Citrus Sinensis ID: 026776

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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---
Protein Sequence
MTTTNGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSSSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPSTLDSPTSRLKMTISD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHcccccccccccccccccEEEEccccccccHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHccccccccccccccccEEEEEcccccccHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHcccHHHccccccccccccccccccccccccccccccccccccHHcEEcccc
Coil and Loop (DISEMBL)
mtttngvaSLRLIsdeidgfdlspsdteeVHVLavddsfvdRKVIERLLTISSCKVTAVDSGRRALqflgldeeqsingfdglkVDLIITdycmpgmtGYELLKKIkdssalreipvviMSSENILARIDRCLEdgaedfivkpvklsdvkRIKDYLTrdvnlgnegrginkrkarescdlsssppsvitsssspsspsspfrspsilsssapcsppstldsptsrlkmtisd
Flexible Loop (DISEMBL)
mtttngvaslrlisdeidgfdlspsDTEEVHVlavddsfvdrKVIERLLtissckvtavdSGRRALQFlgldeeqsingfdgLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGaedfivkpvklsdvkrikdyltrdvnlgnegrginkrkarescdlsssppsvitsssspsspsSPFRSPSILsssapcsppstldsptsrlkmtisd
Low Complexity Region (SEG)
MTTTNGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLsssppsvitsssspsspsspfrspsilsssapcsppsTLDSPTSRLKMTISD
Disordered region (IsUnstruct)
***********LISDEIDGFD*****TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNL**********************************************************************
Disordered Region (DISOPRED)
*******************************VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT***************************************************************************
Disordered Region (DISEMBL)
MTTTNGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKR************************************************************
Disordered Region (DISPRO)
***************************EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGIN**************************************************S***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTTTNGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSSSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPSTLDSPTSRLKMTISD
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	233	2.2.26 [Sep-21-2011]
Q9ZWS9	231	Two-component response re	yes	no	0.939	0.948	0.578	1e-61
O82798	259	Two-component response re	no	no	0.742	0.667	0.662	6e-60
Q9ZWS6	186	Two-component response re	no	no	0.618	0.774	0.710	2e-52
Q9SB04	184	Two-component response re	no	no	0.557	0.706	0.755	2e-51
Q7G8V2	206	Two-component response re	no	no	0.562	0.635	0.717	5e-50
Q9ZWS7	206	Two-component response re	no	no	0.669	0.757	0.635	2e-49
O80366	234	Two-component response re	no	no	0.562	0.559	0.588	7e-43
Q9SHC2	164	Two-component response re	no	no	0.592	0.841	0.588	9e-43
Q9FPR6	153	Two-component response re	no	no	0.557	0.849	0.610	2e-42
O80365	225	Two-component response re	no	no	0.553	0.573	0.598	1e-41

>sp|Q9ZWS9|ARR3_ARATH Two-component response regulator ARR3 OS=Arabidopsis thaliana GN=ARR3 PE=2 SV=1

 Score =  236 bits (601), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 132/228 (57%), Positives = 164/228 (71%), Gaps = 9/228 (3%)

Query: 1   MTTTNGVASLR---LISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVT 57
           M    GV+ LR   +I   I   +  P D+++VHVLAVDDS VDR VIERLL I+SCKVT
Sbjct: 1   MAKDGGVSCLRRSEMIGIGIGELESPPLDSDQVHVLAVDDSLVDRIVIERLLRITSCKVT 60

Query: 58  AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPV 117
           AVDSG RAL+FLGLD++++   FD LKVDLIITDYCMPGMTGYELLKKIK+S++ +E+PV
Sbjct: 61  AVDSGWRALEFLGLDDDKAAVEFDRLKVDLIITDYCMPGMTGYELLKKIKESTSFKEVPV 120

Query: 118 VIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARE 177
           VIMSSEN++ RIDRCLE+GAEDF++KPVKL+DVKR++ YLTRDV +  EG   NKRK   
Sbjct: 121 VIMSSENVMTRIDRCLEEGAEDFLLKPVKLADVKRLRSYLTRDVKVAAEG---NKRKLTT 177

Query: 178 SCDLS--SSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPSTLDSP 223
                  S+  S+ +S S+  SP S       L+ S P S  S +DSP
Sbjct: 178 PPPPPPLSATSSMESSDSTVESPLSMVDDEDSLTMS-PESATSLVDSP 224

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.
Arabidopsis thaliana (taxid: 3702)

>sp|O82798|ARR4_ARATH Two-component response regulator ARR4 OS=Arabidopsis thaliana GN=ARR4 PE=1 SV=1

 Score =  230 bits (586), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 120/181 (66%), Positives = 141/181 (77%), Gaps = 8/181 (4%)

Query: 1   MTTTNGVASLR----LISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKV 56
           M    GV+ LR    +    I G + +P D +EVHVLAVDDS VDR VIERLL I+SCKV
Sbjct: 1   MARDGGVSCLRRSEMMSVGGIGGIESAPLDLDEVHVLAVDDSLVDRIVIERLLRITSCKV 60

Query: 57  TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIP 116
           TAVDSG RAL+FLGLD E++   FD LKVDLIITDYCMPGMTGYELLKKIK+SS  RE+P
Sbjct: 61  TAVDSGWRALEFLGLDNEKASAEFDRLKVDLIITDYCMPGMTGYELLKKIKESSNFREVP 120

Query: 117 VVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKAR 176
           VVIMSSEN+L RIDRCLE+GA+DF++KPVKL+DVKR++ +LT+DV L N     NKRK  
Sbjct: 121 VVIMSSENVLTRIDRCLEEGAQDFLLKPVKLADVKRLRSHLTKDVKLSNG----NKRKLP 176

Query: 177 E 177
           E
Sbjct: 177 E 177

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling. Modulates red light signaling through its interaction with the phytochrome B photoreceptor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZWS6|ARR6_ARATH Two-component response regulator ARR6 OS=Arabidopsis thaliana GN=ARR6 PE=1 SV=2

 Score =  205 bits (522), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 103/145 (71%), Positives = 121/145 (83%), Gaps = 1/145 (0%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           +HVLAVDDS VDRK IERLL +SSCKVT VDS  RALQ+LGLD E+   GF+ LKV+LI+
Sbjct: 25  LHVLAVDDSHVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDVEEKSVGFEDLKVNLIM 84

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
           TDY MPGMTGYELLKKIK+SSA RE+PVVIMSSENIL RIDRCLE+GAEDF++KPVKLSD
Sbjct: 85  TDYSMPGMTGYELLKKIKESSAFREVPVVIMSSENILPRIDRCLEEGAEDFLLKPVKLSD 144

Query: 150 VKRIKDYLTRDVNLGNEGRGINKRK 174
           VKR++D L +  +L    + I KR+
Sbjct: 145 VKRLRDSLMKVEDLSF-TKSIQKRE 168

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SB04|ARR5_ARATH Two-component response regulator ARR5 OS=Arabidopsis thaliana GN=ARR5 PE=1 SV=2

 Score =  202 bits (513), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 99/131 (75%), Positives = 114/131 (87%), Gaps = 1/131 (0%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLD-EEQSINGFDGLKVDLI 88
           +HVLAVDDS VDRK IERLL +SSCKVT VDS  RALQ+LGLD E  S  GF+ LK++LI
Sbjct: 25  LHVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDGENNSSVGFEDLKINLI 84

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           +TDY MPGMTGYELLKKIK+SSA REIPVVIMSSENIL RIDRCLE+GAEDF++KPVKL+
Sbjct: 85  MTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLLKPVKLA 144

Query: 149 DVKRIKDYLTR 159
           DVKR++D L +
Sbjct: 145 DVKRLRDSLMK 155

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7G8V2|ARR15_ARATH Two-component response regulator ARR15 OS=Arabidopsis thaliana GN=ARR15 PE=1 SV=1

 Score =  197 bits (501), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 94/131 (71%), Positives = 115/131 (87%)

Query: 29  EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           E+HVLAVDDSFVDRKVIERLL IS+CKVT V+SG RALQ+LGLD +   +G   LKV+LI
Sbjct: 17  ELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGLKDLKVNLI 76

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           +TDY MPG+TGYELLKKIK+SSALREIPVVIMSSENI  RI++C+ +GAE+F++KPVKL+
Sbjct: 77  VTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFLLKPVKLA 136

Query: 149 DVKRIKDYLTR 159
           DVKR+K+ + R
Sbjct: 137 DVKRLKELIMR 147

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZWS7|ARR7_ARATH Two-component response regulator ARR7 OS=Arabidopsis thaliana GN=ARR7 PE=1 SV=1

 Score =  195 bits (496), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 103/162 (63%), Positives = 127/162 (78%), Gaps = 6/162 (3%)

Query: 19  GFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSIN 78
           G DL+ + T E+HVLAVDDS VDRKVIERLL ISSCKVT V+SG RALQ+LGLD  +  +
Sbjct: 14  GGDLTVT-TPELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGLDGGKGAS 72

Query: 79  GFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAE 138
               LKV+LI+TDY MPG++GY+LLKKIK+SSA RE+PVVIMSSENIL RI  CL++GAE
Sbjct: 73  NLKDLKVNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILPRIQECLKEGAE 132

Query: 139 DFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGI---NKRKARE 177
           +F++KPVKL+DVKRIK  + R  N   E + +   NKRK +E
Sbjct: 133 EFLLKPVKLADVKRIKQLIMR--NEAEECKILSHSNKRKLQE 172

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|O80366|ARR9_ARATH Two-component response regulator ARR9 OS=Arabidopsis thaliana GN=ARR9 PE=1 SV=1

 Score =  173 bits (439), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 83/141 (58%), Positives = 108/141 (76%), Gaps = 10/141 (7%)

Query: 29  EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSIN---------- 78
           + HVLAVDDS  DRK+IERLL  SSC+VT VDSG +AL+FLGL +    N          
Sbjct: 8   QFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQSTDSNDPNAFSKAPV 67

Query: 79  GFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAE 138
               ++V+LIITDYCMPGMTGY+LLKK+K+SSA R+IPVVIMSSEN+ ARI RCLE+GAE
Sbjct: 68  NHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSENVPARISRCLEEGAE 127

Query: 139 DFIVKPVKLSDVKRIKDYLTR 159
           +F +KPV+L+D+ ++K ++ +
Sbjct: 128 EFFLKPVRLADLNKLKPHMMK 148

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SHC2|ARR16_ARATH Two-component response regulator ARR16 OS=Arabidopsis thaliana GN=ARR16 PE=1 SV=1

 Score =  173 bits (438), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 83/141 (58%), Positives = 110/141 (78%), Gaps = 3/141 (2%)

Query: 20  FDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGL-DEEQSIN 78
             L     EE+HVLAVDD+ +DRK++ERLL IS CKVT  ++  RAL++LGL D+ Q I+
Sbjct: 19  HHLHHGHDEELHVLAVDDNLIDRKLVERLLKISCCKVTTAENALRALEYLGLGDQNQHID 78

Query: 79  GF--DGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDG 136
               + +KV LIITDYCMPGMTG+ELLKK+K+SS LRE+PVVIMSSENI  RI++CL  G
Sbjct: 79  ALTCNVMKVSLIITDYCMPGMTGFELLKKVKESSNLREVPVVIMSSENIPTRINKCLASG 138

Query: 137 AEDFIVKPVKLSDVKRIKDYL 157
           A+ F+ KP+KL+DV+++K +L
Sbjct: 139 AQMFMQKPLKLADVEKLKCHL 159

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FPR6|ARR17_ARATH Two-component response regulator ARR17 OS=Arabidopsis thaliana GN=ARR17 PE=2 SV=1

 Score =  172 bits (436), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 80/131 (61%), Positives = 109/131 (83%), Gaps = 1/131 (0%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVD 86
           EE+HVLAVDD+ +DRK++ER+L ISSCKVT  ++G RAL++LGL + Q  +     +KV+
Sbjct: 18  EELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGLGDPQQTDSLTNVMKVN 77

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK 146
           LIITDYCMPGMTG+ELLKK+K+SS L+E+PVVI+SSENI  RI++CL  GA+ F+ KP+K
Sbjct: 78  LIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTRINKCLASGAQMFMQKPLK 137

Query: 147 LSDVKRIKDYL 157
           LSDV+++K +L
Sbjct: 138 LSDVEKLKCHL 148

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

>sp|O80365|ARR8_ARATH Two-component response regulator ARR8 OS=Arabidopsis thaliana GN=ARR8 PE=1 SV=1

 Score =  170 bits (430), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 82/137 (59%), Positives = 107/137 (78%), Gaps = 8/137 (5%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLD-EEQSINGF-------DG 82
           HVLAVDDS  DRK+IERLL  SSC+VT VDSG +AL+FLGL  ++   N           
Sbjct: 10  HVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNALSTSPQIHQE 69

Query: 83  LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV 142
           ++++LIITDYCMPGMTGY+LLKK+K+S+A R IPVVIMSSEN+ ARI RCLE+GAE+F +
Sbjct: 70  VEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCLEEGAEEFFL 129

Query: 143 KPVKLSDVKRIKDYLTR 159
           KPVKL+D+ ++K ++ +
Sbjct: 130 KPVKLADLTKLKPHMMK 146

Functions as 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. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

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	233
296086487	221	unnamed protein product [Vitis vinifera]	0.931	0.981	0.708	5e-74
147768948	210	hypothetical protein VITISV_026384 [Viti	0.888	0.985	0.718	1e-72
255558348	258	two-component sensor protein histidine p	0.961	0.868	0.661	5e-71
449434875	233	PREDICTED: two-component response regula	0.755	0.755	0.728	8e-67
148608690	209	response regulator, partial [Malus x dom	0.871	0.971	0.703	5e-63
148608687	212	response regulator, partial [Malus x dom	0.643	0.707	0.803	5e-63
309951224	255	putative A-type response regulator 1a [P	0.978	0.894	0.641	1e-62
309951226	257	putative A-type response regulator 1b [P	0.978	0.887	0.636	2e-62
297849384	258	hypothetical protein ARALYDRAFT_888316 [	0.952	0.860	0.548	3e-62
224135721	223	type-a response regulator [Populus trich	0.927	0.968	0.610	2e-61

>gi|296086487|emb|CBI32076.3| unnamed protein product [Vitis vinifera]

 Score =  283 bits (723), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 163/230 (70%), Positives = 178/230 (77%), Gaps = 13/230 (5%)

Query: 5   NGVASLRLISDEIDGFDLSPSDTEE-VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGR 63
           +GV S R + DEI GFDLSP  +EE  HVLAVDDS VDRKVIERLL ISSCKVTAVDSGR
Sbjct: 4   SGVLSRRNMPDEIGGFDLSPGHSEEEAHVLAVDDSLVDRKVIERLLKISSCKVTAVDSGR 63

Query: 64  RALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSE 123
           RALQFLGLDEE++  G DGLKVDLIITDYCMPGMTGYELLKKIK+SS  RE PVVIMSSE
Sbjct: 64  RALQFLGLDEEKNSAGLDGLKVDLIITDYCMPGMTGYELLKKIKESSTFRETPVVIMSSE 123

Query: 124 NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSS 183
           NIL RIDRCLE+GAEDFIVKPVKLSDVKR+KDY+TR+   GNEGRGINKRK  E+CD+S 
Sbjct: 124 NILTRIDRCLEEGAEDFIVKPVKLSDVKRLKDYMTREDRDGNEGRGINKRKLGEACDVSP 183

Query: 184 SPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPSTLDSPTSRLKMTISD 233
           S  S   S SS SS  S              S P++LDSPT RLK +  D
Sbjct: 184 SLSSSPPSISSSSSSWSAP------------SSPTSLDSPTRRLKTSTCD 221

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768948|emb|CAN69259.1| hypothetical protein VITISV_026384 [Vitis vinifera]

 Score =  278 bits (711), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 158/220 (71%), Positives = 171/220 (77%), Gaps = 13/220 (5%)

Query: 15  DEIDGFDLSPSDTEE-VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDE 73
           DEI GFDLSP  +EE  HVLAVDDS VDRKVIERLL ISSCKVTAVDSGRRALQFLGLDE
Sbjct: 3   DEIGGFDLSPGHSEEEAHVLAVDDSLVDRKVIERLLKISSCKVTAVDSGRRALQFLGLDE 62

Query: 74  EQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL 133
           E++  G DGLKVDLIITDYCMPGMTGYELLKKIK+SS  RE PVVIMSSENIL RIDRCL
Sbjct: 63  EKNSAGLDGLKVDLIITDYCMPGMTGYELLKKIKESSTFRETPVVIMSSENILTRIDRCL 122

Query: 134 EDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSSSPPSVITSSS 193
           E+GAEDFIVKPVKLSDVKR+KDY+TR+   GNEGRGINKRK  E+CD+S S  S   S S
Sbjct: 123 EEGAEDFIVKPVKLSDVKRLKDYMTREDRDGNEGRGINKRKLGEACDVSPSLSSSPPSIS 182

Query: 194 SPSSPSSPFRSPSILSSSAPCSPPSTLDSPTSRLKMTISD 233
           S  S  S              S P++LDSPT RLK +  D
Sbjct: 183 SSCSSWSAP------------SSPTSLDSPTRRLKTSTCD 210

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558348|ref|XP_002520201.1| two-component sensor protein histidine protein kinase, putative [Ricinus communis] gi|223540693|gb|EEF42256.1| two-component sensor protein histidine protein kinase, putative [Ricinus communis]

 Score =  273 bits (697), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 166/251 (66%), Positives = 191/251 (76%), Gaps = 27/251 (10%)

Query: 5   NGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRR 64
           NG+AS R  S++I+GF+ S  D +EVHVLAVDDS VDRKVIERLL I+SCKVTAVDSGRR
Sbjct: 4   NGIASRRWRSEKIEGFEFSSCDNDEVHVLAVDDSLVDRKVIERLLKITSCKVTAVDSGRR 63

Query: 65  ALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSEN 124
           ALQFLGLDEE+S +   GLKVDLIITDYCMPGMTGYELLKKIK+SS  REIPVVIMSSEN
Sbjct: 64  ALQFLGLDEEKSTS-IQGLKVDLIITDYCMPGMTGYELLKKIKESSTFREIPVVIMSSEN 122

Query: 125 ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT-RDVNLGNE----------GRGINKR 173
           ++ARIDRCLE+GAEDF+VKPVKLSDVKRI+DY+T R++ L ++          G  +NKR
Sbjct: 123 VMARIDRCLEEGAEDFLVKPVKLSDVKRIRDYMTARELKLKSQQTSHNFNNSTGNNVNKR 182

Query: 174 KARESCDLSSSPPSVITSSSSPSSPSSPFRSPSILSS--------------SAPCSPPST 219
           K+R+S DLSSSPPS+  SSSS S   S   SPS  S               SAPCSP S 
Sbjct: 183 KSRDSFDLSSSPPSISFSSSSLSPSPSSLSSPSSPSPCGSPSWSPSPMLSFSAPCSPTS- 241

Query: 220 LDSPTSRLKMT 230
           LDSPT RLKM+
Sbjct: 242 LDSPTRRLKMS 252

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434875|ref|XP_004135221.1| PREDICTED: two-component response regulator ARR3-like [Cucumis sativus] gi|449478516|ref|XP_004155339.1| PREDICTED: two-component response regulator ARR3-like [Cucumis sativus]

 Score =  259 bits (661), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 129/177 (72%), Positives = 147/177 (83%), Gaps = 1/177 (0%)

Query: 5   NGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRR 64
           N + S R  SD++DG D  P+   EVHVLAVDDS VDR VIERLL +++C+VTAVDSG R
Sbjct: 4   NHIFSRRRRSDQLDGLDRFPTSDSEVHVLAVDDSLVDRTVIERLLRLTACRVTAVDSGIR 63

Query: 65  ALQFLGL-DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSE 123
           ALQ+LGL DE  S  GFDGLKVD+IITDYCMPGMTGYELLKKIK+SS LREIPVVIMSSE
Sbjct: 64  ALQYLGLQDETNSQVGFDGLKVDMIITDYCMPGMTGYELLKKIKESSTLREIPVVIMSSE 123

Query: 124 NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCD 180
           N++ARIDRCLE+GAEDFIVKPVKLSDVKR+++Y+  D   GNE  GINKRK RE CD
Sbjct: 124 NVVARIDRCLEEGAEDFIVKPVKLSDVKRLREYMVGDEKTGNERSGINKRKLREPCD 180

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148608690|gb|ABQ95669.1| response regulator, partial [Malus x domestica]

 Score =  246 bits (629), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 147/209 (70%), Positives = 163/209 (77%), Gaps = 6/209 (2%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQS-INGFDGLKVDLII 89
           HVLAVDDS VDRKVIERLL ISSC+VT VDSGRRALQFLGLDEE+S   GFDGLKVDLII
Sbjct: 1   HVLAVDDSLVDRKVIERLLKISSCRVTTVDSGRRALQFLGLDEEKSSTAGFDGLKVDLII 60

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
           TDYCMPGMTGYELLKKIK+SS  +  PVVIMSSEN+LARIDRCLE+GAEDFIVKPVKL+D
Sbjct: 61  TDYCMPGMTGYELLKKIKESSTFKATPVVIMSSENVLARIDRCLEEGAEDFIVKPVKLAD 120

Query: 150 VKRIKDYLT--RDVNLGNEGRGINKRKARESCD---LSSSPPSVITSSSSPSSPSSPFRS 204
           VKR+KDY+T  RDV +   G G+NKRK RE CD     S P    +S SS SS  S   S
Sbjct: 121 VKRLKDYMTTARDVGVEESGGGMNKRKLREPCDPTIAPSPPSIFPSSPSSSSSSPSKSPS 180

Query: 205 PSILSSSAPCSPPSTLDSPTSRLKMTISD 233
           P + SS +  S P+ LDSP  RLKMT +D
Sbjct: 181 PPLSSSFSAPSSPTPLDSPIRRLKMTNAD 209

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148608687|gb|ABQ95668.1| response regulator, partial [Malus x domestica]

 Score =  246 bits (628), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 123/153 (80%), Positives = 134/153 (87%), Gaps = 3/153 (1%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQS-INGFDGLKVDLII 89
           HVLAVDDS VDRKVIERLL ISSC+VT VDSGRRALQFLGLDEE+S   GFDGLKVDLII
Sbjct: 1   HVLAVDDSLVDRKVIERLLKISSCRVTTVDSGRRALQFLGLDEEKSSTAGFDGLKVDLII 60

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
           TDYCMPGMTGYELLKKIK+SS  +  PVVIMSSEN+LARIDRCLE+GAEDFIVKPVKL+D
Sbjct: 61  TDYCMPGMTGYELLKKIKESSTFKATPVVIMSSENVLARIDRCLEEGAEDFIVKPVKLAD 120

Query: 150 VKRIKDYLT--RDVNLGNEGRGINKRKARESCD 180
           VKR+KDY+T  RDV +   G G+NKRK RE CD
Sbjct: 121 VKRLKDYMTTARDVGVEESGGGMNKRKLREPCD 153

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951224|emb|CBX43982.1| putative A-type response regulator 1a [Populus x canadensis]

 Score =  245 bits (625), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 161/251 (64%), Positives = 183/251 (72%), Gaps = 23/251 (9%)

Query: 3   TTNGVASLRLISDEIDGFDLSP---SDTEE--VHVLAVDDSFVDRKVIERLLTISSCKVT 57
           ++N +AS R +S+++DGFDLSP   SD EE  VHVLAVDDS VDRKVIERLL ISSCKVT
Sbjct: 2   SSNSIASNRWMSEKMDGFDLSPNSNSDNEEEGVHVLAVDDSLVDRKVIERLLKISSCKVT 61

Query: 58  AVDSGRRALQFLGL-DEEQSIN--------GFDGLKVDLIITDYCMPGMTGYELLKKIKD 108
           AVDSG RAL+ LGL DEE   +        GFD LKVDLIITDYCMPGMTGYELLKKIK+
Sbjct: 62  AVDSGWRALKLLGLLDEEDKSSSSSSSSSAGFDVLKVDLIITDYCMPGMTGYELLKKIKE 121

Query: 109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL-TRDVN--LGN 165
           S+  REIPVVIMSSEN++ARIDRCLE+GAEDFIVKPVKLSDVKRI+DY+ +R+V      
Sbjct: 122 STTFREIPVVIMSSENVVARIDRCLEEGAEDFIVKPVKLSDVKRIRDYMASREVRSVQNQ 181

Query: 166 EGR---GINKRKARESCD---LSSSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPST 219
           E R    INKRK +E  D    SS P    +S S PS   S   SP  L SS+    PS+
Sbjct: 182 EERSSSNINKRKLQECFDLSLSSSPPSISSSSLSYPSRSPSLTPSPPSLFSSSAPCSPSS 241

Query: 220 LDSPTSRLKMT 230
           LDSPT RLKMT
Sbjct: 242 LDSPTRRLKMT 252

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951226|emb|CBX43983.1| putative A-type response regulator 1b [Populus x canadensis]

 Score =  244 bits (623), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 161/253 (63%), Positives = 183/253 (72%), Gaps = 25/253 (9%)

Query: 3   TTNGVASLRLISDEIDGFDLSP---SDTEE--VHVLAVDDSFVDRKVIERLLTISSCKVT 57
           ++N +AS R +S+++DGFDLSP   SD EE  VHVLAVDDS VDRKVIERLL ISSCKVT
Sbjct: 2   SSNSIASNRWMSEKMDGFDLSPNSNSDNEEEGVHVLAVDDSLVDRKVIERLLKISSCKVT 61

Query: 58  AVDSGRRALQFLGL-DEEQSIN------GFDGLKVDLIITDYCMPGMTGYELLKKIKDSS 110
           AVDSG RAL+ LGL DEE   +      GFD LKVDLIITDYCMPGMTGYELLKKIK+S+
Sbjct: 62  AVDSGWRALKLLGLLDEEDKSSSSSSSAGFDVLKVDLIITDYCMPGMTGYELLKKIKEST 121

Query: 111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL-TRDVN--LGNEG 167
             REIPVVIMSSEN++ARIDRCLE+GAEDFIVKPVKLSDVKRI+DY+ +R+V      E 
Sbjct: 122 TFREIPVVIMSSENVVARIDRCLEEGAEDFIVKPVKLSDVKRIRDYMASREVRSVQNQEE 181

Query: 168 R---GINKRKARESCD-------LSSSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPP 217
           R    INKRK +E  D        S S  S  +S S PS   S   SP  L SS+    P
Sbjct: 182 RSSSNINKRKLQECFDLSLSSSPPSISSSSSSSSLSYPSRSPSLTPSPPSLFSSSAPCSP 241

Query: 218 STLDSPTSRLKMT 230
           S+LDSPT RLKMT
Sbjct: 242 SSLDSPTRRLKMT 254

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849384|ref|XP_002892573.1| hypothetical protein ARALYDRAFT_888316 [Arabidopsis lyrata subsp. lyrata] gi|297338415|gb|EFH68832.1| hypothetical protein ARALYDRAFT_888316 [Arabidopsis lyrata subsp. lyrata]

 Score =  243 bits (621), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 142/259 (54%), Positives = 173/259 (66%), Gaps = 37/259 (14%)

Query: 1   MTTTNGVASLRLISD-EIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAV 59
           M    GV+ LR+     + G + +P D +EVHVLAVDDS VDR VIERLL I+SCKVTAV
Sbjct: 1   MARDGGVSCLRMSEMMNVGGIESAPLDLDEVHVLAVDDSLVDRIVIERLLRITSCKVTAV 60

Query: 60  DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVI 119
           DSG RAL+FLGLD E++   FD LKVDLIITDYCMPGMTGYELLKKIK+SS  RE+PVVI
Sbjct: 61  DSGWRALEFLGLDNEKASAEFDRLKVDLIITDYCMPGMTGYELLKKIKESSNFREVPVVI 120

Query: 120 MSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESC 179
           MSSEN+L RIDRCLE+GA+DF++KPVKL+DVKR++++LT+DV L N     NKRK  +  
Sbjct: 121 MSSENVLTRIDRCLEEGAQDFLLKPVKLADVKRLRNHLTKDVKLSNG----NKRKLPDDS 176

Query: 180 D----------------LSSSPPSVITSSSSPSSP---------SSPFRSP----SILSS 210
           D                  SSPP  I++ SS SSP         +SP  +P     +L++
Sbjct: 177 DSVNSSLPPPSPPLTISPESSPPLTISTESSDSSPQLSPVEMFSTSPLSTPIDDDDVLTT 236

Query: 211 SAPCSPPSTLDSPTSRLKM 229
           S   SP    DSP  R KM
Sbjct: 237 SPESSPE---DSPIRRQKM 252

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135721|ref|XP_002322144.1| type-a response regulator [Populus trichocarpa] gi|222869140|gb|EEF06271.1| type-a response regulator [Populus trichocarpa] gi|309951242|emb|CBX43991.1| putative A-type response regulator 10 [Populus x canadensis]

 Score =  241 bits (615), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 135/221 (61%), Positives = 160/221 (72%), Gaps = 5/221 (2%)

Query: 3   TTNGVASLRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSG 62
            T G    R +++E+     S S +EE+HVLAVDDSFVDRKVIERLL ISSCKVT V+SG
Sbjct: 2   ATAGEILRRSLTEEVGFSKGSVSGSEELHVLAVDDSFVDRKVIERLLKISSCKVTVVESG 61

Query: 63  RRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS 122
            RALQ+LGLD E+S  GF+ LK++LI+TDY MPGMTGYELLKKIK+SSA REIPVVIMSS
Sbjct: 62  SRALQYLGLDGEKSSVGFNDLKINLIMTDYSMPGMTGYELLKKIKESSAFREIPVVIMSS 121

Query: 123 ENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLS 182
           ENILARIDRCLE+GAE++I+KPVKLSDVKRIKD +        + R + KR  RE C  S
Sbjct: 122 ENILARIDRCLEEGAEEYILKPVKLSDVKRIKDVIMGGDGEQKKRRSVRKR-GREDCFYS 180

Query: 183 SSPPSVITSSSSPSSPSSPFRSPSILSSSAPCSPPSTLDSP 223
            S P ++ SSSSP+        PS L SS+P S  S    P
Sbjct: 181 LSQPQLVQSSSSPAFDF----LPSELQSSSPFSTLSLSKRP 217

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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	233
TAIR|locus:2025911	231	ARR3 "response regulator 3" [A	0.733	0.740	0.661	5.3e-56
TAIR|locus:2194584	259	ARR4 "response regulator 4" [A	0.742	0.667	0.674	6.8e-56
TAIR|locus:2170723	186	ARR6 "response regulator 6" [A	0.626	0.784	0.700	1.1e-48
TAIR|locus:2097870	184	RR5 "response regulator 5" [Ar	0.557	0.706	0.755	2e-47
TAIR|locus:2027237	206	ARR15 "response regulator 15"	0.592	0.669	0.702	2.6e-47
TAIR|locus:2011286	206	ARR7 "response regulator 7" [A	0.682	0.771	0.630	8.8e-47
TAIR|locus:2102509	153	RR17 "response regulator 17" [	0.557	0.849	0.610	8.7e-40
TAIR|locus:2080590	234	ARR9 "response regulator 9" [A	0.587	0.585	0.581	6.1e-39
TAIR|locus:2040282	225	RR3 "response regulator 3" [Ar	0.575	0.595	0.587	1.6e-38
UNIPROTKB|Q4GZK2	201	rr9 "Type A response regulator	0.553	0.641	0.626	7e-38

TAIR|locus:2025911 ARR3 "response regulator 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 577 (208.2 bits), Expect = 5.3e-56, P = 5.3e-56
 Identities = 117/177 (66%), Positives = 143/177 (80%)

Query:     1 MTTTNGVASLR---LISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVT 57
             M    GV+ LR   +I   I   +  P D+++VHVLAVDDS VDR VIERLL I+SCKVT
Sbjct:     1 MAKDGGVSCLRRSEMIGIGIGELESPPLDSDQVHVLAVDDSLVDRIVIERLLRITSCKVT 60

Query:    58 AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPV 117
             AVDSG RAL+FLGLD++++   FD LKVDLIITDYCMPGMTGYELLKKIK+S++ +E+PV
Sbjct:    61 AVDSGWRALEFLGLDDDKAAVEFDRLKVDLIITDYCMPGMTGYELLKKIKESTSFKEVPV 120

Query:   118 VIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRK 174
             VIMSSEN++ RIDRCLE+GAEDF++KPVKL+DVKR++ YLTRDV +  EG   NKRK
Sbjct:   121 VIMSSENVMTRIDRCLEEGAEDFLLKPVKLADVKRLRSYLTRDVKVAAEG---NKRK 174

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

GO:0000160 "phosphorelay signal transduction system" evidence=IEA;IDA;TAS

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

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

GO:0010114 "response to red light" evidence=IMP

GO:0010161 "red light signaling pathway" evidence=IMP

GO:0007623 "circadian rhythm" evidence=IMP

GO:0042752 "regulation of circadian rhythm" evidence=IGI

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

TAIR|locus:2194584 ARR4 "response regulator 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 122/181 (67%), Positives = 144/181 (79%)

Query:     1 MTTTNGVASLR---LIS-DEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKV 56
             M    GV+ LR   ++S   I G + +P D +EVHVLAVDDS VDR VIERLL I+SCKV
Sbjct:     1 MARDGGVSCLRRSEMMSVGGIGGIESAPLDLDEVHVLAVDDSLVDRIVIERLLRITSCKV 60

Query:    57 TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIP 116
             TAVDSG RAL+FLGLD E++   FD LKVDLIITDYCMPGMTGYELLKKIK+SS  RE+P
Sbjct:    61 TAVDSGWRALEFLGLDNEKASAEFDRLKVDLIITDYCMPGMTGYELLKKIKESSNFREVP 120

Query:   117 VVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKAR 176
             VVIMSSEN+L RIDRCLE+GA+DF++KPVKL+DVKR++ +LT+DV L N G   NKRK  
Sbjct:   121 VVIMSSENVLTRIDRCLEEGAQDFLLKPVKLADVKRLRSHLTKDVKLSN-G---NKRKLP 176

Query:   177 E 177
             E
Sbjct:   177 E 177

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0010114 "response to red light" evidence=IMP

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

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

GO:0042752 "regulation of circadian rhythm" evidence=IGI

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

GO:0004674 "protein serine/threonine kinase activity" evidence=IDA

GO:0046777 "protein autophosphorylation" evidence=IDA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2170723 ARR6 "response regulator 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 508 (183.9 bits), Expect = 1.1e-48, P = 1.1e-48
 Identities = 103/147 (70%), Positives = 122/147 (82%)

Query:    28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
             + +HVLAVDDS VDRK IERLL +SSCKVT VDS  RALQ+LGLD E+   GF+ LKV+L
Sbjct:    23 DPLHVLAVDDSHVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDVEEKSVGFEDLKVNL 82

Query:    88 IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
             I+TDY MPGMTGYELLKKIK+SSA RE+PVVIMSSENIL RIDRCLE+GAEDF++KPVKL
Sbjct:    83 IMTDYSMPGMTGYELLKKIKESSAFREVPVVIMSSENILPRIDRCLEEGAEDFLLKPVKL 142

Query:   148 SDVKRIKDYLTRDVNLGNEGRGINKRK 174
             SDVKR++D L +  +L    + I KR+
Sbjct:   143 SDVKRLRDSLMKVEDLSFT-KSIQKRE 168

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0007623 "circadian rhythm" evidence=RCA

TAIR|locus:2097870 RR5 "response regulator 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 99/131 (75%), Positives = 114/131 (87%)

Query:    30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLD-EEQSINGFDGLKVDLI 88
             +HVLAVDDS VDRK IERLL +SSCKVT VDS  RALQ+LGLD E  S  GF+ LK++LI
Sbjct:    25 LHVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDGENNSSVGFEDLKINLI 84

Query:    89 ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
             +TDY MPGMTGYELLKKIK+SSA REIPVVIMSSENIL RIDRCLE+GAEDF++KPVKL+
Sbjct:    85 MTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLLKPVKLA 144

Query:   149 DVKRIKDYLTR 159
             DVKR++D L +
Sbjct:   145 DVKRLRDSLMK 155

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

GO:0010114 "response to red light" evidence=IMP

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

TAIR|locus:2027237 ARR15 "response regulator 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 97/138 (70%), Positives = 119/138 (86%)

Query:    22 LSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFD 81
             LS S + E+HVLAVDDSFVDRKVIERLL IS+CKVT V+SG RALQ+LGLD +   +G  
Sbjct:    10 LSSSSSPELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGLK 69

Query:    82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI 141
              LKV+LI+TDY MPG+TGYELLKKIK+SSALREIPVVIMSSENI  RI++C+ +GAE+F+
Sbjct:    70 DLKVNLIVTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFL 129

Query:   142 VKPVKLSDVKRIKDYLTR 159
             +KPVKL+DVKR+K+ + R
Sbjct:   130 LKPVKLADVKRLKELIMR 147

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;TAS

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

GO:0007623 "circadian rhythm" evidence=RCA

TAIR|locus:2011286 ARR7 "response regulator 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 490 (177.5 bits), Expect = 8.8e-47, P = 8.8e-47
 Identities = 104/165 (63%), Positives = 128/165 (77%)

Query:    19 GFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSIN 78
             G DL+ + T E+HVLAVDDS VDRKVIERLL ISSCKVT V+SG RALQ+LGLD  +  +
Sbjct:    14 GGDLTVT-TPELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGLDGGKGAS 72

Query:    79 GFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAE 138
                 LKV+LI+TDY MPG++GY+LLKKIK+SSA RE+PVVIMSSENIL RI  CL++GAE
Sbjct:    73 NLKDLKVNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILPRIQECLKEGAE 132

Query:   139 DFIVKPVKLSDVKRIKDYLTRDVNLGNEGRGI---NKRKARESCD 180
             +F++KPVKL+DVKRIK  + R  N   E + +   NKRK +E  D
Sbjct:   133 EFLLKPVKLADVKRIKQLIMR--NEAEECKILSHSNKRKLQEDSD 175

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0019827 "stem cell maintenance" evidence=IMP

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

GO:0005515 "protein binding" evidence=IPI

GO:0010200 "response to chitin" evidence=IEP

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

TAIR|locus:2102509 RR17 "response regulator 17" [Arabidopsis thaliana (taxid:3702)]

 Score = 424 (154.3 bits), Expect = 8.7e-40, P = 8.7e-40
 Identities = 80/131 (61%), Positives = 109/131 (83%)

Query:    28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVD 86
             EE+HVLAVDD+ +DRK++ER+L ISSCKVT  ++G RAL++LGL + Q  +     +KV+
Sbjct:    18 EELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGLGDPQQTDSLTNVMKVN 77

Query:    87 LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK 146
             LIITDYCMPGMTG+ELLKK+K+SS L+E+PVVI+SSENI  RI++CL  GA+ F+ KP+K
Sbjct:    78 LIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTRINKCLASGAQMFMQKPLK 137

Query:   147 LSDVKRIKDYL 157
             LSDV+++K +L
Sbjct:   138 LSDVEKLKCHL 148

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:0009736 "cytokinin mediated signaling pathway" evidence=TAS

TAIR|locus:2080590 ARR9 "response regulator 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 416 (151.5 bits), Expect = 6.1e-39, P = 6.1e-39
 Identities = 86/148 (58%), Positives = 112/148 (75%)

Query:    29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGL---DEEQSINGFDG--- 82
             + HVLAVDDS  DRK+IERLL  SSC+VT VDSG +AL+FLGL    +    N F     
Sbjct:     8 QFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQSTDSNDPNAFSKAPV 67

Query:    83 ----LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAE 138
                 ++V+LIITDYCMPGMTGY+LLKK+K+SSA R+IPVVIMSSEN+ ARI RCLE+GAE
Sbjct:    68 NHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSENVPARISRCLEEGAE 127

Query:   139 DFIVKPVKLSDVKRIKDYLTRDVNLGNE 166
             +F +KPV+L+D+ ++K ++ +   L N+
Sbjct:   128 EFFLKPVRLADLNKLKPHMMK-TKLKNQ 154

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

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

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

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

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

TAIR|locus:2040282 RR3 "response regulator 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 412 (150.1 bits), Expect = 1.6e-38, P = 1.6e-38
 Identities = 84/143 (58%), Positives = 111/143 (77%)

Query:    26 DTE-EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLD-EEQSINGFDG- 82
             +TE + HVLAVDDS  DRK+IERLL  SSC+VT VDSG +AL+FLGL  ++   N     
Sbjct:     4 ETESKFHVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNALSTS 63

Query:    83 ------LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDG 136
                   ++++LIITDYCMPGMTGY+LLKK+K+S+A R IPVVIMSSEN+ ARI RCLE+G
Sbjct:    64 PQIHQEVEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCLEEG 123

Query:   137 AEDFIVKPVKLSDVKRIKDYLTR 159
             AE+F +KPVKL+D+ ++K ++ +
Sbjct:   124 AEEFFLKPVKLADLTKLKPHMMK 146

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

GO:0005515 "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

UNIPROTKB|Q4GZK2 rr9 "Type A response regulator 9" [Oryza sativa Indica Group (taxid:39946)]

 Score = 406 (148.0 bits), Expect = 7.0e-38, P = 7.0e-38
 Identities = 84/134 (62%), Positives = 107/134 (79%)

Query:    31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGL-DEEQSINGFDG----LKV 85
             HVLAVDDS  DRK+IERLL  SS +VT VDSG +AL+FLGL D E S          + V
Sbjct:    10 HVLAVDDSLPDRKLIERLLKTSSFQVTTVDSGSKALEFLGLHDHEDSPISTQSDQQEVAV 69

Query:    86 DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
             +LIITDYCMPGMTGY+LLKKIK+SS LR+IPVVIMSS+NI +RI+RCLE+GA++F +KPV
Sbjct:    70 NLIITDYCMPGMTGYDLLKKIKESSYLRDIPVVIMSSDNIPSRINRCLEEGADEFFLKPV 129

Query:   146 KLSDVKRIKDYLTR 159
             +LSD+ ++K ++ +
Sbjct:   130 RLSDMSKLKPHILK 143

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZWS9	ARR3_ARATH	No assigned EC number	0.5789	0.9399	0.9480	yes	no

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:
	RRa1	SubName- Full=Chromosome chr1 scaffold_46, whole genome shotgun sequence; (221 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00026729001	SubName- Full=Chromosome chr4 scaffold_39, whole genome shotgun sequence; (140 aa)			•				•		0.541
	GSVIVG00028044001	SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (636 aa)			•						0.472
	GSVIVG00028437001	SubName- Full=Chromosome chr7 scaffold_44, whole genome shotgun sequence; (145 aa)			•						0.460

---

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	233
PLN03029	222	PLN03029, PLN03029, type-a response regulator prot	2e-57
cd00156	113	cd00156, REC, Signal receiver domain; originally t	2e-25
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	2e-22
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	2e-21
COG3706	435	COG3706, PleD, Response regulator containing a Che	2e-18
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	2e-15
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	2e-14
COG3437	360	COG3437, COG3437, Response regulator containing a	3e-14
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	8e-12
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	2e-11
COG2197	211	COG2197, CitB, Response regulator containing a Che	3e-11
COG0745	229	COG0745, OmpR, Response regulators consisting of a	9e-11
COG4753	475	COG4753, COG4753, Response regulator containing Ch	1e-10
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	4e-10
PRK10693	303	PRK10693, PRK10693, response regulator of RpoS; Pr	6e-10
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	7e-10
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	2e-09
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	4e-09
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	9e-09
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	2e-08
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	2e-08
COG3947	361	COG3947, COG3947, Response regulator containing Ch	5e-08
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	5e-08
PRK10923	469	PRK10923, glnG, nitrogen regulation protein NR(I);	1e-07
PRK13856	241	PRK13856, PRK13856, two-component response regulat	3e-07
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	3e-07
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	4e-07
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	1e-06
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	2e-06
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	4e-06
smart00448	55	smart00448, REC, cheY-homologous receiver domain	5e-06
PRK11517	223	PRK11517, PRK11517, transcriptional regulatory pro	6e-06
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	3e-05
PRK11091	779	PRK11091, PRK11091, aerobic respiration control se	5e-05
PRK10710	240	PRK10710, PRK10710, DNA-binding transcriptional re	6e-05
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	9e-05
PRK10766	221	PRK10766, PRK10766, DNA-binding transcriptional re	1e-04
PRK09836	227	PRK09836, PRK09836, DNA-binding transcriptional ac	1e-04
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	2e-04
PRK15479	221	PRK15479, PRK15479, transcriptional regulatory pro	3e-04
TIGR02956	968	TIGR02956, TMAO_torS, TMAO reductase sytem sensor	4e-04
TIGR02875	262	TIGR02875, spore_0_A, sporulation transcription fa	4e-04
PRK10955	232	PRK10955, PRK10955, DNA-binding transcriptional re	4e-04
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	4e-04
PRK10643	222	PRK10643, PRK10643, DNA-binding transcriptional re	5e-04
PRK10651	216	PRK10651, PRK10651, transcriptional regulator NarL	8e-04
COG3706	435	COG3706, PleD, Response regulator containing a Che	0.001
PRK09935	210	PRK09935, PRK09935, transcriptional regulator FimZ	0.001
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	0.001
PRK10529	225	PRK10529, PRK10529, DNA-binding transcriptional ac	0.001
PRK10430	239	PRK10430, PRK10430, DNA-binding transcriptional ac	0.002
COG3279	244	COG3279, LytT, Response regulator of the LytR/AlgR	0.002
PRK09958	204	PRK09958, PRK09958, DNA-binding transcriptional ac	0.003

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

 Score =  181 bits (460), Expect = 2e-57
 Identities = 91/191 (47%), Positives = 121/191 (63%), Gaps = 11/191 (5%)

Query: 22  LSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ------ 75
           +  +   + HVLAVDDS +DRK+IE+LL  SS +VT VDSG +AL+FLGL E+       
Sbjct: 1   MGITTESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDT 60

Query: 76  ---SINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC 132
              S N    ++V+LIITDYCMPGMTGY+LLKKIK+SS+LR IPVVIMSSEN+ +RI RC
Sbjct: 61  PSVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRC 120

Query: 133 LEDGAEDFIVKPVKLSDVKRIKDYL--TRDVNLGNEGRGINKRKARESCDLSSSPPSVIT 190
           LE+GAE+F +KPV+LSD+ R+K ++  T+  N   E +   ++                 
Sbjct: 121 LEEGAEEFFLKPVQLSDLNRLKPHMMKTKSKNQKQENQEKQEKLEESEIQSEKQEQPSQQ 180

Query: 191 SSSSPSSPSSP 201
             S P     P
Sbjct: 181 PQSQPQPQQQP 191

Length = 222

>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 = 95.7 bits (239), Expect = 2e-25
 Identities = 38/126 (30%), Positives = 61/126 (48%), Gaps = 14/126 (11%)

Query: 33  LAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDY 92
           L VDD  + R+++ RLL     +V   + G  AL  L              K DLI+ D 
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALL-----------AEEKPDLILLDI 49

Query: 93  CMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VK 151
            MPGM G ELL++I+      +IP++ +++          L+ GA+D++ KP    + + 
Sbjct: 50  MMPGMDGLELLRRIR--KRGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLA 107

Query: 152 RIKDYL 157
           RI+  L
Sbjct: 108 RIRALL 113

Length = 113

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

 Score = 88.4 bits (219), Expect = 2e-22
 Identities = 41/136 (30%), Positives = 69/136 (50%), Gaps = 13/136 (9%)

Query: 26  DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
               + VL VDD  V+R++++RLL     +V     G    + L L  E         + 
Sbjct: 2   LLSGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGE--EEALELLRELP-------QP 52

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           DLI+ D  MPGM G ELL++++       IPV+++++    A  +R L  GA+D++ KP+
Sbjct: 53  DLILLDINMPGMDGIELLRRLRAR--GPNIPVILLTAYADEADRERALAAGADDYLTKPI 110

Query: 146 KLSD--VKRIKDYLTR 159
            L +  +  ++  L R
Sbjct: 111 FLEEELLAALRRLLAR 126

Length = 130

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

 Score = 84.9 bits (211), Expect = 2e-21
 Identities = 37/124 (29%), Positives = 58/124 (46%), Gaps = 14/124 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL VDD  + R+++ +LL      V   D G  AL+ L              + DLI+ D
Sbjct: 1   VLIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELL-----------KEKRPDLILLD 49

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             MPGM G ELL++I+        PV+++++          L+ GA DF+ KP    + V
Sbjct: 50  IRMPGMDGLELLRRIRRRPP--TTPVIVLTAHGDEEDAVEALKAGANDFLSKPFDPEELV 107

Query: 151 KRIK 154
             ++
Sbjct: 108 AALR 111

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

 Score = 83.1 bits (206), Expect = 2e-18
 Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 11/114 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD    R+ + R+L +   +V     G  AL  L             L  DL++ D
Sbjct: 135 ILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQL-----------AELPPDLVLLD 183

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
             MP M G EL  +++     R+IP++++SS++    + R  E G  D+I KP+
Sbjct: 184 ANMPDMDGLELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPI 237

Length = 435

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

 Score = 73.9 bits (182), Expect = 2e-15
 Identities = 37/117 (31%), Positives = 57/117 (48%), Gaps = 13/117 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD    R+++E+ L ++  +V   +S   AL+ L                DL++ 
Sbjct: 6   RILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSESP-----------FDLVLL 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           D  MPGM G ELLK+IK      ++PV++M+    +      L  GA DF+ KP  L
Sbjct: 55  DIRMPGMDGLELLKEIKSRDP--DLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDL 109

Length = 464

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

 Score = 71.2 bits (175), Expect = 2e-14
 Identities = 38/140 (27%), Positives = 61/140 (43%), Gaps = 18/140 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD   +R +I  +L     +VT   SG  AL+ LG    Q          DL++ 
Sbjct: 692 QILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALE-LG---RQHR-------FDLVLM 740

Query: 91  DYCMPGMTGYELLKKIKDSSAL--REIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           D  MPG+ G E  +  +D       +  +V +++      I RC + G   ++ KPV L+
Sbjct: 741 DIRMPGLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLA 800

Query: 149 DVKRIKDY-----LTRDVNL 163
            + R  +      L R + L
Sbjct: 801 QLARALELAAEYQLLRGIEL 820

Length = 921

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

 Score = 70.5 bits (173), Expect = 3e-14
 Identities = 40/144 (27%), Positives = 70/144 (48%), Gaps = 13/144 (9%)

