       102 lTa~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~~  143 (524)
                      +|++.+.+.+.+|++.||+|||.||++.++|+.+++.++...
T Consensus        84 lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~~~~~  125 (189)
T d1qo0d_          84 LVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRIS  125 (189)
T ss_dssp             EECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHHH
T ss_pred             EeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhccccc
Confidence            999999999999999999999999999999999999887654

>d1irza_ a.4.1.11 (A:) Arr10-B {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: GARP response regulators
domain: Arr10-B
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.95  E-value=3.5e-10  Score=87.53  Aligned_cols=52  Identities=69%  Similarity=1.076  Sum_probs=48.0

Q ss_pred             cCCCCceEeeHHHHHHHHHHHHHcCCCCCchHHHHhhcCCCCCCHHhHHhhh
Q 009824          188 TQKKPRVVWTTELHTKFIGAVNLLGLDKAVPKKILDLMNVEGLTRENVKFRL  239 (524)
Q Consensus       188 ~~kk~rvvw~veLh~kflaavn~LGl~~avPk~IL~lmk~~~LT~eevk~rL  239 (524)
                      ..+++|+.|+.++|++|+.++++||.+.+.|+.|++.|++.++|.++|+.++
T Consensus         2 ~~kk~R~~WT~elH~~Fv~Av~~lG~~~atpk~I~~~m~v~~lT~~qV~SHl   53 (64)
T d1irza_           2 AQKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHL   53 (64)
T ss_dssp             CCCCSSCSSCHHHHHHHHHHHHHHCTTTCCHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhCccccchHHHHHHcCCCCCCHHHHHHHH
Confidence            4688999999999999999999999999999999999999999999994333

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=92.91  E-value=0.53  Score=39.80  Aligned_cols=109  Identities=10%  Similarity=-0.023  Sum_probs=76.3

Q ss_pred             eCCHHHHHHHHHHHHhCCCeEEE---ECCHHHHHHHHHhcCCCceEEEEeCCCCCC-CHH-HHHHHHhc--CCCCcEEEE
Q 009824           30 DDDQTCLKILEKFLRECQYEVTV---TNRAITALKMLRENRNNFDLVISDVYMPDM-DGF-KLLELVGL--EMDLPVVML  102 (524)
Q Consensus        30 DDdp~~~~~L~~~L~~~gy~V~~---a~sg~eALe~L~e~~~~pDLVIlDi~MPdm-dGl-eLLe~Lr~--~~diPVIvl  102 (524)
                      |-|..-..++..+|+..||+|..   ....++.++.+.+..  +|+|.+-..|... ..+ ++++.++.  ..++|||+=
T Consensus        14 D~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~~~--~d~v~lS~~~~~~~~~~~~~~~~l~~~~~~~i~iivG   91 (137)
T d1ccwa_          14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETK--ADAILVSSLYGQGEIDCKGLRQKCDEAGLEGILLYVG   91 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHT--CSEEEEEECSSTHHHHHTTHHHHHHHTTCTTCEEEEE
T ss_pred             ChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHHHhcC--CCEEEEeeccccchHHHHHHHHHHHHhccCCCEEEEe
Confidence            55667778899999999999983   457899999888765  9999999988753 121 23445543  246776643


Q ss_pred             ecC----CC-HHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHH
Q 009824          103 SAY----SD-TKLVMKGINHGACDYLLKPVRMEELKNTWQHVI  140 (524)
Q Consensus       103 Ta~----~d-~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vl  140 (524)
                      -+-    .+ .....+..+.|++......-..+++.+.+++.+
T Consensus        92 G~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l~~~l  134 (137)
T d1ccwa_          92 GNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDL  134 (137)
T ss_dssp             ESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHHHHHh
Confidence            321    22 344555568898888877788888888887655