Query: 18  DGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSI 77
                     E++ VL VDD   + + + +LL +   +V   ++G  AL+   L +E+  
Sbjct: 3   QSMQGKNEPDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALK---LLQEE-- 57

Query: 78  NGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSAL-REIPVVIMSSENILARIDRCLEDG 136
                   DL++ D  MP M G E+L K+K  S   R IPV+++++        R LE G
Sbjct: 58  ------PPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAG 111

Query: 137 AEDFIVKPVKLSDVK-RIKDYLTR 159
           A+D++ KP+   ++  R+  +L  
Sbjct: 112 ADDYLSKPISPKELVARVSSHLQL 135

Length = 360

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

 Score = 63.8 bits (156), Expect = 8e-12
 Identities = 45/132 (34%), Positives = 70/132 (53%), Gaps = 19/132 (14%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD   + K++E  L      V    SG  A+     + EQ          D+I+ D
Sbjct: 5   ILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAIC--EREQ---------PDIILLD 53

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSS-ENILARIDRCLEDGAEDFIVKPVKLSDV 150
             MPGM G+E+ +++K   A   IPVV++++ ++   R+ R LE GA+DF+ KP+  +DV
Sbjct: 54  VMMPGMDGFEVCRRLKSDPATTHIPVVMVTALDDPEDRV-RGLEAGADDFLTKPI--NDV 110

Query: 151 K---RIKDYLTR 159
               R+K  LTR
Sbjct: 111 ALFARVKS-LTR 121

Length = 457

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

 Score = 62.4 bits (152), Expect = 2e-11
 Identities = 33/118 (27%), Positives = 56/118 (47%), Gaps = 13/118 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+E+ L+ +  +V    +    L+ L   +            DL+ITD
Sbjct: 1   VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQP-----------DLLITD 49

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
             MPG  G +LL +IK      ++PV++M++ + L       + GA +++ KP  L +
Sbjct: 50  VRMPGEDGLDLLPQIK--KRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDE 105

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

 Score = 60.4 bits (147), Expect = 3e-11
 Identities = 33/117 (28%), Positives = 57/117 (48%), Gaps = 15/117 (12%)

Query: 31  HVLAVDDSFVDRKVIERLL-TISSCKVTAV-DSGRRALQFLGLDEEQSINGFDGLKVDLI 88
            VL VDD  + R+ + +LL      +V     +G  AL                LK D++
Sbjct: 2   KVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLA-----------RELKPDVV 50

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           + D  MPGM G E LK+++  +   +I VV++++ +  A + R L  GA+ +++K  
Sbjct: 51  LLDLSMPGMDGLEALKQLR--ARGPDIKVVVLTAHDDPAYVIRALRAGADGYLLKDA 105

Length = 211

>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 = 59.2 bits (144), Expect = 9e-11
 Identities = 26/130 (20%), Positives = 57/130 (43%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L V+D     ++++  L     +V     G  AL+                  DL++ 
Sbjct: 2   RILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAREQ------------PDLVLL 49

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +P + G EL ++++ +      P++++++ +        LE GA+D++ KP    + 
Sbjct: 50  DLMLPDLDGLELCRRLR-AKKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPREL 108

Query: 150 VKRIKDYLTR 159
           + R++  L R
Sbjct: 109 LARLRALLRR 118

Length = 229

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

 Score = 60.5 bits (147), Expect = 1e-10
 Identities = 36/136 (26%), Positives = 68/136 (50%), Gaps = 20/136 (14%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           VL VDD  + R+ ++ L+   +  +  V    +G+ AL+ +   +E           D++
Sbjct: 4   VLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELI---QETQ--------PDIV 52

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           ITD  MPGM G +L+K IK+ S   +   +I+S  +      + ++ G +D+++KPV  +
Sbjct: 53  ITDINMPGMDGLDLIKAIKEQSP--DTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKA 110

Query: 149 DV----KRIKDYLTRD 160
           ++    K+I   L   
Sbjct: 111 ELEEALKKIIGKLEEQ 126

Length = 475

>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 = 58.5 bits (142), Expect = 4e-10
 Identities = 45/118 (38%), Positives = 57/118 (48%), Gaps = 20/118 (16%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           VL VDDS + RKVI  +L  S   +  V    +GR A+  +             LK D+I
Sbjct: 4   VLVVDDSALMRKVISDIL-NSDPDIEVVGTARNGREAIDKVK-----------KLKPDVI 51

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS--ENILARIDRCLEDGAEDFIVKP 144
             D  MP M G E L+KI     LR +PV+++SS  E         LE GA DFI KP
Sbjct: 52  TLDVEMPVMDGLEALRKIM---RLRPLPVIMVSSLTEEGAEATLEALELGAVDFIAKP 106

Length = 350

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

 Score = 57.7 bits (140), Expect = 6e-10
 Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 19/101 (18%)

Query: 57  TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI--KDSSALRE 114
               +G  AL+ L            G   DLII D  MP M G E ++ +  +       
Sbjct: 1   VLAANGVDALELL-----------GGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQ---- 45

Query: 115 IPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKD 155
            PV+++S+   +A I + L  G +D ++KPVK  D+ R+++
Sbjct: 46  TPVLVISATENMADIAKALRLGVQDVLLKPVK--DLNRLRE 84

Length = 303

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

 Score = 57.9 bits (141), Expect = 7e-10
 Identities = 51/188 (27%), Positives = 77/188 (40%), Gaps = 37/188 (19%)

Query: 32  VLAVDDSFVDRKVIERLLT-ISSCKV--TAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           VL VDDS   R++I  +L      +V  TA D G  A + +             L  D+I
Sbjct: 6   VLVVDDSAFMRRLISEILNSDPDIEVVGTAPD-GLEAREKI-----------KKLNPDVI 53

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS------ENILARIDRCLEDGAEDFIV 142
             D  MP M G + L+KI     LR  PVV++SS      E  L    R LE GA DF+ 
Sbjct: 54  TLDVEMPVMDGLDALEKIM---RLRPTPVVMVSSLTERGAEITL----RALELGAVDFVT 106

Query: 143 KPV--KLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSSSPPSVITSSSSPSSPSS 200
           KP       +   K+ L   V      R    R    +    ++  +   +++  +  ++
Sbjct: 107 KPFLGISLGMDEYKEELAEKV------RAA-ARARVRALPPRAAAAARAAAAAPAALAAA 159

Query: 201 PFRSPSIL 208
           P  S  ++
Sbjct: 160 PLLSSKLV 167

Length = 354

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

 Score = 53.8 bits (129), Expect = 2e-09
 Identities = 35/123 (28%), Positives = 59/123 (47%), Gaps = 22/123 (17%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK--- 84
           +E+  L VDD    R+++  LL              + L F  ++E +  +G D L    
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAE--DGVDALNKLQ 47

Query: 85  ---VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI 141
                 +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++
Sbjct: 48  AGGFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYV 107

Query: 142 VKP 144
           VKP
Sbjct: 108 VKP 110

Length = 129

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

 Score = 54.7 bits (132), Expect = 4e-09
 Identities = 38/131 (29%), Positives = 70/131 (53%), Gaps = 17/131 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD    RK++E  L+I   +V     G           E+++  F   + DL+I 
Sbjct: 8   KILVVDDEAYIRKILETRLSIIGYEVITASDG-----------EEALKLFRKEQPDLVIL 56

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSS-ENILARIDRCLEDGAEDFIVKPVKLSD 149
           D  MP + GY + ++I+  S   ++P++++++  ++  RI   LE GA+D++VKP    +
Sbjct: 57  DVMMPKLDGYGVCQEIRKES---DVPIIMLTALGDVSDRI-TGLELGADDYVVKPFSPKE 112

Query: 150 VK-RIKDYLTR 159
           ++ RI+  L R
Sbjct: 113 LEARIRSVLRR 123

Length = 240

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

 Score = 54.0 bits (129), Expect = 9e-09
 Identities = 31/89 (34%), Positives = 51/89 (57%), Gaps = 1/89 (1%)

Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+ D+ +PG +G + +K +K  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVR 93

Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D+I KP    + V RIK  + R
Sbjct: 94  GLETGADDYITKPFSPKELVARIKAVMRR 122

Length = 229

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

 Score = 53.1 bits (128), Expect = 2e-08
 Identities = 29/94 (30%), Positives = 52/94 (55%), Gaps = 11/94 (11%)

Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID- 130
           D ++++   +    DLI+ D+ +PG +G EL ++++     R IP+++++     AR + 
Sbjct: 34  DGDEALTLINERGPDLILLDWMLPGTSGIELCRRLRRRPETRAIPIIMLT-----ARGEE 88

Query: 131 ----RCLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
               R LE GA+D+I KP    + + RIK  L R
Sbjct: 89  EDRVRGLETGADDYITKPFSPRELLARIKAVLRR 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|181815 PRK09390, fixJ, response regulator FixJ; Provisional

 Score = 52.3 bits (126), Expect = 2e-08
 Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 13/118 (11%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           +++  V  VDD    R  +  LL  +  +V   +S   A  FL        +   GL+  
Sbjct: 1   SDKGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFES---AQAFL--------DALPGLRFG 49

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
            ++TD  MPG+ G ELL+++K   +   +PV++M+    +      ++ GA DFI KP
Sbjct: 50  CVVTDVRMPGIDGIELLRRLKARGSP--LPVIVMTGHGDVPLAVEAMKLGAVDFIEKP 105

Length = 202

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

 Score = 52.2 bits (125), Expect = 5e-08
 Identities = 33/135 (24%), Positives = 56/135 (41%), Gaps = 15/135 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           ++ VDD     K++  +L+ +  +V +      AL  L           +  K DLI  D
Sbjct: 3   IIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLL-----------EVFKPDLIFLD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
             MP M G E  ++++D      +P++ +SS       D       +D++ KPV    + 
Sbjct: 52  IVMPYMNGIEFAEQVRD--IESAVPIIFISSHA--EYADDSFGMNLDDYLPKPVTPEKLN 107

Query: 152 RIKDYLTRDVNLGNE 166
           R  D   + V L  E
Sbjct: 108 RAIDRRLKRVELTAE 122

Length = 361

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

 Score = 51.3 bits (123), Expect = 5e-08
 Identities = 30/89 (33%), Positives = 55/89 (61%), Gaps = 9/89 (10%)

Query: 78  NGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           NG DGL +      DLII D  +PGM G+++L+ ++ S   ++ PV+ +++ + +A   +
Sbjct: 30  NGRDGLHLALKDDYDLIILDVMLPGMDGWQILQTLRRSG--KQTPVLFLTARDSVADKVK 87

Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            L+ GA+D++VKP   S+ + R++  L R
Sbjct: 88  GLDLGADDYLVKPFSFSELLARVRTLLRR 116

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

 Score = 51.0 bits (122), Expect = 1e-07
 Identities = 35/118 (29%), Positives = 56/118 (47%), Gaps = 13/118 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+ER L  +    T  ++G   L+ L                D++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTP-----------DVLLSD 54

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
             MPGM G  LLK+IK    +  +PV+IM++ + L       + GA D++ KP  + +
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110

Length = 469

>gnl|CDD|172377 PRK13856, PRK13856, two-component response regulator VirG; Provisional

 Score = 49.4 bits (118), Expect = 3e-07
 Identities = 38/127 (29%), Positives = 63/127 (49%), Gaps = 18/127 (14%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           HVL +DD    R +I   LTI + KVTAV   ++  + L  +            VD+++ 
Sbjct: 3   HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASE-----------TVDVVVV 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR--CLEDGAEDFIVKPVKLS 148
           D  +    G E+++ +   S   ++P++I+S +  L   D+   LE GA DFI KP    
Sbjct: 52  DLNLGREDGLEIVRSLATKS---DVPIIIISGDR-LEEADKVVALELGATDFIAKPFGTR 107

Query: 149 D-VKRIK 154
           + + RI+
Sbjct: 108 EFLARIR 114

Length = 241

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

 Score = 50.4 bits (121), Expect = 3e-07
 Identities = 39/129 (30%), Positives = 69/129 (53%), Gaps = 17/129 (13%)

Query: 25  SDTEEVHVLAVDDSFVDRKVI-ERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
           SD +++ +L VDD  ++R+++ ++L ++     TA D G  AL  L  +           
Sbjct: 797 SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTAND-GVDALNVLSKNH---------- 845

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR-IDRCLEDGAEDFIV 142
            +D+++TD  MP M GY L ++++       +PV+ +++ N LA    RCLE G +  + 
Sbjct: 846 -IDIVLTDVNMPNMDGYRLTQRLRQLG--LTLPVIGVTA-NALAEEKQRCLEAGMDSCLS 901

Query: 143 KPVKLSDVK 151
           KPV L  +K
Sbjct: 902 KPVTLDVLK 910

Length = 924

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

 Score = 49.8 bits (119), Expect = 4e-07
 Identities = 27/120 (22%), Positives = 53/120 (44%), Gaps = 13/120 (10%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD    R+++     +   +    ++GR AL                +  D+++ D
Sbjct: 7   ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFAD-----------IHPDVVLMD 55

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
             MP M G + LK+++        PV++M++   +      L  GA D+++KP  L ++ 
Sbjct: 56  IRMPEMDGIKALKEMRSHE--TRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELN 113

Length = 457

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

 Score = 48.7 bits (117), Expect = 1e-06
 Identities = 36/137 (26%), Positives = 59/137 (43%), Gaps = 26/137 (18%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V+AVDD+  + K+I  LL      V   DSG +A++     +++          DLI+ D
Sbjct: 670 VMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVE---QAKQRPF--------DLILMD 718

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVV-----IMSSENILARIDRCLEDGAEDFIVKPV- 145
             MPGM G    + I+     +  P++      M+ E      +R L  G +D++ KP+ 
Sbjct: 719 IQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAMAGER-----ERLLSAGMDDYLAKPID 773

Query: 146 --KLSDVKRIKDYLTRD 160
              L  V  +  Y    
Sbjct: 774 EAMLKQV--LLRYKPGP 788

Length = 919

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

 Score = 46.5 bits (111), Expect = 2e-06
 Identities = 31/127 (24%), Positives = 50/127 (39%), Gaps = 15/127 (11%)

Query: 24  PSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
                 VHV  VDD    R  +  LL  +  +V    S    L    LD           
Sbjct: 1   MPREPLVHV--VDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRP--------- 49

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               ++ D  MPGM+G EL  ++ +      +PV+ ++    +    + ++ GA DF+ K
Sbjct: 50  --GCLLLDVRMPGMSGLELQDRLAERGIR--LPVIFLTGHGDIPMAVQAMKAGAVDFLEK 105

Query: 144 PVKLSDV 150
           P    D+
Sbjct: 106 PFSEQDL 112

Length = 202

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

 Score = 45.7 bits (109), Expect = 4e-06
 Identities = 31/132 (23%), Positives = 58/132 (43%), Gaps = 20/132 (15%)

Query: 31  HVLAVDDSFVDRKVIERLLTIS---SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           +VL ++D  +  ++  R +      S   TA  +   A   +              K DL
Sbjct: 2   NVLIIEDDPMVAEIHRRYVKQIPGFSVVGTA-GTLEEAKMIIEE-----------FKPDL 49

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           I+ D  MP   G ELL +++  S    + V+++++ + +  I   L  G  D+++KP   
Sbjct: 50  ILLDIYMPDGNGIELLPELR--SQHYPVDVIVITAASDMETIKEALRYGVVDYLIKPFTF 107

Query: 148 SDVKRIKDYLTR 159
              +R++  LTR
Sbjct: 108 ---ERLQQALTR 116

Length = 224

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

 Score = 42.2 bits (100), Expect = 5e-06
 Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 11/65 (16%)

Query: 31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           +L VDD  + R++++ LL     +V     G  AL+ L              K DLI+ 
Sbjct: 2  RILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELL-----------KEEKPDLILL 50

Query: 91 DYCMP 95
          D  MP
Sbjct: 51 DIMMP 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|183172 PRK11517, PRK11517, transcriptional regulatory protein YedW; Provisional

 Score = 45.3 bits (107), Expect = 6e-06
 Identities = 30/119 (25%), Positives = 66/119 (55%), Gaps = 14/119 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L ++D+   ++ + + L+ +   + AV  GR  L +L L ++ +          LII D
Sbjct: 3   ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDDYA----------LIILD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
             +PGM G+++L+ ++ +   ++ PV+ +++ + +    R L+ GA D++VKP   S++
Sbjct: 52  IMLPGMDGWQILQTLRTA---KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSEL 107

Length = 223

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

 Score = 44.3 bits (104), Expect = 3e-05
 Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 16/132 (12%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           + + +L VDD      +++ LL      V   +SGR+AL      E+     FD     L
Sbjct: 4   DNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQAL------EQVREQVFD-----L 52

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           ++ D  M  M G   LK+IK  +    IPV+IM++ + +      L+ GA D+++KP+  
Sbjct: 53  VLCDVRMAEMDGIATLKEIKALNP--AIPVLIMTAYSSVETAVEALKTGALDYLIKPL-- 108

Query: 148 SDVKRIKDYLTR 159
            D   ++  L +
Sbjct: 109 -DFDNLQATLEK 119

Length = 441

>gnl|CDD|236842 PRK11091, PRK11091, aerobic respiration control sensor protein ArcB; Provisional

 Score = 43.8 bits (104), Expect = 5e-05
 Identities = 31/131 (23%), Positives = 63/131 (48%), Gaps = 20/131 (15%)

Query: 31  HVLAVDD----SFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           ++L V+D      V R V+E+L       V    +G+ AL+            FD  + D
Sbjct: 527 NILLVEDIELNVIVARSVLEKL----GNSVDVAMTGKEALEM-----------FDPDEYD 571

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK 146
           L++ D  +P MTG ++ +++++     ++P ++  + N+L      L+ G +D + KP+ 
Sbjct: 572 LVLLDIQLPDMTGLDIARELRERYPREDLPPLVALTANVLKDKKEYLDAGMDDVLSKPLS 631

Query: 147 LSDV-KRIKDY 156
           +  +   IK +
Sbjct: 632 VPALTAMIKKF 642

Length = 779

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

 Score = 42.4 bits (100), Expect = 6e-05
 Identities = 29/77 (37%), Positives = 46/77 (59%), Gaps = 8/77 (10%)

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL--EDGAEDFIVK 143
           DLI+ D  +PG  G  L ++I+  S   +IP+V+++++  +  IDR L  E GA+D+I K
Sbjct: 56  DLILLDLMLPGTDGLTLCREIRRFS---DIPIVMVTAK--IEEIDRLLGLEIGADDYICK 110

Query: 144 PVKLSD-VKRIKDYLTR 159
           P    + V R+K  L R
Sbjct: 111 PYSPREVVARVKTILRR 127

Length = 240

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

 Score = 41.8 bits (98), Expect = 9e-05
 Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 2/77 (2%)

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           D +I D  +PGM G ++L++ ++    +  PV+I+++ + LA     L  GA+D++ KP 
Sbjct: 46  DAVILDLTLPGMDGRDILREWREKG--QREPVLILTARDALAERVEGLRLGADDYLCKPF 103

Query: 146 KLSDVKRIKDYLTRDVN 162
            L +V    + L R  N
Sbjct: 104 ALIEVAARLEALMRRTN 120

Length = 219

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

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 34/132 (25%), Positives = 60/132 (45%), Gaps = 19/132 (14%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           H+L V+D  V R  ++         V+   SG                      VDLI+ 
Sbjct: 4   HILVVEDEPVTRARLQGYFEQEGYTVSEAASG-----------AGMREIMQNQHVDLILL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPVKLS 148
           D  +PG  G  L ++++  S    + +++++       IDR   LE GA+D++ KP++L 
Sbjct: 53  DINLPGEDGLMLTRELRSRS---TVGIILVTGRT--DSIDRIVGLEMGADDYVTKPLELR 107

Query: 149 D-VKRIKDYLTR 159
           + + R+K+ L R
Sbjct: 108 ELLVRVKNLLWR 119

Length = 221

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

 Score = 41.4 bits (97), Expect = 1e-04
 Identities = 21/75 (28%), Positives = 48/75 (64%), Gaps = 3/75 (4%)

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           DLII D  +P + G+++++ ++  SA + +P++++++   +    + LE GA+D++VKP 
Sbjct: 46  DLIILDIMLPDVNGWDIVRMLR--SANKGMPILLLTALGTIEHRVKGLELGADDYLVKPF 103

Query: 146 KLSD-VKRIKDYLTR 159
             ++ + R++  L R
Sbjct: 104 AFAELLARVRTLLRR 118

Length = 227

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

 Score = 41.4 bits (97), Expect = 2e-04
 Identities = 33/116 (28%), Positives = 53/116 (45%), Gaps = 13/116 (11%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            H+L VDD     K++   LT     V   +SG+ AL+ L  +           KVDL+I
Sbjct: 6   AHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNRE-----------KVDLVI 54

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           +D  M  M G +L  +I+       +PV+I+++   +       + G   F+ KPV
Sbjct: 55  SDLRMDEMDGMQLFAEIQKVQP--GMPVIILTAHGSIPDAVAATQQGVFSFLTKPV 108

Length = 444

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

 Score = 40.5 bits (95), Expect = 3e-04
 Identities = 28/97 (28%), Positives = 52/97 (53%), Gaps = 12/97 (12%)

Query: 80  FDGLKVD---------LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID 130
           FDGL  D         L + D  MPGM G E+L++++     + +PV+++++ + +A   
Sbjct: 31  FDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRG--QTLPVLLLTARSAVADRV 88

Query: 131 RCLEDGAEDFIVKPVKLSDVK-RIKDYLTRDVNLGNE 166
           + L  GA+D++ KP +L ++  R++  L R      E
Sbjct: 89  KGLNVGADDYLPKPFELEELDARLRALLRRSAGQVQE 125

Length = 221

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

 Score = 40.9 bits (96), Expect = 4e-04
 Identities = 43/182 (23%), Positives = 74/182 (40%), Gaps = 13/182 (7%)

Query: 21  DLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGF 80
            L+  D     VL V+D+ V++ V +  LT    KVT  +SG+ AL      E    + F
Sbjct: 694 TLTVIDLPPQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSAL------ECFHQHAF 747

Query: 81  DGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDF 140
           D   +D+ + D    G+T  + L+ I    A  E+  +  S+      + + L  G + F
Sbjct: 748 DLALLDINLPDG--DGVTLLQQLRAIYG--AKNEVKFIAFSAHVFNEDVAQYLAAGFDGF 803

Query: 141 IVKPVKLSDVKRIKDYLTRDVNLGNEGRGINKRKARESCDLSSSPPSVITSSSSPSSPSS 200
           + KPV     +++   +   +  G          A  S D +S   +        S+ +S
Sbjct: 804 LAKPVVE---EQLTAMIAVILAGGKSNTEAPVLSASPSFDSASVIENAQADDIPESNQAS 860

Query: 201 PF 202
            F
Sbjct: 861 EF 862

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|131922 TIGR02875, spore_0_A, sporulation transcription factor Spo0A

 Score = 40.2 bits (94), Expect = 4e-04
 Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 15/88 (17%)

Query: 78  NGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILA 127
           NG D L++      D+++ D  MP + G  +L+K+     L   P VIM S    E I  
Sbjct: 36  NGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLN-EIELSARPRVIMLSAFGQEKI-- 92

Query: 128 RIDRCLEDGAEDFIVKPVKLSD-VKRIK 154
              R +  GA+ +++KP  L     RI+
Sbjct: 93  -TQRAVALGADYYVLKPFDLEILAARIR 119

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

 Score = 40.2 bits (94), Expect = 4e-04
 Identities = 37/131 (28%), Positives = 64/131 (48%), Gaps = 20/131 (15%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD      +++ LL +    V     G +AL  L    + SI        DL++ D
Sbjct: 4   ILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLL----DDSI--------DLLLLD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPVKLSD 149
             MP   G + LK+++ +    + PV+++++    + +DR   LE GA+D++ KP    +
Sbjct: 52  VMMPKKNGIDTLKELRQT---HQTPVIMLTARG--SELDRVLGLELGADDYLPKPFNDRE 106

Query: 150 -VKRIKDYLTR 159
            V RI+  L R
Sbjct: 107 LVARIRAILRR 117

Length = 232

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

 Score = 39.9 bits (94), Expect = 4e-04
 Identities = 19/62 (30%), Positives = 38/62 (61%), Gaps = 6/62 (9%)

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIV 142
            DL+I D  +P ++G+EL +++   +    +PV+ +++ +    +DR   LE GA+D++ 
Sbjct: 48  PDLVILDVGLPDISGFELCRQLL--AFHPALPVIFLTARS--DEVDRLVGLEIGADDYVA 103

Query: 143 KP 144
           KP
Sbjct: 104 KP 105

Length = 228

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

 Score = 39.6 bits (93), Expect = 5e-04
 Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 5/82 (6%)

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILA-RIDRCLEDGAEDFIVKP 144
            L++ D  +P   G  LL++ +       +PV+I+++ + L  R+   L+ GA+D++VKP
Sbjct: 46  SLVVLDLGLPDEDGLHLLRRWRQKKY--TLPVLILTARDTLEDRVAG-LDVGADDYLVKP 102

Query: 145 VKLSDVK-RIKDYLTRDVNLGN 165
             L ++  RI+  + R    G 
Sbjct: 103 FALEELHARIRALIRRHQGQGE 124

Length = 222

>gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional

 Score = 38.9 bits (91), Expect = 8e-04
 Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 17/90 (18%)

Query: 67  QFLGLDEEQSI-----NGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREI 115
           Q + +  + ++     NG  G+++      DLI+ D  MPGM G E L K+++ S    I
Sbjct: 24  QLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI 83

Query: 116 PVVIMS--SENILARIDRCLEDGAEDFIVK 143
            V  +S   E+++      L+ GA+ +++K
Sbjct: 84  VVFSVSNHEEDVVT----ALKRGADGYLLK 109

Length = 216

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

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 6/65 (9%)

Query: 83  LKVDLIITDYCMPGMTGYELLKKIK-DSSALREIPVVIMSSENILARIDRCLEDGAEDFI 141
            K D  + D  MPGM G+EL +++K + + +  +  +  S+  +     R L+ GA+DF+
Sbjct: 31  HKPDYKLLDVMMPGMDGFELCRRLKAEPATVVMVTALDDSAPRV-----RGLKAGADDFL 85

Query: 142 VKPVK 146
            KPV 
Sbjct: 86  TKPVN 90

Length = 435

>gnl|CDD|182154 PRK09935, PRK09935, transcriptional regulator FimZ; Provisional

 Score = 38.7 bits (90), Expect = 0.001
 Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           VDLII D  +PG  G+  LK+IK       + V+ +SS++      R ++ GA  F+ K 
Sbjct: 50  VDLIIMDIDLPGTDGFTFLKRIK--QIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKC 107

Query: 145 VKLSDV 150
              +D+
Sbjct: 108 NDQNDI 113

Length = 210

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

 Score = 39.7 bits (92), Expect = 0.001
 Identities = 26/95 (27%), Positives = 49/95 (51%), Gaps = 8/95 (8%)

Query: 63   RRALQFLGLDEEQSINGFDGLK------VDLIITDYCMPGMTGYELLKKIKDSSALREIP 116
            +R L  LG D +++ +G   L        DL+ITD  MP M G+EL +K+++ ++   +P
Sbjct: 975  KRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNS--SLP 1032

Query: 117  VVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
            +  +++       ++ L  G    + KP+ L  +K
Sbjct: 1033 IWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLK 1067

Length = 1197

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

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 35/129 (27%), Positives = 64/129 (49%), Gaps = 15/129 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D    R+ +   L     +V   ++ +R     GL E  +       K DLII D
Sbjct: 4   VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQR-----GLLEAAT------RKPDLIILD 52

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
             +P   G E ++ ++  SA   IPV+++S+ +  +     L+ GA+D++ KP  + +++
Sbjct: 53  LGLPDGDGIEFIRDLRQWSA---IPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQ 109

Query: 152 -RIKDYLTR 159
            R++  L R
Sbjct: 110 ARLRVALRR 118

Length = 225

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

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 31/133 (23%), Positives = 60/133 (45%), Gaps = 20/133 (15%)

Query: 30  VHVLAVDD----SFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
           ++VL VDD    + ++R+ + ++     C   +     + + F   + +  I        
Sbjct: 2   INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEIIF---NSDTPI-------- 50

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           DLI+ D  M    G +LL  + ++    +  V+++SS    A I   L  G  D+++KP 
Sbjct: 51  DLILLDIYMQQENGLDLLPVLHEAG--CKSDVIVISSAADAATIKDSLHYGVVDYLIKPF 108

Query: 146 KLSDVKRIKDYLT 158
           + S   R ++ LT
Sbjct: 109 QAS---RFEEALT 118

Length = 239

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

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 34/128 (26%), Positives = 52/128 (40%), Gaps = 16/128 (12%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL VDD  + R+ + R+L      +  V       + L L          GL+ DL+  D
Sbjct: 4   VLIVDDEPLAREELRRILNEI-PDIEIVGEAENGEEALQL--------LQGLRPDLVFLD 54

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
             MP + G EL  +I+       I  V    E  +A      E  A D+++KP+     +
Sbjct: 55  IAMPDINGIELAARIRKGDPRPAIVFVTAHDEYAVA----AFEVEALDYLLKPI---SEE 107

Query: 152 RIKDYLTR 159
           R+   L R
Sbjct: 108 RLAKTLER 115

Length = 244

>gnl|CDD|182168 PRK09958, PRK09958, DNA-binding transcriptional activator EvgA; Provisional

 Score = 37.6 bits (87), Expect = 0.003
 Identities = 27/110 (24%), Positives = 51/110 (46%), Gaps = 14/110 (12%)

Query: 35  VDDSFVDRKVIERLLTISSCKVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYC 93
           +DD  +    I  LL  +  ++ A +  G  A+Q +           + LK D++I D  
Sbjct: 6   IDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRV-----------ETLKPDIVIIDVD 54

Query: 94  MPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
           +PG+ G ++L+ ++       I  +I+S++N       C + GA  F+ K
Sbjct: 55  IPGVNGIQVLETLRKRQYSGII--IIVSAKNDHFYGKHCADAGANGFVSK 102

Length = 204

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	233
COG0745	229	OmpR Response regulators consisting of a CheY-like	99.91
COG2204	464	AtoC Response regulator containing CheY-like recei	99.87
COG4753	475	Response regulator containing CheY-like receiver d	99.85
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.85
PF00072	112	Response_reg: Response regulator receiver domain;	99.84
PLN03029	222	type-a response regulator protein; Provisional	99.84
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.84
COG3437	360	Response regulator containing a CheY-like receiver	99.82
COG2197	211	CitB Response regulator containing a CheY-like rec	99.79
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.77
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.77
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.77
COG4567	182	Response regulator consisting of a CheY-like recei	99.75
COG3706	435	PleD Response regulator containing a CheY-like rec	99.74
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.73
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.73
PRK11173	237	two-component response regulator; Provisional	99.72
COG3947	361	Response regulator containing CheY-like receiver a	99.72
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.72
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.72
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.72
PRK10161	229	transcriptional regulator PhoB; Provisional	99.71
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.71
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.71
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.7
PRK09468	239	ompR osmolarity response regulator; Provisional	99.7
PRK10840	216	transcriptional regulator RcsB; Provisional	99.7
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.7
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.69
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.68
PRK15347	921	two component system sensor kinase SsrA; Provision	99.68
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.68
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.68
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.68
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.68
CHL00148	240	orf27 Ycf27; Reviewed	99.68
PRK13856	241	two-component response regulator VirG; Provisional	99.67
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.67
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.67
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.66
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.66
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.65
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.64
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.64
PRK09483	217	response regulator; Provisional	99.64
PRK15115	444	response regulator GlrR; Provisional	99.64
PRK14084	246	two-component response regulator; Provisional	99.64
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.64
PRK09581	457	pleD response regulator PleD; Reviewed	99.63
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.63
PRK09935	210	transcriptional regulator FimZ; Provisional	99.63
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.62
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.6
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.6
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.6
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.6
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.59
PRK11697	238	putative two-component response-regulatory protein	99.59
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.58
PRK09390	202	fixJ response regulator FixJ; Provisional	99.58
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.57
PRK09581	457	pleD response regulator PleD; Reviewed	99.57
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.56
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.55
PRK13435	145	response regulator; Provisional	99.54
PRK10651	216	transcriptional regulator NarL; Provisional	99.54
PRK13558	665	bacterio-opsin activator; Provisional	99.54
PRK10403	215	transcriptional regulator NarP; Provisional	99.53
PRK15369	211	two component system sensor kinase SsrB; Provision	99.52
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.52
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.49
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.47
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.43
COG3707	194	AmiR Response regulator with putative antiterminat	99.42
PRK09191	261	two-component response regulator; Provisional	99.4
cd00156	113	REC Signal receiver domain; originally thought to	99.35
PRK13557	540	histidine kinase; Provisional	99.32
PRK10693	303	response regulator of RpoS; Provisional	99.3
PRK15029	755	arginine decarboxylase; Provisional	99.26
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.19
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.62
COG3706	435	PleD Response regulator containing a CheY-like rec	98.15
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	97.89
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	97.85
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	97.62
PRK02261	137	methylaspartate mutase subunit S; Provisional	97.56
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	97.56
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	97.39
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.07
PRK10618	894	phosphotransfer intermediate protein in two-compon	96.61
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	96.43
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	96.38
PRK15399	713	lysine decarboxylase LdcC; Provisional	96.17
COG4999	140	Uncharacterized domain of BarA-like signal transdu	96.04
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	96.03
PRK15400	714	lysine decarboxylase CadA; Provisional	95.93
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	95.5
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	95.44
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	95.37
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	95.27
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	95.11
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	94.37
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	93.41
PRK00208	250	thiG thiazole synthase; Reviewed	93.16
COG0512	191	PabA Anthranilate/para-aminobenzoate synthases com	92.99
PRK10558	256	alpha-dehydro-beta-deoxy-D-glucarate aldolase; Pro	92.5
PRK03958	176	tRNA 2'-O-methylase; Reviewed	91.87
TIGR03239	249	GarL 2-dehydro-3-deoxyglucarate aldolase. In E. co	91.26
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	90.66
PRK10128	267	2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	90.42
TIGR02311	249	HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	90.12
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	90.01
PF07688	283	KaiA: KaiA domain; InterPro: IPR011648 KaiA is a c	89.4
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	89.1
PRK08385	278	nicotinate-nucleotide pyrophosphorylase; Provision	89.04
PF02254	116	TrkA_N: TrkA-N domain; InterPro: IPR003148 The reg	88.25
COG3836	255	HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	87.92
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	87.34
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	87.19
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	87.13
KOG4175	268	consensus Tryptophan synthase alpha chain [Amino a	85.83
COG2022	262	ThiG Uncharacterized enzyme of thiazole biosynthes	85.75
TIGR01334	277	modD putative molybdenum utilization protein ModD.	85.75
PRK07896	289	nicotinate-nucleotide pyrophosphorylase; Provision	85.7
PF05690	247	ThiG: Thiazole biosynthesis protein ThiG; InterPro	85.7
PRK05749	425	3-deoxy-D-manno-octulosonic-acid transferase; Revi	85.17
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	84.79
PLN02591	250	tryptophan synthase	84.54
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	84.51
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	84.48
TIGR00566	188	trpG_papA glutamine amidotransferase of anthranila	84.48
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	84.47
PRK03659	601	glutathione-regulated potassium-efflux system prot	84.04
PLN02335	222	anthranilate synthase	84.04
PRK06543	281	nicotinate-nucleotide pyrophosphorylase; Provision	83.79
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	83.05
CHL00200	263	trpA tryptophan synthase alpha subunit; Provisiona	83.04
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	81.79
cd05212	140	NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding dom	81.41
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	81.06
PRK03562	621	glutathione-regulated potassium-efflux system prot	80.69
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	80.25
TIGR02855	283	spore_yabG sporulation peptidase YabG. Members of	80.14

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

Probab=99.91  E-value=3.1e-23  Score=172.09  Aligned_cols=119  Identities=21%  Similarity=0.349  Sum_probs=108.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++|||||||+..+..+..+|+..||+|..+.++.++++.+           ... ||+||+|++||+++|+++|++||+.
T Consensus         1 ~~ILiveDd~~i~~~l~~~L~~~g~~v~~~~~~~~a~~~~-----------~~~-~dlviLD~~lP~~dG~~~~~~iR~~   68 (229)
T COG0745           1 MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAA-----------REQ-PDLVLLDLMLPDLDGLELCRRLRAK   68 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcC-CCEEEEECCCCCCCHHHHHHHHHhh
Confidence            5799999999999999999999999999999999999998           556 9999999999999999999999965


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                       ....+|||++|+..+......++++|||||+.|||++.||...++.+.|+.
T Consensus        69 -~~~~~PIi~Lta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~  119 (229)
T COG0745          69 -KGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRN  119 (229)
T ss_pred             -cCCCCcEEEEECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcC
Confidence             445889999999999999999999999999999999999976666665544

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

Probab=99.87  E-value=1.7e-21  Score=174.05  Aligned_cols=122  Identities=32%  Similarity=0.482  Sum_probs=111.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ..+||||||+...+..+...|+..||.|..+.++.+|++++.           ...+|+||+|+.||++||+++++.+++
T Consensus         4 ~~~iLvVDDd~~ir~~l~~~L~~~G~~v~~a~~~~~al~~i~-----------~~~~~lvl~Di~mp~~~Gl~ll~~i~~   72 (464)
T COG2204           4 MARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALS-----------ESPFDLVLLDIRMPGMDGLELLKEIKS   72 (464)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHh-----------cCCCCEEEEecCCCCCchHHHHHHHHh
Confidence            456999999999999999999999999999999999999993           347999999999999999999999999


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhhc
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNL  163 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~~  163 (233)
                      ..+  .+|+|++|++++.+.+++|++.||.|||.|||+.++|..++++.......
T Consensus        73 ~~~--~~pVI~~Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~~~~  125 (464)
T COG2204          73 RDP--DLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALELREL  125 (464)
T ss_pred             hCC--CCCEEEEeCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHHhhh
Confidence            876  99999999999999999999999999999999999998777766654443

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

Probab=99.85  E-value=9.1e-21  Score=169.28  Aligned_cols=120  Identities=27%  Similarity=0.497  Sum_probs=108.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHh--hcCCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLT--ISSCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~--~~g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+||||||++..|++|+.++.  ..|+++ ..|.||.+|++.+           ...+|||||+|++||+|||+++++.+
T Consensus         2 ykVlIVDDE~lIr~GLk~lI~w~~~g~eiVgtA~NG~eAleli-----------~e~~pDiviTDI~MP~mdGLdLI~~i   70 (475)
T COG4753           2 YKVLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELI-----------QETQPDIVITDINMPGMDGLDLIKAI   70 (475)
T ss_pred             eeEEEecChHHHHHHHHHhCChhhcCCeEEEecccHHHHHHHH-----------HhcCCCEEEEecCCCCCcHHHHHHHH
Confidence            589999999999999999984  567755 5699999999999           67789999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVN  162 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~  162 (233)
                      ++..+  .+.+|++|++.+.+++..|++.|+.|||+||++-++|..++..+...+.
T Consensus        71 ke~~p--~~~~IILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~kl~  124 (475)
T COG4753          71 KEQSP--DTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIGKLE  124 (475)
T ss_pred             HHhCC--CceEEEEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHHHHH
Confidence            99776  9999999999999999999999999999999999999877776665443

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.85  E-value=1.7e-20  Score=147.35  Aligned_cols=118  Identities=24%  Similarity=0.332  Sum_probs=107.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ..-|.|||||..+++.+..+|+..||.+.++.++.+.+...           ....|-|+|+|+.||+++|.++.+.|.+
T Consensus         4 ~~~V~vVDDD~~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~-----------~~~~pGclllDvrMPg~sGlelq~~L~~   72 (202)
T COG4566           4 EPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAA-----------PLDRPGCLLLDVRMPGMSGLELQDRLAE   72 (202)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHHhCCceeeeecCHHHHHhhc-----------cCCCCCeEEEecCCCCCchHHHHHHHHh
Confidence            45689999999999999999999999999999999999875           4567899999999999999999999999


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ...  ..|||++|++++.....++++.||.|||.||++.+.|..++.+..+
T Consensus        73 ~~~--~~PVIfiTGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~  121 (202)
T COG4566          73 RGI--RLPVIFLTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALA  121 (202)
T ss_pred             cCC--CCCEEEEeCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHH
Confidence            876  9999999999999999999999999999999999998766655443

>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=99.84  E-value=8.3e-20  Score=133.94  Aligned_cols=110  Identities=32%  Similarity=0.555  Sum_probs=103.5

Q ss_pred             EEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           32 VLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      ||||||++..+..++.+|+..|+ .+..+.++.++++.+           ....||+||+|+.|++++|+++++.|+...
T Consensus         1 Ilivd~~~~~~~~l~~~l~~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~iiid~~~~~~~~~~~~~~i~~~~   69 (112)
T PF00072_consen    1 ILIVDDDPEIRELLEKLLERAGYEEVTTASSGEEALELL-----------KKHPPDLIIIDLELPDGDGLELLEQIRQIN   69 (112)
T ss_dssp             EEEEESSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHH-----------HHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred             cEEEECCHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHh-----------cccCceEEEEEeeecccccccccccccccc
Confidence            79999999999999999999999 999999999999999           456799999999999999999999999887


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHH
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIK  154 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~  154 (233)
                      +  .+++|+++...+.....+++++|+++||.||++.++|.+.+
T Consensus        70 ~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i  111 (112)
T PF00072_consen   70 P--SIPIIVVTDEDDSDEVQEALRAGADDYLSKPFSPEELRAAI  111 (112)
T ss_dssp             T--TSEEEEEESSTSHHHHHHHHHTTESEEEESSSSHHHHHHHH
T ss_pred             c--cccEEEecCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHhh
Confidence            4  99999999999999999999999999999999999997765

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 ....

>PLN03029 type-a response regulator protein; Provisional

Probab=99.84  E-value=1.9e-19  Score=148.99  Aligned_cols=134  Identities=63%  Similarity=1.022  Sum_probs=110.4

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhh---------ccCCCCCcccEEEEcCCCCC
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQS---------INGFDGLKVDLIITDYCMPG   96 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~---------~~~~~~~~~DlvllD~~mp~   96 (233)
                      ...+++||||||+...+..+..+|+..||.+..+.++.+++..+.......         .+......+|+||+|+.||+
T Consensus         5 ~~~~~~VLiVdd~~~~~~~l~~~L~~~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~   84 (222)
T PLN03029          5 TESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPG   84 (222)
T ss_pred             CCCCccEEEEeCCHHHHHHHHHHHHHcCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCC
Confidence            346799999999999999999999999999999999999999874211000         00001235789999999999


Q ss_pred             CCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           97 MTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        97 ~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++|+++++.|++......+|+|++++........++++.|+++||.||++..+|.++...+.+
T Consensus        85 ~~G~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~  147 (222)
T PLN03029         85 MTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMK  147 (222)
T ss_pred             CCHHHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHH
Confidence            999999999998654458899999999988989999999999999999999999777665544

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

Probab=99.84  E-value=5e-20  Score=147.33  Aligned_cols=121  Identities=20%  Similarity=0.371  Sum_probs=107.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhc-CC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTIS-SC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~-g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|||||||+.+.+.-+.+++.. || .|..+.++++|...+           ....||+||+|+-||+.+|++++.+||
T Consensus         1 i~VLIiEDD~mVaeih~~yv~~~~gF~~vg~A~~~~ea~~~i-----------~~~~pDLILLDiYmPd~~Gi~lL~~ir   69 (224)
T COG4565           1 INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMII-----------EEFKPDLILLDIYMPDGNGIELLPELR   69 (224)
T ss_pred             CcEEEEcCchHHHHHHHHHHHhCCCceEEEeeccHHHHHHHH-----------HhhCCCEEEEeeccCCCccHHHHHHHH
Confidence            58999999999999999999876 66 455789999999999           566789999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhhc
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNL  163 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~~  163 (233)
                      +...  .+-||++|+-.+.+.+.++++.|+.|||.|||..+.|...+....+....
T Consensus        70 ~~~~--~~DVI~iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~~r~~  123 (224)
T COG4565          70 SQHY--PVDVIVITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQKRHA  123 (224)
T ss_pred             hcCC--CCCEEEEeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHHHHHH
Confidence            8766  88999999999999999999999999999999999998777766654433

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

Probab=99.82  E-value=1.2e-19  Score=155.29  Aligned_cols=125  Identities=30%  Similarity=0.476  Sum_probs=113.2

Q ss_pred             ccCCCCCCCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCC
Q 026776           19 GFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMT   98 (233)
Q Consensus        19 ~~~~~~~~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~   98 (233)
                      .+.++....++++||+|||++..+..+..+|+..||++..+++|+++++..           ..+.+|+||+|++||+|+
T Consensus         4 ~~~~~~~~~~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~-----------~~~~~dlvllD~~mp~md   72 (360)
T COG3437           4 SMQGKNEPDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLL-----------QEEPPDLVLLDVRMPEMD   72 (360)
T ss_pred             ccCCCCCCcccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHh-----------cccCCceEEeeccCCCcc
Confidence            344555566789999999999999999999999999999999999999988           556699999999999999


Q ss_pred             HHHHHHHHhc-cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHH
Q 026776           99 GYELLKKIKD-SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIK  154 (233)
Q Consensus        99 g~~ll~~Lr~-~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~  154 (233)
                      |+++|.+|+. .+.+..+|+|++|+..+.+...+++..|+++||.||+++.+|...+
T Consensus        73 g~ev~~~lk~~~p~t~~ip~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv  129 (360)
T COG3437          73 GAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARV  129 (360)
T ss_pred             HHHHHHHHHhcCCcccccceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHH
Confidence            9999999999 6667789999999999999999999999999999999998886544

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

Probab=99.79  E-value=4.3e-18  Score=139.81  Aligned_cols=117  Identities=28%  Similarity=0.491  Sum_probs=105.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-CEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-CKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|+|+||++.++..++.+|...+ ++|. .+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus         1 ~~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~-----------~~~~pdvvl~Dl~mP~~~G~e~~~~l~   69 (211)
T COG2197           1 IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLA-----------RELKPDVVLLDLSMPGMDGLEALKQLR   69 (211)
T ss_pred             CeEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHh-----------hhcCCCEEEEcCCCCCCChHHHHHHHH
Confidence            479999999999999999998775 7654 577899999987           567899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .++++++|.+.+..++.+++++|+++|+.|..+.++|.++++.+..
T Consensus        70 ~~~p--~~~vvvlt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~  119 (211)
T COG2197          70 ARGP--DIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAA  119 (211)
T ss_pred             HHCC--CCcEEEEeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            7665  8899999999999999999999999999999999999888777654

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

Probab=99.77  E-value=4.9e-18  Score=162.81  Aligned_cols=124  Identities=30%  Similarity=0.477  Sum_probs=111.4

Q ss_pred             CCCCCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHH
Q 026776           23 SPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYEL  102 (233)
Q Consensus        23 ~~~~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~l  102 (233)
                      .....++.+||+|||+..++.+...+|+.+|+++.++.+|.+|++.+.          ..+.||+||+|++||.|||+++
T Consensus       660 ~~~~l~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~sg~e~l~~~~----------~~~~y~~ifmD~qMP~mDG~e~  729 (786)
T KOG0519|consen  660 DSKLLTGPKILLVDDNPVNRKVATGMLKKLGAEVTEVNSGQEALDKLK----------PPHSYDVIFMDLQMPEMDGYEA  729 (786)
T ss_pred             ccccccCCceEEEecccchHHHHHHHHHHhCCeeEeecCcHHHHHhcC----------CCCcccEEEEEcCCcccchHHH
Confidence            333466789999999999999999999999999999999999999983          2578999999999999999999


Q ss_pred             HHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          103 LKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      .++||+... ..+|||++|++.+.....+|++.|+|+||.||++.+.|...+..+
T Consensus       730 ~~~irk~~~-~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~~l~~~l~~~  783 (786)
T KOG0519|consen  730 TREIRKKER-WHLPIVALTADADPSTEEECLEVGMDGYLSKPFTLEKLVKILREF  783 (786)
T ss_pred             HHHHHHhhc-CCCCEEEEecCCcHHHHHHHHHhCCceEEcccccHHHHHHHHHHH
Confidence            999998664 689999999999999999999999999999999988887665543

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.77  E-value=2.8e-17  Score=135.96  Aligned_cols=120  Identities=15%  Similarity=0.258  Sum_probs=106.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++..+..+..+|... ++ .+..+.++.++++.+           ....||+||+|+.||+++|+++++.
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~-----------~~~~pdlvllD~~mp~~~gle~~~~   71 (225)
T PRK10046          3 APLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMI-----------ERFKPGLILLDNYLPDGRGINLLHE   71 (225)
T ss_pred             CcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHH-----------HhcCCCEEEEeCCCCCCcHHHHHHH
Confidence            4689999999999999999999864 67 467899999999988           4567999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      |++...  ..+||++|+..+.....++++.|+++|+.||++.++|...++.+...
T Consensus        72 l~~~~~--~~~iivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~~  124 (225)
T PRK10046         72 LVQAHY--PGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQR  124 (225)
T ss_pred             HHhcCC--CCCEEEEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHHH
Confidence            998654  67899999999999999999999999999999999998777665443

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

Probab=99.77  E-value=4.7e-17  Score=122.25  Aligned_cols=115  Identities=35%  Similarity=0.598  Sum_probs=100.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHH-HHHHHhhhhhhhhccCCCCC-cccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGR-RALQFLGLDEEQSINGFDGL-KVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~-~al~~l~~~~~~~~~~~~~~-~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ...+||+|||++..+..+...|...|+.+..+.++. ++++.+           ... .||+|++|+.||+++|++++++
T Consensus         4 ~~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~-----------~~~~~~dlii~D~~mp~~~G~~~~~~   72 (130)
T COG0784           4 SGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELL-----------RELPQPDLILLDINMPGMDGIELLRR   72 (130)
T ss_pred             CCcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHH-----------HhCCCCCEEEEeCCCCCCCHHHHHHH
Confidence            568999999999999999999999999999999996 999998           445 4999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHH
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKD  155 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~  155 (233)
                      +++..  ..+|+|++|++........+++.|+++|+.||+...+ |...+.
T Consensus        73 l~~~~--~~~pvv~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~  121 (130)
T COG0784          73 LRARG--PNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALR  121 (130)
T ss_pred             HHhCC--CCCCEEEEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHH
Confidence            99863  3678888999888776777899999999999977666 554444

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

Probab=99.75  E-value=3.5e-17  Score=124.10  Aligned_cols=111  Identities=18%  Similarity=0.276  Sum_probs=105.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      ..||||||..+...|.+.++.-||.|..+.+.++++..+           +...|...++|+.|.+.+|+++++.||+..
T Consensus        11 ~lllvdDD~~f~~~LaRa~e~RGf~v~~a~~~~eal~~a-----------rt~~PayAvvDlkL~~gsGL~~i~~lr~~~   79 (182)
T COG4567          11 SLLLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAA-----------RTAPPAYAVVDLKLGDGSGLAVIEALRERR   79 (182)
T ss_pred             eeEEecCChHHHHHHHHHHhccCceeEeeccHHHHHHHH-----------hcCCCceEEEEeeecCCCchHHHHHHHhcC
Confidence            799999999999999999999999999999999999998           677899999999999999999999999987


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHH
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIK  154 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~  154 (233)
                      .  +..||++|++.+...+++|++.||++||.||.+.+++.+++
T Consensus        80 ~--d~rivvLTGy~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl  121 (182)
T COG4567          80 A--DMRIVVLTGYASIATAVEAVKLGACDYLAKPADADDILAAL  121 (182)
T ss_pred             C--cceEEEEecchHHHHHHHHHHhhhhhhcCCCCChHHHHHHH
Confidence            7  99999999999999999999999999999999999986654

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

Probab=99.74  E-value=6.7e-17  Score=143.69  Aligned_cols=113  Identities=30%  Similarity=0.547  Sum_probs=107.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+||+|||+...+..++.+|...||++..+.++.+|+..+           .+.+||+||+|+.||++||+++++.+|
T Consensus       131 ~~~kILvvdD~~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~~-----------~e~~~dlil~d~~mp~~dg~el~~~lr  199 (435)
T COG3706         131 APKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQL-----------AELPPDLVLLDANMPDMDGLELCTRLR  199 (435)
T ss_pred             cCceEEEEcCcHHHHHHHHHHHHhccceeeeecCHHHHHHHH-----------hcCCCcEEEEecCCCccCHHHHHHHHh
Confidence            578999999999999999999999999999999999999998           456899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK  151 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~  151 (233)
                      +......+|+|++++..+.....++++.|++||+.||+...++.
T Consensus       200 ~~~~t~~ipii~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~  243 (435)
T COG3706         200 QLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPIEEGELR  243 (435)
T ss_pred             cccccccccEEEEecccchHHHHHHHHcCCcceEecCCCHHHHH
Confidence            98888899999999999999999999999999999999977774

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.73  E-value=2.1e-16  Score=129.36  Aligned_cols=117  Identities=22%  Similarity=0.423  Sum_probs=105.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      |+||+|||+...+..+...|+..|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++..
T Consensus         1 m~iLlv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~-----------~~~~~dlvild~~l~~~~g~~l~~~lr~~   69 (223)
T PRK10816          1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYL-----------NEHLPDIAIVDLGLPDEDGLSLIRRWRSN   69 (223)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hhCCCCEEEEECCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999887           45679999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|+|++++..+......+++.|+++|+.||++..+|...+..+.+
T Consensus        70 ~~--~~pii~ls~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~  117 (223)
T PRK10816         70 DV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (223)
T ss_pred             CC--CCCEEEEEcCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            54  8899999999999999999999999999999999998766665544

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.73  E-value=2.9e-16  Score=128.89  Aligned_cols=117  Identities=22%  Similarity=0.417  Sum_probs=105.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      |+||++||++..+..+...|...|+.+..+.++.++++.+           ....||+||+|+.+|+++|+++++.+++.
T Consensus         1 m~iliv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~~~~~~g~~~~~~lr~~   69 (227)
T PRK09836          1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLA-----------MTGDYDLIILDIMLPDVNGWDIVRMLRSA   69 (227)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hhCCCCEEEEECCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999877           45579999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|+|+++...+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  117 (227)
T PRK09836         70 NK--GMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLR  117 (227)
T ss_pred             CC--CCCEEEEEcCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            54  7899999999999999999999999999999999999766665544

>PRK11173 two-component response regulator; Provisional

Probab=99.72  E-value=3.5e-16  Score=129.53  Aligned_cols=118  Identities=23%  Similarity=0.416  Sum_probs=105.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +..+||+|||++..+..+...|+..|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++
T Consensus         2 ~~~~iLiv~dd~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~lr   70 (237)
T PRK11173          2 QTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL-----------SENDINLVIMDINLPGKNGLLLARELR   70 (237)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hhCCCCEEEEcCCCCCCCHHHHHHHHh
Confidence            346899999999999999999999999999999999999988           455799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +. .  .+|+|++++..+......+++.|+++|+.||++..+|...+..+.+
T Consensus        71 ~~-~--~~pii~lt~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~  119 (237)
T PRK11173         71 EQ-A--NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  119 (237)
T ss_pred             cC-C--CCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHh
Confidence            74 2  7899999999888888899999999999999999999655555444

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

Probab=99.72  E-value=2.5e-17  Score=137.25  Aligned_cols=119  Identities=27%  Similarity=0.441  Sum_probs=107.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++|+|||||......+..+|.+.|+.+..++...++++.+           ..+.||+||+|+.||+++|+++++++|..
T Consensus         1 ~~~iiVDdd~a~~~~l~~iLs~~~~~~~~~~~~~eal~~L-----------e~~kpDLifldI~mp~~ngiefaeQvr~i   69 (361)
T COG3947           1 PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLL-----------EVFKPDLIFLDIVMPYMNGIEFAEQVRDI   69 (361)
T ss_pred             CcEEEEcchHHHHHHHHHHHHhccchhhccCCHHHHHHHH-----------HhcCCCEEEEEeecCCccHHHHHHHHHHh
Confidence            5799999999999999999999999999999999999999           67789999999999999999999999998


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhhc
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNL  163 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~~  163 (233)
                      .+  .++||++|++.  ++....+...++|||.||++.+.|.+++.++.+....
T Consensus        70 ~~--~v~iifIssh~--eya~dsf~~n~~dYl~KPvt~ekLnraIdr~~k~ve~  119 (361)
T COG3947          70 ES--AVPIIFISSHA--EYADDSFGMNLDDYLPKPVTPEKLNRAIDRRLKRVEL  119 (361)
T ss_pred             hc--cCcEEEEecch--hhhhhhcccchHhhccCCCCHHHHHHHHHHHhccccc
Confidence            76  99999999986  5566778888899999999999999998887765443

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

Probab=99.72  E-value=2.6e-16  Score=153.94  Aligned_cols=120  Identities=26%  Similarity=0.522  Sum_probs=110.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ...++||||||++.++..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus       799 ~~~~~ILvVdD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l-----------~~~~~DlVl~D~~mP~mdG~el~~~i  867 (924)
T PRK10841        799 NDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-----------SKNHIDIVLTDVNMPNMDGYRLTQRL  867 (924)
T ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEcCCCCCCCHHHHHHHH
Confidence            3568999999999999999999999999999999999999998           45679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+...  .+|||++|+....+...+++++|+++||.||++.++|...+..+.+
T Consensus       868 r~~~~--~~pII~lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~~  918 (924)
T PRK10841        868 RQLGL--TLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYAE  918 (924)
T ss_pred             HhcCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            98765  8999999999998899999999999999999999999887766544

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.72  E-value=4.6e-16  Score=127.41  Aligned_cols=116  Identities=25%  Similarity=0.388  Sum_probs=104.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||+|||++..+..+...|...|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~lr~~   70 (225)
T PRK10529          2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEA-----------ATRKPDLIILDLGLPDGDGIEFIRDLRQW   70 (225)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            5799999999999999999999999999999999998877           45579999999999999999999999974


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                         ..+|+|++++..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        71 ---~~~pvi~lt~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~  117 (225)
T PRK10529         71 ---SAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (225)
T ss_pred             ---CCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence               27899999999988889999999999999999999999776665544

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.72  E-value=5.7e-16  Score=126.03  Aligned_cols=117  Identities=23%  Similarity=0.395  Sum_probs=105.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||+|||+...+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+++|+++++.++..
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~illd~~~~~~~g~~~~~~l~~~   69 (222)
T PRK10643          1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALL-----------ESGHYSLVVLDLGLPDEDGLHLLRRWRQK   69 (222)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhCCCCEEEEECCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999887           44579999999999999999999999976


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..  .+|+|+++...+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~~--~~pii~ls~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  117 (222)
T PRK10643         70 KY--TLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIR  117 (222)
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHh
Confidence            54  7899999999988999999999999999999999999776665544

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.71  E-value=6.4e-16  Score=126.99  Aligned_cols=120  Identities=27%  Similarity=0.405  Sum_probs=107.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|...|+++..+.++.+++..+           ....||+||+|+.|++++|+++++.++..
T Consensus         3 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~l~~~   71 (229)
T PRK10161          3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQL-----------NEPWPDLILLDWMLPGGSGIQFIKHLKRE   71 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hccCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            6799999999999999999998999999999999999987           45679999999999999999999999976


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ...+.+|+|++++..+.....+++++|+++|+.||++.++|...+..+.+.
T Consensus        72 ~~~~~~pvi~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~  122 (229)
T PRK10161         72 SMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  122 (229)
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            433478999999999888999999999999999999999997776665543

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.71  E-value=3.1e-16  Score=153.10  Aligned_cols=121  Identities=26%  Similarity=0.410  Sum_probs=110.6

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ...++||||||++..+..+..+|...|+.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus       665 ~~~~~vLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~~-----------~~~~~dlil~D~~mp~~~g~~~~~~l  733 (919)
T PRK11107        665 RLPLTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQA-----------KQRPFDLILMDIQMPGMDGIRACELI  733 (919)
T ss_pred             cCCCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCcHHHHHHHH
Confidence            4568999999999999999999999999999999999999988           45679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      |+......+|||++|++.......++++.|+++|+.||++..+|...+..+.
T Consensus       734 r~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  785 (919)
T PRK11107        734 RQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYK  785 (919)
T ss_pred             HhcccCCCCCEEEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHc
Confidence            9865555899999999999999999999999999999999999987776654

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.71  E-value=7.5e-16  Score=125.21  Aligned_cols=117  Identities=26%  Similarity=0.433  Sum_probs=105.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+...|...|+.+..+.++.+++..+           ....||+||+|+.|++++|+++++.++..
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~i~~~   69 (219)
T PRK10336          1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEAL-----------YSAPYDAVILDLTLPGMDGRDILREWREK   69 (219)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hhCCCCEEEEECCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999877           34569999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|+|+++...+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (219)
T PRK10336         70 GQ--REPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMR  117 (219)
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHh
Confidence            54  7899999999988888999999999999999999999776666544

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.70  E-value=8.2e-16  Score=125.29  Aligned_cols=120  Identities=27%  Similarity=0.457  Sum_probs=106.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+|||+||++..+..+...|...|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++..
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~vi~d~~~~~~~g~~~~~~l~~~   71 (226)
T TIGR02154         3 RRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLI-----------NERGPDLILLDWMLPGTSGIELCRRLRRR   71 (226)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHH-----------HhcCCCEEEEECCCCCCcHHHHHHHHHcc
Confidence            6799999999999999999998999999999999999887           45579999999999999999999999976


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .....+|+|++++..+......+++.|+++|+.||++.++|...+..+.+.
T Consensus        72 ~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  122 (226)
T TIGR02154        72 PETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRR  122 (226)
T ss_pred             ccCCCCCEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhcc
Confidence            434478999999999888889999999999999999999997766665443

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.

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.70  E-value=9.6e-16  Score=126.86  Aligned_cols=119  Identities=22%  Similarity=0.389  Sum_probs=107.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+|||+||++..+..+...|...|+++..+.++.+++..+           ....||+||+|+.||+++|+++++.|+
T Consensus         4 ~~~~iLiv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~lr   72 (239)
T PRK09468          4 ENYKILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLL-----------TRESFHLMVLDLMLPGEDGLSICRRLR   72 (239)
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            347899999999999999999999999999999999999887           456799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ....  .+|+|++++..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        73 ~~~~--~~pii~ls~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~  122 (239)
T PRK09468         73 SQNN--PTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLR  122 (239)
T ss_pred             hcCC--CCCEEEEECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            7654  7899999999988888999999999999999999999776665544

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.70  E-value=6.8e-16  Score=126.61  Aligned_cols=119  Identities=22%  Similarity=0.311  Sum_probs=104.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC-E-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC---CCHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC-K-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG---MTGYEL  102 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~-~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~---~~g~~l  102 (233)
                      ++++||||||++..+..++..|...++ . +..+.++.++++.+           ....||+||+|+.||+   .+|+++
T Consensus         2 ~~~~Ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~-----------~~~~~DlvllD~~l~~~~~~~g~~~   70 (216)
T PRK10840          2 NNMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNL-----------PKLDAHVLITDLSMPGDKYGDGITL   70 (216)
T ss_pred             CceEEEEECCcHHHHHHHHHHHhcCCCCEEEEEECCHHHHHHHH-----------HhCCCCEEEEeCcCCCCCCCCHHHH
Confidence            358999999999999999999987654 3 66789999999987           4557999999999999   599999


Q ss_pred             HHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          103 LKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +++|+...+  .++||+++.+.+......+++.|+++|+.||.+.++|..+++.+..
T Consensus        71 ~~~l~~~~~--~~~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~  125 (216)
T PRK10840         71 IKYIKRHFP--SLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQK  125 (216)
T ss_pred             HHHHHHHCC--CCcEEEEEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHC
Confidence            999997654  8899999999998889999999999999999999999887776654

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.70  E-value=1.2e-15  Score=124.62  Aligned_cols=118  Identities=24%  Similarity=0.336  Sum_probs=105.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..+...|...|+.+..+.++.+++..+           ....||++|+|+.|++.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvl~d~~~~~~~g~~~~~~l~~   71 (228)
T PRK11083          3 QPTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKL-----------RQQPPDLVILDVGLPDISGFELCRQLLA   71 (228)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            46899999999999999999998999999999999999887           4557999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..+  .+|+|+++...+......+++.|+++|+.||++..+|...+..+.+
T Consensus        72 ~~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~  120 (228)
T PRK11083         72 FHP--ALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILR  120 (228)
T ss_pred             hCC--CCCEEEEEcCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHC
Confidence            654  8899999999888888899999999999999999999776665544

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.69  E-value=1.4e-15  Score=124.27  Aligned_cols=117  Identities=23%  Similarity=0.392  Sum_probs=104.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||+|||+...+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+++|+++++.++..
T Consensus         3 ~~iLlv~d~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~lr~~   71 (221)
T PRK10766          3 YHILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIM-----------QNQHVDLILLDINLPGEDGLMLTRELRSR   71 (221)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHhC
Confidence            6799999999999999999999999999999999999887           45579999999999999999999999975


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                       .  .+|+|++++..+......+++.|+++|+.||++..+|...+..+.++
T Consensus        72 -~--~~~ii~l~~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~r  119 (221)
T PRK10766         72 -S--TVGIILVTGRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWR  119 (221)
T ss_pred             -C--CCCEEEEECCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHhh
Confidence             3  78999999999888889999999999999999999987666555443

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.68  E-value=1.9e-15  Score=123.84  Aligned_cols=117  Identities=21%  Similarity=0.266  Sum_probs=104.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC--CCHHHHHHHHhc
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG--MTGYELLKKIKD  108 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~--~~g~~ll~~Lr~  108 (233)
                      +|||+||+...+..+...|+..|+.+..+.++.+++..+           ....||+|++|+.||+  .+|+++++.++.
T Consensus         2 ~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~~~g~~~~~~i~~   70 (227)
T TIGR03787         2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAF-----------RQRLPDLAIIDIGLGEEIDGGFMLCQDLRS   70 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHH-----------HhCCCCEEEEECCCCCCCCCHHHHHHHHHh
Confidence            599999999999999999999999999999999999887           4557999999999997  589999999997


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ..+  .+|+|++++..+......++++|+++|+.||++.++|...+..+.+.
T Consensus        71 ~~~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  120 (227)
T TIGR03787        71 LSA--TLPIIFLTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRR  120 (227)
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            654  78999999999888899999999999999999999997766665543

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.

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.68  E-value=1.1e-15  Score=149.31  Aligned_cols=121  Identities=26%  Similarity=0.445  Sum_probs=108.6

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ..+++||||||++..+..+..+|...|+++..+.++.+|++.+           ....||+||+|+.||+++|+++++.|
T Consensus       688 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~-----------~~~~~dlil~D~~mp~~~G~~~~~~i  756 (921)
T PRK15347        688 PWQLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELG-----------RQHRFDLVLMDIRMPGLDGLETTQLW  756 (921)
T ss_pred             cccCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3457999999999999999999999999999999999999988           55679999999999999999999999


Q ss_pred             hccC--CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          107 KDSS--ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       107 r~~~--~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      |+..  ....+|||++|++.+.....++++.|+++||.||++.++|...+..+.
T Consensus       757 r~~~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  810 (921)
T PRK15347        757 RDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA  810 (921)
T ss_pred             HhchhhcCCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            9743  124789999999999999999999999999999999999987776543

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.68  E-value=1.8e-15  Score=126.23  Aligned_cols=119  Identities=22%  Similarity=0.318  Sum_probs=102.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhc-CCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTIS-SCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~-g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..+..+|... ++.+ ..+.++.+++..+..         ....||+||+|+.||+++|+++++.|+
T Consensus         2 ~~VLivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~a~~~~~~---------~~~~~DlvilD~~~p~~~G~eli~~l~   72 (239)
T PRK10430          2 INVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEIIFN---------SDTPIDLILLDIYMQQENGLDLLPVLH   72 (239)
T ss_pred             eeEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHh---------cCCCCCEEEEecCCCCCCcHHHHHHHH
Confidence            68999999999999999999764 6654 468899999887721         134699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+++|++++..+......+++.|+++|+.||++.++|...+..+..
T Consensus        73 ~~~~--~~~vI~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~~~  122 (239)
T PRK10430         73 EAGC--KSDVIVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWRQ  122 (239)
T ss_pred             hhCC--CCCEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            8655  8899999999999999999999999999999999999877765543

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.68  E-value=2.3e-15  Score=124.81  Aligned_cols=117  Identities=22%  Similarity=0.257  Sum_probs=103.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||+|||++..+..+...|+..|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.+++.
T Consensus         2 ~~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~-----------~~~~~dlvild~~l~~~~g~~~~~~ir~~   70 (240)
T PRK10701          2 NKIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATI-----------LREQPDLVLLDIMLPGKDGMTICRDLRPK   70 (240)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHH-----------hhCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999987           45679999999999999999999999974


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .   ..|+|+++...+......+++.|+++|+.||++..+|...+..+.+.
T Consensus        71 ~---~~pii~l~~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~~  118 (240)
T PRK10701         71 W---QGPIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQ  118 (240)
T ss_pred             C---CCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            2   67999999888888888999999999999999999987666555443

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.68  E-value=2.9e-15  Score=122.21  Aligned_cols=116  Identities=25%  Similarity=0.456  Sum_probs=104.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      |+||+|||++..+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+++|+++++.++..
T Consensus         1 m~iliv~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~l~~~-----------~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   69 (223)
T PRK11517          1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLA-----------LKDDYALIILDIMLPGMDGWQILQTLRTA   69 (223)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEECCCCCCCHHHHHHHHHcC
Confidence            4799999999999999999999999999999999999887           45679999999999999999999999974


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .   .+|+|++++..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~---~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~  116 (223)
T PRK11517         70 K---QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLR  116 (223)
T ss_pred             C---CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHc
Confidence            2   6899999999898999999999999999999999998766655443

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.68  E-value=2.2e-15  Score=127.14  Aligned_cols=119  Identities=19%  Similarity=0.325  Sum_probs=103.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhc-CCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTIS-SCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~-g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +++|||+||++..+..+...|... ++.+ ..+.++.++++.+           ....||+||+|+.||+++|+++++.+
T Consensus         2 ~~~vLivdd~~~~~~~l~~~L~~~~~~~~~~~a~~~~eal~~l-----------~~~~~DlvllD~~mp~~dG~~~l~~i   70 (262)
T TIGR02875         2 KIRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELI-----------KEQQPDVVVLDIIMPHLDGIGVLEKL   70 (262)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCeEEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            589999999999999999999764 4554 4689999999988           45679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ++.......|+|++++.........+++.|+++|+.||++.++|...+..+.
T Consensus        71 ~~~~~~~~~~iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~  122 (262)
T TIGR02875        71 NEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLA  122 (262)
T ss_pred             HhhccccCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            9876533589999999998888899999999999999999999877666543

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.

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.68  E-value=3.6e-15  Score=123.01  Aligned_cols=118  Identities=27%  Similarity=0.486  Sum_probs=105.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||++||++..+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+.+|+++++.++
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~-----------~~~~~d~illd~~~~~~~g~~~~~~l~   73 (240)
T CHL00148          5 SKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLF-----------RKEQPDLVILDVMMPKLDGYGVCQEIR   73 (240)
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            457999999999999999999998999999899999999877           455799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .. .  .+|+|+++++.+......+++.|+++|+.||++.++|...+..+.+
T Consensus        74 ~~-~--~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~  122 (240)
T CHL00148         74 KE-S--DVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLR  122 (240)
T ss_pred             hc-C--CCcEEEEECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            74 3  7899999999988888999999999999999999999776665544

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.67  E-value=3.5e-15  Score=124.03  Aligned_cols=115  Identities=31%  Similarity=0.449  Sum_probs=101.1

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      +||+|||++..+..+...|...||.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++...
T Consensus         3 ~ILived~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~d~~l~~~~g~~l~~~i~~~~   71 (241)
T PRK13856          3 HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVL-----------ASETVDVVVVDLNLGREDGLEIVRSLATKS   71 (241)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hhCCCCEEEEeCCCCCCCHHHHHHHHHhcC
Confidence            799999999999999999999999999999999999887           456799999999999999999999998642


Q ss_pred             CCCCCcEEEEeCCC-cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          111 ALREIPVVIMSSEN-ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       111 ~~~~~piIvlt~~~-~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                         .+|+|++++.. +......+++.|+++|+.||++..+|...++.+.+
T Consensus        72 ---~~pii~lt~~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~  118 (241)
T PRK13856         72 ---DVPIIIISGDRLEEADKVVALELGATDFIAKPFGTREFLARIRVALR  118 (241)
T ss_pred             ---CCcEEEEECCCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHh
Confidence               68999999854 56667789999999999999999998766555444

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.67  E-value=3.6e-15  Score=120.14  Aligned_cols=117  Identities=21%  Similarity=0.376  Sum_probs=104.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ++|+++||++..+..+...|+..|+.+. .+.++.+++..+           ....||+|++|+.+++++|+++++.++.
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~~dlvi~d~~~~~~~g~~~~~~l~~   69 (204)
T PRK09958          1 MNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRV-----------ETLKPDIVIIDVDIPGVNGIQVLETLRK   69 (204)
T ss_pred             CcEEEECCcHHHHHHHHHHHhcCCCEEEEEeCCHHHHHHHH-----------HccCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            5799999999999999999998899887 689999999887           4557999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..+  ..++|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        70 ~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  118 (204)
T PRK09958         70 RQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKN  118 (204)
T ss_pred             hCC--CCeEEEEeCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHc
Confidence            654  6789999998888888999999999999999999999877776654

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.67  E-value=4.5e-15  Score=121.78  Aligned_cols=115  Identities=26%  Similarity=0.429  Sum_probs=102.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|...|+.+..+.++.+++..+           . ..||+||+|+.||+++|+++++.++..
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~-~~~d~vl~d~~~~~~~g~~~~~~l~~~   69 (232)
T PRK10955          2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLL-----------D-DSIDLLLLDVMMPKKNGIDTLKELRQT   69 (232)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHh-----------h-cCCCEEEEeCCCCCCcHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999876           3 369999999999999999999999975


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .   .+|+|++++..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~---~~~ii~lt~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  116 (232)
T PRK10955         70 H---QTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILR  116 (232)
T ss_pred             C---CCcEEEEECCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHh
Confidence            4   3899999998888888899999999999999999999776665544

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.66  E-value=1.8e-15  Score=147.95  Aligned_cols=121  Identities=17%  Similarity=0.275  Sum_probs=108.8

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ..+.+||||||++.++..+..+|...||.|..+.++.++++.+.          ....||+||+|+.||+++|+++++.|
T Consensus       679 ~~~~~vLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~----------~~~~~Dlvl~D~~mp~~~G~~~~~~l  748 (914)
T PRK11466        679 LDGLRLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQ----------NSEPFAAALVDFDLPDYDGITLARQL  748 (914)
T ss_pred             cCCcceEEEeCCHHHHHHHHHHHHhcCCceEEeCCHHHHHHHHH----------cCCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            34678999999999999999999999999999999999999873          23468999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++..+  .+|+|++|++.......++++.|+++||.||++.++|...+..+.+
T Consensus       749 r~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  799 (914)
T PRK11466        749 AQQYP--SLVLIGFSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQ  799 (914)
T ss_pred             HhhCC--CCCEEEEeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhh
Confidence            98654  8999999999988889999999999999999999999887766654

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.66  E-value=2.7e-15  Score=147.46  Aligned_cols=121  Identities=24%  Similarity=0.368  Sum_probs=109.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+||||||++.++..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus       701 ~~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvl~D~~mp~~~g~~~~~~ir  769 (968)
T TIGR02956       701 PPQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECF-----------HQHAFDLALLDINLPDGDGVTLLQQLR  769 (968)
T ss_pred             cccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HCCCCCEEEECCCCCCCCHHHHHHHHH
Confidence            446899999999999999999999999999999999999998           456799999999999999999999999


Q ss_pred             ccCCCCC-CcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALRE-IPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~-~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +...... +|||++|++.......++++.|+++||.||++..+|...+..+..
T Consensus       770 ~~~~~~~~~pii~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  822 (968)
T TIGR02956       770 AIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILA  822 (968)
T ss_pred             hCccccCCCeEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            8665323 899999999999999999999999999999999999887766543

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).

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.65  E-value=8.3e-15  Score=118.81  Aligned_cols=115  Identities=30%  Similarity=0.494  Sum_probs=103.6

Q ss_pred             EEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCC
Q 026776           32 VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSA  111 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~  111 (233)
                      ||++||++..+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+++|+++++.++...+
T Consensus         1 iliidd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvl~d~~~~~~~g~~~~~~l~~~~~   69 (218)
T TIGR01387         1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLA-----------LKDDYDLIILDVMLPGMDGWQILQTLRRSGK   69 (218)
T ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHccCC
Confidence            58999999999999999999999999999999999887           4567999999999999999999999997654


Q ss_pred             CCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          112 LREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       112 ~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                        .+|+|+++...+......+++.|+++|+.||++.++|...+..+.+
T Consensus        70 --~~~iivls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  115 (218)
T TIGR01387        70 --QTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLR  115 (218)
T ss_pred             --CCcEEEEEcCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhc
Confidence              8899999999999999999999999999999999999776665544

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.64  E-value=7.3e-15  Score=134.02  Aligned_cols=117  Identities=30%  Similarity=0.452  Sum_probs=106.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +.+||||||++..+..+...|...||.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++.
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~g~~v~~~~s~~~al~~l-----------~~~~~DlvllD~~lp~~dgl~~l~~ir~   71 (469)
T PRK10923          3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEAL-----------ASKTPDVLLSDIRMPGMDGLALLKQIKQ   71 (469)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEECCCCCCCCHHHHHHHHHh
Confidence            46899999999999999999999999999999999999988           4567999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ..+  .+|+|+++++.+......+++.|+++|+.||++.+++...+..+.
T Consensus        72 ~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l  119 (469)
T PRK10923         72 RHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAI  119 (469)
T ss_pred             hCC--CCeEEEEECCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHH
Confidence            654  789999999999999999999999999999999999877665543

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.64  E-value=5.4e-15  Score=142.49  Aligned_cols=121  Identities=20%  Similarity=0.384  Sum_probs=105.6

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ...++||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus       523 ~~~~~ILivdD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~-----------~~~~~Dlvl~D~~mp~~~G~e~~~~i  591 (779)
T PRK11091        523 LPALNILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMF-----------DPDEYDLVLLDIQLPDMTGLDIAREL  591 (779)
T ss_pred             ccccceEEEcCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHh-----------hcCCCCEEEEcCCCCCCCHHHHHHHH
Confidence            4568999999999999999999999999999999999999988           45679999999999999999999999


Q ss_pred             hccCCCCC-CcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALRE-IPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~-~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+...... .|+|+++++... ....+++.|+++||.||++.++|...+..+..
T Consensus       592 r~~~~~~~~~~ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  644 (779)
T PRK11091        592 RERYPREDLPPLVALTANVLK-DKKEYLDAGMDDVLSKPLSVPALTAMIKKFWD  644 (779)
T ss_pred             HhccccCCCCcEEEEECCchH-hHHHHHHCCCCEEEECCCCHHHHHHHHHHHhc
Confidence            98754335 488989887654 46789999999999999999999887766543

>PRK09483 response regulator; Provisional

Probab=99.64  E-value=1e-14  Score=118.65  Aligned_cols=117  Identities=23%  Similarity=0.357  Sum_probs=104.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhc-CCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTIS-SCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~-g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|||+||++..+..+..+|+.. ++.+. .+.++.+++..+           ....||+||+|+.+++.+|+++++.++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~d~~~~~~~g~~~~~~l~   70 (217)
T PRK09483          2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWC-----------RTNAVDVVLMDMNMPGIGGLEATRKIL   70 (217)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCCEEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            68999999999999999999874 78775 689999999887           456799999999999999999999998


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+++|+++...+......++..|+++|+.||++.++|...+..+.+
T Consensus        71 ~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~  120 (217)
T PRK09483         71 RYTP--DVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHS  120 (217)
T ss_pred             HHCC--CCeEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            7654  7899999999888888999999999999999999999877776654

>PRK15115 response regulator GlrR; Provisional

Probab=99.64  E-value=6.7e-15  Score=133.34  Aligned_cols=119  Identities=29%  Similarity=0.424  Sum_probs=107.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+||||||++..+..+...|+..||.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++
T Consensus         4 ~~~~vLiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~eal~~l-----------~~~~~dlvilD~~lp~~~g~~ll~~l~   72 (444)
T PRK15115          4 KPAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVL-----------NREKVDLVISDLRMDEMDGMQLFAEIQ   72 (444)
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hcCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            458899999999999999999999999999999999999988           456799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ...+  .+|+|++++..+.....++++.|+++|+.||++.++|...+..+.+
T Consensus        73 ~~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~  122 (444)
T PRK15115         73 KVQP--GMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALE  122 (444)
T ss_pred             hcCC--CCcEEEEECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHH
Confidence            7654  8899999999988889999999999999999999998776665543

>PRK14084 two-component response regulator; Provisional

Probab=99.64  E-value=1e-14  Score=121.70  Aligned_cols=115  Identities=20%  Similarity=0.298  Sum_probs=98.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-C-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-C-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..+...|...+ + .+..+.++.+++..+           ....||++++|+.||+++|+++++.|+
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~~l~~~-----------~~~~~dlv~lDi~m~~~~G~~~~~~i~   69 (246)
T PRK14084          1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEAL-----------LINQYDIIFLDINLMDESGIELAAKIQ   69 (246)
T ss_pred             CEEEEECCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            579999999999999999998765 4 567799999999887           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +...  ..++|++|++.  ....++++.|+++|+.||++.++|...+..+.+
T Consensus        70 ~~~~--~~~iI~~t~~~--~~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~~  117 (246)
T PRK14084         70 KMKE--PPAIIFATAHD--QFAVKAFELNATDYILKPFEQKRIEQAVNKVRA  117 (246)
T ss_pred             hcCC--CCEEEEEecCh--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            8654  66788888765  356789999999999999999999887776654

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.64  E-value=7.7e-15  Score=133.32  Aligned_cols=118  Identities=24%  Similarity=0.443  Sum_probs=106.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+||||||++..+..+...|...||.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlillD~~~p~~~g~~ll~~i~   71 (457)
T PRK11361          3 AINRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLF-----------ADIHPDVVLMDIRMPEMDGIKALKEMR   71 (457)
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            356899999999999999999999999999999999999988           456799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ...+  .+|+|++|++.+......+++.|+++|+.||++.++|...+..+.
T Consensus        72 ~~~~--~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l  120 (457)
T PRK11361         72 SHET--RTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL  120 (457)
T ss_pred             hcCC--CCCEEEEeCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhc
Confidence            7654  899999999999999999999999999999999999876665543

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.63  E-value=3.1e-15  Score=134.60  Aligned_cols=118  Identities=20%  Similarity=0.336  Sum_probs=104.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ....+||+|||++..+..+..+|.. .+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.+
T Consensus       153 ~~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~-----------~~~~~d~vi~d~~~p~~~g~~l~~~i  220 (457)
T PRK09581        153 DEDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNA-----------AETNYDLVIVSANFENYDPLRLCSQL  220 (457)
T ss_pred             ccCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhc-----------ccCCCCEEEecCCCCCchHhHHHHHH
Confidence            3467899999999999999999954 57777899999999887           56789999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHH
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDY  156 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~  156 (233)
                      ++......+|+|++|++.+.+...++++.|++||+.||++.++|...+..
T Consensus       221 ~~~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~  270 (457)
T PRK09581        221 RSKERTRYVPILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRT  270 (457)
T ss_pred             HhccccCCCcEEEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHH
Confidence            97654458999999999999999999999999999999999998655443

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.63  E-value=6e-15  Score=133.37  Aligned_cols=118  Identities=28%  Similarity=0.468  Sum_probs=106.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..+...|...|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++
T Consensus         4 ~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~DlvilD~~m~~~~G~~~~~~ir   72 (441)
T PRK10365          4 DNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQV-----------REQVFDLVLCDVRMAEMDGIATLKEIK   72 (441)
T ss_pred             CcceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            458999999999999999999999999999999999999987           455799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      +..+  .+|+|++|++.+......+++.|+.+|+.||++.++|...+....
T Consensus        73 ~~~~--~~~vi~lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l  121 (441)
T PRK10365         73 ALNP--AIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKAL  121 (441)
T ss_pred             hhCC--CCeEEEEECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHH
Confidence            8654  889999999988889999999999999999999999876665543

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.63  E-value=1.8e-14  Score=116.22  Aligned_cols=119  Identities=27%  Similarity=0.408  Sum_probs=103.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      +..+|||+||++..+..+...|... ++.+. .+.++.+++..+           ....||+|++|+.+|+.+|+++++.
T Consensus         2 ~~~~iliv~d~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~   70 (210)
T PRK09935          2 KPASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYL-----------RTRPVDLIIMDIDLPGTDGFTFLKR   70 (210)
T ss_pred             CcceEEEECCcHHHHHHHHHHHhhCCCceEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHH
Confidence            4678999999999999999999876 57765 678999998877           4567999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++...+  .+++|++++..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        71 l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~  122 (210)
T PRK09935         71 IKQIQS--TVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILS  122 (210)
T ss_pred             HHHhCC--CCcEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHc
Confidence            997654  7899999999888888899999999999999999999877766544

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

Probab=99.62  E-value=1.1e-14  Score=146.11  Aligned_cols=119  Identities=26%  Similarity=0.434  Sum_probs=108.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..+..+|+..|+++..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus       957 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlil~D~~mp~~~g~~~~~~i~ 1025 (1197)
T PRK09959        957 EKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKV-----------SMQHYDLLITDVNMPNMDGFELTRKLR 1025 (1197)
T ss_pred             cCceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHh-----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            457899999999999999999999999999999999999988           566799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|+|++|+..+.....++++.|+++||.||++.++|...++.+..
T Consensus      1026 ~~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~ 1075 (1197)
T PRK09959       1026 EQNS--SLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQ 1075 (1197)
T ss_pred             hcCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhh
Confidence            8654  7899999999999999999999999999999999999877765543

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.60  E-value=1.3e-14  Score=131.45  Aligned_cols=112  Identities=18%  Similarity=0.277  Sum_probs=100.4

Q ss_pred             EEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-----CCHHHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-----MTGYELLKKI  106 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-----~~g~~ll~~L  106 (233)
                      ||||||++..+..+...+  .||++..+.++.++++.+           ....||+||+|+.||+     ++|+++++.+
T Consensus         1 ILivddd~~~~~~l~~~l--~~~~v~~a~~~~~al~~l-----------~~~~~dlvllD~~mp~~~~~~~~g~~~l~~i   67 (445)
T TIGR02915         1 LLIVEDDLGLQKQLKWSF--ADYELAVAADRESAIALV-----------RRHEPAVVTLDLGLPPDADGASEGLAALQQI   67 (445)
T ss_pred             CEEEECCHHHHHHHHHHh--CCCeEEEeCCHHHHHHHH-----------hhCCCCEEEEeCCCCCCcCCCCCHHHHHHHH
Confidence            689999999999999888  789999999999999998           4557999999999996     8999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ++..+  .+|||++|+..+.+...++++.|+++||.||++.++|...++.+.
T Consensus        68 ~~~~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~  117 (445)
T TIGR02915        68 LAIAP--DTKVIVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAF  117 (445)
T ss_pred             HhhCC--CCCEEEEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhh
Confidence            88655  899999999999999999999999999999999999876665443

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).

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.60  E-value=9.3e-14  Score=114.53  Aligned_cols=117  Identities=26%  Similarity=0.373  Sum_probs=103.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ..+||++||+...+..+...|...|+.+..+.++.+++..+           ....||+|++|+.+++.+|+++++.++.
T Consensus        10 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvl~d~~~~~~~g~~~~~~l~~   78 (240)
T PRK10710         10 TPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYV-----------RQTPPDLILLDLMLPGTDGLTLCREIRR   78 (240)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hhCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            34899999999999999999999999999999999999887           4557999999999999999999999996


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .   ..+|+|+++..........+++.|+++|+.||++.++|...+..+.+
T Consensus        79 ~---~~~pii~l~~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~  126 (240)
T PRK10710         79 F---SDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILR  126 (240)
T ss_pred             c---CCCCEEEEEcCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHh
Confidence            3   27899999998888888899999999999999999998766655544

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.60  E-value=6.2e-14  Score=113.90  Aligned_cols=117  Identities=26%  Similarity=0.421  Sum_probs=104.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||++||++.....+...|...|+.+..+.++.+++..+           ....||+|++|+.+++.+|+++++.++..
T Consensus         1 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~vild~~~~~~~~~~~~~~i~~~   69 (221)
T PRK15479          1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLL-----------QSEMYALAVLDINMPGMDGLEVLQRLRKR   69 (221)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hhCCCCEEEEeCCCCCCcHHHHHHHHHhc
Confidence            4799999999999999999998999999999999998876           44579999999999999999999999976


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..  .+|+|+++...+.....++++.|+++|+.||++..++...+..+.+
T Consensus        70 ~~--~~~ii~lt~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  117 (221)
T PRK15479         70 GQ--TLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLR  117 (221)
T ss_pred             CC--CCCEEEEECCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            54  7899999999888888899999999999999999998776665444

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.60  E-value=5.8e-14  Score=112.36  Aligned_cols=114  Identities=26%  Similarity=0.443  Sum_probs=99.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhc-CCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTIS-SCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~-g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..+...|... ++. +..+.++.+++..+           ....||+||+|+.+++.+|+++++.++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~-----------~~~~~dlvi~d~~~~~~~g~~~~~~l~   70 (196)
T PRK10360          2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGL-----------PGRGVQVCICDISMPDISGLELLSQLP   70 (196)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHc
Confidence            58999999999999999999754 554 56789999999987           456799999999999999999999986


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .     ..|+|+++...+......+++.|+++|+.||++.++|...++.+.+
T Consensus        71 ~-----~~~vi~~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (196)
T PRK10360         71 K-----GMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVAT  117 (196)
T ss_pred             c-----CCCEEEEECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHc
Confidence            3     5789999999888888999999999999999999999877776654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.59  E-value=3.2e-14  Score=129.55  Aligned_cols=114  Identities=29%  Similarity=0.442  Sum_probs=103.2

Q ss_pred             EEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCC
Q 026776           32 VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSA  111 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~  111 (233)
                      ||||||++..+..+...|...|+.+..+.++.+++..+           ....||+||+|+.||+++|+++++.++...+
T Consensus         1 ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~DlVllD~~~p~~~g~~ll~~l~~~~~   69 (463)
T TIGR01818         1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRAL-----------ARGQPDLLITDVRMPGEDGLDLLPQIKKRHP   69 (463)
T ss_pred             CEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEEcCCCCCCCHHHHHHHHHHhCC
Confidence            68999999999999999999999999999999999987           4557999999999999999999999998654


Q ss_pred             CCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          112 LREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       112 ~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                        .+|+|+++++.+.....++++.|+++|+.||++.++|...+..+.
T Consensus        70 --~~~vIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l  114 (463)
T TIGR01818        70 --QLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERAL  114 (463)
T ss_pred             --CCeEEEEeCCCCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHH
Confidence              789999999998888999999999999999999999877665543

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.

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

Probab=99.59  E-value=5e-14  Score=116.77  Aligned_cols=114  Identities=23%  Similarity=0.364  Sum_probs=95.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-CE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-CK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|+||||++..+..+...|+..+ +. +..+.++.+++..+           ....||++|+|+.||+++|+++++.++
T Consensus         2 ~~IlIvdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~-----------~~~~~dlv~lDi~~~~~~G~~~~~~l~   70 (238)
T PRK11697          2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAI-----------HRLKPDVVFLDIQMPRISGLELVGMLD   70 (238)
T ss_pred             cEEEEECCCHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHhc
Confidence            689999999999999999998877 33 45688999999887           345799999999999999999999996


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .. .  ..++|++|++.  +...++++.|+.+|+.||++.++|...+..+.+
T Consensus        71 ~~-~--~~~ii~vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~~  117 (238)
T PRK11697         71 PE-H--MPYIVFVTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQ  117 (238)
T ss_pred             cc-C--CCEEEEEeccH--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            42 1  44677777765  456789999999999999999999877776654

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.58  E-value=3.1e-13  Score=98.76  Aligned_cols=121  Identities=28%  Similarity=0.471  Sum_probs=104.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +.++|++++++......+...|...|+ .+..+.++.+++..+           ....+|++++|..+++.+|+++++.+
T Consensus         4 ~~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~~di~l~d~~~~~~~~~~~~~~l   72 (129)
T PRK10610          4 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGFGFVISDWNMPNMDGLELLKTI   72 (129)
T ss_pred             ccceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHh-----------hccCCCEEEEcCCCCCCCHHHHHHHH
Confidence            458999999999999999999998888 477888999998877           45579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.......+++++++..........+++.|+++|+.||++..++...+..+.+
T Consensus        73 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~  125 (129)
T PRK10610         73 RADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE  125 (129)
T ss_pred             HhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHH
Confidence            98654447899999988888888899999999999999999998766655443

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.58  E-value=8.5e-14  Score=110.82  Aligned_cols=118  Identities=28%  Similarity=0.415  Sum_probs=104.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||++||++..+..+...|...|+.+..+.++.+++..+           ....||+|++|+.+++++|+++++.++
T Consensus         2 ~~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~ii~d~~~~~~~~~~~~~~l~   70 (202)
T PRK09390          2 DKGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDAL-----------PGLRFGCVVTDVRMPGIDGIELLRRLK   70 (202)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHh-----------ccCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            357899999999999999999998999999999999998887           456799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ...+  .+|+|+++...+......+++.|+++|+.||+...++...+..+.
T Consensus        71 ~~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~  119 (202)
T PRK09390         71 ARGS--PLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERAL  119 (202)
T ss_pred             hcCC--CCCEEEEECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHH
Confidence            7654  889999999988888899999999999999999988866555443

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.57  E-value=7.1e-14  Score=122.50  Aligned_cols=102  Identities=25%  Similarity=0.353  Sum_probs=88.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHH-hhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLL-TISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L-~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..+..+| +..++.+. .+.++.++++.+           ....||+|++|+.||+++|++++++|+
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l-----------~~~~pDlVllD~~mp~~~G~e~l~~l~   69 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERC-----------AAQPPDVILMDLEMPRMDGVEATRRIM   69 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHH-----------hccCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            57999999999999999999 45678776 689999999988           456799999999999999999999998


Q ss_pred             ccCCCCCCcEEEEeCCCc--HHHHHHHHHcCCceEEeCCC
Q 026776          108 DSSALREIPVVIMSSENI--LARIDRCLEDGAEDFIVKPV  145 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~--~~~~~~al~~Ga~dyL~KP~  145 (233)
                      ...   .+|+|++++...  .....++++.|+++|+.||+
T Consensus        70 ~~~---~~pvivvs~~~~~~~~~~~~al~~Ga~d~l~KP~  106 (337)
T PRK12555         70 AER---PCPILIVTSLTERNASRVFEAMGAGALDAVDTPT  106 (337)
T ss_pred             HHC---CCcEEEEeCCCCcCHHHHHHHHhcCceEEEECCC
Confidence            743   578999987643  45677899999999999999

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.57  E-value=1.1e-13  Score=124.53  Aligned_cols=119  Identities=32%  Similarity=0.475  Sum_probs=106.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||+||+++..+..+...|...|+.+..+.++.+++..+           ....||+|++|+.||+.+|+++++++++.
T Consensus         3 ~~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~d~~~~~~~g~~l~~~i~~~   71 (457)
T PRK09581          3 ARILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAIC-----------EREQPDIILLDVMMPGMDGFEVCRRLKSD   71 (457)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHH-----------hhcCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            4799999999999999999998899999999999999988           45679999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .....+|+|++++..+.....++++.|+++|+.||++.++|...+..+.+
T Consensus        72 ~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  121 (457)
T PRK09581         72 PATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTR  121 (457)
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            54457899999999998889999999999999999999999766665544

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.56  E-value=1.2e-13  Score=113.85  Aligned_cols=117  Identities=10%  Similarity=0.074  Sum_probs=94.9

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH-H
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL-K  104 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll-~  104 (233)
                      ++...++++|||++.++..++.+|...-..+..+.++.+++..+           .  .|||||+|+.||+++|++++ +
T Consensus         7 ~~~~~~~~~v~~~~l~~~~l~~~L~~~~~v~~~~~~~~~~~~~~-----------~--~~DvvllDi~~p~~~G~~~~~~   73 (216)
T PRK10100          7 SSHGHTLLLITKPSLQATALLQHLKQSLAITGKLHNIQRSLDDI-----------S--SGSIILLDMMEADKKLIHYWQD   73 (216)
T ss_pred             cccCceEEEEeChHhhhHHHHHHHHHhCCCeEEEcCHHHhhccC-----------C--CCCEEEEECCCCCccHHHHHHH
Confidence            44567899999999999999999984333455677888888765           2  38999999999999999997 5


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHH--cCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLE--DGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~--~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .|+...+  .++||++|...+  ....++.  .||.+|+.|..+.++|.+.++.+.+
T Consensus        74 ~i~~~~p--~~~vvvlt~~~~--~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~  126 (216)
T PRK10100         74 TLSRKNN--NIKILLLNTPED--YPYREIENWPHINGVFYAMEDQERVVNGLQGVLR  126 (216)
T ss_pred             HHHHhCC--CCcEEEEECCch--hHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHc
Confidence            6787655  889999999876  3345555  5999999999999999888877654

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.55  E-value=2.2e-13  Score=120.16  Aligned_cols=105  Identities=35%  Similarity=0.439  Sum_probs=91.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+++||||||+...+..+...|... ++.+. .+.++.+++..+           ....||+|++|+.||+++|+++++.
T Consensus         2 ~~~~ILiVdd~~~~~~~L~~~L~~~~~~~vv~~a~~~~~al~~~-----------~~~~~DlVllD~~mp~~dgle~l~~   70 (354)
T PRK00742          2 MKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKI-----------KKLNPDVITLDVEMPVMDGLDALEK   70 (354)
T ss_pred             CccEEEEECCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHH-----------hhhCCCEEEEeCCCCCCChHHHHHH
Confidence            4689999999999999999999876 78776 789999999987           4567999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCC--cHHHHHHHHHcCCceEEeCCCC
Q 026776          106 IKDSSALREIPVVIMSSEN--ILARIDRCLEDGAEDFIVKPVK  146 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~--~~~~~~~al~~Ga~dyL~KP~~  146 (233)
                      |++..   .+|+|+++...  ......++++.|+++|+.||++
T Consensus        71 i~~~~---~~piIvls~~~~~~~~~~~~al~~Ga~d~l~kP~~  110 (354)
T PRK00742         71 IMRLR---PTPVVMVSSLTERGAEITLRALELGAVDFVTKPFL  110 (354)
T ss_pred             HHHhC---CCCEEEEecCCCCCHHHHHHHHhCCCcEEEeCCcc
Confidence            98764   38999998753  3456778999999999999994

>PRK13435 response regulator; Provisional

Probab=99.54  E-value=4.1e-13  Score=103.01  Aligned_cols=114  Identities=24%  Similarity=0.302  Sum_probs=96.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC-CCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP-GMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-~~~g~~ll~~  105 (233)
                      ..++|||+|++......+...|+..|+.+. .++++.+++..+           ....||+||+|+.++ +.+|+++++.
T Consensus         4 ~~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dliivd~~~~~~~~~~~~~~~   72 (145)
T PRK13435          4 RQLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALG-----------RRRQPDVALVDVHLADGPTGVEVARR   72 (145)
T ss_pred             ccceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHh-----------hhcCCCEEEEeeecCCCCcHHHHHHH
Confidence            468999999999999999999998899876 789999998877           345799999999998 5899999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ++.. .  .+|+|+++...+   ...++..|+++|+.||++.++|...+..+.
T Consensus        73 l~~~-~--~~pii~ls~~~~---~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~  119 (145)
T PRK13435         73 LSAD-G--GVEVVFMTGNPE---RVPHDFAGALGVIAKPYSPRGVARALSYLS  119 (145)
T ss_pred             HHhC-C--CCCEEEEeCCHH---HHHHHhcCcceeEeCCCCHHHHHHHHHHHH
Confidence            9764 2  789999987643   246778999999999999999987776554