>d1r8ja2 c.23.1.5 (A:1-135) N-terminal domain of the circadian clock protein KaiA {Synechococcus elongatus [TaxId: 32046]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: N-terminal domain of the circadian clock protein KaiA
domain: N-terminal domain of the circadian clock protein KaiA
species: Synechococcus elongatus [TaxId: 32046]

Probab=89.97  E-value=2.2  Score=36.00  Aligned_cols=115  Identities=11%  Similarity=0.099  Sum_probs=78.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCeEEEECCHHHHHHHHHhcCCCceEEEEeCCCCCCCHHHHHHHHh-cCCCCcEEEE
Q 009824           24 MRVLAVDDDQTCLKILEKFLRECQYEVTVTNRAITALKMLRENRNNFDLVISDVYMPDMDGFKLLELVG-LEMDLPVVML  102 (524)
Q Consensus        24 irVLIVDDdp~~~~~L~~~L~~~gy~V~~a~sg~eALe~L~e~~~~pDLVIlDi~MPdmdGleLLe~Lr-~~~diPVIvl  102 (524)
                      +.|-+.=.++.....++++|....|.+..+.++++.++.++++++.+|++|+--.  +.+-..+.+++. ..--.|+|++
T Consensus         5 LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~~~e~iDcLVl~~~--~~~l~~l~~qL~~~GlLlPaViv   82 (135)
T d1r8ja2           5 IAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHRDQIDCLILVAA--NPSFRAVVQQLCFEGVVVPAIVV   82 (135)
T ss_dssp             EEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHSTTSCSEEEEETT--STTHHHHHHHHHHTTCCCCEEEE
T ss_pred             EEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHhCcccCCEEEEEec--CCccHHHHHHHHhcCccccEEEE
Confidence            4567777889999999999988889999999999999999999889999886322  234445566663 4556899988


Q ss_pred             ecCCCHHHHHHHHhcCCcEE-----EeCCCCHHHHHHHHHHHHHhc
Q 009824          103 SAYSDTKLVMKGINHGACDY-----LLKPVRMEELKNTWQHVIRRK  143 (524)
Q Consensus       103 Ta~~d~~~~~~al~~GA~dY-----L~KP~~~eeL~~aI~~vlr~~  143 (524)
                      .........   -..|-.+|     ..++-..+.|-..|.+++.+.
T Consensus        83 ~~~~~~~~~---~~~~~~~YH~aEv~l~~~qL~ql~~~ID~AIsrF  125 (135)
T d1r8ja2          83 GDRDSEDPD---EPAKEQLYHSAELHLGIHQLEQLPYQVDAALAEF  125 (135)
T ss_dssp             SCCC---------CCSSCSSBTTCEEECTTCGGGHHHHHHHHHHHH
T ss_pred             ecCCCCCCC---CCCCceeeeeeeEEcCHHHHHHHHHHHHHHHHHH
Confidence            543321111   12233333     444555677777777777653

>d1xrsb1 c.23.6.1 (B:102-261) D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain {Clostridium sticklandii [TaxId: 1511]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: D-lysine 5,6-aminomutase beta subunit KamE, C-terminal domain
species: Clostridium sticklandii [TaxId: 1511]

Probab=86.08  E-value=3.3  Score=35.60  Aligned_cols=115  Identities=10%  Similarity=0.052  Sum_probs=77.3

Q ss_pred             ccEEEEE----eCCHHHHHHHHHHHHhCC---------CeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCCCCH-H
Q 009824           23 GMRVLAV----DDDQTCLKILEKFLRECQ---------YEVTVT---NRAITALKMLRENRNNFDLVISDVYMPDMDG-F   85 (524)
Q Consensus        23 ~irVLIV----DDdp~~~~~L~~~L~~~g---------y~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPdmdG-l   85 (524)
                      +++|++.    |-|..=.+++..+|+..|         |+|+..   ...++.++.+.+..  +|+|-+-..|....+ +
T Consensus        19 ~~~vv~~~~g~D~HdiG~~iv~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~a~e~~--~d~VglS~l~t~~~~h~   96 (160)
T d1xrsb1          19 KIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVELE--ADVLLVSQTVTQKNVHI   96 (160)
T ss_dssp             CEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHHTT--CSEEEEECCCCTTSHHH
T ss_pred             CcEEEEEEeCCcHHHHHHHHHHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHHHHhcC--CCEEEEeecccccchhH
Confidence            3555544    556666778888888888         888733   46888888888765  999999998876543 2