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.54  E-value=4.7e-13  Score=108.05  Aligned_cols=121  Identities=25%  Similarity=0.453  Sum_probs=104.0

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhc-CCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTIS-SCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~-g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      +.+..+|||||+++..+..+..+|... ++.+ ..+.++.+++..+           ....||+|++|+.+++.+|++++
T Consensus         3 ~~~~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dlvl~d~~l~~~~~~~~~   71 (216)
T PRK10651          3 NQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELA-----------ESLDPDLILLDLNMPGMNGLETL   71 (216)
T ss_pred             CCcceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHH-----------HhCCCCEEEEeCCCCCCcHHHHH
Confidence            456789999999999999999999765 5554 4688999999887           45579999999999999999999


Q ss_pred             HHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          104 KKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.++...+  ..++|+++...+......+++.|+++|+.||++..+|...+..+.+
T Consensus        72 ~~l~~~~~--~~~vi~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~  125 (216)
T PRK10651         72 DKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAA  125 (216)
T ss_pred             HHHHHhCC--CCcEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            99997654  7899999998888888899999999999999999998777666544

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.54  E-value=1.4e-13  Score=130.48  Aligned_cols=106  Identities=21%  Similarity=0.195  Sum_probs=97.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..+..+|...||.+..+.++.+++..+           ....||+||+|+.||+++|+++++.|+.
T Consensus         7 ~~~ILivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~al~~~-----------~~~~~Dlvl~d~~lp~~~g~~~l~~l~~   75 (665)
T PRK13558          7 TRGVLFVGDDPEAGPVDCDLDEDGRLDVTQIRDFVAARDRV-----------EAGEIDCVVADHEPDGFDGLALLEAVRQ   75 (665)
T ss_pred             ceeEEEEccCcchHHHHHHHhhccCcceEeeCCHHHHHHHh-----------hccCCCEEEEeccCCCCcHHHHHHHHHh
Confidence            58999999999999999999988899999999999999987           4567999999999999999999999997


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCH
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL  147 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~  147 (233)
                      ..+  .+|+|++++..+.....++++.|+.+|+.||...
T Consensus        76 ~~~--~~piI~lt~~~~~~~~~~al~~Ga~dyl~k~~~~  112 (665)
T PRK13558         76 TTA--VPPVVVVPTAGDEAVARRAVDADAAAYVPAVSDD  112 (665)
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHhcCcceEEeccchh
Confidence            655  8999999999999999999999999999999753

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.53  E-value=5.9e-13  Score=107.27  Aligned_cols=119  Identities=20%  Similarity=0.373  Sum_probs=102.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhh-cCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTI-SSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~-~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ..++||++|+++..+..+...|.. .++.+. .+.++.+++..+           ....||+||+|+.+++++|+++++.
T Consensus         5 ~~~~ilii~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dlvi~d~~~~~~~~~~~~~~   73 (215)
T PRK10403          5 TPFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLA-----------NRLDPDVILLDLNMKGMSGLDTLNA   73 (215)
T ss_pred             eeEEEEEEcCCHHHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHH-----------HhcCCCEEEEecCCCCCcHHHHHHH
Confidence            458899999999999999999975 467765 688999998877           4457999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +++..+  ..++++++...+......+++.|+++|+.||++..+|...+..+.+
T Consensus        74 l~~~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  125 (215)
T PRK10403         74 LRRDGV--TAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAK  125 (215)
T ss_pred             HHHhCC--CCeEEEEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhC
Confidence            998655  6789999988888888899999999999999999998777665543

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.52  E-value=8.3e-13  Score=105.63  Aligned_cols=119  Identities=19%  Similarity=0.315  Sum_probs=102.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      +.++||++|+++..+..+...|... ++.+ ..+.++.+++..+           ....||+|++|+.+++++|+++++.
T Consensus         2 ~~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dlvl~d~~~~~~~~~~~~~~   70 (211)
T PRK15369          2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNAC-----------RQLEPDIVILDLGLPGMNGLDVIPQ   70 (211)
T ss_pred             CccEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHH
Confidence            4588999999999999999999875 4654 4688999988876           4557999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +++..+  ..++|+++...+......+++.|+++|+.||++..+|...+..+.+
T Consensus        71 l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  122 (211)
T PRK15369         71 LHQRWP--AMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAV  122 (211)
T ss_pred             HHHHCC--CCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            998654  7899999999888888899999999999999999998776665543

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.52  E-value=3.1e-13  Score=110.67  Aligned_cols=106  Identities=13%  Similarity=0.134  Sum_probs=88.4

Q ss_pred             HHHHHHHHhh---cCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEE---EcCCCCCCCHHHHHHHHhccCCCCCC
Q 026776           42 RKVIERLLTI---SSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII---TDYCMPGMTGYELLKKIKDSSALREI  115 (233)
Q Consensus        42 ~~~l~~~L~~---~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~Dlvl---lD~~mp~~~g~~ll~~Lr~~~~~~~~  115 (233)
                      +..+..+|..   .|+.+..+.+++++++.+           ....||++|   +|+.||+++|++++++|++..+  .+
T Consensus         3 r~gi~~lL~~~~~~~~~v~~~~~~~~~l~~~-----------~~~~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p--~~   69 (207)
T PRK11475          3 SIGIESLFRKFPGNPYKLHTFSSQSSFQDAM-----------SRISFSAVIFSLSAMRSERREGLSCLTELAIKFP--RM   69 (207)
T ss_pred             hHHHHHHHhcCCCCeeEEEEeCCHHHHHHHh-----------ccCCCCEEEeeccccCCCCCCHHHHHHHHHHHCC--CC
Confidence            5678888864   356677899999999987           456789998   6889999999999999998765  89


Q ss_pred             cEEEEeCCCcHHHHHHHH-HcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          116 PVVIMSSENILARIDRCL-EDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       116 piIvlt~~~~~~~~~~al-~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +||++|++.+......++ +.|+++|+.|+++.++|...++.+.+.
T Consensus        70 ~iIvlt~~~~~~~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G  115 (207)
T PRK11475         70 RRLVIADDDIEARLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG  115 (207)
T ss_pred             CEEEEeCCCCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCC
Confidence            999999987766566655 799999999999999998887776553

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

Probab=99.49  E-value=5.3e-13  Score=115.64  Aligned_cols=104  Identities=39%  Similarity=0.501  Sum_probs=92.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +++||+|||....|..++++|...+  ..|..+.|+.++++.+           ....||+|.+|+.||.|||+++++.|
T Consensus         1 ~irVlvVddsal~R~~i~~~l~~~~~i~vv~~a~ng~~a~~~~-----------~~~~PDVi~ld~emp~mdgl~~l~~i   69 (350)
T COG2201           1 KIRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKV-----------KKLKPDVITLDVEMPVMDGLEALRKI   69 (350)
T ss_pred             CcEEEEEcCcHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHH-----------HhcCCCEEEEecccccccHHHHHHHH
Confidence            4799999999999999999999998  5667799999999999           67889999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCc--HHHHHHHHHcCCceEEeCCCC
Q 026776          107 KDSSALREIPVVIMSSENI--LARIDRCLEDGAEDFIVKPVK  146 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~--~~~~~~al~~Ga~dyL~KP~~  146 (233)
                      -...   .+|||++++-..  .+...++++.||.||+.||..
T Consensus        70 m~~~---p~pVimvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          70 MRLR---PLPVIMVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             hcCC---CCcEEEEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            8752   789999876532  567789999999999999985

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

Probab=99.47  E-value=1.4e-12  Score=106.90  Aligned_cols=116  Identities=9%  Similarity=0.081  Sum_probs=94.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCC---EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCC--CCCCCHHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSC---KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYC--MPGMTGYELLK  104 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~---~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~--mp~~~g~~ll~  104 (233)
                      +.|+||||++.++..++.+|...++   .+..+.++.+++..+           ....|||||+|+.  +++.+|.++++
T Consensus         1 ~~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~-----------~~~~pDlvLlDl~~~l~~~~g~~~i~   69 (207)
T PRK15411          1 MSTIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIAC-----------DSLRPSVVFINEDCFIHDASNSQRIK   69 (207)
T ss_pred             CCEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHH-----------hccCCCEEEEeCcccCCCCChHHHHH
Confidence            3589999999999999999986552   445789999999887           4557999999966  88889999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCce-EEeCCCCHHHHHHHHHHHhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAED-FIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~d-yL~KP~~~~eL~~~~~~l~~  159 (233)
                      +|+...+  .+++|++|...+.... .++..|+.. |+.|+.+.++|..+++.+..
T Consensus        70 ~i~~~~p--~~~iivlt~~~~~~~~-~~~~~~~~~~~~~K~~~~~~L~~aI~~v~~  122 (207)
T PRK15411         70 QIINQHP--NTLFIVFMAIANIHFD-EYLLVRKNLLISSKSIKPESLDDLLGDILK  122 (207)
T ss_pred             HHHHHCC--CCeEEEEECCCchhHH-HHHHHHhhceeeeccCCHHHHHHHHHHHHc
Confidence            9998766  7899999998766554 355555554 88999999999887776644

>PRK13837 two-component VirA-like sensor kinase; Provisional

Probab=99.43  E-value=4.4e-12  Score=123.35  Aligned_cols=118  Identities=11%  Similarity=0.124  Sum_probs=103.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||||||++..+..+...|...||++..+.++.++++.+..         ....||+||+  .||+++|+++++.|+
T Consensus       696 ~~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~---------~~~~~DlVll--~~~~~~g~~l~~~l~  764 (828)
T PRK13837        696 RGETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISK---------GPERFDLVLV--DDRLLDEEQAAAALH  764 (828)
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh---------CCCCceEEEE--CCCCCCHHHHHHHHH
Confidence            45689999999999999999999999999999999999998831         1234799999  799999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ...+  .+|||+++.........+++..| ++||.||++..+|...+..+.+
T Consensus       765 ~~~~--~ipIIvls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l~  813 (828)
T PRK13837        765 AAAP--TLPIILGGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTALA  813 (828)
T ss_pred             hhCC--CCCEEEEeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHHc
Confidence            8655  89999999998888888999999 9999999999999887766554

>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]

Probab=99.42  E-value=2.5e-12  Score=101.94  Aligned_cols=114  Identities=26%  Similarity=0.299  Sum_probs=93.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ...+||++||+...+..+...|...||.+ .++.++.++...+           ..++||+||+|+.+|..+-.+-+.+.
T Consensus         4 ~~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~-----------~~~~pDvVildie~p~rd~~e~~~~~   72 (194)
T COG3707           4 MLLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVC-----------ERLQPDVVILDIEMPRRDIIEALLLA   72 (194)
T ss_pred             cccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHH-----------HhcCCCEEEEecCCCCccHHHHHHHh
Confidence            35789999999999999999999999855 4566776776666           56789999999999999944444333


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHH
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKD  155 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~  155 (233)
                      .+   ....|||+++++.+...+..++++|+.+|+.||++...|.-++.
T Consensus        73 ~~---~~~~piv~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~  118 (194)
T COG3707          73 SE---NVARPIVALTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILD  118 (194)
T ss_pred             hc---CCCCCEEEEEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHH
Confidence            32   23779999999999999999999999999999999888754443

>PRK09191 two-component response regulator; Provisional

Probab=99.40  E-value=1.2e-11  Score=103.81  Aligned_cols=115  Identities=17%  Similarity=0.212  Sum_probs=96.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-CCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-MTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~~g~~ll~~L  106 (233)
                      ..+|||+||++..+..+...|+..|+.+. .+.++.+++..+           ....||+||+|+.||+ ++|+++++.+
T Consensus       137 ~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l-----------~~~~~dlvi~d~~~~~~~~g~e~l~~l  205 (261)
T PRK09191        137 ATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALA-----------KKTRPGLILADIQLADGSSGIDAVNDI  205 (261)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHH-----------hccCCCEEEEecCCCCCCCHHHHHHHH
Confidence            46799999999999999999998899887 688999999887           4567999999999995 8999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +...   .+|+|++++..+...  .+...|+.+|+.||++.++|...+..+..
T Consensus       206 ~~~~---~~pii~ls~~~~~~~--~~~~~~~~~~l~kP~~~~~l~~~i~~~~~  253 (261)
T PRK09191        206 LKTF---DVPVIFITAFPERLL--TGERPEPAFLITKPFQPDTVKAAISQALF  253 (261)
T ss_pred             HHhC---CCCEEEEeCCCcHHH--HHHhcccCceEECCCCHHHHHHHHHHHHh
Confidence            8753   789999998765443  33456788999999999999877766543

>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=99.35  E-value=3.4e-11  Score=84.26  Aligned_cols=110  Identities=32%  Similarity=0.548  Sum_probs=96.0

Q ss_pred             EEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCC
Q 026776           33 LAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSAL  112 (233)
Q Consensus        33 LIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~  112 (233)
                      +++++++..+..+...+...|+.+..+.+..+++..+           ....+|++++|..+++.+|.++++.++.... 
T Consensus         1 l~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~ii~~~~~~~~~~~~~~~~l~~~~~-   68 (113)
T cd00156           1 LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALL-----------AEEKPDLILLDIMMPGMDGLELLRRIRKRGP-   68 (113)
T ss_pred             CeecCcHHHHHHHHHHHhhcCceEEEecCHHHHHHHH-----------HhCCCCEEEEecCCCCCchHHHHHHHHHhCC-
Confidence            4789999999999999998899999999999998877           3457999999999999999999999987633 


Q ss_pred             CCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHH
Q 026776          113 REIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKD  155 (233)
Q Consensus       113 ~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~  155 (233)
                       ..++++++..........++..|+.+|+.||+...++...+.
T Consensus        69 -~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~  110 (113)
T cd00156          69 -DIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIR  110 (113)
T ss_pred             -CCCEEEEEecccHHHHHHHHHcChhhHccCCCCHHHHHHHHH
Confidence             789999988777777888999999999999999988876654

>PRK13557 histidine kinase; Provisional

Probab=99.32  E-value=5.2e-11  Score=109.35  Aligned_cols=119  Identities=23%  Similarity=0.298  Sum_probs=103.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-CCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-MTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~~g~~ll~~L  106 (233)
                      ...+|||++++...+..+...|+..||.+..+.++.++++.+.          ....||+||+|..+++ ++|+++++.|
T Consensus       414 ~~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~----------~~~~~d~vi~d~~~~~~~~~~~~~~~l  483 (540)
T PRK13557        414 GTETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILD----------SHPEVDLLFTDLIMPGGMNGVMLAREA  483 (540)
T ss_pred             CCceEEEEcCcHHHHHHHHHHHHhcCCeEEEeCCHHHHHHHHh----------cCCCceEEEEeccCCCCCCHHHHHHHH
Confidence            3568999999999999999999999999999999999998872          2235999999999997 9999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      +...+  .+++|+++..........++..|+++|+.||++.++|...+..+.
T Consensus       484 ~~~~~--~~~ii~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~  533 (540)
T PRK13557        484 RRRQP--KIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVL  533 (540)
T ss_pred             HHhCC--CCcEEEEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHh
Confidence            98654  789999999888777888889999999999999999877666543

>PRK10693 response regulator of RpoS; Provisional

Probab=99.30  E-value=2.8e-11  Score=104.64  Aligned_cols=87  Identities=31%  Similarity=0.584  Sum_probs=75.4

Q ss_pred             EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCC
Q 026776           58 AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGA  137 (233)
Q Consensus        58 ~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga  137 (233)
                      .+.++.++++.+           ....||+||+|+.||+++|+++++.+++...  .+|+|++++..+.+...++++.|+
T Consensus         2 ~a~~g~~al~~l-----------~~~~pDlVL~D~~mp~~~Gle~~~~ir~~~~--~ipiI~lt~~~~~~~~~~al~~Ga   68 (303)
T PRK10693          2 LAANGVDALELL-----------GGFTPDLIICDLAMPRMNGIEFVEHLRNRGD--QTPVLVISATENMADIAKALRLGV   68 (303)
T ss_pred             EeCCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHhcCC--CCcEEEEECCCCHHHHHHHHHCCC
Confidence            467888898887           4567999999999999999999999998654  789999999999999999999999


Q ss_pred             ceEEeCCC-CHHHHHHHHHHH
Q 026776          138 EDFIVKPV-KLSDVKRIKDYL  157 (233)
Q Consensus       138 ~dyL~KP~-~~~eL~~~~~~l  157 (233)
                      +||+.||+ +.++|.+.+...
T Consensus        69 ~dyl~KP~~~~~~L~~~i~~~   89 (303)
T PRK10693         69 QDVLLKPVKDLNRLREMVFAC   89 (303)
T ss_pred             cEEEECCCCcHHHHHHHHHHH
Confidence            99999999 478886655443

>PRK15029 arginine decarboxylase; Provisional

Probab=99.26  E-value=5.7e-11  Score=112.98  Aligned_cols=107  Identities=19%  Similarity=0.265  Sum_probs=89.0

Q ss_pred             cEEEEEeCCHH--------HHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCCCHH
Q 026776           30 VHVLAVDDSFV--------DRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGMTGY  100 (233)
Q Consensus        30 ~~ILIVddd~~--------~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~~g~  100 (233)
                      |+|||||||..        .++.+...|+..||+|..+.++++++..+           .. ..||+||+|+.||+++|+
T Consensus         1 MkILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l-----------~~~~~~DlVLLD~~LPd~dG~   69 (755)
T PRK15029          1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAIL-----------SSNEAIDCLMFSYQMEHPDEH   69 (755)
T ss_pred             CeEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhcCCCcEEEEECCCCCCccc
Confidence            47999999995        69999999999999999999999999998           33 479999999999999997


Q ss_pred             ----HHHHHHhccCCCCCCcEEEEeCCCc--HHHHHHHHHcCCceEEeCCCCHHHH
Q 026776          101 ----ELLKKIKDSSALREIPVVIMSSENI--LARIDRCLEDGAEDFIVKPVKLSDV  150 (233)
Q Consensus       101 ----~ll~~Lr~~~~~~~~piIvlt~~~~--~~~~~~al~~Ga~dyL~KP~~~~eL  150 (233)
                          +++++||....  .+|||++|+..+  .......++ -+++|+.+--+..++
T Consensus        70 ~~~~ell~~IR~~~~--~iPIIlLTar~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  122 (755)
T PRK15029         70 QNVRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLLE-LVDEFAWILEDTADF  122 (755)
T ss_pred             hhHHHHHHHHHhhCC--CCCEEEEEcCCcccccCCHHHHH-hhheEEEecCCCHHH
Confidence                89999997654  899999999885  333333333 378899888776664

>COG3279 LytT Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]

Probab=99.19  E-value=1.7e-10  Score=96.81  Aligned_cols=115  Identities=28%  Similarity=0.505  Sum_probs=95.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-CEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-CKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|+++||++..++.+..++.... +++ ..+.++.++++.+           ....+|++++|+.||+++|+++.+.|+
T Consensus         2 ~~i~i~dd~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~fldI~~~~~~G~ela~~i~   70 (244)
T COG3279           2 LKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLL-----------QGLRPDLVFLDIAMPDINGIELAARIR   70 (244)
T ss_pred             CcEEEecCCHHHHHHHHHHHHhhhhcCeeeeeccchhhHHHH-----------hccCCCeEEEeeccCccchHHHHHHhc
Confidence            689999999999999999998322 222 2578888999888           455899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ...+  ..+|+++|++.  +.+..+++..+.||+.||+..+.|...+..+.+
T Consensus        71 ~~~~--~~~Ivfvt~~~--~~a~~afev~a~d~i~kp~~~~~l~~~l~~~~~  118 (244)
T COG3279          71 KGDP--RPAIVFVTAHD--EYAVAAFEVEALDYLLKPISEERLAKTLERLRR  118 (244)
T ss_pred             ccCC--CCeEEEEEehH--HHHHHHHhHHHHhhhcCcchHHHHHHHHHHHHH
Confidence            8754  77888899876  556678889999999999999999877765544

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.62  E-value=8.2e-07  Score=87.14  Aligned_cols=114  Identities=11%  Similarity=0.072  Sum_probs=91.9

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+..+|+++||++..+..+..+|...|+.+..+.++.+    +           ....||++++|+.|++..+...+...
T Consensus       534 ~~g~~ili~d~~~~~~~~l~~~L~~~g~~v~~~~~~~~----l-----------~~~~~d~il~~~~~~~~~~~~~~~~~  598 (919)
T PRK11107        534 LAGKRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQ----L-----------PEAHYDILLLGLPVTFREPLTMLHER  598 (919)
T ss_pred             cCCCeEEEEeCCHHHHHHHHHHHHHCCCEEEEcCCHHH----h-----------ccCCCCEEEecccCCCCCCHHHHHHH
Confidence            45679999999999999999999999999999988877    2           34569999999999987766555444


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHH
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKD  155 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~  155 (233)
                      .........++|+++..........+.+.|+++|+.||+...++...+.
T Consensus       599 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~  647 (919)
T PRK11107        599 LAKAKSMTDFLILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALL  647 (919)
T ss_pred             HHhhhhcCCcEEEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHH
Confidence            3332223556777888888888888999999999999999998866554

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

Probab=98.15  E-value=2.7e-06  Score=76.39  Aligned_cols=84  Identities=36%  Similarity=0.483  Sum_probs=72.2

Q ss_pred             CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHH
Q 026776           54 CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL  133 (233)
Q Consensus        54 ~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al  133 (233)
                      ++|..+..+..++..+           ..+.+|.+++|+.||+++|+++++.+++...    .+++++...+.....+.+
T Consensus        13 ~~v~~a~~g~~~l~~~-----------~~~~~~~~lld~~m~~~~~~~~~~~lk~~~~----~~v~~t~~~~~~~~~~~~   77 (435)
T COG3706          13 KEVATAKKGLIALAIL-----------LDHKPDYKLLDVMMPGMDGFELCRRLKAEPA----TVVMVTALDDSAPRVRGL   77 (435)
T ss_pred             hhhhhccchHHHHHHH-----------hcCCCCeEEeecccCCcCchhHHHHHhcCCc----ceEEEEecCCCCcchhHH
Confidence            4566688999999888           5778999999999999999999999998754    278888888888888999


Q ss_pred             HcCCceEEeCCCCHHHHHH
Q 026776          134 EDGAEDFIVKPVKLSDVKR  152 (233)
Q Consensus       134 ~~Ga~dyL~KP~~~~eL~~  152 (233)
                      ++|+++++.||.....+..
T Consensus        78 ~~~~~~~l~~~~~~~~~~~   96 (435)
T COG3706          78 KAGADDFLTKPVNDSQLFL   96 (435)
T ss_pred             hhhhhhhccCCCChHHHHH
Confidence            9999999999998777643

>smart00448 REC cheY-homologous receiver domain

Probab=97.89  E-value=0.00011  Score=43.73  Aligned_cols=55  Identities=35%  Similarity=0.532  Sum_probs=47.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP   95 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp   95 (233)
                      ++|+++++++.....+...+...|+.+..+.+...++..+           ....+|++++|+.++
T Consensus         1 ~~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~vi~~~~~~   55 (55)
T smart00448        1 MRILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELL-----------KEEKPDLILLDIMMP   55 (55)
T ss_pred             CeEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHH-----------HhcCCCEEEEeccCC
Confidence            4699999999999999999998999999999999988877           344689999998653

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

>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=97.85  E-value=0.00022  Score=52.39  Aligned_cols=107  Identities=16%  Similarity=0.145  Sum_probs=74.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      ||||||||...+..+..+|+=.|+++..+...+- ....           .....+.+++-..-.+ ...+.++.+-+..
T Consensus         1 kILvIddd~~R~~~L~~ILeFlGe~~~~~~~~~~-~~~~-----------~~~~~~~~~v~~g~~~-~~~~~l~~l~~~~   67 (109)
T PF06490_consen    1 KILVIDDDAERRQRLSTILEFLGEQCEAVSSSDW-SQAD-----------WSSPWEACAVILGSCS-KLAELLKELLKWA   67 (109)
T ss_pred             CEEEECCcHHHHHhhhhhhhhcCCCeEEecHHHH-HHhh-----------hhcCCcEEEEEecCch-hHHHHHHHHHhhC
Confidence            6999999999999999999988998888776443 2221           2233444443332222 5577888887766


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      +  .+|++++.........     ..+.+-|..|++..+|..++++.
T Consensus        68 ~--~~Pvlllg~~~~~~~~-----~nvvg~Le~Pl~Y~qLt~~L~~c  107 (109)
T PF06490_consen   68 P--HIPVLLLGEHDSPEEL-----PNVVGELEEPLNYPQLTDALHRC  107 (109)
T ss_pred             C--CCCEEEECCCCccccc-----cCeeEecCCCCCHHHHHHHHHHh
Confidence            5  9999999877654111     12677799999999997776543

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).

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=97.62  E-value=0.0029  Score=47.30  Aligned_cols=105  Identities=15%  Similarity=0.053  Sum_probs=74.4

Q ss_pred             eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CHHHHHHHHhccC
Q 026776           36 DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TGYELLKKIKDSS  110 (233)
Q Consensus        36 ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g~~ll~~Lr~~~  110 (233)
                      |.+..-...+..+|+..||+|....   ..++..+.+           ....+|+|.+...+...  .--++++.|++..
T Consensus        10 d~H~lG~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a-----------~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~   78 (122)
T cd02071          10 DGHDRGAKVIARALRDAGFEVIYTGLRQTPEEIVEAA-----------IQEDVDVIGLSSLSGGHMTLFPEVIELLRELG   78 (122)
T ss_pred             ChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEcccchhhHHHHHHHHHHHHhcC
Confidence            4556666677778899999998754   466676766           45689999998876533  2356677787764


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHH
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRI  153 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~  153 (233)
                      .  ....+++.+....+...++.++|+++|+..-.+.+++...
T Consensus        79 ~--~~i~i~~GG~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~~  119 (122)
T cd02071          79 A--GDILVVGGGIIPPEDYELLKEMGVAEIFGPGTSIEEIIDK  119 (122)
T ss_pred             C--CCCEEEEECCCCHHHHHHHHHCCCCEEECCCCCHHHHHHH
Confidence            3  3344555555555667788899999999998888876544

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.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=97.56  E-value=0.0054  Score=46.90  Aligned_cols=115  Identities=14%  Similarity=0.066  Sum_probs=81.9

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      ++.+|++.    |.+..-...+..+|+..||+|....   ..++..+.+           .+..+|+|.+...+...  .
T Consensus         2 ~~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a-----------~~~~~d~V~lS~~~~~~~~~   70 (137)
T PRK02261          2 KKKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAA-----------IETDADAILVSSLYGHGEID   70 (137)
T ss_pred             CCCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEcCccccCHHH
Confidence            56778877    7777777888888999999998854   566777776           45689999999877743  3


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKD  155 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~  155 (233)
                      ..++++.|++... .+++|+ +.+..      ..+...++.+.|++.++....+.+++...++
T Consensus        71 ~~~~~~~L~~~~~-~~~~i~-vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~  131 (137)
T PRK02261         71 CRGLREKCIEAGL-GDILLY-VGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLK  131 (137)
T ss_pred             HHHHHHHHHhcCC-CCCeEE-EECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHH
Confidence            4677888887643 245444 43332      2445567889999999988887777755443

>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=97.56  E-value=0.0011  Score=49.09  Aligned_cols=96  Identities=17%  Similarity=0.231  Sum_probs=75.0

Q ss_pred             HHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC--CCHHHHHHHHhccCCCCCCcEEE
Q 026776           42 RKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG--MTGYELLKKIKDSSALREIPVVI  119 (233)
Q Consensus        42 ~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~--~~g~~ll~~Lr~~~~~~~~piIv  119 (233)
                      ...+...|...|++|+.+.+.++++..+.          ....+++|++|+. ++  ....++++.++..+.  .+||.+
T Consensus         6 ~~~l~~~L~~~~~~vv~~~~~dd~~~~i~----------~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~--~iPVFl   72 (115)
T PF03709_consen    6 SRELAEALEQRGREVVDADSTDDALAIIE----------SFTDIAAVVISWD-GEEEDEAQELLDKIRERNF--GIPVFL   72 (115)
T ss_dssp             HHHHHHHHHHTTTEEEEESSHHHHHHHHH----------CTTTEEEEEEECH-HHHHHHHHHHHHHHHHHST--T-EEEE
T ss_pred             HHHHHHHHHHCCCEEEEeCChHHHHHHHH----------hCCCeeEEEEEcc-cccchhHHHHHHHHHHhCC--CCCEEE
Confidence            34567778889999999999999999995          3457899999986 21  235678999999877  999999


Q ss_pred             EeCCCcHHHHHHHHHcCCceEEeCCCCHHHH
Q 026776          120 MSSENILARIDRCLEDGAEDFIVKPVKLSDV  150 (233)
Q Consensus       120 lt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL  150 (233)
                      ++.....+.+...+-..+++|+....+..++
T Consensus        73 ~~~~~~~~~l~~~~l~~v~~~i~l~~~t~~f  103 (115)
T PF03709_consen   73 LAERDTTEDLPAEVLGEVDGFIWLFEDTAEF  103 (115)
T ss_dssp             EESCCHHHCCCHHHHCCESEEEETTTTTHHH
T ss_pred             EecCCCcccCCHHHHhhccEEEEecCCCHHH
Confidence            9987766655555666789999998776665

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.

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=97.39  E-value=0.014  Score=44.32  Aligned_cols=114  Identities=13%  Similarity=0.041  Sum_probs=76.8

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CH
Q 026776           29 EVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TG   99 (233)
Q Consensus        29 ~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g   99 (233)
                      +++|++.    |-+..-...+..+|+..||+|...   .+.++..+..           .+..+|+|.+...+...  .-
T Consensus         2 ~~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~aa-----------~e~~adii~iSsl~~~~~~~~   70 (132)
T TIGR00640         2 RPRILVAKMGQDGHDRGAKVIATAYADLGFDVDVGPLFQTPEEIARQA-----------VEADVHVVGVSSLAGGHLTLV   70 (132)
T ss_pred             CCEEEEEeeCCCccHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEcCchhhhHHHH
Confidence            3555554    556667778888999999999874   3677777776           45678999987655321  23


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHH
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKD  155 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~  155 (233)
                      -++++.|++... ..++ |++.+....+...+..++|+++|+..--+..++...+.
T Consensus        71 ~~~~~~L~~~g~-~~i~-vivGG~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l~  124 (132)
T TIGR00640        71 PALRKELDKLGR-PDIL-VVVGGVIPPQDFDELKEMGVAEIFGPGTPIPESAIFLL  124 (132)
T ss_pred             HHHHHHHHhcCC-CCCE-EEEeCCCChHhHHHHHHCCCCEEECCCCCHHHHHHHHH
Confidence            456777777543 2333 44444334455677889999999998888888654433

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.

>cd02067 B12-binding B12 binding domain (B12-BD)

Probab=97.07  E-value=0.012  Score=43.55  Aligned_cols=96  Identities=14%  Similarity=0.198  Sum_probs=65.1

Q ss_pred             eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC--CCHHHHHHHHhccC
Q 026776           36 DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG--MTGYELLKKIKDSS  110 (233)
Q Consensus        36 ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~--~~g~~ll~~Lr~~~  110 (233)
                      |.+..-...+..+|+..||+|....   ..++.++.+           .+..||+|.+...+..  ....++++.+|+..
T Consensus        10 e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~-----------~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~   78 (119)
T cd02067          10 DGHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAA-----------KEEDADAIGLSGLLTTHMTLMKEVIEELKEAG   78 (119)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence            4556666778888999999997643   455666666           4668999999877553  24567888888764


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCC
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKP  144 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP  144 (233)
                      + .+++ |++.+.........+.+.|+|.|+...
T Consensus        79 ~-~~~~-i~vGG~~~~~~~~~~~~~G~D~~~~~~  110 (119)
T cd02067          79 L-DDIP-VLVGGAIVTRDFKFLKEIGVDAYFGPA  110 (119)
T ss_pred             C-CCCe-EEEECCCCChhHHHHHHcCCeEEECCH
Confidence            3 2444 445555443434567889998887643

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=96.61  E-value=0.0027  Score=62.70  Aligned_cols=51  Identities=25%  Similarity=0.175  Sum_probs=43.5

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCC
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCM   94 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~m   94 (233)
                      .+..+|||+||++.++..+..+|+.+|++|..+.++      .           ....||+||+|+++
T Consensus       687 l~g~~vLlvdD~~~~r~~l~~~L~~~G~~v~~a~~~------~-----------~~~~~Dlvl~D~~~  737 (894)
T PRK10618        687 LDGVTVLLDITSEEVRKIVTRQLENWGATCITPDER------L-----------ISQEYDIFLTDNPS  737 (894)
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEcCcc------c-----------cCCCCCEEEECCCC
Confidence            456899999999999999999999999999988752      1           34569999999984

>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]

Probab=96.43  E-value=0.14  Score=39.21  Aligned_cols=118  Identities=17%  Similarity=0.163  Sum_probs=78.7

Q ss_pred             CCCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEE---ECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-C-
Q 026776           27 TEEVHVLAV----DDSFVDRKVIERLLTISSCKVTA---VDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-M-   97 (233)
Q Consensus        27 ~~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~---a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~-   97 (233)
                      .+++||++.    |-+..-...+.+.|+..||+|..   ..+.+|+.+..           .+...|+|.+..--.+ + 
T Consensus        10 g~rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA-----------~~~dv~vIgvSsl~g~h~~   78 (143)
T COG2185          10 GARPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAA-----------VEEDVDVIGVSSLDGGHLT   78 (143)
T ss_pred             CCCceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHH-----------HhcCCCEEEEEeccchHHH
Confidence            367888876    77888889999999999999986   56888888776           3456788877543221 1 


Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH-HHHHHH
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK-RIKDYL  157 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~-~~~~~l  157 (233)
                      ..-.+.+.||+... ..+ +++..+.-..+......+.|++.|+.--....+.. .++..+
T Consensus        79 l~~~lve~lre~G~-~~i-~v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~~~~v~~~l  137 (143)
T COG2185          79 LVPGLVEALREAGV-EDI-LVVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEALSDLLTRL  137 (143)
T ss_pred             HHHHHHHHHHHhCC-cce-EEeecCccCchhHHHHHHhCcceeeCCCCCHHHHHHHHHHHH
Confidence            23456666776653 122 23444444455566777899999998777766653 344443

>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit

Probab=96.38  E-value=0.17  Score=38.54  Aligned_cols=107  Identities=12%  Similarity=0.041  Sum_probs=71.7

Q ss_pred             CCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCC--HHHHHHHHhccCC
Q 026776           37 DSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMT--GYELLKKIKDSSA  111 (233)
Q Consensus        37 dd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~--g~~ll~~Lr~~~~  111 (233)
                      -+..-...+..+|+..||+|...   -+.++.++.+           .++.+|+|.+..-|...-  --++.+.|++...
T Consensus        13 ~HdiGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa-----------~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl   81 (134)
T TIGR01501        13 CHAVGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAA-----------IETKADAILVSSLYGHGEIDCKGLRQKCDEAGL   81 (134)
T ss_pred             hhhHhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEecccccCHHHHHHHHHHHHHCCC
Confidence            34555667888899999999874   4677777776           456899999987775332  4456777877654


Q ss_pred             CCCCcEEEEeCC-----CcHH-HHHHHHHcCCceEEeCCCCHHHHHHHHHH
Q 026776          112 LREIPVVIMSSE-----NILA-RIDRCLEDGAEDFIVKPVKLSDVKRIKDY  156 (233)
Q Consensus       112 ~~~~piIvlt~~-----~~~~-~~~~al~~Ga~dyL~KP~~~~eL~~~~~~  156 (233)
                       .. +.+++.+.     .+.. ...++.++|++..+...-..+++...++.
T Consensus        82 -~~-~~vivGG~~vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~  130 (134)
T TIGR01501        82 -EG-ILLYVGGNLVVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKK  130 (134)
T ss_pred             -CC-CEEEecCCcCcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHH
Confidence             23 34555543     1111 23467889999999888777777555443

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.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=96.17  E-value=0.072  Score=51.24  Aligned_cols=102  Identities=14%  Similarity=0.110  Sum_probs=70.3

Q ss_pred             cEEEEEeCCH-HH-----HHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           30 VHVLAVDDSF-VD-----RKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        30 ~~ILIVddd~-~~-----~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      ++|+||+++. ..     ...|.+.|+..||+|..+.+..+++..+.          ......+|++|++-.   ...++
T Consensus         1 ~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~---~~~~~   67 (713)
T PRK15399          1 MNIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIE----------HNPRICGVIFDWDEY---SLDLC   67 (713)
T ss_pred             CcEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHh----------cccceeEEEEecccc---hHHHH
Confidence            4678887763 11     34566677889999999999999999874          344688999996433   35689


Q ss_pred             HHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCC
Q 026776          104 KKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK  146 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~  146 (233)
                      +.+|+...  .+||+++........+....-.-+++|+..-.+
T Consensus        68 ~~~~~~~~--~~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (713)
T PRK15399         68 SDINQLNE--YLPLYAFINTHSTMDVSVQDMRMALWFFEYALG  108 (713)
T ss_pred             HHHHHhCC--CCCEEEEcCccccccCChhHhhhcceeeeeccC
Confidence            99998876  999999977543333322333345666665443

>COG4999 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]

Probab=96.04  E-value=0.036  Score=40.96  Aligned_cols=109  Identities=10%  Similarity=0.129  Sum_probs=74.2

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH--
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK--  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~--  104 (233)
                      -..-+.+.||.|.........+|...+.+|+.-.+..+.               -...||++++.+-.+-.+...+-.  
T Consensus         9 L~gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~~l---------------p~~hYD~~Ll~vavtfr~n~tm~~~~   73 (140)
T COG4999           9 LAGKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFSAL---------------PPAHYDMMLLGVAVTFRENLTMQHER   73 (140)
T ss_pred             hccceeEEecCccHHHHHHHHHHhcCCceEEeccccccc---------------ChhhhceeeecccccccCCchHHHHH
Confidence            345689999999999999999999999999876554322               234699999998877554433322  


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHH
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKR  152 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~  152 (233)
                      ..+... ..+-.|+.+ .......+.+....|+.++|.||++.-.|..
T Consensus        74 l~~Al~-mtd~vilal-Ps~~qv~AeqLkQ~g~~~CllKPls~~rLlp  119 (140)
T COG4999          74 LAKALS-MTDFVILAL-PSHAQVNAEQLKQDGAGACLLKPLSSTRLLP  119 (140)
T ss_pred             HHHHHh-hhcceEEec-CcHHHHhHHHHhhcchHhHhhCcchhhhhHH
Confidence            112211 113333333 3334455677888999999999999888754

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=96.03  E-value=0.15  Score=41.42  Aligned_cols=101  Identities=13%  Similarity=0.141  Sum_probs=69.8

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CH
Q 026776           29 EVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TG   99 (233)
Q Consensus        29 ~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g   99 (233)
                      +.+|++.    |-+..=...+..+|+..||+|....   ..++.++.+           ....||+|.+...|...  ..
T Consensus        82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~-----------~~~~~d~v~lS~~~~~~~~~~  150 (201)
T cd02070          82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAV-----------KEHKPDILGLSALMTTTMGGM  150 (201)
T ss_pred             CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEeccccccHHHH
Confidence            4567766    6666667788888999999998643   456777776           56689999999877643  45


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      .++++.||+.....+++|++-...-..+   -+-..|||.|-.-
T Consensus       151 ~~~i~~lr~~~~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~d  191 (201)
T cd02070         151 KEVIEALKEAGLRDKVKVMVGGAPVNQE---FADEIGADGYAED  191 (201)
T ss_pred             HHHHHHHHHCCCCcCCeEEEECCcCCHH---HHHHcCCcEEECC
Confidence            6778888887543356665544333332   3556799988753

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.

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=95.93  E-value=0.09  Score=50.61  Aligned_cols=100  Identities=13%  Similarity=0.167  Sum_probs=68.0

Q ss_pred             cEEEEEeCCH-H-----HHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           30 VHVLAVDDSF-V-----DRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        30 ~~ILIVddd~-~-----~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      |+|++|+++. .     -.+.|...|++.||+|..+.+..+++..+.          ......+|++|++-   ....++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~---~~~~~~   67 (714)
T PRK15400          1 MNVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIE----------NNARLCGVIFDWDK---YNLELC   67 (714)
T ss_pred             CcEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHh----------cccceeEEEEecch---hhHHHH
Confidence            4677787662 1     144566677889999999999999999874          34467899999643   235589


Q ss_pred             HHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCC
Q 026776          104 KKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP  144 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP  144 (233)
                      +.+|....  .+||+++........+....-.-+++|+..-
T Consensus        68 ~~~~~~~~--~~Pv~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (714)
T PRK15400         68 EEISKMNE--NLPLYAFANTYSTLDVSLNDLRLQVSFFEYA  106 (714)
T ss_pred             HHHHHhCC--CCCEEEEccccccccCChHHhhhccceeeec
Confidence            99998876  9999999775433322222223355666544

>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=95.50  E-value=0.29  Score=35.83  Aligned_cols=93  Identities=15%  Similarity=0.226  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcC-CCCCC-CHHHHHHHHhccCCC
Q 026776           38 SFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDY-CMPGM-TGYELLKKIKDSSAL  112 (233)
Q Consensus        38 d~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~-~mp~~-~g~~ll~~Lr~~~~~  112 (233)
                      .+.-...+..+|++.||+|...+   +.++..+.+           ...+||+|.+.. ..+.. ...++++.+|+..+ 
T Consensus        13 ~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~-----------~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p-   80 (121)
T PF02310_consen   13 HPLGLLYLAAYLRKAGHEVDILDANVPPEELVEAL-----------RAERPDVVGISVSMTPNLPEAKRLARAIKERNP-   80 (121)
T ss_dssp             TSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHH-----------HHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCT-
T ss_pred             hhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHH-----------hcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCC-
Confidence            45667788999999999998763   345666665           345799999988 33333 45677888877655 


Q ss_pred             CCCcEEEEeCCCcHHHHHHHHH--cCCceEEeCC
Q 026776          113 REIPVVIMSSENILARIDRCLE--DGAEDFIVKP  144 (233)
Q Consensus       113 ~~~piIvlt~~~~~~~~~~al~--~Ga~dyL~KP  144 (233)
                       ++++++--.+... .-...++  .|+|..+.-.
T Consensus        81 -~~~iv~GG~~~t~-~~~~~l~~~~~~D~vv~Ge  112 (121)
T PF02310_consen   81 -NIPIVVGGPHATA-DPEEILREYPGIDYVVRGE  112 (121)
T ss_dssp             -TSEEEEEESSSGH-HHHHHHHHHHTSEEEEEET
T ss_pred             -CCEEEEECCchhc-ChHHHhccCcCcceecCCC
Confidence             6666665554432 2334454  6777766543

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 ....

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=95.44  E-value=0.24  Score=40.74  Aligned_cols=103  Identities=13%  Similarity=0.139  Sum_probs=69.7

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CH
Q 026776           29 EVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TG   99 (233)
Q Consensus        29 ~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g   99 (233)
                      .-+|++.    |.+..=...+..+|+..||+|....   ..++.++.+           .+.++|+|.+...|+..  .-
T Consensus        88 ~~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~-----------~~~~~~~V~lS~~~~~~~~~~  156 (213)
T cd02069          88 KGKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGVMVPIEKILEAA-----------KEHKADIIGLSGLLVPSLDEM  156 (213)
T ss_pred             CCeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEccchhccHHHH
Confidence            4566666    5667667777888899999998854   466677776           56789999999887743  34


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHH---HHHcCCceEEeCC
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDR---CLEDGAEDFIVKP  144 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~---al~~Ga~dyL~KP  144 (233)
                      -++++.|++.+.  +++|++-....+.+....   +-..|||.|-.-.
T Consensus       157 ~~~i~~L~~~~~--~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~da  202 (213)
T cd02069         157 VEVAEEMNRRGI--KIPLLIGGAATSRKHTAVKIAPEYDGPVVYVKDA  202 (213)
T ss_pred             HHHHHHHHhcCC--CCeEEEEChhcCHHHHhhhhccccCCCceEecCH
Confidence            567888887644  677665544444443322   2346998887543

This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=95.37  E-value=0.46  Score=46.01  Aligned_cols=118  Identities=15%  Similarity=0.104  Sum_probs=76.2

Q ss_pred             CCCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--
Q 026776           27 TEEVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--   97 (233)
Q Consensus        27 ~~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--   97 (233)
                      .++.+|++.    |.+..-...+..+|+..||+|..-   .+.+++.+..           ....+|+|++...+...  
T Consensus       580 g~rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa-----------~~~~a~ivvlcs~d~~~~e  648 (714)
T PRK09426        580 GRRPRILVAKMGQDGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQA-----------VENDVHVVGVSSLAAGHKT  648 (714)
T ss_pred             CCCceEEEEecCCcchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHH-----------HHcCCCEEEEeccchhhHH
Confidence            345677655    345555667788889999999643   3567777776           34568888886555432  


Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH-HHHHHH
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK-RIKDYL  157 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~-~~~~~l  157 (233)
                      ..-.+++.|++... .+++ |++.+.--.+....+.++|+|+|+..-.+..++. .+.+.+
T Consensus       649 ~~~~l~~~Lk~~G~-~~v~-vl~GG~~~~~~~~~l~~aGvD~~i~~g~d~~~~L~~l~~~l  707 (714)
T PRK09426        649 LVPALIEALKKLGR-EDIM-VVVGGVIPPQDYDFLYEAGVAAIFGPGTVIADAAIDLLELL  707 (714)
T ss_pred             HHHHHHHHHHhcCC-CCcE-EEEeCCCChhhHHHHHhCCCCEEECCCCCHHHHHHHHHHHH
Confidence            35578888887642 1233 3344432233345677899999999988877754 344444

>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm)

Probab=95.27  E-value=0.92  Score=34.21  Aligned_cols=104  Identities=12%  Similarity=0.047  Sum_probs=70.5

Q ss_pred             CCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CHHHHHHHHhccCC
Q 026776           37 DSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TGYELLKKIKDSSA  111 (233)
Q Consensus        37 dd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g~~ll~~Lr~~~~  111 (233)
                      -+..-...+..+|+..||+|...   -+.++.++..           ..+.+|+|.+..-|...  ..-++.+.|++...
T Consensus        11 ~HdiGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa-----------~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl   79 (128)
T cd02072          11 CHAVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAA-----------IETDADAILVSSLYGHGEIDCKGLREKCDEAGL   79 (128)
T ss_pred             hhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEeccccCCHHHHHHHHHHHHHCCC
Confidence            34555667888899999999864   3667777776           45689999998766543  23567778877643


Q ss_pred             CCCCcEEEEeCCC-----c-HHHHHHHHHcCCceEEeCCCCHHHHHHH
Q 026776          112 LREIPVVIMSSEN-----I-LARIDRCLEDGAEDFIVKPVKLSDVKRI  153 (233)
Q Consensus       112 ~~~~piIvlt~~~-----~-~~~~~~al~~Ga~dyL~KP~~~~eL~~~  153 (233)
                       ..++++ +.+..     + .+...++.++|++.++...-+++++...
T Consensus        80 -~~v~vi-vGG~~~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~~  125 (128)
T cd02072          80 -KDILLY-VGGNLVVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIAD  125 (128)
T ss_pred             -CCCeEE-EECCCCCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHH
Confidence             354444 43331     1 3344668899999999988877776543

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.

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=95.11  E-value=0.12  Score=45.08  Aligned_cols=65  Identities=22%  Similarity=0.092  Sum_probs=44.2

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeC-CCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776           85 VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS-ENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus        85 ~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~-~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      -.+|++|..+-.    .++...   .+ ++..++++.. ..+.+....+++.|+.+||.+|++..+|.+.+..+
T Consensus        20 ~~~v~~~~~~~~----~~~~~~---~p-~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~P~~~~~l~~~l~~~   85 (322)
T TIGR03815        20 APLVLVDADMAE----ACAAAG---LP-RRRRVVLVGGGEPGGALWRAAAAVGAEHVAVLPEAEGWLVELLADL   85 (322)
T ss_pred             CCeEEECchhhh----HHHhcc---CC-CCCCEEEEeCCCCCHHHHHHHHHhChhheeeCCCCHHHHHHHHHhh
Confidence            578999864311    112221   12 1334554544 55688899999999999999999999998777665

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.

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=94.37  E-value=0.56  Score=38.00  Aligned_cols=92  Identities=9%  Similarity=0.091  Sum_probs=60.9

Q ss_pred             CCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CHHHHHHHHhccCC
Q 026776           37 DSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TGYELLKKIKDSSA  111 (233)
Q Consensus        37 dd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g~~ll~~Lr~~~~  111 (233)
                      .+..-...+..+|+..||+|....   ..++.++.+           ....||+|.+...|...  .-.++++.|++...
T Consensus        96 ~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~-----------~~~~pd~v~lS~~~~~~~~~~~~~i~~l~~~~~  164 (197)
T TIGR02370        96 VHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKV-----------KKEKPLMLTGSALMTTTMYGQKDINDKLKEEGY  164 (197)
T ss_pred             hhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEccccccCHHHHHHHHHHHHHcCC
Confidence            445556667778899999998754   556677776           56789999999877643  23567778887643


Q ss_pred             CCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          112 LREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       112 ~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      ..+++|++ .+......  -+.+.|+|.|-.
T Consensus       165 ~~~v~i~v-GG~~~~~~--~~~~~gad~~~~  192 (197)
T TIGR02370       165 RDSVKFMV-GGAPVTQD--WADKIGADVYGE  192 (197)
T ss_pred             CCCCEEEE-EChhcCHH--HHHHhCCcEEeC
Confidence            23455554 44332222  355779999864

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.

>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=93.41  E-value=1.2  Score=37.39  Aligned_cols=96  Identities=17%  Similarity=0.193  Sum_probs=63.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHH------HhhcCCEEE--EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC----
Q 026776           28 EEVHVLAVDDSFVDRKVIERL------LTISSCKVT--AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP----   95 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~------L~~~g~~v~--~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp----   95 (233)
                      .-+|+=|+.|+....--+.+.      |-+.||.+.  +.+|...+-+..            ...+++|     ||    
T Consensus        92 ~~iKlEVi~d~~~Llpd~~~tv~aa~~L~~~Gf~vlpyc~dd~~~ar~l~------------~~G~~~v-----mPlg~p  154 (248)
T cd04728          92 DWIKLEVIGDDKTLLPDPIETLKAAEILVKEGFTVLPYCTDDPVLAKRLE------------DAGCAAV-----MPLGSP  154 (248)
T ss_pred             CeEEEEEecCccccccCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHH------------HcCCCEe-----CCCCcC
Confidence            346777777654333222222      334588776  566777776654            2346666     44    


Q ss_pred             -----CCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776           96 -----GMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus        96 -----~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                           +..-.++++.|++. .  .+|||+=.+-...+++.++++.|+++++.-
T Consensus       155 IGsg~Gi~~~~~I~~I~e~-~--~vpVI~egGI~tpeda~~AmelGAdgVlV~  204 (248)
T cd04728         155 IGSGQGLLNPYNLRIIIER-A--DVPVIVDAGIGTPSDAAQAMELGADAVLLN  204 (248)
T ss_pred             CCCCCCCCCHHHHHHHHHh-C--CCcEEEeCCCCCHHHHHHHHHcCCCEEEEC
Confidence                 12126788888875 3  789998888889999999999999999764

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=93.16  E-value=1.3  Score=37.10  Aligned_cols=96  Identities=17%  Similarity=0.193  Sum_probs=63.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHH------HHhhcCCEEE--EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC----
Q 026776           28 EEVHVLAVDDSFVDRKVIER------LLTISSCKVT--AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP----   95 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~------~L~~~g~~v~--~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp----   95 (233)
                      .-+|+=|+.|+....--+.+      .|-+.||.+.  +.+|...+-+..            ...+++|     ||    
T Consensus        92 ~~iKlEVi~d~~~llpd~~~tv~aa~~L~~~Gf~vlpyc~~d~~~ak~l~------------~~G~~~v-----mPlg~p  154 (250)
T PRK00208         92 NWIKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPYCTDDPVLAKRLE------------EAGCAAV-----MPLGAP  154 (250)
T ss_pred             CeEEEEEecCCCCCCcCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHH------------HcCCCEe-----CCCCcC
Confidence            34677777765432222222      2334588776  566777776554            2356776     44    


Q ss_pred             -----CCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776           96 -----GMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus        96 -----~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                           +..-.++++.+++. .  .+|||+=.+-...+++.++++.|+++++.-
T Consensus       155 IGsg~gi~~~~~i~~i~e~-~--~vpVIveaGI~tpeda~~AmelGAdgVlV~  204 (250)
T PRK00208        155 IGSGLGLLNPYNLRIIIEQ-A--DVPVIVDAGIGTPSDAAQAMELGADAVLLN  204 (250)
T ss_pred             CCCCCCCCCHHHHHHHHHh-c--CCeEEEeCCCCCHHHHHHHHHcCCCEEEEC
Confidence                 12126778888875 3  789998888889999999999999999764

>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]

Probab=92.99  E-value=0.41  Score=38.46  Aligned_cols=77  Identities=21%  Similarity=0.293  Sum_probs=52.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCC--CCCC--HHHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCM--PGMT--GYELLKK  105 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~m--p~~~--g~~ll~~  105 (233)
                      ++||+||+...+--.|.++|++.|+++....+...-+..+           +...||.|++.-.-  |...  ..+++++
T Consensus         2 ~~IL~IDNyDSFtyNLv~yl~~lg~~v~V~rnd~~~~~~~-----------~~~~pd~iviSPGPG~P~d~G~~~~~i~~   70 (191)
T COG0512           2 MMILLIDNYDSFTYNLVQYLRELGAEVTVVRNDDISLELI-----------EALKPDAIVISPGPGTPKDAGISLELIRR   70 (191)
T ss_pred             ceEEEEECccchHHHHHHHHHHcCCceEEEECCccCHHHH-----------hhcCCCEEEEcCCCCChHHcchHHHHHHH
Confidence            5799999999999999999999998887766553222233           34568999997532  2212  3445555


Q ss_pred             HhccCCCCCCcEEEEeC
Q 026776          106 IKDSSALREIPVVIMSS  122 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~  122 (233)
                      +   .  .++||+-+.=
T Consensus        71 ~---~--~~~PiLGVCL   82 (191)
T COG0512          71 F---A--GRIPILGVCL   82 (191)
T ss_pred             h---c--CCCCEEEECc
Confidence            4   2  2789988864

>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional

Probab=92.50  E-value=1.8  Score=36.58  Aligned_cols=74  Identities=18%  Similarity=0.159  Sum_probs=53.3

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHHH
Q 026776           82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDY  156 (233)
Q Consensus        82 ~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~~  156 (233)
                      ...||.|++|++-...+--++...++......-.+++=+ ...+...+.++++.|+++++.--+...+ .+++++.
T Consensus        38 ~~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRv-p~~~~~~i~r~LD~Ga~giivP~v~tae~a~~~v~a  112 (256)
T PRK10558         38 LAGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRV-PTNEPVIIKRLLDIGFYNFLIPFVETAEEARRAVAS  112 (256)
T ss_pred             hcCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEEC-CCCCHHHHHHHhCCCCCeeeecCcCCHHHHHHHHHH
Confidence            346999999999998888888777776544334455545 4557788899999999999887665444 4444443

>PRK03958 tRNA 2'-O-methylase; Reviewed

Probab=91.87  E-value=5.4  Score=31.71  Aligned_cols=58  Identities=10%  Similarity=0.126  Sum_probs=48.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG   96 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~   96 (233)
                      -+++|+.+++..++.+++++..+|  |.|....+.+++++.+..         ....+.++..+....+
T Consensus        32 ~~~yiv~~~~~q~~~v~~I~~~WGg~fnv~~~~s~~~~i~~~k~---------~G~vvhLtmyga~~~~   91 (176)
T PRK03958         32 DKIILASNDEHVKESVEDIVERWGGPFEVEVTKSWKKEIREWKD---------GGIVVHLTMYGENIQD   91 (176)
T ss_pred             ceEEEecCcHHHHHHHHHHHHhcCCceEEEEcCCHHHHHHHHHh---------CCcEEEEEEecCCccc
Confidence            468999999999999999999987  789999999999988852         2346888888887765

>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase

Probab=91.26  E-value=3.6  Score=34.61  Aligned_cols=73  Identities=18%  Similarity=0.139  Sum_probs=53.3

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHHH
Q 026776           83 LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDY  156 (233)
Q Consensus        83 ~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~~  156 (233)
                      ..||.|++|++-...+--++...++......-.+++=+ ...+...+.++++.|+++++.--+...+ .+++++.
T Consensus        32 ~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRv-p~~~~~~i~r~LD~Ga~gIivP~v~taeea~~~v~a  105 (249)
T TIGR03239        32 AGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRP-PWNEPVIIKRLLDIGFYNFLIPFVESAEEAERAVAA  105 (249)
T ss_pred             cCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEEC-CCCCHHHHHHHhcCCCCEEEecCcCCHHHHHHHHHH
Confidence            45999999999998888888777776544333455555 5567788899999999999887665444 4455443

In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=90.66  E-value=3.4  Score=30.60  Aligned_cols=104  Identities=18%  Similarity=0.191  Sum_probs=62.1

Q ss_pred             HHHHHHHHHhhcCCEEEEEC--CHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCC-CHHHHHHHHhccCCCCCCc
Q 026776           41 DRKVIERLLTISSCKVTAVD--SGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGM-TGYELLKKIKDSSALREIP  116 (233)
Q Consensus        41 ~~~~l~~~L~~~g~~v~~a~--~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~-~g~~ll~~Lr~~~~~~~~p  116 (233)
                      ....+..+|++.|+++....  ..++.++.+           .. ..||+|.+.+..... ...++++.+|+..+  +++
T Consensus         4 gl~~~aa~l~~~g~~v~~~~~~~~~~~~~~~-----------~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p--~~~   70 (127)
T cd02068           4 GLAYLAAVLEDAGFIVAEHDVLSADDIVEDI-----------KELLKPDVVGISLMTSAIYEALELAKIAKEVLP--NVI   70 (127)
T ss_pred             hHHHHHHHHHHCCCeeeecCCCCHHHHHHHH-----------HHhcCCCEEEEeeccccHHHHHHHHHHHHHHCC--CCE
Confidence            34567788888888766543  444455555           23 579999998754443 46778899998765  666


Q ss_pred             EEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          117 VVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       117 iIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      |++-..+... .....+.....||+.+--.-.-+..+++.+.
T Consensus        71 iv~GG~~~t~-~p~~~~~~~~~D~vv~GEgE~~~~~l~~~l~  111 (127)
T cd02068          71 VVVGGPHATF-FPEEILEEPGVDFVVIGEGEETFLKLLEELE  111 (127)
T ss_pred             EEECCcchhh-CHHHHhcCCCCCEEEECCcHHHHHHHHHHHH
Confidence            6654444321 2222233334567776544444556665554

This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.

>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional

Probab=90.42  E-value=4.4  Score=34.50  Aligned_cols=73  Identities=16%  Similarity=0.209  Sum_probs=53.0

Q ss_pred             CcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHHH
Q 026776           83 LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDY  156 (233)
Q Consensus        83 ~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~~  156 (233)
                      ..||.|++|++-...+--++...++........+++-+ ...+...+.+++++|+++.+.--+...+ .+++++.
T Consensus        38 ~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRv-p~~~~~~i~r~LD~GA~GIivP~V~saeeA~~~V~a  111 (267)
T PRK10128         38 SGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRP-VEGSKPLIKQVLDIGAQTLLIPMVDTAEQARQVVSA  111 (267)
T ss_pred             cCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEEC-CCCCHHHHHHHhCCCCCeeEecCcCCHHHHHHHHHh
Confidence            35999999999988887777777776554334455544 5567788899999999999997776555 4444443

>TIGR02311 HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase

Probab=90.12  E-value=3.8  Score=34.43  Aligned_cols=76  Identities=16%  Similarity=0.116  Sum_probs=54.0

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC-CCCHHHHHHHHHHHh
Q 026776           82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK-PVKLSDVKRIKDYLT  158 (233)
Q Consensus        82 ~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K-P~~~~eL~~~~~~l~  158 (233)
                      ...+|.|++|++-...+.-++...++........+++=+ ...+...+.++++.|+++++.- --+.++++++++.+.
T Consensus        31 ~~g~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv-~~~~~~~i~~~Ld~Ga~gIivP~v~s~e~a~~~v~~~~  107 (249)
T TIGR02311        31 GAGFDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRP-AIGDPVLIKQLLDIGAQTLLVPMIETAEQAEAAVAATR  107 (249)
T ss_pred             hcCCCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEEC-CCCCHHHHHHHhCCCCCEEEecCcCCHHHHHHHHHHcC
Confidence            346999999999888888888877776533223444444 4455678899999999999664 455666777766654

This model represents the aldolase which performs the final step unique to the 4-hydroxyphenylacetic acid catabolism pathway in which 2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into pyruvate and succinate-semialdehyde. The gene for enzyme is generally found adjacent to other genes for this pathway organized into an operon.

>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=90.01  E-value=5.6  Score=28.65  Aligned_cols=37  Identities=16%  Similarity=0.316  Sum_probs=29.9

Q ss_pred             CcHHHHHHHHHcCCceEEeCCC--CHHHHHHHHHHHhhh
Q 026776          124 NILARIDRCLEDGAEDFIVKPV--KLSDVKRIKDYLTRD  160 (233)
Q Consensus       124 ~~~~~~~~al~~Ga~dyL~KP~--~~~eL~~~~~~l~~~  160 (233)
                      ...+.+..+++.|..=|+.||+  +.+++.++++...+.
T Consensus        74 ~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~  112 (120)
T PF01408_consen   74 SHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEK  112 (120)
T ss_dssp             GHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHh
Confidence            3467788999999999999998  778888887766553

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 ....

>PF07688 KaiA: KaiA domain; InterPro: IPR011648 KaiA is a component of the kaiABC clock protein complex, which constitutes the main circadian regulator in cyanobacteria

Probab=89.40  E-value=3.2  Score=34.93  Aligned_cols=79  Identities=18%  Similarity=0.222  Sum_probs=55.8

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      .|.+.-.++.....+..+|....|.+....++++.++.+..         ..+.+|++|+...   ..-..+...|.+.+
T Consensus         2 sI~~~v~s~~Laqsl~~~L~~dRY~l~~~~s~~ef~~~le~---------~~e~iDCLvle~~---~~~~~~~~~L~e~g   69 (283)
T PF07688_consen    2 SICLLVSSPALAQSLRQWLPGDRYELVQVDSPEEFLEFLEQ---------HREQIDCLVLEQS---PLLPPLFNQLYEQG   69 (283)
T ss_dssp             EEEEE-S-HHHHHHHHHHT-STTEEEEEESSCHHHHHHHCC---------TTTT-SEEEEETT---STTHHHHHHHHHCT
T ss_pred             eEEEEeCCHHHHHHHHHHcccCceEEEEcCcHHHHHHHHHh---------chhccCEEEEecC---CCcHHHHHHHHHcC
Confidence            46666677888899999998888999999999999999953         3457999999754   44566888888876


Q ss_pred             CCCCCcEEEEeCC
Q 026776          111 ALREIPVVIMSSE  123 (233)
Q Consensus       111 ~~~~~piIvlt~~  123 (233)
                      .  -.|+|++...
T Consensus        70 ~--LLPaVil~~~   80 (283)
T PF07688_consen   70 I--LLPAVILGSS   80 (283)
T ss_dssp             ------EEEES--
T ss_pred             c--cccEEEEecC
Confidence            5  7899998663

The kaiABC complex may act as a promoter-nonspecific transcription regulator that represses transcription, possibly by acting on the state of chromosome compaction. In the complex, KaiA enhances the phosphorylation status of kaiC. In contrast, the presence of kaiB in the complex decreases the phosphorylation status of kaiC, suggesting that kaiB acts by antagonising the interaction between kaiA and kaiC. The activity of KaiA activates kaiBC expression, while KaiC represses it. The overall fold of the KaiA monomer is that of a four-helix bundle, which forms a dimer in the known structure []. KaiA functions as a homodimer. Each monomer is composed of three functional domains: the N-terminal amplitude-amplifier domain, the central period-adjuster domain and the C-termianl clock-oscillator domain. The N-terminal domain of KaiA, from cyanobacteria, acts as a psuedo-receiver domain, but lacks the conserved aspartyl residue required for phosphotransfer in response regulators []. The C-terminal domain is responsible for dimer formation, binding to KaiC, enhancing KaiC phosphorylation and generating the circadian oscillations []. The KaiA protein from Anabaena sp. (strain PCC 7120) lacks the N-terminal CheY-like domain.; GO: 0006468 protein phosphorylation, 0007623 circadian rhythm; PDB: 1V2Z_A 1Q6B_B 1Q6A_A 1SV1_B 1SUY_B 1R5Q_A 1M2E_A 1R8J_B 1M2F_A.

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=89.10  E-value=2.1  Score=36.25  Aligned_cols=60  Identities=17%  Similarity=0.395  Sum_probs=45.5

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCC------CcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSE------NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~------~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.+++++++|+...  ++|+++++-.      +.+.....|.++|+++.|.-.+..++.......+.+
T Consensus        75 ~~~~~~~~~r~~~~--~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~~~  140 (258)
T PRK13111         75 DVFELVREIREKDP--TIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAAKK  140 (258)
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            45778888885433  7898888744      445668889999999999988888888777766654

>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=89.04  E-value=8.1  Score=33.13  Aligned_cols=96  Identities=19%  Similarity=0.145  Sum_probs=61.0

Q ss_pred             EEEEeCCHHHHHHHHHHHhh---cC---CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLLTI---SS---CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~---~g---~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      |||-|++..+. .+...++.   ..   .-.+.+++.+++.+.+.            ..+|+|++|- |...+--++.+.
T Consensus       157 vLikdnHi~~~-~i~~av~~~r~~~~~~kIeVEv~~leea~~a~~------------agaDiI~LDn-~~~e~l~~~v~~  222 (278)
T PRK08385        157 ILIKDNHLALV-PLEEAIRRAKEFSVYKVVEVEVESLEDALKAAK------------AGADIIMLDN-MTPEEIREVIEA  222 (278)
T ss_pred             EEEccCHHHHH-HHHHHHHHHHHhCCCCcEEEEeCCHHHHHHHHH------------cCcCEEEECC-CCHHHHHHHHHH
Confidence            78888886555 45555532   21   13345789999998873            3579999994 333334445555


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      ++.... ..-..+..++.-+.+.+.+..+.|+|.+-.
T Consensus       223 l~~~~~-~~~~~leaSGGI~~~ni~~yA~tGvD~Is~  258 (278)
T PRK08385        223 LKREGL-RERVKIEVSGGITPENIEEYAKLDVDVISL  258 (278)
T ss_pred             HHhcCc-CCCEEEEEECCCCHHHHHHHHHcCCCEEEe
Confidence            554331 123456677777888888888999886643

>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus

Probab=88.25  E-value=7.6  Score=27.84  Aligned_cols=93  Identities=12%  Similarity=0.110  Sum_probs=56.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECC-HHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDS-GRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~-~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .+|.+||.++...+.+    ...|+.+...+- -.+.++.+           .-.+.+.+++... .+...+.++..+|+
T Consensus        22 ~~vvvid~d~~~~~~~----~~~~~~~i~gd~~~~~~l~~a-----------~i~~a~~vv~~~~-~d~~n~~~~~~~r~   85 (116)
T PF02254_consen   22 IDVVVIDRDPERVEEL----REEGVEVIYGDATDPEVLERA-----------GIEKADAVVILTD-DDEENLLIALLARE   85 (116)
T ss_dssp             SEEEEEESSHHHHHHH----HHTTSEEEES-TTSHHHHHHT-----------TGGCESEEEEESS-SHHHHHHHHHHHHH
T ss_pred             CEEEEEECCcHHHHHH----HhcccccccccchhhhHHhhc-----------CccccCEEEEccC-CHHHHHHHHHHHHH
Confidence            6788999887664433    345666655432 23445544           2235788887654 23445667778887


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      ..+  ..++++.....  .....+.++|++..+.
T Consensus        86 ~~~--~~~ii~~~~~~--~~~~~l~~~g~d~vi~  115 (116)
T PF02254_consen   86 LNP--DIRIIARVNDP--ENAELLRQAGADHVIS  115 (116)
T ss_dssp             HTT--TSEEEEEESSH--HHHHHHHHTT-SEEEE
T ss_pred             HCC--CCeEEEEECCH--HHHHHHHHCCcCEEEC
Confidence            655  67777776543  4455667789987764

The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....

>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]

Probab=87.92  E-value=11  Score=31.49  Aligned_cols=78  Identities=21%  Similarity=0.156  Sum_probs=61.7

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776           82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus        82 ~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ...||-+++|.+-...|.-.++..|+........|+|-... ++...+.++++.|+..+|.--++..|=.+..-...|+
T Consensus        36 ~aGfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR~p~-g~~~~Ikq~LD~GAqtlliPmV~s~eqAr~~V~A~rY  113 (255)
T COG3836          36 TAGFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVRPPV-GDPVMIKQLLDIGAQTLLIPMVDTAEQARQAVAATRY  113 (255)
T ss_pred             hcCCCEEEecccccCccHHHHHHHHHHhhccCCCCeeeCCC-CCHHHHHHHHccccceeeeeccCCHHHHHHHHHhccC
Confidence            44699999999999999999999999887777888887654 4567889999999999999877766654444444443

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=87.34  E-value=3.3  Score=34.96  Aligned_cols=60  Identities=22%  Similarity=0.439  Sum_probs=45.0

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCCc------HHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSENI------LARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~~------~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.+++++.+|+...  .+|+++++-...      ......+.++|+++++.-....++....+..+.+
T Consensus        73 ~~~~~v~~ir~~~~--~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~~  138 (256)
T TIGR00262        73 KCFELLKKVRQKHP--NIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAKK  138 (256)
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHHH
Confidence            45677888886433  678777765543      6778889999999999988888887777766654

Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.

>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH

Probab=87.19  E-value=3.3  Score=33.13  Aligned_cols=72  Identities=21%  Similarity=0.139  Sum_probs=45.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCE---EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH-HHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCK---VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG-YELLKK  105 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~---v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g-~~ll~~  105 (233)
                      -+|..||-+......+++.++..+..   .....+...++.....         ....||+|++|---..... .+++..
T Consensus        66 ~~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~---------~~~~fDiIflDPPY~~~~~~~~~l~~  136 (183)
T PF03602_consen   66 KSVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAK---------KGEKFDIIFLDPPYAKGLYYEELLEL  136 (183)
T ss_dssp             SEEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHH---------CTS-EEEEEE--STTSCHHHHHHHHH
T ss_pred             CeEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcc---------cCCCceEEEECCCcccchHHHHHHHH
Confidence            57999999999999999999887732   2334566666654421         3467999999953333333 667777


Q ss_pred             HhccC
Q 026776          106 IKDSS  110 (233)
Q Consensus       106 Lr~~~  110 (233)
                      |.+..
T Consensus       137 l~~~~  141 (183)
T PF03602_consen  137 LAENN  141 (183)
T ss_dssp             HHHTT
T ss_pred             HHHCC
Confidence            76543

They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=87.13  E-value=9.7  Score=35.35  Aligned_cols=108  Identities=19%  Similarity=0.162  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHhhcC-CEEEEEC------CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC-CHHHHHHHHhcc
Q 026776           38 SFVDRKVIERLLTISS-CKVTAVD------SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM-TGYELLKKIKDS  109 (233)
Q Consensus        38 d~~~~~~l~~~L~~~g-~~v~~a~------~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~-~g~~ll~~Lr~~  109 (233)
                      .|.-...+...|+..| ++|...+      +.++..+.+           ....||+|.+...-+.. ...++++.+|+.
T Consensus        21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l-----------~~~~pdvVgis~~t~~~~~a~~~~~~~k~~   89 (497)
T TIGR02026        21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERL-----------RAHCPDLVLITAITPAIYIACETLKFARER   89 (497)
T ss_pred             CCHHHHHHHHHHHhcCCcceEEecccccCCCHHHHHHHH-----------HhcCcCEEEEecCcccHHHHHHHHHHHHHH
Confidence            4556677888898899 6887764      223333434           34579999997655543 355778888876


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHH-cCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLE-DGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~-~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  +++||+-..+... ...+++. ....||+..--.-..+.++++.+..
T Consensus        90 ~P--~~~iV~GG~h~t~-~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll~~l~~  137 (497)
T TIGR02026        90 LP--NAIIVLGGIHPTF-MFHQVLTEAPWIDFIVRGEGEETVVKLIAALEN  137 (497)
T ss_pred             CC--CCEEEEcCCCcCc-CHHHHHhcCCCccEEEeCCcHHHHHHHHHHHHc
Confidence            55  6666654444332 2234453 3445787777665556667666543

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=85.83  E-value=3.9  Score=33.29  Aligned_cols=57  Identities=16%  Similarity=0.348  Sum_probs=41.8

Q ss_pred             HHHHHHhccCCCCCCcEEEEeCC------CcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          101 ELLKKIKDSSALREIPVVIMSSE------NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       101 ~ll~~Lr~~~~~~~~piIvlt~~------~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +++++.|...  -.+|||+++-+      +.+.++..+.++|+++||.-.+.++|-..+.+....
T Consensus        84 emvk~ar~~g--vt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~~Rne~~k  146 (268)
T KOG4175|consen   84 EMVKEARPQG--VTCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAETLRNEARK  146 (268)
T ss_pred             HHHHHhcccC--cccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHHHHHHHHh
Confidence            3444444333  37899998754      466788889999999999999999997766665544

>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]

Probab=85.75  E-value=7.3  Score=32.46  Aligned_cols=101  Identities=13%  Similarity=0.121  Sum_probs=64.9

Q ss_pred             CCcEEEEEeCCHH----HHH--HHHHHHhhcCCEEEEECCHH--HHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH
Q 026776           28 EEVHVLAVDDSFV----DRK--VIERLLTISSCKVTAVDSGR--RALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG   99 (233)
Q Consensus        28 ~~~~ILIVddd~~----~~~--~l~~~L~~~g~~v~~a~~~~--~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g   99 (233)
                      .=+|+=|+.|+..    ..+  .-.+.|-+.||.|..+.+.+  -+-++.            ... -..+|=+.-|-.+|
T Consensus        99 ~wiKlEVi~d~~tLlPD~~etl~Aae~Lv~eGF~VlPY~~dD~v~arrLe------------e~G-caavMPl~aPIGSg  165 (262)
T COG2022          99 NWIKLEVIGDEKTLLPDPIETLKAAEQLVKEGFVVLPYTTDDPVLARRLE------------EAG-CAAVMPLGAPIGSG  165 (262)
T ss_pred             CeEEEEEecCCcccCCChHHHHHHHHHHHhCCCEEeeccCCCHHHHHHHH------------hcC-ceEeccccccccCC
Confidence            3466666666432    122  23445677899887654333  332222            111 23556666664443


Q ss_pred             -----HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCC
Q 026776          100 -----YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP  144 (233)
Q Consensus       100 -----~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP  144 (233)
                           -..++.|++..   ++|+|+=.+-+...++..+++.|+|++|...
T Consensus       166 ~G~~n~~~l~iiie~a---~VPviVDAGiG~pSdAa~aMElG~DaVL~NT  212 (262)
T COG2022         166 LGLQNPYNLEIIIEEA---DVPVIVDAGIGTPSDAAQAMELGADAVLLNT  212 (262)
T ss_pred             cCcCCHHHHHHHHHhC---CCCEEEeCCCCChhHHHHHHhcccceeehhh
Confidence                 35677777653   8999999999999999999999999999764

>TIGR01334 modD putative molybdenum utilization protein ModD

Probab=85.75  E-value=6.3  Score=33.75  Aligned_cols=70  Identities=21%  Similarity=0.227  Sum_probs=49.0

Q ss_pred             EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHc
Q 026776           56 VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLED  135 (233)
Q Consensus        56 v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~  135 (233)
                      .+.+.+.+++.+.+.            ..+|+|++| +|+..+-.++++.+++..   .-.++..++.-+.+.+.+....
T Consensus       192 eVEv~tleea~ea~~------------~GaDiI~lD-n~~~e~l~~~v~~l~~~~---~~~~leasGGI~~~ni~~ya~~  255 (277)
T TIGR01334       192 TVEADTIEQALTVLQ------------ASPDILQLD-KFTPQQLHHLHERLKFFD---HIPTLAAAGGINPENIADYIEA  255 (277)
T ss_pred             EEECCCHHHHHHHHH------------cCcCEEEEC-CCCHHHHHHHHHHHhccC---CCEEEEEECCCCHHHHHHHHhc
Confidence            345779999998872            358999999 555555556666665432   2335667777788888888899


Q ss_pred             CCceEE
Q 026776          136 GAEDFI  141 (233)
Q Consensus       136 Ga~dyL  141 (233)
                      |+|-+.
T Consensus       256 GvD~is  261 (277)
T TIGR01334       256 GIDLFI  261 (277)
T ss_pred             CCCEEE
Confidence            987653

The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.

>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=85.70  E-value=4.5  Score=34.84  Aligned_cols=94  Identities=16%  Similarity=0.134  Sum_probs=57.2

Q ss_pred             EEEEeCCHHHHHHHHHHH----hhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLL----TISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L----~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      |||=|++-...-.+...+    +..+  ...+.+++.+++.+.+.            ...|+|++| +|.-.+--++++.
T Consensus       173 ilIkdNHi~~~G~i~~ai~~~r~~~~~~kIeVEv~tl~ea~eal~------------~gaDiI~LD-nm~~e~vk~av~~  239 (289)
T PRK07896        173 ALIKDNHVAAAGSVVAALRAVRAAAPDLPCEVEVDSLEQLDEVLA------------EGAELVLLD-NFPVWQTQEAVQR  239 (289)
T ss_pred             eeecHHHHHHhCcHHHHHHHHHHhCCCCCEEEEcCCHHHHHHHHH------------cCCCEEEeC-CCCHHHHHHHHHH
Confidence            666666543332233333    2222  24456789999998872            358999999 4543333444444


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEE
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI  141 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL  141 (233)
                      ++...   .-..+..++.-+.+.+.+..+.|+|.+-
T Consensus       240 ~~~~~---~~v~ieaSGGI~~~ni~~yA~tGvD~Is  272 (289)
T PRK07896        240 RDARA---PTVLLESSGGLTLDTAAAYAETGVDYLA  272 (289)
T ss_pred             HhccC---CCEEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            44433   2235667777788888888899988654

>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences

Probab=85.70  E-value=4.6  Score=33.66  Aligned_cols=100  Identities=14%  Similarity=0.140  Sum_probs=57.5

Q ss_pred             CCcEEEEEeCCHH----HHHHH--HHHHhhcCCEEEEEC--CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH
Q 026776           28 EEVHVLAVDDSFV----DRKVI--ERLLTISSCKVTAVD--SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG   99 (233)
Q Consensus        28 ~~~~ILIVddd~~----~~~~l--~~~L~~~g~~v~~a~--~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g   99 (233)
                      .-+|+=|+.|+..    ..+.+  .+.|.+.||.|..+.  |.--+-++...            . -.+++=+.-|-.+|
T Consensus        92 ~wIKLEVi~D~~~L~PD~~etl~Aae~Lv~eGF~VlPY~~~D~v~akrL~d~------------G-caavMPlgsPIGSg  158 (247)
T PF05690_consen   92 NWIKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPYCTDDPVLAKRLEDA------------G-CAAVMPLGSPIGSG  158 (247)
T ss_dssp             SEEEE--BS-TTT--B-HHHHHHHHHHHHHTT-EEEEEE-S-HHHHHHHHHT------------T--SEBEEBSSSTTT-
T ss_pred             CeEEEEEeCCCCCcCCChhHHHHHHHHHHHCCCEEeecCCCCHHHHHHHHHC------------C-CCEEEecccccccC
Confidence            3466767766542    23332  345668899887643  44444333311            1 12455556664443


Q ss_pred             -----HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          100 -----YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       100 -----~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                           -..++.|++..   ++|+|+=.+-+...++.++++.|+|++|..
T Consensus       159 ~Gi~n~~~l~~i~~~~---~vPvIvDAGiG~pSdaa~AMElG~daVLvN  204 (247)
T PF05690_consen  159 RGIQNPYNLRIIIERA---DVPVIVDAGIGTPSDAAQAMELGADAVLVN  204 (247)
T ss_dssp             --SSTHHHHHHHHHHG---SSSBEEES---SHHHHHHHHHTT-SEEEES
T ss_pred             cCCCCHHHHHHHHHhc---CCcEEEeCCCCCHHHHHHHHHcCCceeehh
Confidence                 35677887654   899999999899999999999999999975

ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway [].; GO: 0009228 thiamine biosynthetic process; PDB: 1WV2_B 1TYG_C 1XM3_B 2HTM_C 2YZR_C.

>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed

Probab=85.17  E-value=14  Score=33.16  Aligned_cols=67  Identities=15%  Similarity=0.123  Sum_probs=34.4

Q ss_pred             ccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776           85 VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus        85 ~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      .|++++--......|..+++.+..     .+|+|+-.......+..+.+..  .+++..+-+.++|...+..+.
T Consensus       320 aDi~~v~~S~~e~~g~~~lEAma~-----G~PVI~g~~~~~~~e~~~~~~~--~g~~~~~~d~~~La~~l~~ll  386 (425)
T PRK05749        320 ADIAFVGGSLVKRGGHNPLEPAAF-----GVPVISGPHTFNFKEIFERLLQ--AGAAIQVEDAEDLAKAVTYLL  386 (425)
T ss_pred             CCEEEECCCcCCCCCCCHHHHHHh-----CCCEEECCCccCHHHHHHHHHH--CCCeEEECCHHHHHHHHHHHh
Confidence            466555322212234445555432     6788753222333333333321  246667888888877766554

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=84.79  E-value=5.4  Score=31.54  Aligned_cols=94  Identities=17%  Similarity=0.150  Sum_probs=57.0

Q ss_pred             EEEEeCCHHHHHHHHHHHh----hcC--C-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLLT----ISS--C-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~----~~g--~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      |||-|.+-.....+.+.++    ..+  . -...+++.+++.+.+.            ..+|+|.+|-.-| .+--++++
T Consensus        53 ili~~nHi~~~g~i~~av~~~~~~~~~~~~I~VEv~~~ee~~ea~~------------~g~d~I~lD~~~~-~~~~~~v~  119 (169)
T PF01729_consen   53 ILIKDNHIAFFGGIEEAVKAARQAAPEKKKIEVEVENLEEAEEALE------------AGADIIMLDNMSP-EDLKEAVE  119 (169)
T ss_dssp             EEE-HHHHHHHSSHHHHHHHHHHHSTTTSEEEEEESSHHHHHHHHH------------TT-SEEEEES-CH-HHHHHHHH
T ss_pred             EEehHHHHHHhCCHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHH------------hCCCEEEecCcCH-HHHHHHHH
Confidence            5666655554433444332    222  2 3345788999988873            3589999995433 34445566


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEE
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI  141 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL  141 (233)
                      .++....  + ..|.+++.-+.+.+.+..+.|+|.+-
T Consensus       120 ~l~~~~~--~-v~ie~SGGI~~~ni~~ya~~gvD~is  153 (169)
T PF01729_consen  120 ELRELNP--R-VKIEASGGITLENIAEYAKTGVDVIS  153 (169)
T ss_dssp             HHHHHTT--T-SEEEEESSSSTTTHHHHHHTT-SEEE
T ss_pred             HHhhcCC--c-EEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            6655543  3 67777887788888888899987664

4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....

>PLN02591 tryptophan synthase

Probab=84.54  E-value=5.6  Score=33.54  Aligned_cols=59  Identities=17%  Similarity=0.309  Sum_probs=45.1

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.+++++++|+. .  ++|+|+++-.+      ......+|.++|++++|.-.+..+|.......+.+
T Consensus        65 ~~~~~~~~~r~~-~--~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~~~  129 (250)
T PLN02591         65 SVISMLKEVAPQ-L--SCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEAAK  129 (250)
T ss_pred             HHHHHHHHHhcC-C--CCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            467888888843 3  78988777543      34567888899999999999999888777776654

>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional

Probab=84.51  E-value=17  Score=29.70  Aligned_cols=85  Identities=20%  Similarity=0.234  Sum_probs=55.1

Q ss_pred             HHHHHHhh-cCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCC-------CCCCCHHHHHHHHhccCCCCC
Q 026776           44 VIERLLTI-SSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYC-------MPGMTGYELLKKIKDSSALRE  114 (233)
Q Consensus        44 ~l~~~L~~-~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~-------mp~~~g~~ll~~Lr~~~~~~~  114 (233)
                      .+.+.+++ .+..+. .+.+.+++....            ...+|++.+...       .....++++++++++..   .
T Consensus       109 ~~i~~~~~~~~i~vi~~v~t~ee~~~a~------------~~G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~---~  173 (221)
T PRK01130        109 ELVKRIKEYPGQLLMADCSTLEEGLAAQ------------KLGFDFIGTTLSGYTEETKKPEEPDFALLKELLKAV---G  173 (221)
T ss_pred             HHHHHHHhCCCCeEEEeCCCHHHHHHHH------------HcCCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhC---C
Confidence            33444455 555443 355677765443            234787765321       11233578888888753   6


Q ss_pred             CcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          115 IPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       115 ~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      +|++...+-.+.+.+.++++.|++.++.=
T Consensus       174 iPvia~GGI~t~~~~~~~l~~GadgV~iG  202 (221)
T PRK01130        174 CPVIAEGRINTPEQAKKALELGAHAVVVG  202 (221)
T ss_pred             CCEEEECCCCCHHHHHHHHHCCCCEEEEc
Confidence            89988877778889999999999998764

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=84.48  E-value=6.4  Score=32.86  Aligned_cols=59  Identities=20%  Similarity=0.384  Sum_probs=43.0

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .++++++.+|+..   ++|+++++-..      .......+.++|+++++.-.+..+++.++++.+.+
T Consensus        63 ~~~~~~~~vr~~~---~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giiipDl~~ee~~~~~~~~~~  127 (242)
T cd04724          63 DVLELVKEIRKKN---TIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLIIPDLPPEEAEEFREAAKE  127 (242)
T ss_pred             HHHHHHHHHhhcC---CCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHH
Confidence            4677788887642   67877766533      25667888999999999977777777777766655

TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.

>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase

Probab=84.48  E-value=2.8  Score=33.51  Aligned_cols=76  Identities=18%  Similarity=0.199  Sum_probs=45.9

Q ss_pred             EEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC---CCCHHHHHHHHhc
Q 026776           32 VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP---GMTGYELLKKIKD  108 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp---~~~g~~ll~~Lr~  108 (233)
                      |||||....+-..+.++|+..|+.+....+....++.+           ....||.||+- .=|   ..++.+ .+.++.
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~v~v~~~~~~~~~~~-----------~~~~~d~iils-gGpg~p~~~~~~-~~~i~~   68 (188)
T TIGR00566         2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRNDSLTLQEI-----------EALLPLLIVIS-PGPCTPNEAGIS-LEAIRH   68 (188)
T ss_pred             EEEEECCcCHHHHHHHHHHHcCCceEEEECCCCCHHHH-----------HhcCCCEEEEc-CCCCChhhcchh-HHHHHH
Confidence            89999999899999999999998887765332222222           22358866662 222   112221 333333


Q ss_pred             cCCCCCCcEEEEeC
Q 026776          109 SSALREIPVVIMSS  122 (233)
Q Consensus       109 ~~~~~~~piIvlt~  122 (233)
                      ..  .++||+.+.-
T Consensus        69 ~~--~~~PvLGIC~   80 (188)
T TIGR00566        69 FA--GKLPILGVCL   80 (188)
T ss_pred             hc--cCCCEEEECH
Confidence            22  2789988863

This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=84.47  E-value=14  Score=29.53  Aligned_cols=57  Identities=25%  Similarity=0.364  Sum_probs=42.1

Q ss_pred             CcccEEEEcCCCCCC--------CHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776           83 LKVDLIITDYCMPGM--------TGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus        83 ~~~DlvllD~~mp~~--------~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      ..+|.|.+.--.|..        .|++.++++++...  .+||++..+- +.+.+.++++.|++++..
T Consensus       123 ~gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~v~a~GGI-~~~~i~~~~~~Ga~gv~~  187 (212)
T PRK00043        123 AGADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVG--DIPIVAIGGI-TPENAPEVLEAGADGVAV  187 (212)
T ss_pred             cCCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcC--CCCEEEECCc-CHHHHHHHHHcCCCEEEE
Confidence            357999887555432        35889999987543  5888877655 567788999999999975

>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional

Probab=84.04  E-value=13  Score=35.53  Aligned_cols=111  Identities=14%  Similarity=0.196  Sum_probs=63.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhh----------hccCCCCCcccEEEEcCCCCCCC
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----------SINGFDGLKVDLIITDYCMPGMT   98 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~----------~~~~~~~~~~DlvllD~~mp~~~   98 (233)
                      +.+|+|+.-...-+ .+.+.|.+.|+.+...+...+..+.++..+..          ......-.+.|++++-.+-+ .+
T Consensus       400 ~~~vII~G~Gr~G~-~va~~L~~~g~~vvvID~d~~~v~~~~~~g~~v~~GDat~~~~L~~agi~~A~~vv~~~~d~-~~  477 (601)
T PRK03659        400 KPQVIIVGFGRFGQ-VIGRLLMANKMRITVLERDISAVNLMRKYGYKVYYGDATQLELLRAAGAEKAEAIVITCNEP-ED  477 (601)
T ss_pred             cCCEEEecCchHHH-HHHHHHHhCCCCEEEEECCHHHHHHHHhCCCeEEEeeCCCHHHHHhcCCccCCEEEEEeCCH-HH
Confidence            45677777665443 45556666777776666555555544321110          00001123456666644322 33


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV  145 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~  145 (233)
                      ...++..+|+..+  +.+|++-+.+  .+......++|++.++.--+
T Consensus       478 n~~i~~~~r~~~p--~~~IiaRa~~--~~~~~~L~~~Ga~~vv~e~~  520 (601)
T PRK03659        478 TMKIVELCQQHFP--HLHILARARG--RVEAHELLQAGVTQFSRETF  520 (601)
T ss_pred             HHHHHHHHHHHCC--CCeEEEEeCC--HHHHHHHHhCCCCEEEccHH
Confidence            4567777887655  7788776644  45666788999998875533

>PLN02335 anthranilate synthase

Probab=84.04  E-value=4.1  Score=33.62  Aligned_cols=82  Identities=9%  Similarity=0.096  Sum_probs=48.0

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCC--CCCCHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCM--PGMTGYELL  103 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~m--p~~~g~~ll  103 (233)
                      +++..+|||||...-+...+.+.|+..|+.+..+.....-++.+           ....||.||+--.-  |...| ...
T Consensus        15 ~~~~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~~~~~~-----------~~~~~d~iVisgGPg~p~d~~-~~~   82 (222)
T PLN02335         15 SKQNGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDELTVEEL-----------KRKNPRGVLISPGPGTPQDSG-ISL   82 (222)
T ss_pred             cCccCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCCCHHHH-----------HhcCCCEEEEcCCCCChhhcc-chH
Confidence            34557899999766677788899999998777665421112222           12357777764321  11112 234


Q ss_pred             HHHhccCCCCCCcEEEEe
Q 026776          104 KKIKDSSALREIPVVIMS  121 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt  121 (233)
                      +.++....  ..||+.+.
T Consensus        83 ~~~~~~~~--~~PiLGIC   98 (222)
T PLN02335         83 QTVLELGP--LVPLFGVC   98 (222)
T ss_pred             HHHHHhCC--CCCEEEec
Confidence            55554332  78988775

>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=83.79  E-value=14  Score=31.79  Aligned_cols=91  Identities=18%  Similarity=0.113  Sum_probs=57.2

Q ss_pred             EEEEEeCCHHHH--H--HHHHHH----hhcCC---EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH
Q 026776           31 HVLAVDDSFVDR--K--VIERLL----TISSC---KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG   99 (233)
Q Consensus        31 ~ILIVddd~~~~--~--~l~~~L----~~~g~---~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g   99 (233)
                      .|||-|++-.+.  .  .+...+    +..++   -.+.+++.+++.+.+.            ..+|+|++| +|.-.+-
T Consensus       161 ~vLikdNHi~~~~~g~~~i~~av~~~r~~~~~~~kIeVEv~slee~~ea~~------------~gaDiImLD-n~s~e~l  227 (281)
T PRK06543        161 AVMAKDNHLAALAAQGLDLTEALRHVRAQLGHTTHVEVEVDRLDQIEPVLA------------AGVDTIMLD-NFSLDDL  227 (281)
T ss_pred             eEEEeHHHHHHHhCCchHHHHHHHHHHHhCCCCCcEEEEeCCHHHHHHHHh------------cCCCEEEEC-CCCHHHH
Confidence            377777776542  1  233333    33342   3356889999998872            358999999 3433333


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceE
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDF  140 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dy  140 (233)
                      -+++..++.      ..++-.++.-+.+.+.+....|+|-.
T Consensus       228 ~~av~~~~~------~~~leaSGgI~~~ni~~yA~tGVD~I  262 (281)
T PRK06543        228 REGVELVDG------RAIVEASGNVNLNTVGAIASTGVDVI  262 (281)
T ss_pred             HHHHHHhCC------CeEEEEECCCCHHHHHHHHhcCCCEE
Confidence            344444432      23677788878888888888998754

>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=83.05  E-value=14  Score=26.04  Aligned_cols=87  Identities=21%  Similarity=0.208  Sum_probs=50.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEE------CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAV------DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a------~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      +||||.........++..+++.|+.....      ......+...            -...|+||+=.+.   -+-.+..
T Consensus         1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~------------i~~aD~VIv~t~~---vsH~~~~   65 (97)
T PF10087_consen    1 SVLIVGGREDRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSK------------IKKADLVIVFTDY---VSHNAMW   65 (97)
T ss_pred             CEEEEcCCcccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHh------------cCCCCEEEEEeCC---cChHHHH
Confidence            48999998888889999999999988777      2221112221            2346888774433   3334444


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHH
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCL  133 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al  133 (233)
                      .+++......+|+++.-..+ .....+++
T Consensus        66 ~vk~~akk~~ip~~~~~~~~-~~~l~~~l   93 (97)
T PF10087_consen   66 KVKKAAKKYGIPIIYSRSRG-VSSLERAL   93 (97)
T ss_pred             HHHHHHHHcCCcEEEECCCC-HHHHHHHH
Confidence            44433222367887664333 33333443

>CHL00200 trpA tryptophan synthase alpha subunit; Provisional

Probab=83.04  E-value=6.4  Score=33.41  Aligned_cols=59  Identities=14%  Similarity=0.239  Sum_probs=45.1

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCC------CcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSE------NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~------~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.+++++++|+. .  .+|+++++-.      +.+....+|.++|+++++.-.+..+|.......+.+
T Consensus        78 ~~~~~~~~~r~~-~--~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~~~  142 (263)
T CHL00200         78 KILSILSEVNGE-I--KAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVCNL  142 (263)
T ss_pred             HHHHHHHHHhcC-C--CCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHH
Confidence            467788888853 3  7898877655      335678899999999999998888888777666654

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=81.79  E-value=16  Score=30.87  Aligned_cols=113  Identities=14%  Similarity=0.114  Sum_probs=69.5

Q ss_pred             CcEEEEEeCCH----HHHHH--HHHHHhhcCCEEEEEC--CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH-
Q 026776           29 EVHVLAVDDSF----VDRKV--IERLLTISSCKVTAVD--SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG-   99 (233)
Q Consensus        29 ~~~ILIVddd~----~~~~~--l~~~L~~~g~~v~~a~--~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g-   99 (233)
                      -+|+=|+.|+.    ...+.  -.+.|-+.||.|..+.  |..-|.++..            .. -.+++=+.-|-.+| 
T Consensus       107 wIKLEVi~D~~~LlPD~~etl~Aae~Lv~eGF~VlPY~~~D~v~a~rLed------------~G-c~aVMPlgsPIGSg~  173 (267)
T CHL00162        107 FVKLEVISDPKYLLPDPIGTLKAAEFLVKKGFTVLPYINADPMLAKHLED------------IG-CATVMPLGSPIGSGQ  173 (267)
T ss_pred             eEEEEEeCCCcccCCChHHHHHHHHHHHHCCCEEeecCCCCHHHHHHHHH------------cC-CeEEeeccCcccCCC
Confidence            36666664432    12222  2345667899887654  4333433321            11 13455555564332 


Q ss_pred             ----HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe-----CCCCHHHHHHHHHHH
Q 026776          100 ----YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV-----KPVKLSDVKRIKDYL  157 (233)
Q Consensus       100 ----~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~-----KP~~~~eL~~~~~~l  157 (233)
                          -..++.|++..   .+|||+-.+-...+++..+++.|+|+.+.     |--++.++.+.....
T Consensus       174 Gl~n~~~l~~i~e~~---~vpVivdAGIgt~sDa~~AmElGaDgVL~nSaIakA~dP~~mA~a~~~A  237 (267)
T CHL00162        174 GLQNLLNLQIIIENA---KIPVIIDAGIGTPSEASQAMELGASGVLLNTAVAQAKNPEQMAKAMKLA  237 (267)
T ss_pred             CCCCHHHHHHHHHcC---CCcEEEeCCcCCHHHHHHHHHcCCCEEeecceeecCCCHHHHHHHHHHH
Confidence                35677777753   79999998889999999999999999964     556676665554433

>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase

Probab=81.41  E-value=8.4  Score=29.41  Aligned_cols=54  Identities=19%  Similarity=0.214  Sum_probs=44.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEEC----CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVD----SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG   96 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~----~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~   96 (233)
                      .++.+|+|+.......+-+..+|...|..|..+.    +.+++++                ..|+|+.-..-+.
T Consensus        26 ~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t~~l~~~v~----------------~ADIVvsAtg~~~   83 (140)
T cd05212          26 LDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKTIQLQSKVH----------------DADVVVVGSPKPE   83 (140)
T ss_pred             CCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCCcCHHHHHh----------------hCCEEEEecCCCC
Confidence            4578999999999999999999999999998887    5555443                3599999877664

NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional

>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=81.06  E-value=28  Score=28.58  Aligned_cols=92  Identities=10%  Similarity=0.117  Sum_probs=53.9

Q ss_pred             HHHhhcC-CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCc
Q 026776           47 RLLTISS-CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENI  125 (233)
Q Consensus        47 ~~L~~~g-~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~  125 (233)
                      +.|...+ .-|....+.++++..++.-        ....+++|  .+.+-.-++++.++.+++..+  ++ +|..-.--+
T Consensus        10 ~~l~~~~~iaV~r~~~~~~a~~i~~al--------~~~Gi~~i--Eitl~~~~~~~~I~~l~~~~p--~~-~IGAGTVl~   76 (212)
T PRK05718         10 EILRAGPVVPVIVINKLEDAVPLAKAL--------VAGGLPVL--EVTLRTPAALEAIRLIAKEVP--EA-LIGAGTVLN   76 (212)
T ss_pred             HHHHHCCEEEEEEcCCHHHHHHHHHHH--------HHcCCCEE--EEecCCccHHHHHHHHHHHCC--CC-EEEEeeccC
Confidence            4445555 3555567777777766421        11224433  334555589999999987654  42 233333345


Q ss_pred             HHHHHHHHHcCCceEEeCCCCHHHHHH
Q 026776          126 LARIDRCLEDGAEDFIVKPVKLSDVKR  152 (233)
Q Consensus       126 ~~~~~~al~~Ga~dyL~KP~~~~eL~~  152 (233)
                      .+....++++|++-.+.--++. ++.+
T Consensus        77 ~~~a~~a~~aGA~FivsP~~~~-~vi~  102 (212)
T PRK05718         77 PEQLAQAIEAGAQFIVSPGLTP-PLLK  102 (212)
T ss_pred             HHHHHHHHHcCCCEEECCCCCH-HHHH
Confidence            6788899999998544444544 5533