Q ss_pred             ----HHHHHHhcC-C-CCcEEEEec-CCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Q 009824           86 ----KLLELVGLE-M-DLPVVMLSA-YSDTKLVMKGINHGACDYLLKPVRMEELKNTWQHVIRR  142 (524)
Q Consensus        86 ----eLLe~Lr~~-~-diPVIvlTa-~~d~~~~~~al~~GA~dYL~KP~~~eeL~~aI~~vlr~  142 (524)
                          ++++.++.. . +.+.|++-+ ..+.+   -+.+.||+.|...-....++...+...+++
T Consensus        97 ~~~~~~i~~l~~~g~~d~v~vivGG~~~~~~---~a~~~GaD~~f~~g~~a~~~a~~l~~~l~~  157 (160)
T d1xrsb1          97 QNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVKTLND  157 (160)
T ss_dssp             HHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCceEEEEcCCCCCHH---HHHHcCCCEEcCCCCCHHHHHHHHHHHHHH
Confidence                344555533 2 223444544 33333   345789999988778888888877766654

>d7reqa2 c.23.6.1 (A:561-728) Methylmalonyl-CoA mutase alpha subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase alpha subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=84.89  E-value=2.7  Score=36.59  Aligned_cols=105  Identities=12%  Similarity=0.082  Sum_probs=69.3

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHHhCCCeEEEE---CCHHHHHHHHHhcCCCceEEEEeCCCCC-CC-HHHHHHHHhcC
Q 009824           24 MRVLAV----DDDQTCLKILEKFLRECQYEVTVT---NRAITALKMLRENRNNFDLVISDVYMPD-MD-GFKLLELVGLE   94 (524)
Q Consensus        24 irVLIV----DDdp~~~~~L~~~L~~~gy~V~~a---~sg~eALe~L~e~~~~pDLVIlDi~MPd-md-GleLLe~Lr~~   94 (524)
                      .||++.    |-|..-...+..+|+..||+|...   .+.++..+...+..  +|+|.+-..+.. +. --++++.++..
T Consensus        38 pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~~~--advI~iSs~~~~~~~~~~~l~~~L~~~  115 (168)
T d7reqa2          38 PRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEAD--VHVVGVSSLAGGHLTLVPALRKELDKL  115 (168)
T ss_dssp             CEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHHHT--CSEEEEEECSSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHccC--CCEEEEecCcccchHHHHHHHHHHHhc
Confidence            577776    567777888999999999999853   47888888888765  999988765543 11 22344555433


Q ss_pred             --CCCcEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHH
Q 009824           95 --MDLPVVMLSAYSDTKLVMKGINHGACDYLLKPVRMEE  131 (524)
Q Consensus        95 --~diPVIvlTa~~d~~~~~~al~~GA~dYL~KP~~~ee  131 (524)
                        .+++| ++-+.--.+......+.|++++...--...+
T Consensus       116 g~~~v~V-ivGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e  153 (168)
T d7reqa2         116 GRPDILI-TVGGVIPEQDFDELRKDGAVEIYTPGTVIPE  153 (168)
T ss_dssp             TCTTSEE-EEEESCCGGGHHHHHHHTEEEEECTTCCHHH
T ss_pred             CCCCeEE-EEeCCCCHHHHHHHHhCCCCEEECcCCCHHH
Confidence              34444 4555444455666778999986653334433