>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional

Probab=80.69  E-value=17  Score=34.86  Aligned_cols=107  Identities=17%  Similarity=0.196  Sum_probs=55.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhh----------ccCCCCCcccEEEEcCCCCCCCH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQS----------INGFDGLKVDLIITDYCMPGMTG   99 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~----------~~~~~~~~~DlvllD~~mp~~~g   99 (233)
                      -+|+|+.-...- +.+.+.|.+.|+.++..+.-.+..+.++..+...          .....-.+.|++++-.+-+ ...
T Consensus       401 ~~vII~G~Gr~G-~~va~~L~~~g~~vvvID~d~~~v~~~~~~g~~v~~GDat~~~~L~~agi~~A~~vvv~~~d~-~~n  478 (621)
T PRK03562        401 PRVIIAGFGRFG-QIVGRLLLSSGVKMTVLDHDPDHIETLRKFGMKVFYGDATRMDLLESAGAAKAEVLINAIDDP-QTS  478 (621)
T ss_pred             CcEEEEecChHH-HHHHHHHHhCCCCEEEEECCHHHHHHHHhcCCeEEEEeCCCHHHHHhcCCCcCCEEEEEeCCH-HHH
Confidence            456666555533 3344455555655555544444333332111000          0001223467777654322 234


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      ..++..+|+..+  +.++++-+.  +.+...+..+.|++..+.
T Consensus       479 ~~i~~~ar~~~p--~~~iiaRa~--d~~~~~~L~~~Gad~v~~  517 (621)
T PRK03562        479 LQLVELVKEHFP--HLQIIARAR--DVDHYIRLRQAGVEKPER  517 (621)
T ss_pred             HHHHHHHHHhCC--CCeEEEEEC--CHHHHHHHHHCCCCEEeh
Confidence            566777787655  777776554  345566778899997743

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=80.25  E-value=8  Score=33.95  Aligned_cols=54  Identities=15%  Similarity=0.105  Sum_probs=40.7

Q ss_pred             ccEEEEcCCCCCCC-HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEE
Q 026776           85 VDLIITDYCMPGMT-GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI  141 (233)
Q Consensus        85 ~DlvllD~~mp~~~-g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL  141 (233)
                      +|+|.+|...+..+ -.+++++||+..+  ..++|+- .-.+.+.+..+.++|+|...
T Consensus       112 ~d~i~iD~a~gh~~~~~e~I~~ir~~~p--~~~vi~g-~V~t~e~a~~l~~aGad~i~  166 (326)
T PRK05458        112 PEYITIDIAHGHSDSVINMIQHIKKHLP--ETFVIAG-NVGTPEAVRELENAGADATK  166 (326)
T ss_pred             CCEEEEECCCCchHHHHHHHHHHHhhCC--CCeEEEE-ecCCHHHHHHHHHcCcCEEE
Confidence            59999999987644 5778999998654  5666652 22367788899999999865

>TIGR02855 spore_yabG sporulation peptidase YabG

Probab=80.14  E-value=22  Score=30.31  Aligned_cols=102  Identities=14%  Similarity=0.221  Sum_probs=60.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEE-----ECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcC---CCC-----
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTA-----VDSGRRALQFLGLDEEQSINGFDGLKVDLIITDY---CMP-----   95 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~-----a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~---~mp-----   95 (233)
                      +=+||=+|.|+...+..-..-++.|..+.-     -.-.+....++           ....||++++-=   -.-     
T Consensus       104 PGrVLHiDGD~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll-----------~~~~PDIlViTGHD~~~K~~~d~  172 (283)
T TIGR02855       104 PGRVLHIDGDPEYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLI-----------EEVRPDILVITGHDAYSKNKGNY  172 (283)
T ss_pred             CCcEEeecCCHHHHHHHHHHHHHhCCceEEEEecchhchHHHHHHH-----------HHhCCCEEEEeCchhhhcCCCCh
Confidence            568999999999888887777777754432     23344455555           567899988732   111     


Q ss_pred             -CCC-------HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCC
Q 026776           96 -GMT-------GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP  144 (233)
Q Consensus        96 -~~~-------g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP  144 (233)
                       +.+       -++..+..|+-.+..+ -+|++ +......-...+++||+ |-.-|
T Consensus       173 ~dl~~YrnSkyFVeaVk~aR~y~~~~D-~LVIF-AGACQS~yEall~AGAN-FASSP  226 (283)
T TIGR02855       173 MDLNAYRHSKYFVETVREARKYVPSLD-QLVIF-AGACQSHFESLIRAGAN-FASSP  226 (283)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhcCCCcc-cEEEE-cchhHHHHHHHHHcCcc-ccCCc
Confidence             111       2345666666544222 23333 33445556677899987 44444

Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	233
3gt7_A	154	Crystal Structure Of Signal Receiver Domain Of Sign		7e-13
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		3e-10
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		3e-09
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		3e-09
2wb4_A	459	Activated Diguanylate Cyclase Pled In Complex With		6e-09
1w25_A	459	Response Regulator Pled In Complex With C-digmp Len		7e-09
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		1e-08
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		2e-08
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		2e-08
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		2e-08
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		5e-08
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		5e-08
2jb9_A	127	Phob Response Regulator Receiver Domain Constitutiv		5e-08
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		6e-08
3eod_A	130	Crystal Structure Of N-Terminal Domain Of E. Coli R		7e-08
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		1e-07
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		1e-07
3olx_A	129	Structural And Functional Effects Of Substitution A		1e-07
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		2e-07
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		2e-07
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		2e-07
3mm4_A	206	Crystal Structure Of The Receiver Domain Of The His		2e-07
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		2e-07
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		2e-07
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		2e-07
3olw_A	129	Structural And Functional Effects Of Substitution A		2e-07
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		3e-07
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		3e-07
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		3e-07
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		3e-07
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		3e-07
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		3e-07
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		3e-07
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		3e-07
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		3e-07
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		4e-07
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		4e-07
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		4e-07
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		4e-07
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		6e-07
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		6e-07
3oly_A	129	Structural And Functional Effects Of Substitution A		6e-07
3olv_A	129	Structural And Functional Effects Of Substitution A		7e-07
2jba_B	127	Phob Response Regulator Receiver Domain Constitutiv		7e-07
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		7e-07
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		7e-07
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		8e-07
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		9e-07
1dc7_A	124	Structure Of A Transiently Phosphorylated "switch"		9e-07
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		9e-07
1j56_A	124	Minimized Average Structure Of Beryllofluoride-Acti		9e-07
1krw_A	124	Solution Structure And Backbone Dynamics Of Beryllo		9e-07
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		1e-06
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3heb_A	152	Crystal Structure Of Response Regulator Receiver Do		1e-06
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
1hey_A	128	Investigating The Structural Determinants Of The P2		1e-06
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		1e-06
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		1e-06
2jba_A	127	Phob Response Regulator Receiver Domain Constitutiv		1e-06
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		2e-06
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		2e-06
3i5a_A	334	Crystal Structure Of Full-Length Wpsr From Pseudomo		2e-06
3t6k_A	136	Crystal Structure Of A Hypothetical Response Regula		3e-06
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		5e-06
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		5e-06
1k66_A	149	Crystal Structure Of The Cyanobacterial Phytochrome		5e-06
1dc8_A	124	Structure Of A Transiently Phosphorylated "switch"		6e-06
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		6e-06
3bre_A	358	Crystal Structure Of P.Aeruginosa Pa3702 Length = 3		6e-06
1qkk_A	155	Crystal Structure Of The Receiver Domain And Linker		1e-05
1l5y_A	155	Crystal Structure Of Mg2+ / Bef3-bound Receiver Dom		1e-05
1zy2_A	150	Crystal Structure Of The Phosphorylated Receiver Do		1e-05
1dcf_A	136	Crystal Structure Of The Receiver Domain Of The Eth		2e-05
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		3e-05
3gl9_A	122	The Structure Of A Histidine Kinase-Response Regula		3e-05
1nxo_A	120	Micarec Ph7.0 Length = 120		4e-05
2oqr_A	230	The Structure Of The Response Regulator Regx3 From		6e-05
2zay_A	147	Crystal Structure Of Response Regulator From Desulf		1e-04
1u8t_A	128	Crystal Structure Of Chey D13k Y106w Alone And In C		1e-04
1m5t_A	124	Crystal Structure Of The Response Regulator Divk Le		2e-04
1zgz_A	122	Crystal Structure Of The Receiver Domain Of Tmao Re		2e-04
1u0s_Y	118	Chemotaxis Kinase Chea P2 Domain In Complex With Re		2e-04
3tmy_A	120	Chey From Thermotoga Maritima (Mn-Iii) Length = 120		2e-04
1nxt_A	120	Micarec Ph 4.0 Length = 120		3e-04
3t8y_A	164	Crystal Structure Of The Response Regulator Domain		5e-04
1ys6_A	233	Crystal Structure Of The Response Regulatory Protei		6e-04
3n53_A	140	Crystal Structure Of A Response Regulator Receiver		6e-04
3kht_A	144	Crystal Structure Of Response Regulator From Hahell		7e-04
2jvi_A	132	Nmr Solution Structure Of The Hyper-Sporulation Res		8e-04
1jlk_A	147	Crystal Structure Of The Mn(2+)-Bound Form Of Respo		8e-04

>pdb|3GT7|A Chain A, Crystal Structure Of Signal Receiver Domain Of Signal Transduction Histidine Kinase From Syntrophus Aciditrophicus Length = 154

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 77/150 (51%), Gaps = 25/150 (16%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L V+DS    + ++ +L  +  +   V +GR A++FL L            + DLII+D
Sbjct: 10  ILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLT-----------RPDLIISD 58
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK----- 146
             MP M GY L + +K    LR IPV++++  +    + R LE GA+DFI KP K     
Sbjct: 59  VLMPEMDGYALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLA 118
Query: 147 ------LSDVKRIKDYLTRD---VNLGNEG 167
                 LS VKR ++  +R+   +  GNEG
Sbjct: 119 SHVKRLLSGVKRTEERYSRESITLAFGNEG 148

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 37/116 (31%), Positives = 59/116 (50%), Gaps = 13/116 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L  DD   +R V++RLL  +  KV  V+             EQ ++       D +I D
Sbjct: 17  MLVADDHEANRMVLQRLLEKAGHKVLCVNGA-----------EQVLDAMAEEDYDAVIVD 65
Query: 92  YCMPGMTGYELLKKIK--DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
             MPGM G ++LK+++   +S +R  PVV++S++     I  C + GA  F+ KPV
Sbjct: 66  LHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPV 121

>pdb|3GWG|A Chain A, Crystal Structure Of Chey Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 63/116 (54%), Gaps = 11/116 (9%)
Query: 30  VHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           + +L VDDS   R++I+  L+ +    V   + G  A + L  + +  +          +
Sbjct: 6   MKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKV----------L 55
Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           ITD+ MP M G +L+KK++  S  +EIP++++++E   A +   L+ G  ++IVKP
Sbjct: 56  ITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKP 111

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 63/116 (54%), Gaps = 11/116 (9%)
Query: 30  VHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           + +L VDDS   R++I+  L+ +    V   + G  A + L  + +  +          +
Sbjct: 6   MKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKV----------L 55
Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           ITD+ MP M G +L+KK++  S  +EIP++++++E   A +   L+ G  ++IVKP
Sbjct: 56  ITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKP 111

>pdb|2WB4|A Chain A, Activated Diguanylate Cyclase Pled In Complex With C-Di-Gmp Length = 459

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 59/116 (50%), Gaps = 15/116 (12%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD   + +++E  LT    +V+    G  AL     D             D+I+ D
Sbjct: 5   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLP-----------DIILLD 53
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPV 145
             MPGM G+ + +K+KD    R IPVV++++ +   R DR   LE GA DF+ KP+
Sbjct: 54  VMMPGMDGFTVCRKLKDDPTTRHIPVVLITALD--GRGDRIQGLESGASDFLTKPI 107

>pdb|1W25|A Chain A, Response Regulator Pled In Complex With C-digmp Length = 459

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 39/116 (33%), Positives = 59/116 (50%), Gaps = 15/116 (12%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD   + +++E  LT    +V+    G  AL     D             D+I+ D
Sbjct: 4   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLP-----------DIILLD 52
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPV 145
             MPGM G+ + +K+KD    R IPVV++++ +   R DR   LE GA DF+ KP+
Sbjct: 53  VMMPGMDGFTVCRKLKDDPTTRHIPVVLITALD--GRGDRIQGLESGASDFLTKPI 106

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/126 (27%), Positives = 61/126 (48%), Gaps = 12/126 (9%)
Query: 27  TEEVHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
            + + +L VDD    R++++ LL  +        D G  AL  L   +            
Sbjct: 10  NKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKGD-----------F 58
Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           D ++TD+ MPGM G +LLK I+    L+ +PV+++++E    +I    + G   +IVKP 
Sbjct: 59  DFVVTDWNMPGMQGIDLLKNIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPF 118
Query: 146 KLSDVK 151
             + +K
Sbjct: 119 TAATLK 124

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/89 (34%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+ D+ +PG +G + +K +K  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVR 93
Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D+I KP    + V RIK  + R
Sbjct: 94  GLETGADDYITKPFSPKELVARIKAVMRR 122

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/89 (34%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+ D+ +PG +G + +K +K  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVR 93
Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D+I KP    + V RIK  + R
Sbjct: 94  GLETGADDYITKPFSPKELVARIKAVMRR 122

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/116 (28%), Positives = 62/116 (53%), Gaps = 11/116 (9%)
Query: 30  VHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           + +L VDDS   R++I+  L+ +    V   + G  A + L  + +  +          +
Sbjct: 6   MKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANADTKV----------L 55
Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           IT + MP M G +L+KK++  S  +EIP++++++E   A +   L+ G  ++IVKP
Sbjct: 56  ITAWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKP 111

>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 = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 58/118 (49%), Gaps = 12/118 (10%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           +E+  L VDD    R+++  LL  +    V   + G  AL  L         GF      
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL------QAGGFG----- 51
Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
            II+D+ MP M G ELLK I+  SA+  +PV+++++E     I    + GA  ++VKP
Sbjct: 52  FIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>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 = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDGGTGRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|2JB9|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D10a And D53e. Length = 127

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+ ++ +PG +G + +K +K  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLEWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVR 93
Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D+I KP    + V RIK  + R
Sbjct: 94  GLETGADDYITKPFSPKELVARIKAVMRR 122

>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 = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 59/121 (48%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               II+D+ MP M G ELLK I+  SA+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GFGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|3EOD|A Chain A, Crystal Structure Of N-Terminal Domain Of E. Coli Rssb Length = 130

Iteration: 1
 Score = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 40/126 (31%), Positives = 67/126 (53%), Gaps = 17/126 (13%)
Query: 31  HVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            +L V+D  V R +++   + + +  V A D G  AL+ LG           G   DL+I
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAAD-GVDALELLG-----------GFTPDLMI 56
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  MP M G +LL+ I++     + PV+++S+   +A I + L  G ED ++KPVK  D
Sbjct: 57  CDIAMPRMNGLKLLEHIRNRG--DQTPVLVISATENMADIAKALRLGVEDVLLKPVK--D 112
Query: 150 VKRIKD 155
           + R+++
Sbjct: 113 LNRLRE 118

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 5   KELKFLVVDDFSTGRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 50
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 51  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 110
Query: 144 P 144
           P
Sbjct: 111 P 111

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               II D+ MP M G ELLK I+  SA+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GFGFIICDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>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 = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV++++SE     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTSEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 18/120 (15%)
Query: 29  EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGLK 84
           E+  L VDD+   R+++  LL              + L F  ++E +    ++N      
Sbjct: 1   ELKFLVVDDNSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAGG 46
Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
              +I+D+ MP M G ELLK I+   A+  +PV++ ++E     I    + GA  ++VKP
Sbjct: 47  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMTTAEAKKENIIAAAQAGASGYVVKP 106

>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 = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/128 (25%), Positives = 63/128 (49%), Gaps = 13/128 (10%)
Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           SD +++ +L VDD  ++R+++   L     +    + G  AL  L  +            
Sbjct: 4   SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH----------- 52
Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           +D++++D  MP M GY L ++I+       +PV+ +++  +     RCLE G +  + KP
Sbjct: 53  IDIVLSDVNMPNMDGYRLTQRIRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKP 110
Query: 145 VKLSDVKR 152
           V L  +K+
Sbjct: 111 VTLDVIKQ 118

>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 = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEADAENIKALAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|3MM4|A Chain A, Crystal Structure Of The Receiver Domain Of The Histidine Kinase Cki1 From Arabidopsis Thaliana Length = 206

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/110 (34%), Positives = 58/110 (52%), Gaps = 10/110 (9%)
Query: 24  PSDTEEVH---VLAVDDSFVDRKVIE-RLLTISSCKVTAVDSGRRALQFL--GLDEEQSI 77
           PSD E +    VL VDD+F+ RKV   +L  +   +V   DSG+ AL+ +  GL + +  
Sbjct: 53  PSDDEFLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQ 112
Query: 78  NGFDGLKVDLIITDYCMPGMTGYEL---LKKIKDSSALREIPVVIMSSEN 124
              D L  D I  D  MP M GYE    ++K++ S  +R  P++ +S  +
Sbjct: 113 GSVDKLPFDYIFMDCQMPEMDGYEATREIRKVEKSYGVR-TPIIAVSGHD 161

>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 = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/139 (24%), Positives = 68/139 (48%), Gaps = 13/139 (9%)
Query: 14  SDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDE 73
           ++ +   D + SD +++ +L VDD  ++R+++   L     +    + G  AL  L  + 
Sbjct: 114 ANALPSTDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH 173
Query: 74  EQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL 133
                      +D++++D  MP M GY L ++I+       +PV+ +++  +     RCL
Sbjct: 174 -----------IDIVLSDVNMPNMDGYRLTQRIRQLGL--TLPVIGVTANALAEEKQRCL 220
Query: 134 EDGAEDFIVKPVKLSDVKR 152
           E G +  + KPV L  +K+
Sbjct: 221 ESGMDSCLSKPVTLDVIKQ 239

>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 = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|1JBE|A Chain A, 1.08 A Structure Of Apo-Chey Reveals Meta-Active Conformation Length = 128

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>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 = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTTEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>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 = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>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 = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGWVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 57/120 (47%), Gaps = 18/120 (15%)
Query: 29  EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGLK 84
           E+  L VDD+   R++   LL              + L F  ++E +    ++N      
Sbjct: 1   ELKFLVVDDNSTMRRITRNLL--------------KELGFNNVEEAEDGVDALNKLQAGG 46
Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
              +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VKP
Sbjct: 47  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 106

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDESTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 49  GYGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIA----AAQAGASG 104
Query: 140 FIVKP 144
           ++VKP
Sbjct: 105 YVVKP 109

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDESTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 49  GYGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTALAKKENIIA----AAQAGASG 104
Query: 140 FIVKP 144
           ++VKP
Sbjct: 105 YVVKP 109

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     +    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENVIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDESTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIA----AAQAGASG 104
Query: 140 FIVKP 144
           ++VKP
Sbjct: 105 YVVKP 109

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDQSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 49  GYGFVISDWKMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIA----AAQAGASG 104
Query: 140 FIVKP 144
           ++VKP
Sbjct: 105 YVVKP 109

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 48/78 (61%), Gaps = 8/78 (10%)
Query: 75  QSINGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR 128
           Q++NG  GL++      DL+I D   P + G EL+++I+ +++  E P++++S   +++ 
Sbjct: 34  QALNGLQGLQIFESEQPDLVICDLRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVMSD 91
Query: 129 IDRCLEDGAEDFIVKPVK 146
               L  GA D+++KP++
Sbjct: 92  AVEALRLGAADYLIKPLE 109

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDESTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 49  GYGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAHAKKENIIA----AAQAGASG 104
Query: 140 FIVKP 144
           ++VKP
Sbjct: 105 YVVKP 109

>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 = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV++++ E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTMEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>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 = 7e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV++++ E     I    + GA  ++VK
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTVEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|2JBA|B Chain B, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 49/89 (55%), Gaps = 1/89 (1%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+  + +PG +G + +K +K  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLAWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVR 93
Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D I KP    + V RIK  + R
Sbjct: 94  GLETGADDCITKPFSPKELVARIKAVMRR 122

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 7/89 (7%)
Query: 63  RRALQFLGLDE-EQSINGFDGLK------VDLIITDYCMPGMTGYELLKKIKDSSALREI 115
           R  L+ LG +  E++ +G D L          +I+D+ MP M G ELLK I+   A+  +
Sbjct: 21  RNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSAL 80
Query: 116 PVVIMSSENILARIDRCLEDGAEDFIVKP 144
           PV+++++E     I    + GA  ++VKP
Sbjct: 81  PVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 50.4 bits (119), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 7/89 (7%)
Query: 63  RRALQFLGLDE-EQSINGFDGLK------VDLIITDYCMPGMTGYELLKKIKDSSALREI 115
           R  L+ LG +  E++ +G D L          +I+D+ MP M G ELLK I+   A+  +
Sbjct: 23  RNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSAL 82
Query: 116 PVVIMSSENILARIDRCLEDGAEDFIVKP 144
           PV+++++E     I    + GA  ++VKP
Sbjct: 83  PVLMVTAEAKKENIIAAAQAGASGYVVKP 111

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 48/89 (53%), Gaps = 7/89 (7%)
Query: 63  RRALQFLGLDE-EQSINGFDGLK------VDLIITDYCMPGMTGYELLKKIKDSSALREI 115
           R  L+ LG +  E++ +G D L          +I+D+ MP M G ELLK I+   A+  +
Sbjct: 20  RNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSAL 79
Query: 116 PVVIMSSENILARIDRCLEDGAEDFIVKP 144
           PV+++++E     I    + GA  ++VKP
Sbjct: 80  PVLMVTAEAKKENIIAAAQAGASGYVVKP 108

>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 = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++ +E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 13/113 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+ER L  +    T  ++G   L  L                D++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-----------DVLLSD 54
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  LLK+IK    +  +PV+IM++ + L       + GA D++ KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>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 = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 58/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 7   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 52
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV++++++     I    + GA  ++VK
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAQAKKENIIAAAQAGASGYVVK 112
Query: 144 P 144
           P
Sbjct: 113 P 113

>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 = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 13/113 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+ER L  +    T  ++G   L  L                D++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-----------DVLLSD 54
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  LLK+IK    +  +PV+IM++ + L       + GA D++ KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of Beryllofluoride- Activated Ntrc Receiver Domain Length = 124

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 13/113 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+ER L  +    T  ++G   L  L                D++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-----------DVLLSD 54
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  LLK+IK    +  +PV+IM++ + L       + GA D++ KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/121 (27%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+D+ MP M G ELLK I+   A+  +PV+++ +E     I    + GA  ++VK
Sbjct: 49  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>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 = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 7   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 52
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIA----AAQAGASG 108
Query: 140 FIVKP 144
           ++VKP
Sbjct: 109 YVVKP 113

>pdb|3HEB|A Chain A, Crystal Structure Of Response Regulator Receiver Domain From Rhodospirillum Rubrum Length = 152

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/122 (26%), Positives = 62/122 (50%), Gaps = 4/122 (3%)
Query: 30  VHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           V ++ ++D     ++IE+ +  +    ++ A   G  AL +L  D++         +  L
Sbjct: 5   VTIVXIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSG--RVSAGRAQL 62
Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           ++ D  +P  TG ++LK +K++   R  PVVI+++ +    I RC + GA  +I KPV  
Sbjct: 63  VLLDLNLPDXTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNY 122
Query: 148 SD 149
            +
Sbjct: 123 EN 124

>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 = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 7   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 52
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAKAKKENIIA----AAQAGASG 108
Query: 140 FIVKP 144
           ++VKP
Sbjct: 109 YVVKP 113

>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 = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 26/125 (20%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 7   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 52
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS----ENILARIDRCLEDGAED 139
               +I+D+ MP M G ELLK I+   A+  +PV+++++    ENI+A      + GA  
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIA----AAQAGASG 108
Query: 140 FIVKP 144
           ++VKP
Sbjct: 109 YVVKP 113

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 47/89 (52%), Gaps = 7/89 (7%)
Query: 63  RRALQFLGL----DEEQSINGFDGLKVD---LIITDYCMPGMTGYELLKKIKDSSALREI 115
           R  L+ LG     D E  ++  + L+      +I+D+ MP M G ELLK I+   A+  +
Sbjct: 21  RNLLKELGFNNVEDAEDGVDALNKLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSAL 80
Query: 116 PVVIMSSENILARIDRCLEDGAEDFIVKP 144
           PV+++++E     I    + GA  ++VKP
Sbjct: 81  PVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+ + MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISAWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 8/78 (10%)
Query: 75  QSINGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR 128
           Q++NG  GL++      DL+I D   P + G EL+++I+ +++  E P++++S   + + 
Sbjct: 34  QALNGLQGLQIFESEQPDLVICDLRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVXSD 91
Query: 129 IDRCLEDGAEDFIVKPVK 146
               L  GA D+++KP++
Sbjct: 92  AVEALRLGAADYLIKPLE 109

>pdb|2JBA|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%), Gaps = 1/89 (1%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D + ++N  +    DLI+  + +PG +G + +K ++  S  R+IPVV++++        R
Sbjct: 34  DYDSAVNQLNEPWPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVVMLTARGEEEDRVR 93
Query: 132 CLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            LE GA+D I KP    + V RIK  + R
Sbjct: 94  GLETGADDCITKPFSPKELVARIKAVMRR 122

>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 = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+ + MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 49  GYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 4   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 49
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+ + MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VK
Sbjct: 50  GYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 144 P 144
           P
Sbjct: 110 P 110

>pdb|3I5A|A Chain A, Crystal Structure Of Full-Length Wpsr From Pseudomonas Syringae Length = 334

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 39/147 (26%), Positives = 70/147 (47%), Gaps = 14/147 (9%)
Query: 15  DEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQF-LGLDE 73
           D++   D+  SD     VL VDD  +  + + R L           +G  ++ F    D 
Sbjct: 2   DDLQADDIKTSDENSAMVLLVDDQAMIGEAVRRGL-----------AGHESIDFHFCADP 50
Query: 74  EQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL 133
            Q+I     +K  +I+ D  MPG+ G  L+++ + +   R+IP++++S++          
Sbjct: 51  HQAIAQAVQIKPTVILQDLVMPGLDGLTLVREYRSNPLTRDIPIIVLSTKEDPLIKSAAF 110
Query: 134 EDGAEDFIVK-PVKLSDVKRIKDYLTR 159
             GA D++VK P  +  V RI+ Y +R
Sbjct: 111 AAGANDYLVKLPDNIELVARIR-YHSR 136

>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 = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/129 (26%), Positives = 64/129 (49%), Gaps = 12/129 (9%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD     + +E +L  +  +V    SG  ALQ +          +  L  D +I D
Sbjct: 7   LLIVDDDDTVAEXLELVLRGAGYEVRRAASGEEALQQI----------YKNLP-DALICD 55
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +PG+ GY L K+++     + +P++ ++++  ++      E GA D++ KP +  + V
Sbjct: 56  VLLPGIDGYTLCKRVRQHPLTKTLPILXLTAQGDISAKIAGFEAGANDYLAKPFEPQELV 115
Query: 151 KRIKDYLTR 159
            R+K+ L R
Sbjct: 116 YRVKNILAR 124

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 56/121 (46%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+ + MP M G ELLK I+   A+  +PV+++ +E     I    + GA  ++VK
Sbjct: 49  GYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>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 = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 37/128 (28%), Positives = 61/128 (47%), Gaps = 12/128 (9%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL VDDS V RK++   L     +V   ++G+ AL+ L                DLI+ D
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLS-----------EFTPDLIVLD 53
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             MP M G+ +LKK+++    + IPV++++++         L  GA   + KP   S  +
Sbjct: 54  IMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113
Query: 151 KRIKDYLT 158
           + +K  L 
Sbjct: 114 EEVKHLLN 121

>pdb|1K66|A Chain A, Crystal Structure Of The Cyanobacterial Phytochrome Response Regulator, Rcpb Length = 149

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 36/118 (30%), Positives = 59/118 (50%), Gaps = 3/118 (2%)
Query: 32  VLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           +L V+DS  D    +RLL        +    +G +AL FL        N     +  +I+
Sbjct: 9   LLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFL-YQTGSYCNPDIAPRPAVIL 67
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
            D  +PG  G E+L++IK    L++IPVVIM++ +    I+ C       +IVKP+++
Sbjct: 68  LDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEI 125

>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 34/113 (30%), Positives = 52/113 (46%), Gaps = 13/113 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  VDD    R V+ER L  +    T  ++G   L  L                D++++ 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-----------DVLLSX 54
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  LLK+IK    +  +PV+IM++ + L       + GA D++ KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 56/121 (46%), Gaps = 18/121 (14%)
Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ----SINGFDGL 83
           +E+  L VDD    R+++  LL              + L F  ++E +    ++N     
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLL--------------KELGFNNVEEAEDGVDALNKLQAG 48
Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
               +I+ + MP M G ELLK I+   A+  +PV+++ +E     I    + GA  ++VK
Sbjct: 49  GYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVK 108
Query: 144 P 144
           P
Sbjct: 109 P 109

>pdb|3BRE|A Chain A, Crystal Structure Of P.Aeruginosa Pa3702 Length = 358

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 49/89 (55%), Gaps = 2/89 (2%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D +Q++   + +K  +I+ D  MPG+ G  LL   + + A R+IP++++S++        
Sbjct: 51  DPQQAVAVANQIKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSA 110
Query: 132 CLEDGAEDFIVK-PVKLSDVKRIKDYLTR 159
               GA D++VK P  +  V RI+ Y +R
Sbjct: 111 AFAAGANDYLVKLPDAIELVARIR-YHSR 138

>pdb|1QKK|A Chain A, Crystal Structure Of The Receiver Domain And Linker Region Of Dctd From Sinorhizobium Meliloti Length = 155

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 58/114 (50%), Gaps = 15/114 (13%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  +DD    RK +++ L ++   V++  S   AL  L  D       F G+    +I+D
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-------FAGI----VISD 54
Query: 92  YCMPGMTGYELLKKIKDSSAL-REIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  L +KI    AL  ++P+++++    +    + ++DGA DFI KP
Sbjct: 55  IRMPGMDGLALFRKIL---ALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKP 105

>pdb|1L5Y|A Chain A, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of Sinorhizobium Meliloti Dctd Length = 155

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/114 (30%), Positives = 58/114 (50%), Gaps = 15/114 (13%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           V  +DD    RK +++ L ++   V++  S   AL  L  D       F G+    +I+D
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD-------FAGI----VISD 54
Query: 92  YCMPGMTGYELLKKIKDSSAL-REIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             MPGM G  L +KI    AL  ++P+++++    +    + ++DGA DFI KP
Sbjct: 55  IRMPGMDGLALFRKIL---ALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKP 105

>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 = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 31/122 (25%), Positives = 62/122 (50%), Gaps = 13/122 (10%)
Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           ++VL ++D  V R ++E  L++   KV + + G+ A + L    E+  N        +++
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLS---EKHFN--------VVL 49
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
               +P + G E+LK IK+ S   E  V++++    +      ++ GA DF+ KP  L +
Sbjct: 50  LXLLLPDVNGLEILKWIKERSP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEE 107
Query: 150 VK 151
           ++
Sbjct: 108 IE 109

>pdb|1DCF|A Chain A, Crystal Structure Of The Receiver Domain Of The Ethylene Receptor Of Arabidopsis Thaliana Length = 136

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/123 (25%), Positives = 61/123 (49%), Gaps = 15/123 (12%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL +D++ V R V + LL    C+VT V S    L+ +  + +            ++  D
Sbjct: 10  VLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHEHK------------VVFMD 57
Query: 92  YCMPGMTGYELLKKI--KDSSALREIPVVIMSSENI-LARIDRCLEDGAEDFIVKPVKLS 148
            CMPG+  Y++  +I  K +    + P+++  S N   +  ++C+  G +  ++KPV L 
Sbjct: 58  VCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLD 117
Query: 149 DVK 151
           +++
Sbjct: 118 NIR 120

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D  Q++     L+ DL++ D  +PGM G ++ + ++  S    +P+V+++++     +  
Sbjct: 37  DGTQALTAVRELRPDLVLLDLMLPGMNGIDVCRVLRADSG---VPIVMLTAKTDTVDVVL 93
Query: 132 CLEDGAEDFIVKPVK 146
            LE GA+D+I+KP K
Sbjct: 94  GLESGADDYIMKPFK 108

>pdb|3GL9|A Chain A, The Structure Of A Histidine Kinase-Response Regulator Complex Sheds Light Into Two-Component Signaling And Reveals A Novel Cis Autophosphorylation Mechanism Length = 122

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 36/128 (28%), Positives = 60/128 (46%), Gaps = 12/128 (9%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL VDDS V RK++   L     +V   ++G+ AL+ L                DLI+  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLS-----------EFTPDLIVLX 53
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             MP M G+ +LKK+++    + IPV++++++         L  GA   + KP   S  +
Sbjct: 54  IMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFI 113
Query: 151 KRIKDYLT 158
           + +K  L 
Sbjct: 114 EEVKHLLN 121

>pdb|1NXO|A Chain A, Micarec Ph7.0 Length = 120

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 69/132 (52%), Gaps = 19/132 (14%)
Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      +I+  +T    +V    +GR AL+            F+  + D+II 
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALE-----------QFEAEQPDIIIL 51
Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPVKLS 148
           D  +P + G E+ K I+ +S+   +P++++S+++  +  D+   LE GA+D++ KP    
Sbjct: 52  DLMLPEIDGLEVAKTIRKTSS---VPILMLSAKD--SEFDKVIGLELGADDYVTKPFSNR 106
Query: 149 DVK-RIKDYLTR 159
           +++ R+K  L R
Sbjct: 107 ELQARVKALLRR 118

>pdb|2OQR|A Chain A, The Structure Of The Response Regulator Regx3 From Mycobacterium Tuberculosis Length = 230

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 26/91 (28%), Positives = 54/91 (59%), Gaps = 8/91 (8%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           D   ++  FD    D+++ D  +PGM+G ++ K+++  S+   +PV+++++ +  + ID+
Sbjct: 36  DGPAALAEFDRAGADIVLLDLMLPGMSGTDVCKQLRARSS---VPVIMVTARD--SEIDK 90
Query: 132 C--LEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
              LE GA+D++ KP    + + RI+  L R
Sbjct: 91  VVGLELGADDYVTKPYSARELIARIRAVLRR 121

>pdb|2ZAY|A Chain A, Crystal Structure Of Response Regulator From Desulfuromonas Acetoxidans Length = 147

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 35/118 (29%), Positives = 56/118 (47%), Gaps = 10/118 (8%)
Query: 55  KVTAVDSGRRALQFLGLDEEQSINGFDGLKV------DLIITDYCMPGMTGYELLKKIKD 108
           ++ A+ +   AL   G D  Q  N  + + V       LIIT+  MP ++G +L   +K 
Sbjct: 17  QLPALAASISALSQEGFDIIQCGNAIEAVPVAVKTHPHLIITEANMPKISGMDLFNSLKK 76
Query: 109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV---KLSD-VKRIKDYLTRDVN 162
           +     IPV+ +S         + L+ G  DFI KPV   +LS  +KR+   L  D++
Sbjct: 77  NPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLLYEDLS 134

>pdb|1U8T|A Chain A, Crystal Structure Of Chey D13k Y106w Alone And In Complex With A Flim Peptide Length = 128

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 63  RRALQFLGLDE-EQSINGFDGLK------VDLIITDYCMPGMTGYELLKKIKDSSALREI 115
           R  L+ LG +  E++ +G D L          +I+D+  P   G ELLK I+   A   +
Sbjct: 21  RNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNXPNXDGLELLKTIRADGAXSAL 80
Query: 116 PVVIMSSENILARIDRCLEDGAEDFIVKP 144
           PV+ +++E     I    + GA  ++VKP
Sbjct: 81  PVLXVTAEAKKENIIAAAQAGASGWVVKP 109

>pdb|1M5T|A Chain A, Crystal Structure Of The Response Regulator Divk Length = 124

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/126 (27%), Positives = 58/126 (46%), Gaps = 15/126 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D+ ++ K+   LL     +      G  AL     +           K DLI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAREN-----------KPDLILMD 52
Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK----L 147
             +P ++G E+ K +K+   L  IPVV +++  +    +R  E G E +I KP+     L
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFL 112
Query: 148 SDVKRI 153
             +KR+
Sbjct: 113 ETIKRL 118

>pdb|1ZGZ|A Chain A, Crystal Structure Of The Receiver Domain Of Tmao Respiratory System Response Regulator Torr Length = 122

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 38/134 (28%), Positives = 69/134 (51%), Gaps = 23/134 (17%)
Query: 31  HVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           H++ V+D  V +  ++   T    +  VTA  +G R +      + QS        VDLI
Sbjct: 4   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIX-----QNQS--------VDLI 50
Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPVK 146
           + D  +P   G  L + +++ S    + +++++  +   RIDR   LE GA+D++ KP++
Sbjct: 51  LLDINLPDENGLXLTRALRERST---VGIILVTGRS--DRIDRIVGLEXGADDYVTKPLE 105
Query: 147 LSD-VKRIKDYLTR 159
           L + V R+K+ L R
Sbjct: 106 LRELVVRVKNLLWR 119

>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 = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 62/123 (50%), Gaps = 18/123 (14%)
Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            VL VDD+   R +++ ++T +  +V     +GR A++            +  LK D++ 
Sbjct: 3   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVE-----------KYKELKPDIVT 51
Query: 90  TDYCMPGMTGYELLKKIK--DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
            D  MP M G + +K+I   D +A     +++ S+    A +   ++ GA+DFIVKP + 
Sbjct: 52  MDITMPEMNGIDAIKEIMKIDPNA----KIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQP 107
Query: 148 SDV 150
           S V
Sbjct: 108 SRV 110

>pdb|3TMY|A Chain A, Chey From Thermotoga Maritima (Mn-Iii) Length = 120

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 62/123 (50%), Gaps = 18/123 (14%)
Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            VL VDD+   R +++ ++T +  +V     +GR A++            +  LK D++ 
Sbjct: 4   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVE-----------KYKELKPDIVT 52
Query: 90  TDYCMPGMTGYELLKKIK--DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
            D  MP M G + +K+I   D +A     +++ S+    A +   ++ GA+DFIVKP + 
Sbjct: 53  MDITMPEMNGIDAIKEIMKIDPNA----KIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQP 108
Query: 148 SDV 150
           S V
Sbjct: 109 SRV 111

>pdb|1NXT|A Chain A, Micarec Ph 4.0 Length = 120

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 68/132 (51%), Gaps = 19/132 (14%)
Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      +I+  +T    +V    +GR AL+            F+  + D+II 
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALE-----------QFEAEQPDIIIL 51
Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC--LEDGAEDFIVKPVKLS 148
              +P + G E+ K I+ +S+   +P++++S+++  +  D+   LE GA+D++ KP    
Sbjct: 52  XLMLPEIDGLEVAKTIRKTSS---VPILMLSAKD--SEFDKVIGLELGADDYVTKPFSNR 106
Query: 149 DVK-RIKDYLTR 159
           +++ R+K  L R
Sbjct: 107 ELQARVKALLRR 118

>pdb|3T8Y|A Chain A, Crystal Structure Of The Response Regulator Domain Of Thermotoga Maritima Cheb Length = 164

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 38/115 (33%), Positives = 56/115 (48%), Gaps = 10/115 (8%)
Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           + VL VDDS   R V++ ++  S   +  V   +  L+ +    E++I     LK D+I 
Sbjct: 26  IRVLVVDDSAFMRMVLKDIID-SQPDMKVVGFAKDGLEAV----EKAIE----LKPDVIT 76
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
            D  MP + G E LK I   +  R I V  ++ E     I+  L +GA DFI KP
Sbjct: 77  MDIEMPNLNGIEALKLIMKKAPTRVIMVSSLTEEGAAITIE-ALRNGAVDFITKP 130

>pdb|1YS6|A Chain A, Crystal Structure Of The Response Regulatory Protein Prra From Mycobacterium Tuberculosis Length = 233

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 28/103 (27%), Positives = 54/103 (52%), Gaps = 9/103 (8%)
Query: 64  RALQFLGLDEEQSINGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPV 117
           R L+  G +   +++G + L+       D I+ D  MP + G  ++  ++      ++PV
Sbjct: 25  RGLRLSGFEVATAVDGAEALRSATENRPDAIVLDINMPVLDGVSVVTALRAMD--NDVPV 82
Query: 118 VIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDYLTR 159
            ++S+ + +      LE GA+D++VKP  L++ V R+K  L R
Sbjct: 83  CVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRR 125

>pdb|3N53|A Chain A, Crystal Structure Of A Response Regulator Receiver Modulated Diguanylate Cyclase From Pelobacter Carbinolicus Length = 140

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 41/79 (51%)
Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           +E++++   D    DL+I D  + G     L  K+K S  L+ +P++++ S      I  
Sbjct: 34  NEKEALEQIDHHHPDLVILDXDIIGENSPNLCLKLKRSKGLKNVPLILLFSSEHKEAIVN 93
Query: 132 CLEDGAEDFIVKPVKLSDV 150
            L  GA+D++ KP   +D+
Sbjct: 94  GLHSGADDYLTKPFNRNDL 112

>pdb|3KHT|A Chain A, Crystal Structure Of Response Regulator From Hahella Chejuensis Length = 144

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 54/114 (47%), Gaps = 13/114 (11%)
Query: 32  VLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           VL V+D+  D  +I R+L      C++  VD+G +AL       +Q+       K DLII
Sbjct: 8   VLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKAL----YQVQQA-------KYDLII 56
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
            D  +P   G+E+   ++   A +  P+VI++      R  +C   GA   + K
Sbjct: 57  LDIGLPIANGFEVXSAVRKPGANQHTPIVILTDNVSDDRAKQCXAAGASSVVDK 110

>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 = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 32/101 (31%), Positives = 48/101 (47%), Gaps = 9/101 (8%)
Query: 70  GLDEEQSINGFDGLKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSE 123
           G    Q+ NG   L +      DL++ D  +PGM G E+LK++K       I V+IM++ 
Sbjct: 27  GYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVID--ENIRVIIMTAY 84
Query: 124 NILARIDRCLEDGAEDFIVKPVKLSDVK-RIKDYLTRDVNL 163
             L  I    E GA     KP  + +++  +K YL    NL
Sbjct: 85  GELDMIQESKELGALTAFAKPFDIDEIRDAVKKYLPLKSNL 125

>pdb|1JLK|A Chain A, Crystal Structure Of The Mn(2+)-Bound Form Of Response Regulator Rcp1 Length = 147

Iteration: 1
 Score = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 26/95 (27%), Positives = 53/95 (55%), Gaps = 6/95 (6%)
Query: 32  VLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           +L V+DS  D ++++ +L  S+   ++  +  G  A+ FL    +Q     +  + +LI+
Sbjct: 11  ILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL----QQQGEYENSPRPNLIL 66
Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSEN 124
            D  +P   G E+L +IK +  L+ IPVV++++ +
Sbjct: 67  LDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSH 101

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	233
3luf_A	259	Two-component system response regulator/ggdef doma	6e-28
3luf_A	259	Two-component system response regulator/ggdef doma	6e-22
3bre_A	358	Probable two-component response regulator; protein	4e-26
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	2e-25
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	4e-25
1w25_A	459	Stalked-cell differentiation controlling protein;	4e-25
1w25_A	459	Stalked-cell differentiation controlling protein;	2e-19
3heb_A	152	Response regulator receiver domain protein (CHEY);	7e-25
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	1e-23
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	3e-22
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	1e-21
3i42_A	127	Response regulator receiver domain protein (CHEY-	2e-21
3eq2_A	394	Probable two-component response regulator; adaptor	2e-21
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	5e-20
3cnb_A	143	DNA-binding response regulator, MERR family; signa	4e-19
1mb3_A	124	Cell division response regulator DIVK; signal tran	5e-19
3jte_A	143	Response regulator receiver protein; structural ge	8e-19
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	1e-18
3hdg_A	137	Uncharacterized protein; two-component sensor acti	1e-18
1srr_A	124	SPO0F, sporulation response regulatory protein; as	1e-18
2rjn_A	154	Response regulator receiver:metal-dependent phosph	2e-18
2qxy_A	142	Response regulator; regulation of transcription, N	3e-18
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	4e-18
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	4e-18
3grc_A	140	Sensor protein, kinase; protein structure initiati	4e-18
3gt7_A	154	Sensor protein; structural genomics, signal receiv	5e-18
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	6e-18
3cfy_A	137	Putative LUXO repressor protein; structural genomi	7e-18
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	1e-17
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	2e-17
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	2e-17
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	3e-17
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	5e-17
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	5e-17
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	8e-17
3nhm_A	133	Response regulator; protein structure initiative I	8e-17
2zay_A	147	Response regulator receiver protein; structural ge	9e-17
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	9e-17
3lua_A	140	Response regulator receiver protein; two-component	2e-16
3c3m_A	138	Response regulator receiver protein; structural ge	7e-16
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	1e-15
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	2e-15
4dad_A	146	Putative pilus assembly-related protein; response	5e-15
3eqz_A	135	Response regulator; structural genomics, unknown f	6e-15
3n53_A	140	Response regulator receiver modulated diguanylate;	6e-15
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	8e-15
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	1e-14
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	3e-14
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	3e-14
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	3e-14
1yio_A	208	Response regulatory protein; transcription regulat	5e-14
2rdm_A	132	Response regulator receiver protein; structural ge	7e-14
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	7e-14
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	8e-14
2qr3_A	140	Two-component system response regulator; structura	1e-13
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	1e-13
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	4e-13
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	4e-13
3rqi_A	184	Response regulator protein; structural genomics, s	5e-13
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	5e-13
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	6e-13
3crn_A	132	Response regulator receiver domain protein, CHEY-;	7e-13
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	2e-12
1xhf_A	123	DYE resistance, aerobic respiration control protei	3e-12
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	3e-12
3c97_A	140	Signal transduction histidine kinase; structural g	4e-12
3cg0_A	140	Response regulator receiver modulated diguanylate	5e-12
1zgz_A	122	Torcad operon transcriptional regulatory protein;	6e-12
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	1e-11
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	3e-11
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	3e-11
2gwr_A	238	DNA-binding response regulator MTRA; two-component	4e-11
2gkg_A	127	Response regulator homolog; social motility, recei	5e-11
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	6e-11
2oqr_A	230	Sensory transduction protein REGX3; response regul	8e-11
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	1e-10
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	1e-10
3kto_A	136	Response regulator receiver protein; PSI-II,struct	1e-10
3r0j_A	250	Possible two component system response transcript	1e-10
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	1e-10
3lte_A	132	Response regulator; structural genomics, PSI, prot	1e-10
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	1e-10
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	3e-10
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	4e-10
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	8e-10
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	2e-09
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	1e-08
1ys7_A	233	Transcriptional regulatory protein PRRA; response	2e-08
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	2e-08
2qv0_A	143	Protein MRKE; structural genomics, transcription,	2e-08
3q9s_A	249	DNA-binding response regulator; DNA binding protei	4e-08
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	1e-07
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	8e-07
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	2e-06
2hqr_A	223	Putative transcriptional regulator; phosporylation	4e-06
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	4e-06
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	8e-05
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	4e-04
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	5e-04

>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 =  105 bits (265), Expect = 6e-28
 Identities = 34/155 (21%), Positives = 65/155 (41%), Gaps = 11/155 (7%)

Query: 15  DEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEE 74
               G        +++ VL VDDS   R      L     +V      R AL  L   E+
Sbjct: 110 QYAVGLVHRLYLNQQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATL---EQ 166

Query: 75  QSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLE 134
                     + L++ DY MP + G  L++ +++  + +++ ++ +S  +      R L+
Sbjct: 167 HP-------AIRLVLVDYYMPEIDGISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLK 219

Query: 135 DGAEDFIVKPVKLSDVK-RIKDYLTRDVNLGNEGR 168
            GA DF+ +P +  +++ R+   L       +EG 
Sbjct: 220 QGANDFLNQPFEPEELQCRVSHNLEALEQFNSEGH 254

>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 = 89.7 bits (223), Expect = 6e-22
 Identities = 21/118 (17%), Positives = 48/118 (40%), Gaps = 15/118 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L V+DS   R+++ + +   +             +              G +  + + 
Sbjct: 6   KILIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARHC-----------QGDEYVVALV 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           D  +P     E +K + +    R +PVVI++++    + +  LE G  D+++K  + S
Sbjct: 55  DLTLPDAPSGEAVKVLLE----RGLPVVILTADISEDKREAWLEAGVLDYVMKDSRHS 108

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score =  102 bits (257), Expect = 4e-26
 Identities = 33/145 (22%), Positives = 61/145 (42%), Gaps = 13/145 (8%)

Query: 21  DLSPSDTEEVHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSING 79
           DL       V VL VDD  +  + + R L   +          ++A+             
Sbjct: 10  DLGAPLDGAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVA---------- 59

Query: 80  FDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAED 139
            + +K  +I+ D  MPG+ G  LL   + + A R+IP++++S++            GA D
Sbjct: 60  -NQIKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGAND 118

Query: 140 FIVKPVKLSDVK-RIKDYLTRDVNL 163
           ++VK     ++  RI+ +    + L
Sbjct: 119 YLVKLPDAIELVARIRYHSRSYIAL 143

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 95.7 bits (239), Expect = 2e-25
 Identities = 30/131 (22%), Positives = 58/131 (44%), Gaps = 8/131 (6%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
            ++V +L ++D  VD + +ER+        K+    SG +AL  L        N  + + 
Sbjct: 5   ADKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDML-----YGRNKENKIH 59

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             LI+ D  +P M G E LK+++D S+  +I V ++++                  ++KP
Sbjct: 60  PKLILLDINIPKMNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKP 119

Query: 145 VKLSD-VKRIK 154
           +   + +K   
Sbjct: 120 LDYGEAIKLFW 130

>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 = 95.4 bits (238), Expect = 4e-25
 Identities = 40/144 (27%), Positives = 64/144 (44%), Gaps = 7/144 (4%)

Query: 26  DTEEVHVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
                 +L V+DS  D    +RLL        +    +G +AL FL        N     
Sbjct: 3   GNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFL-YQTGSYCNPDIAP 61

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
           +  +I+ D  +PG  G E+L++IK    L++IPVVIM++ +    I+ C       +IVK
Sbjct: 62  RPAVILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVK 121

Query: 144 PVKLSD----VKRIKDYLTRDVNL 163
           P+++      V+    Y    V L
Sbjct: 122 PLEIDRLTETVQTFIKYWLDIVVL 145

>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 =  101 bits (253), Expect = 4e-25
 Identities = 37/127 (29%), Positives = 61/127 (48%), Gaps = 12/127 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD   + +++E  LT    +V+    G  AL     D             D+I+ D
Sbjct: 4   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL-----------PDIILLD 52

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK 151
             MPGM G+ + +K+KD    R IPVV++++ +      + LE GA DF+ KP+    + 
Sbjct: 53  VMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLF 112

Query: 152 -RIKDYL 157
            R++   
Sbjct: 113 ARVRSLT 119

>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 = 85.2 bits (211), Expect = 2e-19
 Identities = 27/131 (20%), Positives = 50/131 (38%), Gaps = 14/131 (10%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
             VL VDD+    + +   L +    V   D  +  +   G              VDL+I
Sbjct: 153 GRVLIVDDNERQAQRVAAELGVEHRPVIESDPEKAKISAGG-------------PVDLVI 199

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            +       G      ++     R++PV+ M   +   R+ + LE G  D + +P+   +
Sbjct: 200 VNAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQE 259

Query: 150 VK-RIKDYLTR 159
           +  R+K  + R
Sbjct: 260 LSARVKTQIQR 270

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 94.7 bits (236), Expect = 7e-25
 Identities = 33/138 (23%), Positives = 71/138 (51%), Gaps = 8/138 (5%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           +  V ++ ++D     ++IE+ +  +  + ++ A   G  AL +L  D++         +
Sbjct: 2   SLSVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRV--SAGR 59

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
             L++ D  +P MTG ++LK +K++   R  PVVI+++ +    I RC + GA  +I KP
Sbjct: 60  AQLVLLDLNLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKP 119

Query: 145 VKLSD----VKRIKDYLT 158
           V   +    ++++  + +
Sbjct: 120 VNYENFANAIRQLGLFFS 137

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 92.0 bits (229), Expect = 1e-23
 Identities = 35/147 (23%), Positives = 67/147 (45%), Gaps = 10/147 (6%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGF 80
           S        +L V+DS  D ++++ +L  S    ++  +  G  A+ FL    +Q     
Sbjct: 2   SDESNPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL----QQQGEYE 57

Query: 81  DGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDF 140
           +  + +LI+ D  +P   G E+L +IK +  L+ IPVV++++ +    +    E     +
Sbjct: 58  NSPRPNLILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCY 117

Query: 141 IVKPVKLSD----VKRIKDYLTRDVNL 163
           + K   L D    V+ I+ +    V L
Sbjct: 118 LTKSRNLKDLFKMVQGIESFWLETVTL 144

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 87.8 bits (218), Expect = 3e-22
 Identities = 29/145 (20%), Positives = 58/145 (40%), Gaps = 13/145 (8%)

Query: 22  LSPSDTEEV-HVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSIN 78
           +S +DT ++  VL +DD  +   +   ++ ++    ++ +V SG  A+  L    E    
Sbjct: 1   MSLADTRKIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKL---NELYAA 57

Query: 79  GFDGLKVDLIITDYCMPGMTGYELLKKIKDSS--ALREIPVVIMSSENILARIDRCLED- 135
           G       +I  D  MPG+ G+EL+   K        +  V ++SS        +     
Sbjct: 58  GR---WPSIICIDINMPGINGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASD 114

Query: 136 GAEDFIVKPVKLSDVK-RIKDYLTR 159
             + ++ KP+  + +       L  
Sbjct: 115 WVDYYVSKPLTANALNNLYNKVLNE 139

>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 = 85.7 bits (213), Expect = 1e-21
 Identities = 35/135 (25%), Positives = 60/135 (44%), Gaps = 15/135 (11%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCK--VTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
           +E+  L VDD    R+++  LL          A D G  AL  L                
Sbjct: 3   KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAED-GVDALNKL-----------QAGGY 50

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
             +I+D+ MP M G ELLK I+   A+  +PV+++++E     I    + GA  ++VKP 
Sbjct: 51  GFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPF 110

Query: 146 KLSDVK-RIKDYLTR 159
             + ++ ++     +
Sbjct: 111 TAATLEEKLNKIFEK 125

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score = 85.3 bits (212), Expect = 2e-21
 Identities = 22/132 (16%), Positives = 48/132 (36%), Gaps = 17/132 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
             L V+D     +  + LL +   +   V SG  AL  +     +          D +  
Sbjct: 5   QALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAM---STR--------GYDAVFI 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR--CLEDGAEDFIVKPVKLS 148
           D  +P  +G  L+K+++     +    V +S     A+ D      +  + ++ KP+ ++
Sbjct: 54  DLNLPDTSGLALVKQLRALPMEKTSKFVAVSG---FAKNDLGKEACELFDFYLEKPIDIA 110

Query: 149 D-VKRIKDYLTR 159
                ++     
Sbjct: 111 SLEPILQSIEGH 122

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score = 90.3 bits (224), Expect = 2e-21
 Identities = 32/120 (26%), Positives = 61/120 (50%), Gaps = 13/120 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L +DD  V R+ +   L  S+ KV    +G + LQ             +  + DL+I 
Sbjct: 7   TLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF-----------ESEQPDLVIC 55

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
           D  MP + G EL+++I+ ++   E P++++S   +++     L  GA D+++KP++   V
Sbjct: 56  DLRMPQIDGLELIRRIRQTA--SETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAV 113

>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 = 81.4 bits (202), Expect = 5e-20
 Identities = 30/134 (22%), Positives = 61/134 (45%), Gaps = 13/134 (9%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           E++ VL VDD    R ++   L     K +TA   G + ++ +    +            
Sbjct: 5   EKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM---AQN--------PHH 53

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK 146
           L+I+D+ MP M G  LL+ ++ + A ++   +I++++   A + +    GA + + KP  
Sbjct: 54  LVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFT 113

Query: 147 LSDVK-RIKDYLTR 159
           +  +K  I+     
Sbjct: 114 IEKMKAAIEAVFGA 127

>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 = 79.5 bits (197), Expect = 4e-19
 Identities = 28/141 (19%), Positives = 56/141 (39%), Gaps = 14/141 (9%)

Query: 22  LSPSDTEEVHVLAVDDSFVDRKVIERLLT--ISSCKVTAVDSGRRALQFLGLDEEQSING 79
           +S +   +  +L ++D      ++ + L       K+    +   A   L          
Sbjct: 1   MSLNVKNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLL---HTV---- 53

Query: 80  FDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAED 139
               K D+++ D  M GM G+ +  +IK + A   I V+ M+       + R +  GAE 
Sbjct: 54  ----KPDVVMLDLMMVGMDGFSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAET 109

Query: 140 FIVKPVKLSDVK-RIKDYLTR 159
              KP+  + ++  IK  + +
Sbjct: 110 CFGKPLNFTLLEKTIKQLVEQ 130

>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 = 78.7 bits (195), Expect = 5e-19
 Identities = 36/129 (27%), Positives = 59/129 (45%), Gaps = 12/129 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D+ ++ K+   LL     +      G  AL       E           DLI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIA---RENKP--------DLILMD 52

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +P ++G E+ K +K+   L  IPVV +++  +    +R  E G E +I KP+ +   +
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFL 112

Query: 151 KRIKDYLTR 159
           + IK  L R
Sbjct: 113 ETIKRLLER 121

>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 = 78.7 bits (195), Expect = 8e-19
 Identities = 29/124 (23%), Positives = 58/124 (46%), Gaps = 17/124 (13%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L +DD     + I+ LL I   +V    S    L+    +            +D++IT
Sbjct: 5   KILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNS---------IDVVIT 55

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAEDFIVKPVKL 147
           D  MP ++G ++L++IK  +    + V+I++       +D     +++GA +++ KPV  
Sbjct: 56  DMKMPKLSGMDILREIKKITP--HMAVIILTGH---GDLDNAILAMKEGAFEYLRKPVTA 110

Query: 148 SDVK 151
            D+ 
Sbjct: 111 QDLS 114

>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 = 78.4 bits (194), Expect = 1e-18
 Identities = 29/118 (24%), Positives = 54/118 (45%), Gaps = 13/118 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL VDD+ V+R+ +   L          D    A  +L   +          ++ L+IT
Sbjct: 9   LVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQK----------RIGLMIT 58

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSS-ENILARIDRCLEDGAEDFIVKPVKL 147
           D  M   +G +L++ I+ S     + ++++S   ++   +D  +  G  DF++KPV L
Sbjct: 59  DLRMQPESGLDLIRTIRASERA-ALSIIVVSGDTDVEEAVD-VMHLGVVDFLLKPVDL 114

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} Length = 137

 Score = 78.0 bits (193), Expect = 1e-18
 Identities = 28/124 (22%), Positives = 52/124 (41%), Gaps = 17/124 (13%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L V+D    R+ +  +++    +V +   G    +            F     D+IITD
Sbjct: 10  ILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERL-----------FGLHAPDVIITD 58

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMS--SENILARIDRCLEDGAEDFIVKPVKLSD 149
             MP + G E+L +IK      +  V+++S  SE       + +E G   F+ KP++   
Sbjct: 59  IRMPKLGGLEMLDRIKAGG--AKPYVIVISAFSEMKYFI--KAIELGVHLFLPKPIEPGR 114

Query: 150 VKRI 153
           +   
Sbjct: 115 LMET 118

>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 = 77.5 bits (192), Expect = 1e-18
 Identities = 33/130 (25%), Positives = 56/130 (43%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD    R ++  +      +     +G +AL  +              + DL++ 
Sbjct: 5   KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-----------TKERPDLVLL 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
           D  +PGM G E+LK++K       I V+IM++   L  I    E GA     KP  + ++
Sbjct: 54  DMKIPGMDGIEILKRMKVIDE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEI 111

Query: 151 K-RIKDYLTR 159
           +  +K YL  
Sbjct: 112 RDAVKKYLPL 121

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score = 78.0 bits (193), Expect = 2e-18
 Identities = 30/133 (22%), Positives = 55/133 (41%), Gaps = 22/133 (16%)

Query: 26  DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
           + +   V+ VDD       ++RL+    C +    S   AL+ L               V
Sbjct: 4   NYKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTS-----------V 52

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMS----SENILARIDRCLEDGAED-F 140
            L+I+D  MP M G   L+++  S    +I  V++S    ++  +      +  G    F
Sbjct: 53  QLVISDMRMPEMGGEVFLEQVAKSY--PDIERVVISGYADAQATID----AVNRGKISRF 106

Query: 141 IVKPVKLSDVKRI 153
           ++KP +  DV ++
Sbjct: 107 LLKPWEDEDVFKV 119

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score = 77.2 bits (191), Expect = 3e-18
 Identities = 28/131 (21%), Positives = 58/131 (44%), Gaps = 17/131 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V+ VD+S +    ++  L      V    + + A  FL     +        K+DL+  
Sbjct: 6   TVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFL---RRE--------KIDLVFV 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSE-NILARIDRCLEDGAEDFIVKPVKLSD 149
           D    G     L+++I++     +  V ++S+  +    I+  ++ GA D+I+KP +L  
Sbjct: 55  DV-FEGEESLNLIRRIREEF--PDTKVAVLSAYVDKDLIIN-SVKAGAVDYILKPFRLDY 110

Query: 150 VK-RIKDYLTR 159
           +  R+K  ++ 
Sbjct: 111 LLERVKKIISS 121

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 76.8 bits (190), Expect = 4e-18
 Identities = 37/133 (27%), Positives = 63/133 (47%), Gaps = 13/133 (9%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG 82
             +    + +L  DD   +R V++RLL  +  KV  V+   + L  +    E+       
Sbjct: 8   HRARVRSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAM---AEED------ 58

Query: 83  LKVDLIITDYCMPGMTGYELLKKI--KDSSALREIPVVIMSSENILARIDRCLEDGAEDF 140
              D +I D  MPGM G ++LK++    +S +R  PVV++S++     I  C + GA  F
Sbjct: 59  --YDAVIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAF 116

Query: 141 IVKPVKLSDVKRI 153
           + KPV  + +   
Sbjct: 117 LAKPVVAAKLLDT 129

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score = 77.2 bits (191), Expect = 4e-18
 Identities = 26/135 (19%), Positives = 50/135 (37%), Gaps = 22/135 (16%)

Query: 24  PSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
            + T    +L VD   V  + +++LL+     +       +ALQ L   E          
Sbjct: 9   ATVTRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE---------- 58

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMS----SENILARIDRCLEDGAE- 138
            VDL+I+   +P M G  LL +I           ++++     + I       + +G   
Sbjct: 59  -VDLVISAAHLPQMDGPTLLARIHQQYP--STTRILLTGDPDLKLIAK----AINEGEIY 111

Query: 139 DFIVKPVKLSDVKRI 153
            ++ KP    ++   
Sbjct: 112 RYLSKPWDDQELLLA 126

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 76.9 bits (190), Expect = 4e-18
 Identities = 18/136 (13%), Positives = 46/136 (33%), Gaps = 23/136 (16%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L  +D     +++  +L         V S  +AL+ +     +            +  
Sbjct: 8   RILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQV---ARR--------PYAAMTV 56

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID------RCLEDGAEDFIVKP 144
           D  +P   G  L++ ++  S  R++ +V++S     A                  ++ KP
Sbjct: 57  DLNLPDQDGVSLIRALRRDSRTRDLAIVVVS-----ANAREGELEFNSQPLAVSTWLEKP 111

Query: 145 VKLSD-VKRIKDYLTR 159
           +  +  +  +   +  
Sbjct: 112 IDENLLILSLHRAIDN 127

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 76.9 bits (190), Expect = 5e-18
 Identities = 41/140 (29%), Positives = 64/140 (45%), Gaps = 22/140 (15%)

Query: 26  DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
                 +L V+DS    + ++ +L  +  +   V +GR A++F               + 
Sbjct: 4   SNRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRF-----------LSLTRP 52

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID-----RCLEDGAEDF 140
           DLII+D  MP M GY L + +K    LR IPV++++        D     R LE GA+DF
Sbjct: 53  DLIISDVLMPEMDGYALCRWLKGQPDLRTIPVILLT-----ILSDPRDVVRSLECGADDF 107

Query: 141 IVKPVKLSDVK-RIKDYLTR 159
           I KP K   +   +K  L+ 
Sbjct: 108 ITKPCKDVVLASHVKRLLSG 127

>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 = 76.0 bits (188), Expect = 6e-18
 Identities = 34/116 (29%), Positives = 61/116 (52%), Gaps = 13/116 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCK--VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
            +L VDDS   R++I+  L+    +  + A   G  A + L  +              ++
Sbjct: 7   KLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEH-GVEAWEKLDANA----------DTKVL 55

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           ITD+ MP M G +L+KK++  S  +EIP++++++E   A +   L+ G  ++IVKP
Sbjct: 56  ITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKP 111

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score = 76.0 bits (188), Expect = 7e-18
 Identities = 31/122 (25%), Positives = 59/122 (48%), Gaps = 15/122 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL V+DS     + ++ +      +  V++GR A+QF+  +           K  LII 
Sbjct: 6   RVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI--ERS---------KPQLIIL 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSE-NILARIDRCLEDGAEDFIVKPVKLSD 149
           D  +P M+G ++L  I  +       V+I ++  ++   ++  ++ GAEDF+ KP+    
Sbjct: 55  DLKLPDMSGEDVLDWINQNDI--PTSVIIATAHGSVDLAVN-LIQKGAEDFLEKPINADR 111

Query: 150 VK 151
           +K
Sbjct: 112 LK 113

>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 = 79.8 bits (198), Expect = 1e-17
 Identities = 32/125 (25%), Positives = 63/125 (50%), Gaps = 19/125 (15%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           ++VL ++D  V R ++E  L++   KV + + G+ A + L    E+          ++++
Sbjct: 1   MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL---SEKH--------FNVVL 49

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAEDFIVKPVK 146
            D  +P + G E+LK IK+ S   E  V++++       I      ++ GA DF+ KP  
Sbjct: 50  LDLLLPDVNGLEILKWIKERSP--ETEVIVITGH---GTIKTAVEAMKMGAYDFLTKPCM 104

Query: 147 LSDVK 151
           L +++
Sbjct: 105 LEEIE 109

>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 = 75.4 bits (186), Expect = 2e-17
 Identities = 33/133 (24%), Positives = 58/133 (43%), Gaps = 15/133 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
            VL V+D+  D  +I R+L      C++  VD+G +AL  +   ++           DLI
Sbjct: 7   RVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQV---QQAKY--------DLI 55

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           I D  +P   G+E++  ++   A +  P+VI++      R  +C+  GA   + K     
Sbjct: 56  ILDIGLPIANGFEVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNV 115

Query: 149 D--VKRIKDYLTR 159
                RI    + 
Sbjct: 116 TDFYGRIYAIFSY 128

>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 = 74.5 bits (184), Expect = 2e-17
 Identities = 35/123 (28%), Positives = 55/123 (44%), Gaps = 13/123 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V  VDD    R V+ER L  +    T  ++G   L  L                D++++
Sbjct: 5   IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKT-----------PDVLLS 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
           D  MPGM G  LLK+IK       +PV+IM++ + L       + GA D++ KP  + + 
Sbjct: 54  DIRMPGMDGLALLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEA 111

Query: 151 KRI 153
             +
Sbjct: 112 VAL 114

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 74.5 bits (184), Expect = 3e-17
 Identities = 31/134 (23%), Positives = 61/134 (45%), Gaps = 19/134 (14%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           S+   + VL +D++ V R V + LL    C+VT V S    L+ +        +      
Sbjct: 3   SNFTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS-------HEH---- 51

Query: 85  VDLIITDYCMPGMTGYELLKKI---KDSSALREIPVVIMSSENILA--RIDRCLEDGAED 139
             ++  D CMPG+  Y++  +I         +   +V +S  N     + ++C+  G + 
Sbjct: 52  -KVVFMDVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSG-NTDKSTK-EKCMSFGLDG 108

Query: 140 FIVKPVKLSDVKRI 153
            ++KPV L +++ +
Sbjct: 109 VLLKPVSLDNIRDV 122

>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 = 74.5 bits (184), Expect = 5e-17
 Identities = 32/127 (25%), Positives = 56/127 (44%), Gaps = 19/127 (14%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           +    V  +DD    RK +++ L ++   V++  S   AL  L  D              
Sbjct: 1   SAAPSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADF-----------AG 49

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAEDFIVK 143
           ++I+D  MPGM G  L +KI       ++P+++++       I    + ++DGA DFI K
Sbjct: 50  IVISDIRMPGMDGLALFRKILALDP--DLPMILVTGH---GDIPMAVQAIQDGAYDFIAK 104

Query: 144 PVKLSDV 150
           P     +
Sbjct: 105 PFAADRL 111

>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 = 76.3 bits (188), Expect = 5e-17
 Identities = 37/134 (27%), Positives = 67/134 (50%), Gaps = 15/134 (11%)

Query: 21  DLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGF 80
           D + SD +++ +L VDD  ++R+++   L     +    + G  AL  L    +      
Sbjct: 121 DKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL---SKNH---- 173

Query: 81  DGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR-IDRCLEDGAED 139
               +D++++D  MP M GY L ++I+       +PV+ +++ N LA    RCLE G + 
Sbjct: 174 ----IDIVLSDVNMPNMDGYRLTQRIRQLG--LTLPVIGVTA-NALAEEKQRCLESGMDS 226

Query: 140 FIVKPVKLSDVKRI 153
            + KPV L  +K+ 
Sbjct: 227 CLSKPVTLDVIKQT 240

>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 = 77.1 bits (191), Expect = 8e-17
 Identities = 23/125 (18%), Positives = 45/125 (36%), Gaps = 19/125 (15%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL VDD       +  +L           + R A + +                 +I+ D
Sbjct: 3   VLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKELF-----------FPVIVLD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAEDFIVKPVKLS 148
             MP   G   +  IK++S   +  V++++       +D   + ++ GA +F+ KP  + 
Sbjct: 52  VWMPDGDGVNFIDFIKENSP--DSVVIVITGH---GSVDTAVKAIKKGAYEFLEKPFSVE 106

Query: 149 DVKRI 153
                
Sbjct: 107 RFLLT 111

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 73.0 bits (180), Expect = 8e-17
 Identities = 33/133 (24%), Positives = 53/133 (39%), Gaps = 22/133 (16%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V++S+  R+ +  LL+      T    G   LQ                  D++I+D
Sbjct: 7   VLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQA-----------LAHPPDVLISD 54

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRC----LEDGAEDFIVKPVKL 147
             M GM GY L    +    L+ IPV+ +S         R      +   + ++VKPVK 
Sbjct: 55  VNMDGMDGYALCGHFRSEPTLKHIPVIFVS-----GYAPRTEGPADQPVPDAYLVKPVKP 109

Query: 148 SDVK-RIKDYLTR 159
             +  ++   L R
Sbjct: 110 PVLIAQLHALLAR 122

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 73.4 bits (181), Expect = 9e-17
 Identities = 31/144 (21%), Positives = 53/144 (36%), Gaps = 22/144 (15%)

Query: 22  LSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFD 81
           +S ++ +   ++ VD            L+     +    +   A+       +       
Sbjct: 1   MSLAEGKWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVA---VKT------ 51

Query: 82  GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID-----RCLEDG 136
                LIIT+  MP ++G +L   +K +     IPV+ +S      R       + L+ G
Sbjct: 52  --HPHLIITEANMPKISGMDLFNSLKKNPQTASIPVIALS-----GRATAKEEAQLLDMG 104

Query: 137 AEDFIVKPVKLSDVK-RIKDYLTR 159
             DFI KPV    +  RIK  L  
Sbjct: 105 FIDFIAKPVNAIRLSARIKRVLKL 128

>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 = 73.4 bits (180), Expect = 9e-17
 Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 10/131 (7%)

Query: 32  VLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           +  V+D+  D ++I+  L  S    +V  V  G  A+ +L  + E +    +  + DLI+
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYA----NASRPDLIL 60

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
               +P   G E+L +IK    L+ IPVV++S+      I    +     +I K   LS 
Sbjct: 61  LXLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQ 120

Query: 150 ----VKRIKDY 156
               VK I+++
Sbjct: 121 LFQIVKGIEEF 131

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum} Length = 140

 Score = 72.3 bits (178), Expect = 2e-16
 Identities = 24/131 (18%), Positives = 49/131 (37%), Gaps = 13/131 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           VL +D    +R+  + +           V++ ++        +           + LII 
Sbjct: 7   VLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLD----------SITLIIM 56

Query: 91  DYCMP-GMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
           D   P    G E+L  I+++S     PV+I +  +        L+    D+I+KP     
Sbjct: 57  DIAFPVEKEGLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKR 116

Query: 150 VK-RIKDYLTR 159
           ++  ++  L  
Sbjct: 117 LENSVRSVLKI 127

>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 = 71.0 bits (175), Expect = 7e-16
 Identities = 35/134 (26%), Positives = 56/134 (41%), Gaps = 22/134 (16%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDDS +   V   +L     +     SG   L+ L                DL++ D
Sbjct: 6   ILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEAL---NAT--------PPDLVLLD 54

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPVK 146
             M  M G+E L++IK   A R+IPV++++     A+    +         ED+I+KP  
Sbjct: 55  IMMEPMDGWETLERIKTDPATRDIPVLMLT-----AKPLTPEEANEYGSYIEDYILKPTT 109

Query: 147 LSDVK-RIKDYLTR 159
              +   I+  L R
Sbjct: 110 HHQLYEAIEHVLAR 123

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score = 69.9 bits (172), Expect = 1e-15
 Identities = 27/126 (21%), Positives = 48/126 (38%), Gaps = 21/126 (16%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD       ++  L      V        A+  L  +            V +II D
Sbjct: 4   ILLVDDEPHSLAAMKLALE-DDFDVLTAQGAEAAIAILEEEW-----------VQVIICD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMS----SENILARIDRCLEDGAEDFIVKPVKL 147
             MPG TG + L ++++     E   +I++    S +++A I+   + G   F+ KP   
Sbjct: 52  QRMPGRTGVDFLTEVRERWP--ETVRIIITGYTDSASMMAAIN---DAGIHQFLTKPWHP 106

Query: 148 SDVKRI 153
             +   
Sbjct: 107 EQLLSS 112

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score = 69.9 bits (172), Expect = 2e-15
 Identities = 28/127 (22%), Positives = 54/127 (42%), Gaps = 20/127 (15%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD +     ++R L+    +VT  +SG  AL  +   +             +I+ 
Sbjct: 6   RILLVDDDYSLLNTLKRNLS-FDFEVTTCESGPEALACIKKSDP----------FSVIMV 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMS----SENILARIDRCLEDGAEDFIVKPVK 146
           D  MPGM G E+++K +  S       ++++        +  ++         F+ KP +
Sbjct: 55  DMRMPGMEGTEVIQKARLIS--PNSVYLMLTGNQDLTTAMEAVNEG---QVFRFLNKPCQ 109

Query: 147 LSDVKRI 153
           +SD+K  
Sbjct: 110 MSDIKAA 116

>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 = 68.6 bits (168), Expect = 5e-15
 Identities = 13/120 (10%), Positives = 39/120 (32%), Gaps = 10/120 (8%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           ++L   +       + RL+  +         GR A      D   +         D+++ 
Sbjct: 22  NILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDA--------FDILMI 73

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
           D           ++K+        +  ++++++     +   +  G  D +  P++   +
Sbjct: 74  DGAALDTAELAAIEKLSRLHP--GLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRAL 131

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score = 68.4 bits (168), Expect = 6e-15
 Identities = 25/135 (18%), Positives = 49/135 (36%), Gaps = 20/135 (14%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V  VDD  +   +++ ++      V A     RA   L L+           K D+II 
Sbjct: 5   RVFIVDDDTLTCNLLKTIVEPIFGNVEAFQ-HPRAFLTLSLN-----------KQDIIIL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMS---SENILARIDR--CLEDGAEDFIVKPV 145
           D  MP M G E+++ + +  +     ++++S   S  + +             +   KP+
Sbjct: 53  DLMMPDMDGIEVIRHLAEHKS--PASLILISGYDSGVLHSAETLALSCGLNVINTFTKPI 110

Query: 146 KLSDVK-RIKDYLTR 159
               +   +     R
Sbjct: 111 NTEVLTCFLTSLSNR 125

>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 = 68.4 bits (168), Expect = 6e-15
 Identities = 30/135 (22%), Positives = 55/135 (40%), Gaps = 23/135 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L +D     R  ++  L  S   V    + + AL+ +  D             DL+I 
Sbjct: 5   KILIIDQQDFSRIELKNFLD-SEYLVIESKNEKEALEQI--DHH---------HPDLVIL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPV 145
           D  + G     L  K+K S  L+ +P++++      +          L  GA+D++ KP 
Sbjct: 53  DMDIIGENSPNLCLKLKRSKGLKNVPLILLF-----SSEHKEAIVNGLHSGADDYLTKPF 107

Query: 146 KLSDVK-RIKDYLTR 159
             +D+  RI+ +L  
Sbjct: 108 NRNDLLSRIEIHLRT 122

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus} Length = 119

 Score = 67.5 bits (166), Expect = 8e-15
 Identities = 23/133 (17%), Positives = 48/133 (36%), Gaps = 19/133 (14%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           H+L +++      V+  +LT +  KV  +  G  AL              D L+  +I+ 
Sbjct: 3   HILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQ-----------LDLLQPIVILM 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARID--RCLEDGAEDFIVKPVKLS 148
            +  P  +   LL+ +++  A    P+V+               L   A   + KP+   
Sbjct: 52  AWPPPDQSCLLLLQHLREHQADPHPPLVLFL-----GEPPVDPLLTAQASAILSKPLDPQ 106

Query: 149 D-VKRIKDYLTRD 160
             +  ++     +
Sbjct: 107 LLLTTLQGLCPPN 119

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score = 67.6 bits (166), Expect = 1e-14
 Identities = 27/134 (20%), Positives = 53/134 (39%), Gaps = 15/134 (11%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           ++  +L V+DS    K I  +L      V    +G  A++ +            G   DL
Sbjct: 4   KDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKV----------SGGWYPDL 53

Query: 88  IITDYCMPG-MTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVK 146
           I+ D  +   M G +    I+  S   E+PVV +++    A +++     A  +++K   
Sbjct: 54  ILMDIELGEGMDGVQTALAIQQIS---ELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSAT 110

Query: 147 LSDVK-RIKDYLTR 159
              +   ++  L  
Sbjct: 111 EQVLITIVEMALRL 124

>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 = 66.0 bits (162), Expect = 3e-14
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 16/121 (13%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKV--TAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           VL VDD+   R +++ ++T +  +V   A + GR A++     +E        LK D++ 
Sbjct: 5   VLIVDDAAFMRMMLKDIITKAGYEVAGEATN-GREAVE---KYKE--------LKPDIVT 52

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  MP M G + +K+I          +++ S+    A +   ++ GA+DFIVKP + S 
Sbjct: 53  MDITMPEMNGIDAIKEIMKID--PNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSR 110

Query: 150 V 150
           V
Sbjct: 111 V 111

>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 = 66.0 bits (162), Expect = 3e-14
 Identities = 32/121 (26%), Positives = 54/121 (44%), Gaps = 17/121 (14%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           ++  V  VDD    RK +  +LT++   V    S    L F                  +
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVR-----------NGV 50

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSE-NI-LARIDRCLEDGAEDFIVKPV 145
           ++TD  MP M+G ELL+ + D      IP ++++   ++ +A     ++ GA DFI KP 
Sbjct: 51  LVTDLRMPDMSGVELLRNLGDLKI--NIPSIVITGHGDVPMAV--EAMKAGAVDFIEKPF 106

Query: 146 K 146
           +
Sbjct: 107 E 107

>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 = 66.5 bits (163), Expect = 3e-14
 Identities = 34/131 (25%), Positives = 50/131 (38%), Gaps = 27/131 (20%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLL-TISSCKV--TAVDSGRRALQFLGLDEEQSING 79
                   +V+ VDD+ + R  I   + T+   KV   A + G+ AL  L          
Sbjct: 7   HHHHGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAAN-GQEALDKLAAQ------- 58

Query: 80  FDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS------ENILARIDRCL 133
                VDLI+ D  MP M G E L+  K         + ++SS       +      R  
Sbjct: 59  ---PNVDLILLDIEMPVMDGMEFLRHAK---LKTRAKICMLSSVAVSGSPHAA----RAR 108

Query: 134 EDGAEDFIVKP 144
           E GA+  + KP
Sbjct: 109 ELGADGVVAKP 119

>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 = 67.3 bits (165), Expect = 5e-14
 Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 13/119 (10%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
           T +  V  VDD    R+ +  LL  +  +V   D     L+                +  
Sbjct: 2   TAKPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHR-----------RPEQHG 50

Query: 87  LIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
            ++ D  MPGM+G EL +++   S    IP+V +++   +    R ++ GA +F+ KP 
Sbjct: 51  CLVLDMRMPGMSGIELQEQLTAISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPF 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 = 65.3 bits (160), Expect = 7e-14
 Identities = 29/138 (21%), Positives = 53/138 (38%), Gaps = 22/138 (15%)

Query: 27  TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVD 86
            E V +L  DD  +     E  LT +   VTAV SG +A++ L            G  +D
Sbjct: 3   LEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLK----------SGAAID 52

Query: 87  LIITDYCMP-GMTGYELLKKIKDSSALR-EIPVVIMS--SENILARIDRCLEDGAEDFIV 142
            ++TD        G+++ +  +    +   +P+V +S  +    A     + D     + 
Sbjct: 53  GVVTDIRFCQPPDGWQVARVAR---EIDPNMPIVYISGHAALEWAS--NGVPDSI--ILE 105

Query: 143 KPVKLSD-VKRIKDYLTR 159
           KP   +  +  +   L  
Sbjct: 106 KPFTSAQLITAVSQLLNA 123

>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 = 68.7 bits (169), Expect = 7e-14
 Identities = 38/122 (31%), Positives = 57/122 (46%), Gaps = 28/122 (22%)

Query: 32  VLAVDDSFVDRKVIERLLT-ISSCKV--TAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           VL+VDDS + R+++  ++   S  ++  TA D    A   +                D++
Sbjct: 6   VLSVDDSALMRQIMTEIINSHSDMEMVATAPD-PLVARDLIKK-----------FNPDVL 53

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS------ENILARIDRCLEDGAEDFIV 142
             D  MP M G + L+K+     LR +PVV++SS      E  L    R LE GA DF+ 
Sbjct: 54  TLDVEMPRMDGLDFLEKLM---RLRPMPVVMVSSLTGKGSEVTL----RALELGAIDFVT 106

Query: 143 KP 144
           KP
Sbjct: 107 KP 108

>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 = 65.7 bits (160), Expect = 8e-14
 Identities = 33/142 (23%), Positives = 56/142 (39%), Gaps = 15/142 (10%)

Query: 21  DLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKV--TAVDSGRRALQFLGLDEEQSIN 78
            ++       +VL VDDS    K + ++ T     +  TA D G  A+            
Sbjct: 28  GINYDTGIPFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAAD-GEEAVIKY--KNHYP-- 82

Query: 79  GFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAE 138
                 +D++     MP M G   L  I +    +   V+++S+      +  CL  GA+
Sbjct: 83  -----NIDIVTLXITMPKMDGITCLSNIMEFD--KNARVIMISALGKEQLVKDCLIKGAK 135

Query: 139 DFIVKPVKLSDVK-RIKDYLTR 159
            FIVKP+  + V  R+     +
Sbjct: 136 TFIVKPLDRAKVLQRVMSVFVK 157

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 65.3 bits (160), Expect = 1e-13
 Identities = 30/134 (22%), Positives = 52/134 (38%), Gaps = 28/134 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            ++ VDD+      ++ LL     KV  + S       L  +             ++++ 
Sbjct: 5   TIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREEN-----------PEVVLL 53

Query: 91  DYCMP-----GMTGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAEDFIV 142
           D         G  G   L +IK      ++PVV+ ++    A ID   R +++GA DF+V
Sbjct: 54  DMNFTSGINNGNEGLFWLHEIKRQYR--DLPVVLFTAY---ADIDLAVRGIKEGASDFVV 108

Query: 143 KPVK----LSDVKR 152
           KP      L  +  
Sbjct: 109 KPWDNQKLLETLLN 122

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 64.5 bits (158), Expect = 1e-13
 Identities = 34/136 (25%), Positives = 55/136 (40%), Gaps = 25/136 (18%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L V+D  V R +++   +           G  AL+              G   DL+I 
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALEL-----------LGGFTPDLMIC 57

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKPV 145
           D  MP M G +LL+ I++     + PV+++S     A     D    L  G ED ++KPV
Sbjct: 58  DIAMPRMNGLKLLEHIRNRG--DQTPVLVIS-----ATENMADIAKALRLGVEDVLLKPV 110

Query: 146 KLSD--VKRIKDYLTR 159
           K  +   + +   L  
Sbjct: 111 KDLNRLREMVFACLYP 126

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 63.7 bits (156), Expect = 4e-13
 Identities = 28/135 (20%), Positives = 63/135 (46%), Gaps = 22/135 (16%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V+ VDD    R  ++ +L+ +   + + DSG + +  L   ++            +++ 
Sbjct: 9   DVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLL---KKG--------FSGVVLL 57

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPV 145
           D  MPGM G++ ++ I D+S  + I +V+++     A+     +   L++   D+I KP 
Sbjct: 58  DIMMPGMDGWDTIRAILDNSLEQGIAIVMLT-----AKNAPDAKMIGLQEYVVDYITKPF 112

Query: 146 KLSD-VKRIKDYLTR 159
              D +++   ++  
Sbjct: 113 DNEDLIEKTTFFMGF 127

>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 = 65.2 bits (159), Expect = 4e-13
 Identities = 39/144 (27%), Positives = 67/144 (46%), Gaps = 9/144 (6%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFL--GLDEEQSING 79
                    VL VDD+F+ RKV    L      +V   DSG+ AL+ +  GL + +    
Sbjct: 55  DDEFLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGS 114

Query: 80  FDGLKVDLIITDYCMPGMTGYELLKKI--KDSSALREIPVVIMSSENILA-RIDRCLEDG 136
            D L  D I  D  MP M GYE  ++I   + S     P++ +S  +  +      ++ G
Sbjct: 115 VDKLPFDYIFMDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAG 174

Query: 137 AEDFIVKPV-KLSDVKRIKDYLTR 159
            + F+ K + +L++V  I++  ++
Sbjct: 175 MDAFLDKSLNQLANV--IREIESK 196

>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 = 64.2 bits (157), Expect = 5e-13
 Identities = 22/138 (15%), Positives = 54/138 (39%), Gaps = 16/138 (11%)

Query: 24  PSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
           P    + + L +DD+ V    + R L      V    +   AL+  G +           
Sbjct: 2   PGSMSDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAE----------- 50

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSE-NILARIDRCLEDGAEDFIV 142
           K + I     +   +G  L+  + D     +  +++++   +I   +   ++DGA++++ 
Sbjct: 51  KFEFITVXLHLGNDSGLSLIAPLCDLQP--DARILVLTGYASIATAVQ-AVKDGADNYLA 107

Query: 143 KPVKLSDV-KRIKDYLTR 159
           KP  +  +   ++   + 
Sbjct: 108 KPANVESILAALQTNASE 125

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 63.8 bits (156), Expect = 5e-13
 Identities = 40/128 (31%), Positives = 54/128 (42%), Gaps = 22/128 (17%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLLT-ISSCKV--TAVDSGRRALQFLGLDEEQSING 79
           S      + VL VDDS   R V++ ++      KV   A D G  A++            
Sbjct: 19  SHMTDRVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKD-GLEAVEKA---------- 67

Query: 80  FDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSS---ENILARIDRCLEDG 136
              LK D+I  D  MP + G E LK I          V+++SS   E     I+  L +G
Sbjct: 68  -IELKPDVITMDIEMPNLNGIEALKLIM---KKAPTRVIMVSSLTEEGAAITIE-ALRNG 122

Query: 137 AEDFIVKP 144
           A DFI KP
Sbjct: 123 AVDFITKP 130

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 62.9 bits (154), Expect = 6e-13
 Identities = 27/137 (19%), Positives = 53/137 (38%), Gaps = 24/137 (17%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           +L VDD  + R  +   +   +     +   D G  A+Q                  +++
Sbjct: 5   ILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIA-----------LKHPPNVL 53

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMS--SENILARIDRCLEDGAEDFIVKPVK 146
           +TD  MP M G EL+  I       +  V+ MS  S+    +    ++  A  ++ KP+ 
Sbjct: 54  LTDVRMPRMDGIELVDNILKL--YPDCSVIFMSGYSDKEYLK--AAIKFRAIRYVEKPID 109

Query: 147 LSD----VKRIKDYLTR 159
            S+    +K+    + +
Sbjct: 110 PSEIMDALKQSIQTVLQ 126

>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 = 62.5 bits (152), Expect = 7e-13
 Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD        +++L     +V    +    L  +   E +          +L + 
Sbjct: 5   RILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKI---ENEFF--------NLALF 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
              +P M G ELL+K         +  ++++    L      L  GA+ +I+KPV   D+
Sbjct: 54  XIKLPDMEGTELLEKAHKLRP--GMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDL 111

Query: 151 K-RIKDYLTR 159
             +IK+ L  
Sbjct: 112 LEKIKEKLDE 121

>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 = 61.4 bits (150), Expect = 2e-12
 Identities = 31/125 (24%), Positives = 58/125 (46%), Gaps = 8/125 (6%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           V +L V+D+ V+++VI+R+L +   + +     G+ A   +     +    ++     +I
Sbjct: 3   VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKG-ENYN-----MI 56

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
             D  MP + G    K I+        P+V +++    + I  CLE G   F+ KP+K  
Sbjct: 57  FMDVQMPKVDGLLSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRP 115

Query: 149 DVKRI 153
            +K I
Sbjct: 116 KLKTI 120

>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 = 60.9 bits (149), Expect = 3e-12
 Identities = 26/122 (21%), Positives = 50/122 (40%), Gaps = 24/122 (19%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           +  H+L V+D  V R  ++ +       V     G    Q                 ++L
Sbjct: 2   QTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQI-----------LSEYDINL 50

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIV 142
           +I D  +PG  G  L +++++ +    +  ++  +     R   +D+   LE GA+D+I 
Sbjct: 51  VIMDINLPGKNGLLLARELREQA---NVA-LMFLT----GRDNEVDKILGLEIGADDYIT 102

Query: 143 KP 144
           KP
Sbjct: 103 KP 104

>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 = 61.1 bits (149), Expect = 3e-12
 Identities = 22/138 (15%), Positives = 47/138 (34%), Gaps = 22/138 (15%)

Query: 26  DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
             +   V  V+D      +I+  L     +VT   SG    Q                  
Sbjct: 12  HMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLS----------TC 61

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRCLEDGAEDFIV 142
           DL+I    +  ++ + LL  +K+ +  ++  V+I++          +     +    ++ 
Sbjct: 62  DLLIVSDQLVDLSIFSLLDIVKEQT--KQPSVLILT-----TGRHELIE-SSEHNLSYLQ 113

Query: 143 KPVKLSD-VKRIKDYLTR 159
           KP  +S+    I  +   
Sbjct: 114 KPFAISELRAAIDYHKPS 131

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 60.7 bits (148), Expect = 4e-12
 Identities = 29/136 (21%), Positives = 63/136 (46%), Gaps = 19/136 (13%)

Query: 22  LSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFD 81
           L PS    + VL  +D+ + R V  + L   +  +T V +G +ALQ     + +      
Sbjct: 3   LEPSQIMPLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAY---QNRQF---- 55

Query: 82  GLKVDLIITDYCMPGMTGYELLKKIKD---SSALREIPVVIMSSENILARIDRCLED-GA 137
               D+II D  MP M G E + +I++   +   +   ++ +++ + +   DR       
Sbjct: 56  ----DVIIMDIQMPVMDGLEAVSEIRNYERTHNTKRASIIAITA-DTIDD-DR--PGAEL 107

Query: 138 EDFIVKPVKLSDVKRI 153
           ++++ KP+  + ++ +
Sbjct: 108 DEYVSKPLNPNQLRDV 123

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score = 60.6 bits (148), Expect = 5e-12
 Identities = 23/133 (17%), Positives = 48/133 (36%), Gaps = 17/133 (12%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAV-DSGRRALQFLGLDEEQSINGFDGL 83
           +  +   VL V+D  +    +   L      V  V D+G  A++               L
Sbjct: 5   ASDDLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRC-----------APDL 53

Query: 84  KVDLIITDYCMPG-MTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV 142
           + D+ + D  + G + G E   ++        +P++ ++S   +    R        ++ 
Sbjct: 54  RPDIALVDIMLCGALDGVETAARLAAGC---NLPIIFITSSQDVETFQRAKRVNPFGYLA 110

Query: 143 KPVKLSDVK-RIK 154
           KPV    +   I+
Sbjct: 111 KPVAADTLHRSIE 123

>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 = 59.8 bits (146), Expect = 6e-12
 Identities = 29/119 (24%), Positives = 50/119 (42%), Gaps = 24/119 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           H++ V+D  V +  ++   T     V+   SG    +                 VDLI+ 
Sbjct: 4   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREI-----------MQNQSVDLILL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKP 144
           D  +P   G  L + +++ S    +  +I+ +     R   IDR   LE GA+D++ KP
Sbjct: 53  DINLPDENGLMLTRALRERS---TVG-IILVT----GRSDRIDRIVGLEMGADDYVTKP 103

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 59.6 bits (145), Expect = 1e-11
 Identities = 18/129 (13%), Positives = 42/129 (32%), Gaps = 14/129 (10%)

Query: 17  IDGFDLSPSDTEEVHVLAV-DDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQ 75
           ++  +   + T+   V     D    R V  RL  ++   V   ++              
Sbjct: 2   MNAINTKVTPTKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADT--- 58

Query: 76  SINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLED 135
                   +  ++I D     + G   + + +       +P++ +S E    +    +  
Sbjct: 59  --------RPGIVILDLGGGDLLGKPGIVEARALW--ATVPLIAVSDELTSEQTRVLVRM 108

Query: 136 GAEDFIVKP 144
            A D++ KP
Sbjct: 109 NASDWLHKP 117

>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 = 57.9 bits (141), Expect = 3e-11
 Identities = 31/119 (26%), Positives = 54/119 (45%), Gaps = 21/119 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L V+D    R+++  +L  +  +    +    A+              +    DLI+ 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQ-----------LNEPWPDLILL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKP 144
            + +PG +G + +K ++  S  R+IP V+M +    AR    DR   LE GA+D I KP
Sbjct: 53  AWMLPGGSGIQFIKHLRRESMTRDIP-VVMLT----ARGEEEDRVRGLETGADDCITKP 106

>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 = 58.3 bits (142), Expect = 3e-11
 Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 21/119 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD     +++E +L  +  +V    SG  ALQ                  D +I 
Sbjct: 6   TLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQ-----------IYKNLPDALIC 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKP 144
           D  +PG+ GY L K+++     + +P ++M +    A+     +    E GA D++ KP
Sbjct: 55  DVLLPGIDGYTLCKRVRQHPLTKTLP-ILMLT----AQGDISAKIAGFEAGANDYLAKP 108

>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 = 59.9 bits (146), Expect = 4e-11
 Identities = 33/135 (24%), Positives = 63/135 (46%), Gaps = 25/135 (18%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD     +++  +L         +  G +AL                L+ DL++ 
Sbjct: 7   RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTA-----------VRELRPDLVLL 55

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPV 145
           D  +PGM G ++ + ++  S    +P+V+++     A+   +D    LE GA+D+I+KP 
Sbjct: 56  DLMLPGMNGIDVCRVLRADS---GVPIVMLT-----AKTDTVDVVLGLESGADDYIMKPF 107

Query: 146 KLSDVK-RIKDYLTR 159
           K  ++  R++  L R
Sbjct: 108 KPKELVARVRARLRR 122

>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 = 57.5 bits (140), Expect = 5e-11
 Identities = 25/131 (19%), Positives = 52/131 (39%), Gaps = 14/131 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L V+        +   L      V     G+ +++                + DL++ 
Sbjct: 7   KILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQ-----------IRRDRPDLVVL 55

Query: 91  DYCM-PGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
              +  G  GY +  K+K    L+ +P+VI+ + +  A+  R L+  A++++ KPV    
Sbjct: 56  AVDLSAGQNGYLICGKLKKDDDLKNVPIVIIGNPDGFAQH-RKLKAHADEYVAKPVDADQ 114

Query: 150 -VKRIKDYLTR 159
            V+R    +  
Sbjct: 115 LVERAGALIGF 125

>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 = 57.1 bits (138), Expect = 6e-11
 Identities = 34/125 (27%), Positives = 58/125 (46%), Gaps = 12/125 (9%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL VDDS V RK++   L     +V   ++G+ AL+                  DLI+ 
Sbjct: 4   KVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEK-----------LSEFTPDLIVL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
              MP M G+ +LKK+++    + IPV++++++         L  GA   + KP   S  
Sbjct: 53  XIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQF 112

Query: 150 VKRIK 154
           ++ +K
Sbjct: 113 IEEVK 117

>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 = 59.0 bits (144), Expect = 8e-11
 Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 24/119 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL V+D       +  LL     + T V  G  AL             FD    D+++ 
Sbjct: 6   SVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAE-----------FDRAGADIVLL 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKP 144
           D  +PGM+G ++ K+++  S    +PV++++     AR   ID+   LE GA+D++ KP
Sbjct: 55  DLMLPGMSGTDVCKQLRARS---SVPVIMVT-----ARDSEIDKVVGLELGADDYVTKP 105

>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 = 58.2 bits (141), Expect = 1e-10
 Identities = 29/123 (23%), Positives = 54/123 (43%), Gaps = 15/123 (12%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           VL  +D  + R  +  +L     ++      G+ A++   L E          K DL+I 
Sbjct: 16  VLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVE---LAEL--------HKPDLVIM 64

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDV 150
           D  MP   G +   +I      R  P+V++++ +    ++R  + GA  ++VKP  +SD+
Sbjct: 65  DVKMPRRDGIDAASEIASK---RIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDL 121

Query: 151 KRI 153
              
Sbjct: 122 IPA 124

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 56.7 bits (138), Expect = 1e-10
 Identities = 26/142 (18%), Positives = 51/142 (35%), Gaps = 25/142 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L +D    + + ++  L      +    +   A+                 K DLI  
Sbjct: 6   KILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGK-----------IFSNKYDLIFL 54

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKPV 145
           +  +    G+ L KKI++ +     P+V M+                L  G +D+++KP+
Sbjct: 55  EIILSDGDGWTLCKKIRNVT---TCPIVYMT-----YINEDQSILNALNSGGDDYLIKPL 106

Query: 146 KLSD-VKRIKDYLTRDVNLGNE 166
            L     ++K  L R  +  N 
Sbjct: 107 NLEILYAKVKAILRRMNSYVNN 128

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 56.8 bits (138), Expect = 1e-10
 Identities = 24/127 (18%), Positives = 44/127 (34%), Gaps = 21/127 (16%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           S      +  VD     R  + +LL+     +    S    ++    D+           
Sbjct: 2   SLNHHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISDDA---------- 51

Query: 85  VDLIITDYCMPGM--TGYELLKKIKDSSALREIPVVIMSSENILARID---RCLEDGAED 139
              +I +  +     +G ELL+ +        +P ++M+S    + I    R +   A D
Sbjct: 52  -IGMIIEAHLEDKKDSGIELLETLVKRGF--HLPTIVMASS---SDIPTAVRAMRASAAD 105

Query: 140 FIVKPVK 146
           FI KP  
Sbjct: 106 FIEKPFI 112

>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 = 58.6 bits (141), Expect = 1e-10
 Identities = 40/168 (23%), Positives = 69/168 (41%), Gaps = 26/168 (15%)

Query: 23  SPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG 82
             + T E  VL VDD   +  ++E L                +L+F G +   + NG   
Sbjct: 17  GENTTPEARVLVVDD---EANIVELL--------------SVSLKFQGFEVYTATNGAQA 59

Query: 83  LKV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDG 136
           L        D +I D  MPGM G+ +L++++      + P + +++ + L      L  G
Sbjct: 60  LDRARETRPDAVILDVXMPGMDGFGVLRRLRADG--IDAPALFLTARDSLQDKIAGLTLG 117

Query: 137 AEDFIVKPVKLSD-VKRIKDYLTRDVNLGNEGRGINKRKARESCDLSS 183
            +D++ KP  L + V R++  L R      E R +    A    D  +
Sbjct: 118 GDDYVTKPFSLEEVVARLRVILRRAGKGNKEPRNVRLTFADIELDEET 165

>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 = 56.3 bits (137), Expect = 1e-10
 Identities = 34/119 (28%), Positives = 57/119 (47%), Gaps = 24/119 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      +I+  +T    +V    +GR AL+            F+  + D+II 
Sbjct: 3   KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQ-----------FEAEQPDIIIL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKP 144
           D  +P + G E+ K I+ +S    +P ++M S    A+    D+   LE GA+D++ KP
Sbjct: 52  DLMLPEIDGLEVAKTIRKTS---SVP-ILMLS----AKDSEFDKVIGLELGADDYVTKP 102

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 56.4 bits (137), Expect = 1e-10
 Identities = 24/135 (17%), Positives = 51/135 (37%), Gaps = 23/135 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD       IER+L     +V    +G  A                  +  ++  
Sbjct: 8   RILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIK-----------LSTFEPAIMTL 56

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPV 145
           D  MP + G ++++ ++  + +   P +++      +          + +GA+D++ KP 
Sbjct: 57  DLSMPKLDGLDVIRSLR-QNKVANQPKILVV-----SGLDKAKLQQAVTEGADDYLEKPF 110

Query: 146 KLSDVK-RIKDYLTR 159
               +  RI D +  
Sbjct: 111 DNDALLDRIHDLVNE 125

>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 = 55.9 bits (136), Expect = 1e-10
 Identities = 30/119 (25%), Positives = 54/119 (45%), Gaps = 24/119 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      ++E  L     +V     G  A++             + L+ DLI+ 
Sbjct: 4   KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEM-----------VEELQPDLILL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKP 144
           D  +P   G E+ ++++      ++P +IM +    A+   ID+   LE GA+D++ KP
Sbjct: 53  DIMLPNKDGVEVCREVRKKY---DMP-IIMLT----AKDSEIDKVIGLEIGADDYVTKP 103

>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 = 55.1 bits (134), Expect = 3e-10
 Identities = 31/119 (26%), Positives = 53/119 (44%), Gaps = 24/119 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           +VL V+D    R+ +   L     +V   ++ +R L                 K DLII 
Sbjct: 3   NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLE-----------AATRKPDLIIL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKP 144
           D  +P   G E ++ ++  S    +PV+++S     AR    D+   L+ GA+D++ KP
Sbjct: 52  DLGLPDGDGIEFIRDLRQWS---AVPVIVLS-----ARSEESDKIAALDAGADDYLSKP 102

>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 = 57.5 bits (139), Expect = 4e-10
 Identities = 27/129 (20%), Positives = 46/129 (35%), Gaps = 23/129 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAV-DSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            VL ++D  V    IE L+      VT +  +   AL+                   L++
Sbjct: 162 EVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEA-----------VTRRTPGLVL 210

Query: 90  TDYCMP-GMTGYELLKKIKDSSALREIPVVIMS--SENILARIDRCLEDGAEDFIVKPVK 146
            D  +  G +G + +K I       ++PV+ ++   E    R+           I KP +
Sbjct: 211 ADIQLADGSSGIDAVKDILGRM---DVPVIFITAFPE----RLLTGERPEPTFLITKPFQ 263

Query: 147 LSDVK-RIK 154
              VK  I 
Sbjct: 264 PETVKAAIG 272

>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 = 54.4 bits (132), Expect = 8e-10
 Identities = 30/119 (25%), Positives = 51/119 (42%), Gaps = 23/119 (19%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      +++  L  S   V     G  AL+             +  K DLI+ 
Sbjct: 5   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKK-----------AETEKPDLIVL 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKP 144
           D  +P + G E+ K+++        P ++M +    A+    D+   LE GA+D++ KP
Sbjct: 54  DVMLPKLDGIEVCKQLRQQK--LMFP-ILMLT----AKDEEFDKVLGLELGADDYMTKP 105

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 52.4 bits (127), Expect = 2e-09
 Identities = 24/117 (20%), Positives = 51/117 (43%), Gaps = 21/117 (17%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD    R++++  L     ++   ++G  AL+            F     DL+I 
Sbjct: 3   RILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKK-----------FFSGNYDLVIL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRCLEDGAEDFIVKP 144
           D  MPG++G E+  +I+     ++  +++++     A            A++++VK 
Sbjct: 52  DIEMPGISGLEVAGEIRKKK--KDAKIILLT-----AYSHYRSDMSSWAADEYVVKS 101

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 52.4 bits (125), Expect = 1e-08
 Identities = 16/123 (13%), Positives = 31/123 (25%), Gaps = 18/123 (14%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
            E+ VL ++        +   L    C V        A                 + VD+
Sbjct: 11  RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD---------------VPVDV 55

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           + T                  +       +V +      A + + +E      I +P+  
Sbjct: 56  VFTSIFQNRHHDEIAALLAAGT---PRTTLVALVEYESPAVLSQIIELECHGVITQPLDA 112

Query: 148 SDV 150
             V
Sbjct: 113 HRV 115

>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 = 52.5 bits (127), Expect = 2e-08
 Identities = 34/132 (25%), Positives = 56/132 (42%), Gaps = 35/132 (26%)

Query: 24  PSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL 83
            +      VL VDD   D  V+  L               R L+  G +   +++G + L
Sbjct: 2   DTGVTSPRVLVVDD---DSDVLASL--------------ERGLRLSGFEVATAVDGAEAL 44

Query: 84  KV------DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC-- 132
           +       D I+ D  MP + G  ++  ++      ++PV ++S     AR    DR   
Sbjct: 45  RSATENRPDAIVLDINMPVLDGVSVVTALRAMD--NDVPVCVLS-----ARSSVDDRVAG 97

Query: 133 LEDGAEDFIVKP 144
           LE GA+D++VKP
Sbjct: 98  LEAGADDYLVKP 109

>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 = 52.1 bits (126), Expect = 2e-08
 Identities = 28/135 (20%), Positives = 54/135 (40%), Gaps = 27/135 (20%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +  VDD     K +   L     +V    +G   L     ++E+           +++ 
Sbjct: 4   KIAVVDDDKNILKKVSEKLQ-QLGRVKTFLTGEDFL-----NDEE--------AFHVVVL 49

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKPV 145
           D  +P  +GYE+ + IK++    E  V++++                 E GA+D++ KP 
Sbjct: 50  DVMLPDYSGYEICRMIKETRP--ETWVILLT-----LLSDDESVLKGFEAGADDYVTKPF 102

Query: 146 KLSD-VKRIKDYLTR 159
                + R+K +L R
Sbjct: 103 NPEILLARVKRFLER 117

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 50.7 bits (122), Expect = 2e-08
 Identities = 30/135 (22%), Positives = 55/135 (40%), Gaps = 27/135 (20%)

Query: 32  VLAVDDSFVDRKVIERLL-TISSCKVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           V+ V+D F+ ++ +  L+ T S  ++    D G   L+FL              KVD I 
Sbjct: 12  VIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFL-----------QHNKVDAIF 60

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL---EDGAEDFIVKPVK 146
            D  +P + G  L + I         P ++  +    A  +  +   E  A D+I+KP +
Sbjct: 61  LDINIPSLDGVLLAQNISQ---FAHKPFIVFIT----AWKEHAVEAFELEAFDYILKPYQ 113

Query: 147 LSD----VKRIKDYL 157
            S     ++++    
Sbjct: 114 ESRIINMLQKLTTAW 128

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 51.4 bits (124), Expect = 4e-08
 Identities = 25/125 (20%), Positives = 55/125 (44%), Gaps = 36/125 (28%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKV----- 85
            +L ++D   D  +   L              R  L   G   + + +  +GL       
Sbjct: 39  RILVIED---DHDIANVL--------------RMDLTDAGYVVDHADSAMNGLIKAREDH 81

Query: 86  -DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAED 139
            DLI+ D  +P   G +++++++ +S    +P+++++     AR    ++   L  GA+D
Sbjct: 82  PDLILLDLGLPDFDGGDVVQRLRKNS---ALPIIVLT-----ARDTVEEKVRLLGLGADD 133

Query: 140 FIVKP 144
           +++KP
Sbjct: 134 YLIKP 138

>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 = 50.1 bits (121), Expect = 1e-07
 Identities = 30/122 (24%), Positives = 52/122 (42%), Gaps = 29/122 (23%)

Query: 31  HVLAVDDSFVDRKV---IERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
            VL V+D   +R +   I   L      V     G   + ++ L+E            D+
Sbjct: 4   RVLVVED---ERDLADLITEALKKEMFTVDVCYDGEEGM-YMALNEP----------FDV 49

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIV 142
           +I D  +P   G+E+LK +++S      PV++++     A      R   L  GA+D++ 
Sbjct: 50  VILDIMLPVHDGWEILKSMRESG--VNTPVLMLT-----ALSDVEYRVKGLNMGADDYLP 102

Query: 143 KP 144
           KP
Sbjct: 103 KP 104

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 48.1 bits (115), Expect = 8e-07
 Identities = 19/99 (19%), Positives = 34/99 (34%), Gaps = 11/99 (11%)

Query: 29  EVHVLAVDDSFVDRKVIERLL-TISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           +++VL ++D    R V    L  +    +     G+ A+  L               VD+
Sbjct: 3   DLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESCGH----------VDI 52

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENIL 126
            I D  M GM G   L+    S  +  + +       + 
Sbjct: 53  AICDLQMSGMDGLAFLRHASLSGKVHSVILSSEVDPILR 91

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3} Length = 154

 Score = 44.9 bits (107), Expect = 2e-06
 Identities = 33/116 (28%), Positives = 47/116 (40%), Gaps = 14/116 (12%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
             VL VDD  + R   + LL  +    +V   ++   AL FL  D            VDL
Sbjct: 4   TVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEAD----------NTVDL 53

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
           I+ D  +P     + L ++K         V ++S E     I   LE GA+ FI K
Sbjct: 54  ILLDVNLPDAEAIDGLVRLKR--FDPSNAVALISGETDHELIRAALEAGADGFIPK 107

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori} Length = 223

 Score = 45.1 bits (108), Expect = 4e-06
 Identities = 21/122 (17%), Positives = 40/122 (32%), Gaps = 33/122 (27%)

Query: 31  HVLAVDDSFVDRKV---IERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
            VL ++    +  +   IE+ L +        +S      +L                DL
Sbjct: 2   RVLLIEK---NSVLGGEIEKGLNVKGFMADVTESLEDGE-YLMDIRN----------YDL 47

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIV 142
           ++    +        + +IK+      I V++ S           +     E GA+D+I 
Sbjct: 48  VM----VSDKNALSFVSRIKEKH--SSIVVLVSS-----DNPTSEEEVHAFEQGADDYIA 96

Query: 143 KP 144
           KP
Sbjct: 97  KP 98

>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 = 43.6 bits (104), Expect = 4e-06
 Identities = 26/119 (21%), Positives = 54/119 (45%), Gaps = 23/119 (19%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL V+D+ + R  ++  +  +  +V   +  + A  +L  +E            D+ I 
Sbjct: 2   RVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYL--NEHI---------PDIAIV 50

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDR--CLEDGAEDFIVKP 144
           D  +P   G  L+++ +  S    +P+++++     AR    D+   L  GA+D++ KP
Sbjct: 51  DLGLPDEDGLSLIRRWR--SNDVSLPILVLT-----ARESWQDKVEVLSAGADDYVTKP 102

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A Length = 137

 Score = 40.2 bits (95), Expect = 8e-05
 Identities = 22/118 (18%), Positives = 40/118 (33%), Gaps = 27/118 (22%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL ++ + V    IE+ L +        +S      +L                DL++  
Sbjct: 21  VLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGE-YLMDIRN----------YDLVM-- 67

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILAR---IDRC--LEDGAEDFIVKP 144
             +        + +IK+      I V++ S           +     E GA+D+I KP
Sbjct: 68  --VSDKNALSFVSRIKEKH--SSIVVLVSS-----DNPTSEEEVHAFEQGADDYIAKP 116

>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 = 38.2 bits (90), Expect = 4e-04
 Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 83  LKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV 142
              +++I D  MPGMTG E+L +I+       I V+I+++       ++ + +  + +++
Sbjct: 48  YNPNVVILDIEMPGMTGLEVLAEIRKKHL--NIKVIIVTTFKRPGYFEKAVVNDVDAYVL 105

Query: 143 K 143
           K
Sbjct: 106 K 106

>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 = 39.1 bits (92), Expect = 5e-04
 Identities = 7/72 (9%), Positives = 18/72 (25%), Gaps = 1/72 (1%)

Query: 72  DEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDR 131
           +     N  +   + +++ DY              K  S   +   VI++    +     
Sbjct: 42  ELWLEENKPESRSIQMLVIDYSRISDDVLTDYSSFKHIS-CPDAKEVIINCPQDIEHKLL 100

Query: 132 CLEDGAEDFIVK 143
              +        
Sbjct: 101 FKWNNLAGVFYI 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	233
3to5_A	134	CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, p	99.96
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	99.92
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.91
2lpm_A	123	Two-component response regulator; transcription re	99.91
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.9
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.89
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.89
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.89
3rqi_A	184	Response regulator protein; structural genomics, s	99.89
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.89
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.89
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.88
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.88
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.88
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.88
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.88
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.88
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.88
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.88
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.88
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.88
3luf_A	259	Two-component system response regulator/ggdef doma	99.87
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.87
3jte_A	143	Response regulator receiver protein; structural ge	99.87
3lua_A	140	Response regulator receiver protein; two-component	99.87
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.87
3r0j_A	250	Possible two component system response transcript	99.87
2zay_A	147	Response regulator receiver protein; structural ge	99.87
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.87
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.87
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.87
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.87
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.87
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.87
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.87
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.87
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.87
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.86
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.86
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.86
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.86
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.86
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.86
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.86
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.86
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.86
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.86
3c3m_A	138	Response regulator receiver protein; structural ge	99.86
3nhm_A	133	Response regulator; protein structure initiative I	99.86
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.86
3f6c_A	134	Positive transcription regulator EVGA; structural	99.86
4dad_A	146	Putative pilus assembly-related protein; response	99.85
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.85
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.85
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.85
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.85
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.85
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.85
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.85
1yio_A	208	Response regulatory protein; transcription regulat	99.85
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.85
2qxy_A	142	Response regulator; regulation of transcription, N	99.85
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.85
2qr3_A	140	Two-component system response regulator; structura	99.84
3n53_A	140	Response regulator receiver modulated diguanylate;	99.84
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.84
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.84
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.84
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.84
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.84
3cg0_A	140	Response regulator receiver modulated diguanylate	99.84
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.84
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.84
3cz5_A	153	Two-component response regulator, LUXR family; str	99.84
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.83
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.83
3eqz_A	135	Response regulator; structural genomics, unknown f	99.83
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.83
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.83
3eq2_A	394	Probable two-component response regulator; adaptor	99.83
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.83
2gkg_A	127	Response regulator homolog; social motility, recei	99.83
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.82
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.82
1w25_A	459	Stalked-cell differentiation controlling protein;	99.82
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.82
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.81
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.81
2rdm_A	132	Response regulator receiver protein; structural ge	99.81
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.8
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.8
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.8
3bre_A	358	Probable two-component response regulator; protein	99.79
3c97_A	140	Signal transduction histidine kinase; structural g	99.79
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.79
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.79
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.79
3c3w_A	225	Two component transcriptional regulatory protein;	99.78
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.78
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.78
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.78
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.78
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.77
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.76
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.75
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.73
3luf_A	259	Two-component system response regulator/ggdef doma	99.72
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.69
1w25_A	459	Stalked-cell differentiation controlling protein;	99.2
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	99.13
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	97.73
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	97.58
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	97.57
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	97.0
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	96.35
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	95.79
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	94.67
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	94.57
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	94.14
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	93.66
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	93.12
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	92.66
1xrs_B	262	D-lysine 5,6-aminomutase beta subunit; TIM barrel,	92.66
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.57
3kp1_A	763	D-ornithine aminomutase E component; 5 aminomutase	92.07
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	91.7
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	91.64
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	90.73
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	88.77
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	88.22
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	87.86
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	86.67
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	86.29
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	86.17
3bul_A	579	Methionine synthase; transferase, reactivation con	84.07
3ec7_A	357	Putative dehydrogenase; alpha-beta, structural gen	83.86
3abi_A	365	Putative uncharacterized protein PH1688; L-lysine	83.67
2v5j_A	287	2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; l	83.44
3ffs_A	400	Inosine-5-monophosphate dehydrogenase; beta-alpha	83.11
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	82.9
2vws_A	267	YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escher	81.8
3rht_A	259	(gatase1)-like protein; structural genomics, PSI-b	81.16
3l9w_A	413	Glutathione-regulated potassium-efflux system Pro	81.0

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.96  E-value=1.6e-28  Score=186.85  Aligned_cols=122  Identities=30%  Similarity=0.521  Sum_probs=111.7

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+.+|||||||++.++..++.+|+..||. +..+.+|.+|++.+           ....||+||+|+.||++||++++++
T Consensus        10 ~k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~-----------~~~~~DlillD~~MP~mdG~el~~~   78 (134)
T 3to5_A           10 NKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPML-----------KKGDFDFVVTDWNMPGMQGIDLLKN   78 (134)
T ss_dssp             CTTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHH-----------HHHCCSEEEEESCCSSSCHHHHHHH
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHH-----------HhCCCCEEEEcCCCCCCCHHHHHHH
Confidence            35789999999999999999999999985 77899999999998           3457999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ||+....+.+|||++|++.+.+...+++++|+++||.||++.++|...++.+.+
T Consensus        79 ir~~~~~~~ipvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~  132 (134)
T 3to5_A           79 IRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFE  132 (134)
T ss_dssp             HHHSTTTTTCCEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC
T ss_pred             HHhCCCCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHh
Confidence            998776679999999999999999999999999999999999999887776654

>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=99.92  E-value=2e-23  Score=154.68  Aligned_cols=118  Identities=30%  Similarity=0.407  Sum_probs=108.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..++.+|+..||++..+.++.+|++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         3 ~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l-----------~~~~~dlvllD~~~p~~~g~~~~~~l~~~   71 (122)
T 3gl9_A            3 KKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKL-----------SEFTPDLIVLXIMMPVMDGFTVLKKLQEK   71 (122)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------TTBCCSEEEECSCCSSSCHHHHHHHHHTS
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHH-----------HhcCCCEEEEeccCCCCcHHHHHHHHHhc
Confidence            4899999999999999999999999999999999999998           56689999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ...+.+|+|++|+..+.....++++.|+++||.||++.++|...++.+.
T Consensus        72 ~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l  120 (122)
T 3gl9_A           72 EEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLL  120 (122)
T ss_dssp             TTTTTSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHH
T ss_pred             ccccCCCEEEEecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHh
Confidence            6556899999999999999999999999999999999999987776554

>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=99.91  E-value=1.5e-23  Score=158.17  Aligned_cols=122  Identities=23%  Similarity=0.388  Sum_probs=110.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++.+||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|++++++||
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~lp~~~g~~~~~~lr   71 (136)
T 3t6k_A            3 KPHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQI-----------YKNLPDALICDVLLPGIDGYTLCKRVR   71 (136)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            468999999999999999999999999999999999999988           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +......+|||++|+..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        72 ~~~~~~~~pii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~~  124 (136)
T 3t6k_A           72 QHPLTKTLPILMLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILAR  124 (136)
T ss_dssp             HSGGGTTCCEEEEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             cCCCcCCccEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHhc
Confidence            86544589999999999999999999999999999999999998777766543

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.91  E-value=8.2e-26  Score=169.25  Aligned_cols=114  Identities=17%  Similarity=0.220  Sum_probs=100.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+++|||||||++.++..++.+|+..||+|. .+.++.+|++.+           ...+||+||+|++||++||++++++
T Consensus         6 ~r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~-----------~~~~~DlvllDi~mP~~~G~el~~~   74 (123)
T 2lpm_A            6 ERRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIA-----------RKGQFDIAIIDVNLDGEPSYPVADI   74 (123)
T ss_dssp             CCCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHH-----------HHCCSSEEEECSSSSSCCSHHHHHH
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHH-----------HhCCCCEEEEecCCCCCCHHHHHHH
Confidence            3578999999999999999999999999975 789999999998           4567999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ||+.    ++|||++|++.+...   +.++|+++||.|||+.++|...+.++.
T Consensus        75 lr~~----~ipvI~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~~  120 (123)
T 2lpm_A           75 LAER----NVPFIFATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQIS  120 (123)
T ss_dssp             HHHT----CCSSCCBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTTC
T ss_pred             HHcC----CCCEEEEecCccHHH---HHhCCCCcEEECCCCHHHHHHHHHHHH
Confidence            9973    689999999876543   346899999999999999987765543

>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=99.90  E-value=2.6e-22  Score=149.72  Aligned_cols=122  Identities=29%  Similarity=0.493  Sum_probs=107.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ..++||||||++..+..++.+|+..||. +..+.++.++++.+.          ....||+||+|+.||+++|++++++|
T Consensus         4 ~~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~----------~~~~~dlvi~D~~~p~~~g~~~~~~l   73 (129)
T 3h1g_A            4 GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLD----------ANADTKVLITDWNMPEMNGLDLVKKV   73 (129)
T ss_dssp             --CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHH----------HCTTCCEEEECSCCSSSCHHHHHHHH
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHH----------hCCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            4688999999999999999999999984 889999999998873          23469999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+....+.+|||++|++.+.....++++.|+++||.||++.++|...++.+.+
T Consensus        74 r~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l~  126 (129)
T 3h1g_A           74 RSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLG  126 (129)
T ss_dssp             HTSTTCTTCCEEEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHC
T ss_pred             HhcCCCCCCeEEEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHhc
Confidence            98654568999999999999999999999999999999999999887776543

>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=99.89  E-value=3e-22  Score=150.48  Aligned_cols=124  Identities=26%  Similarity=0.427  Sum_probs=106.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .++||||||++..+..++.+|+..|+ .+..+.++.++++.+.....      ....||+||+|+.||+++|+++++.||
T Consensus         2 ~~~ILivdD~~~~~~~l~~~L~~~g~~~v~~~~~~~~al~~~~~~~~------~~~~~dlvllD~~mp~~~G~~~~~~lr   75 (133)
T 2r25_B            2 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTS------KGENYNMIFMDVQMPKVDGLLSTKMIR   75 (133)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHH------HTCCCSEEEECSCCSSSCHHHHHHHHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHHHHh------cCCCCCEEEEeCCCCCCChHHHHHHHH
Confidence            47899999999999999999998887 58889999999998842100      014699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +... ..+|||++|++.+.....++++.|+++||.||++.++|...++.+..
T Consensus        76 ~~~~-~~~~ii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~  126 (133)
T 2r25_B           76 RDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCA  126 (133)
T ss_dssp             HHSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCT
T ss_pred             hhcC-CCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            7422 26899999999999999999999999999999999999888777654

>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=99.89  E-value=2.9e-22  Score=147.80  Aligned_cols=115  Identities=22%  Similarity=0.385  Sum_probs=105.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..++.+|+..||++..+.++.++++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlii~D~~~p~~~g~~~~~~lr~~   71 (120)
T 3f6p_A            3 KKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMV-----------EELQPDLILLDIMLPNKDGVEVCREVRKK   71 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HTTCCSEEEEETTSTTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHH-----------hhCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            5899999999999999999999999999999999999998           45679999999999999999999999974


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      .   .+|+|++|+..+.....++++.|+++||.||++.++|...++.+.
T Consensus        72 ~---~~~ii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l  117 (120)
T 3f6p_A           72 Y---DMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANL  117 (120)
T ss_dssp             C---CSCEEEEEESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHH
T ss_pred             C---CCCEEEEECCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHH
Confidence            2   789999999999888899999999999999999999977766554

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.89  E-value=7e-22  Score=152.06  Aligned_cols=124  Identities=33%  Similarity=0.479  Sum_probs=112.3

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .++++||||||++..+..++.+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlii~D~~l~~~~g~~~~~~l   73 (154)
T 3gt7_A            5 NRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFL-----------SLTRPDLIISDVLMPEMDGYALCRWL   73 (154)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHH-----------TTCCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             cCCCcEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3568999999999999999999999999999999999999998           56689999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      |+....+.+|||++++..+.....++++.|+++||.||++.++|...++.+.+..
T Consensus        74 r~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~  128 (154)
T 3gt7_A           74 KGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSGV  128 (154)
T ss_dssp             HHSTTTTTSCEEEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHHHT
T ss_pred             HhCCCcCCCCEEEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            9876456899999999999999999999999999999999999988877766543

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.89  E-value=7.5e-23  Score=162.42  Aligned_cols=119  Identities=17%  Similarity=0.290  Sum_probs=107.9

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+.+++||||||++..+..+..+|...||.|..+.++.+|++.+           ....||+||+|+.||+++|++++++
T Consensus         4 ~m~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~lp~~~g~~~~~~   72 (184)
T 3rqi_A            4 SMSDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLA-----------GAEKFEFITVXLHLGNDSGLSLIAP   72 (184)
T ss_dssp             ---CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHH-----------TTSCCSEEEECSEETTEESHHHHHH
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hhCCCCEEEEeccCCCccHHHHHHH
Confidence            34578999999999999999999999999999999999999998           5678999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      |++..+  .+|||++|++.+.+...++++.|+++||.||++.++|...+..+
T Consensus        73 l~~~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~  122 (184)
T 3rqi_A           73 LCDLQP--DARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTN  122 (184)
T ss_dssp             HHHHCT--TCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTT
T ss_pred             HHhcCC--CCCEEEEeCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHH
Confidence            998765  89999999999999999999999999999999999997665543

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.89  E-value=4.5e-22  Score=151.45  Aligned_cols=122  Identities=30%  Similarity=0.496  Sum_probs=105.0

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+.++||||||++..+..++.+|+..||.+..+.+++++++.+           ....||+||+|+.||+++|++++++|
T Consensus        12 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~mp~~~g~~~~~~l   80 (143)
T 3m6m_D           12 VRSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAM-----------AEEDYDAVIVDLHMPGMNGLDMLKQL   80 (143)
T ss_dssp             ---CEEEEECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             cccceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            4568999999999999999999999999999999999999988           34579999999999999999999999


Q ss_pred             hcc--CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDS--SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~--~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+.  ...+.+|+|++|+..+.+...++++.|+++||.||++.++|...+..+..
T Consensus        81 r~~~~~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~~  135 (143)
T 3m6m_D           81 RVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLAV  135 (143)
T ss_dssp             HHHHHTTCCCCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC-
T ss_pred             HhchhccCCCCeEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHHH
Confidence            853  22346899999999999999999999999999999999999888776643

>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=99.89  E-value=1.7e-21  Score=144.46  Aligned_cols=119  Identities=26%  Similarity=0.401  Sum_probs=108.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+||||||++..+..++.+|...||.+..+.++.++++.+           ....||+||+|+.||+++|++++++|+
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~D~~l~~~~g~~~~~~l~   70 (126)
T 1dbw_A            2 QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFA-----------PDVRNGVLVTDLRMPDMSGVELLRNLG   70 (126)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHG-----------GGCCSEEEEEECCSTTSCHHHHHHHHH
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHH-----------hcCCCCEEEEECCCCCCCHHHHHHHHH
Confidence            357899999999999999999999999999999999999988           445799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|+|++|+..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        71 ~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  120 (126)
T 1dbw_A           71 DLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASE  120 (126)
T ss_dssp             HTTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHT
T ss_pred             hcCC--CCCEEEEECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHH
Confidence            8654  8999999999998899999999999999999999999887776554

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.88  E-value=1.9e-21  Score=148.67  Aligned_cols=130  Identities=23%  Similarity=0.362  Sum_probs=110.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      .+.++||||||++..+..++.+|+..|+  .+..+.++.++++.+....+.    .....||+||+|+.||+++|+++++
T Consensus         6 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~----~~~~~~dlillD~~lp~~~g~~l~~   81 (149)
T 1i3c_A            6 NPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY----ENSPRPNLILLDLNLPKKDGREVLA   81 (149)
T ss_dssp             CCCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG----TTCCCCSEEEECSCCSSSCHHHHHH
T ss_pred             CCCCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhcccc----ccCCCCCEEEEeCCCCCCcHHHHHH
Confidence            3568999999999999999999998876  888999999999988321000    0024699999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .|++......+|||++|+..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        82 ~l~~~~~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  137 (149)
T 1i3c_A           82 EIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESF  137 (149)
T ss_dssp             HHHHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HHHhCcCcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHH
Confidence            99986534589999999999888899999999999999999999998877776553

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} SCOP: c.23.1.0

Probab=99.88  E-value=4.8e-22  Score=149.60  Aligned_cols=121  Identities=17%  Similarity=0.210  Sum_probs=110.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC--CCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG--MTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~--~~g~~ll~~  105 (233)
                      ...+||||||++..+..++.+|+..||++..+.++.++++.+           ....||+||+|+.||+  ++|++++++
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~D~~l~~~~~~g~~~~~~   73 (136)
T 3kto_A            5 HHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQ-----------ISDDAIGMIIEAHLEDKKDSGIELLET   73 (136)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSC-----------CCTTEEEEEEETTGGGBTTHHHHHHHH
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHH-----------hccCCCEEEEeCcCCCCCccHHHHHHH
Confidence            468999999999999999999999999999999999999887           5667999999999999  999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ||+..+  .+|||++|+..+.....++++.|+++||.||++.++|...++.+....
T Consensus        74 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~~  127 (136)
T 3kto_A           74 LVKRGF--HLPTIVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIINGA  127 (136)
T ss_dssp             HHHTTC--CCCEEEEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHHHH
T ss_pred             HHhCCC--CCCEEEEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHhcc
Confidence            998764  899999999999999999999999999999999999988877776543

>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=99.88  E-value=3.8e-21  Score=142.60  Aligned_cols=121  Identities=28%  Similarity=0.468  Sum_probs=108.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +.++||||||++..+..++.+|+..|| .+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~-----------~~~~~dlvi~D~~l~~~~g~~l~~~l   71 (128)
T 1jbe_A            3 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGYGFVISDWNMPNMDGLELLKTI   71 (128)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHH-----------TTCCCCEEEEESCCSSSCHHHHHHHH
T ss_pred             CccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            457899999999999999999999998 789999999999988           45679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+....+.+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        72 ~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  124 (128)
T 1jbe_A           72 RAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE  124 (128)
T ss_dssp             HC--CCTTCCEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HhhcccCCCcEEEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHH
Confidence            98544458999999999998999999999999999999999999877776654

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.88  E-value=1.8e-21  Score=145.77  Aligned_cols=118  Identities=20%  Similarity=0.266  Sum_probs=107.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..++.+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|++
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~l~~~~g~~~~~~l~~   71 (132)
T 3crn_A            3 LKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKI-----------ENEFFNLALFXIKLPDMEGTELLEKAHK   71 (132)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEECSBCSSSBHHHHHHHHHH
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHH-----------hcCCCCEEEEecCCCCCchHHHHHHHHh
Confidence            47899999999999999999999999999999999999988           3456999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..+  .+|+|++++..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  120 (132)
T 3crn_A           72 LRP--GMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLD  120 (132)
T ss_dssp             HCT--TSEEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             hCC--CCcEEEEeccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHh
Confidence            655  8999999999998889999999999999999999999877766544

>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=99.88  E-value=3.2e-21  Score=147.63  Aligned_cols=133  Identities=26%  Similarity=0.444  Sum_probs=112.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+++||||||++..+..++.+|+..|+  .+..+.++.++++.+.....  ........||+||+|+.||+++|+++++.
T Consensus         3 ~~~~ILivddd~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~--~~~~~~~~~dliilD~~l~~~~g~~~~~~   80 (152)
T 3heb_A            3 LSVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDK--SGRVSAGRAQLVLLDLNLPDMTGIDILKL   80 (152)
T ss_dssp             --CEEEEECCCHHHHHHHHHHHHHTTCCCCEEEESSHHHHHHHHHCTTS--SSGGGTTCBEEEEECSBCSSSBHHHHHHH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHhcccc--ccccccCCCCEEEEeCCCCCCcHHHHHHH
Confidence            368999999999999999999999998  89999999999998841100  00001457999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVN  162 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~  162 (233)
                      ||+....+.+|||++|+..+.....++++.|+++||.||++.++|...++.+.+...
T Consensus        81 lr~~~~~~~~pii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~  137 (152)
T 3heb_A           81 VKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFANAIRQLGLFFS  137 (152)
T ss_dssp             HHHSTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHT
T ss_pred             HHhcccccCCCEEEEecCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            998544558999999999999999999999999999999999999988888866543

>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=99.88  E-value=1.3e-21  Score=145.36  Aligned_cols=121  Identities=23%  Similarity=0.433  Sum_probs=108.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +.++||||||++..+..+..+|+..|| .+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~-----------~~~~~dlvl~D~~l~~~~g~~~~~~l   73 (129)
T 1p6q_A            5 EKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM-----------AQNPHHLVISDFNMPKMDGLGLLQAV   73 (129)
T ss_dssp             SCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHH-----------HTSCCSEEEECSSSCSSCHHHHHHHH
T ss_pred             ccCeEEEEcCCHHHHHHHHHHHHHCCCcEEEecCCHHHHHHHH-----------HcCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            457899999999999999999999998 888899999999988           45579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+....+.+|+|++|+..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        74 ~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  126 (129)
T 1p6q_A           74 RANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFG  126 (129)
T ss_dssp             TTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHH
T ss_pred             hcCccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            98654458999999999988888999999999999999999999887776544

>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=99.88  E-value=3.3e-21  Score=141.36  Aligned_cols=117  Identities=21%  Similarity=0.412  Sum_probs=106.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+...|...||.+..+.++.++++.+           ....||++|+|+.||+++|+++++.+++.
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~-----------~~~~~dlil~D~~l~~~~g~~~~~~l~~~   69 (121)
T 2pl1_A            1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYL-----------NEHIPDIAIVDLGLPDEDGLSLIRRWRSN   69 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEECSCCSSSCHHHHHHHHHHT
T ss_pred             CeEEEEeCcHHHHHHHHHHHhhcCCEEEEeCCHHHHHHHH-----------hccCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            4799999999999999999999999999999999999988           34569999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        70 ~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  117 (121)
T 2pl1_A           70 DV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (121)
T ss_dssp             TC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEecCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHH
Confidence            54  8999999999998888999999999999999999999877766544

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5}

Probab=99.88  E-value=1.8e-21  Score=149.31  Aligned_cols=122  Identities=21%  Similarity=0.307  Sum_probs=111.2

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+..+||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus        12 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~D~~l~~~~g~~~~~~l   80 (153)
T 3hv2_A           12 TRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLL-----------ASREVDLVISAAHLPQMDGPTLLARI   80 (153)
T ss_dssp             CSCCEEEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             cCCceEEEECCCHHHHHHHHHHhcccCcEEEEECCHHHHHHHH-----------HcCCCCEEEEeCCCCcCcHHHHHHHH
Confidence            4568999999999999999999999999999999999999998           34579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcC-CceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDG-AEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~G-a~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ++..+  .+|||++++..+.....++++.| +++||.||++.++|...++.+.+..
T Consensus        81 ~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~~~  134 (153)
T 3hv2_A           81 HQQYP--STTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQ  134 (153)
T ss_dssp             HHHCT--TSEEEEECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             HhHCC--CCeEEEEECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHHHh
Confidence            98655  89999999999999999999999 9999999999999988777665543

>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=99.88  E-value=4.1e-21  Score=145.57  Aligned_cols=123  Identities=26%  Similarity=0.380  Sum_probs=110.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCE--EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCK--VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~--v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++..+..+..+|+..|+.  +..+.++.++++.+           ....||+||+|+.||+++|+++++.
T Consensus         4 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l-----------~~~~~dlii~D~~l~~~~g~~~~~~   72 (144)
T 3kht_A            4 RSKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQV-----------QQAKYDLIILDIGLPIANGFEVMSA   72 (144)
T ss_dssp             -CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHH-----------TTCCCSEEEECTTCGGGCHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHh-----------hcCCCCEEEEeCCCCCCCHHHHHHH
Confidence            5689999999999999999999999987  88999999999998           5668999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC-CHHHHHHHHHHHhhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV-KLSDVKRIKDYLTRDV  161 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~-~~~eL~~~~~~l~~~~  161 (233)
                      ||+....+.+|||++++..+.....++++.|+++||.||+ +.++|...++.+.++.
T Consensus        73 lr~~~~~~~~pii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~~~  129 (144)
T 3kht_A           73 VRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSYW  129 (144)
T ss_dssp             HHSSSTTTTCCEEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHHHH
T ss_pred             HHhcccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHHHH
Confidence            9985445589999999999999999999999999999999 9999988777666543

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.88  E-value=6.7e-22  Score=149.10  Aligned_cols=124  Identities=14%  Similarity=0.227  Sum_probs=109.4

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .++.+||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         4 ~~~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~~l~~~~g~~~~~~l   72 (140)
T 3grc_A            4 APRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQV-----------ARRPYAAMTVDLNLPDQDGVSLIRAL   72 (140)
T ss_dssp             -CCSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHH-----------HHSCCSEEEECSCCSSSCHHHHHHHH
T ss_pred             CCCCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            4568999999999999999999999999999999999999998           34579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHH-HHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARID-RCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~-~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      |+......+|||++++..+..... .+++.|+++||.||++.++|...+..+.+..
T Consensus        73 ~~~~~~~~~~ii~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~~~  128 (140)
T 3grc_A           73 RRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDNM  128 (140)
T ss_dssp             HTSGGGTTCEEEEECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             HhCcccCCCCEEEEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHHhc
Confidence            984434589999999988777766 8899999999999999999988777666543

>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=99.87  E-value=1.1e-21  Score=164.44  Aligned_cols=126  Identities=22%  Similarity=0.362  Sum_probs=111.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++++||||||++..+..+...|+..|+.+..+.++.+|++.+.          ....||+||+|+.||+++|++++++||
T Consensus       123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~----------~~~~~dlvllD~~mP~~dG~~l~~~lr  192 (259)
T 3luf_A          123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLE----------QHPAIRLVLVDYYMPEIDGISLVRMLR  192 (259)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHH----------HCTTEEEEEECSCCSSSCHHHHHHHHH
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHh----------cCCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            4689999999999999999999999999999999999999883          122489999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhhhc
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDVNL  163 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~~~  163 (233)
                      +..+...+|||++|++.+.....+++++||++||.||++.++|...+..+.+....
T Consensus       193 ~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~~  248 (259)
T 3luf_A          193 ERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLEALEQ  248 (259)
T ss_dssp             HHCCTTTSEEEEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHHC
T ss_pred             hccCCCCCeEEEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHHhHhh
Confidence            87665678999999999888889999999999999999999998777666554433

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.87  E-value=2.9e-21  Score=143.73  Aligned_cols=120  Identities=28%  Similarity=0.482  Sum_probs=103.7

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ..+.+||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~~l~~~~g~~~~~~l   73 (130)
T 3eod_A            5 LVGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELL-----------GGFTPDLMICDIAMPRMNGLKLLEHI   73 (130)
T ss_dssp             TTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHH-----------TTCCCSEEEECCC-----CHHHHHHH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHH-----------hcCCCCEEEEecCCCCCCHHHHHHHH
Confidence            4568999999999999999999999999999999999999998           56679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC-CHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV-KLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~-~~~eL~~~~~~l~~  159 (233)
                      |+..+  .+|+|++|+..+.....++++.|+++||.||+ +.++|.+.++.+.+
T Consensus        74 ~~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~  125 (130)
T 3eod_A           74 RNRGD--QTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLY  125 (130)
T ss_dssp             HHTTC--CCCEEEEECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC
T ss_pred             HhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhc
Confidence            98765  89999999999999999999999999999999 88999887776654

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.87  E-value=3.7e-21  Score=145.49  Aligned_cols=123  Identities=24%  Similarity=0.381  Sum_probs=110.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..++.+|...||.+..+.++.++++.+..         ....||+||+|+.||+++|+++++.|+
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~---------~~~~~dlvi~d~~l~~~~g~~~~~~l~   72 (143)
T 3jte_A            2 SLAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTE---------NCNSIDVVITDMKMPKLSGMDILREIK   72 (143)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH---------TTTTCCEEEEESCCSSSCHHHHHHHHH
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHHh---------CCCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            45899999999999999999999999999999999999998831         145799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +..+  .+|||++++..+.....++++.|+++||.||++.++|...+..+.+..
T Consensus        73 ~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~  124 (143)
T 3jte_A           73 KITP--HMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRK  124 (143)
T ss_dssp             HHCT--TCEEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HhCC--CCeEEEEECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHHHH
Confidence            8755  899999999999999999999999999999999999988777665543

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.87  E-value=1.3e-21  Score=147.63  Aligned_cols=122  Identities=19%  Similarity=0.266  Sum_probs=110.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhh-cCCEEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCC-CCCHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTI-SSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMP-GMTGYELLK  104 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~-~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp-~~~g~~ll~  104 (233)
                      .+++||||||++..+..++.+|+. .||++..+.++.++++.+           .. ..||+||+|+.|| +++|+++++
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l-----------~~~~~~dlvi~D~~l~~~~~g~~~~~   71 (140)
T 3lua_A            3 LDGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIF-----------KDLDSITLIIMDIAFPVEKEGLEVLS   71 (140)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTT-----------TTCCCCSEEEECSCSSSHHHHHHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHH-----------hcCCCCcEEEEeCCCCCCCcHHHHHH
Confidence            468999999999999999999999 899999999999999988           55 7899999999999 999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .||+......+|||++|+..+.+...++++.|+++||.||++.++|...++.+.+.
T Consensus        72 ~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (140)
T 3lua_A           72 AIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKI  127 (140)
T ss_dssp             HHHHSGGGTTCCEEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC
T ss_pred             HHHhCcccCCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99983333489999999999999999999999999999999999998887776553

>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=99.87  E-value=3.2e-21  Score=142.37  Aligned_cols=117  Identities=26%  Similarity=0.392  Sum_probs=106.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ..+||||||++..+..++.+|+..||.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~l~~~~g~~~~~~l~~   71 (124)
T 1srr_A            3 NEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVT-----------KERPDLVLLDMKIPGMDGIEILKRMKV   71 (124)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHH-----------HHCCSEEEEESCCTTCCHHHHHHHHHH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHh-----------ccCCCEEEEecCCCCCCHHHHHHHHHH
Confidence            368999999999999999999999999999999999999883           346999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ..+  .+|+|++|+..+.....++++.|+++||.||++.++|...++.+.
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (124)
T 1srr_A           72 IDE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL  119 (124)
T ss_dssp             HCT--TCEEEEEESSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHS
T ss_pred             hCC--CCCEEEEEccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHh
Confidence            754  899999999998888999999999999999999999987776654

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.87  E-value=3.1e-21  Score=160.20  Aligned_cols=122  Identities=25%  Similarity=0.424  Sum_probs=111.4

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ....++||||||++..+..+..+|+..||+|..+.++.++++.+           ....||+||+|+.||+++|++++++
T Consensus        20 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvllD~~lp~~~g~~~~~~   88 (250)
T 3r0j_A           20 TTPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRA-----------RETRPDAVILDVXMPGMDGFGVLRR   88 (250)
T ss_dssp             CCSSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESCCSSSCHHHHHHH
T ss_pred             CCCCceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHH
Confidence            34568999999999999999999999999999999999999988           3457999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ||+..+  .+|||++|+..+.....+++++|+++||.||++.++|...++.+.+.
T Consensus        89 lr~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~  141 (250)
T 3r0j_A           89 LRADGI--DAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRR  141 (250)
T ss_dssp             HHHTTC--CCCEEEEECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHhcCC--CCCEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            998765  89999999999999999999999999999999999998777776554

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.87  E-value=3.3e-21  Score=146.42  Aligned_cols=125  Identities=20%  Similarity=0.269  Sum_probs=110.1

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ....++||||||++..+..+...|...||+|..+.++.++++.+.           ...||+||+|+.||+++|+++++.
T Consensus         5 ~~~~~~iLivd~~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlii~d~~l~~~~g~~~~~~   73 (147)
T 2zay_A            5 EGKWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAV-----------KTHPHLIITEANMPKISGMDLFNS   73 (147)
T ss_dssp             ---CEEEEEECTTGGGGHHHHHHHHHHTEEEEEESSHHHHHHHHH-----------HHCCSEEEEESCCSSSCHHHHHHH
T ss_pred             cCCCceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHH-----------cCCCCEEEEcCCCCCCCHHHHHHH
Confidence            445789999999999999999999999999999999999999883           446999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      |++......+|||++++..+.....++++.|+++||.||++.++|...+..+.+..
T Consensus        74 l~~~~~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~  129 (147)
T 2zay_A           74 LKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLL  129 (147)
T ss_dssp             HHTSTTTTTSCEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHcCcccCCCCEEEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99843345899999999999999999999999999999999999988777665543

>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=99.87  E-value=1.5e-21  Score=144.82  Aligned_cols=120  Identities=18%  Similarity=0.229  Sum_probs=106.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+++||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.||
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlii~D~~l~~~~g~~~~~~l~   70 (127)
T 3i42_A            2 SLQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAM-----------STRGYDAVFIDLNLPDTSGLALVKQLR   70 (127)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHH-----------HHSCCSEEEEESBCSSSBHHHHHHHHH
T ss_pred             CcceEEEEcCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            358999999999999999999999999999999999999998           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +......+|+|++++..+... ..++..|+++||.||++.++|.+.+....+
T Consensus        71 ~~~~~~~~~ii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  121 (127)
T 3i42_A           71 ALPMEKTSKFVAVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEG  121 (127)
T ss_dssp             HSCCSSCCEEEEEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC-
T ss_pred             hhhccCCCCEEEEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhc
Confidence            874445899999999987777 789999999999999999999877765543

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.87  E-value=9.6e-21  Score=144.78  Aligned_cols=122  Identities=25%  Similarity=0.395  Sum_probs=109.7

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      ....++||||||++..+..+..+|+..|  +.+..+.++.++++.+           ....||+||+|+.||+++|++++
T Consensus        17 ~~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l-----------~~~~~dlii~D~~l~~~~g~~~~   85 (150)
T 4e7p_A           17 RGSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLL-----------EKESVDIAILDVEMPVKTGLEVL   85 (150)
T ss_dssp             ---CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHH-----------TTSCCSEEEECSSCSSSCHHHHH
T ss_pred             CCCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHh-----------hccCCCEEEEeCCCCCCcHHHHH
Confidence            3456899999999999999999999887  7899999999999998           56679999999999999999999


Q ss_pred             HHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          104 KKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +.|++..+  .+|||++++..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        86 ~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  140 (150)
T 4e7p_A           86 EWIRSEKL--ETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLEG  140 (150)
T ss_dssp             HHHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCC--CCeEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHcC
Confidence            99998755  89999999999999999999999999999999999998887776543

>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=99.87  E-value=8.1e-21  Score=139.86  Aligned_cols=118  Identities=23%  Similarity=0.425  Sum_probs=106.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +..+||||||++..+..++..|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~-----------~~~~~dlvi~D~~l~~~~g~~~~~~l~   70 (123)
T 1xhf_A            2 QTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL-----------SEYDINLVIMDINLPGKNGLLLARELR   70 (123)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHH-----------HHSCCSEEEECSSCSSSCHHHHHHHHH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHH-----------hcCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            356899999999999999999999999999999999999988           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +. +  .+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        71 ~~-~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  119 (123)
T 1xhf_A           71 EQ-A--NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  119 (123)
T ss_dssp             HH-C--CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             hC-C--CCcEEEEECCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHH
Confidence            86 3  7899999999988888999999999999999999999877665543

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.87  E-value=3.2e-22  Score=150.25  Aligned_cols=119  Identities=13%  Similarity=0.112  Sum_probs=108.8

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcC-CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISS-CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g-~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ....+||||||++..+..++.+|+..| |++..+.++.++++.+           ....||+||+|+.||+++|+++++.
T Consensus        12 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~l-----------~~~~~dlvi~D~~l~~~~g~~~~~~   80 (135)
T 3snk_A           12 TKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPP-----------ADTRPGIVILDLGGGDLLGKPGIVE   80 (135)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHHTSSEEEEEECGGGGGGCCC-----------TTCCCSEEEEEEETTGGGGSTTHHH
T ss_pred             CCCcEEEEEcCCHHHHHHHHHHHhhcCCeEEEEeccHHHHHHHH-----------hccCCCEEEEeCCCCCchHHHHHHH
Confidence            456899999999999999999999999 9999999999998877           5678999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ||+..+  .+|+|++|+..+.+...++++.|+++||.||++.++|...++.+.
T Consensus        81 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~  131 (135)
T 3snk_A           81 ARALWA--TVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHD  131 (135)
T ss_dssp             HHGGGT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC
T ss_pred             HHhhCC--CCcEEEEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHh
Confidence            999876  899999999999999999999999999999999999987776543

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.87  E-value=4.4e-21  Score=144.57  Aligned_cols=119  Identities=21%  Similarity=0.315  Sum_probs=107.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..+..+|...||.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++
T Consensus         4 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlvllD~~l~~~~g~~l~~~l~~   72 (136)
T 2qzj_A            4 QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIF-----------SNKYDLIFLEIILSDGDGWTLCKKIRN   72 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHH-----------HCCCSEEEEESEETTEEHHHHHHHHHT
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHHcc
Confidence            578999999999999999999999999999999999999883           457999999999999999999999997


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ..   .+|+|++++..+.....++++.|+++||.||++.++|...++.+.+..
T Consensus        73 ~~---~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  122 (136)
T 2qzj_A           73 VT---TCPIVYMTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRM  122 (136)
T ss_dssp             TC---CCCEEEEESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CC---CCCEEEEEcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHHh
Confidence            53   789999999998888999999999999999999999988777665543

>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=99.87  E-value=1.1e-20  Score=138.97  Aligned_cols=117  Identities=21%  Similarity=0.365  Sum_probs=105.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|++ 
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~d~~l~~~~g~~~~~~l~~-   70 (122)
T 1zgz_A            3 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM-----------QNQSVDLILLDINLPDENGLMLTRALRE-   70 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHHT-
T ss_pred             cEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHH-----------hcCCCCEEEEeCCCCCCChHHHHHHHHh-
Confidence            5899999999999999999999999999999999999987           3456999999999999999999999998 


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|+|++++..+.....++++.|+++|+.||++.++|...++.+.++
T Consensus        71 ~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  119 (122)
T 1zgz_A           71 RS--TVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  119 (122)
T ss_dssp             TC--CCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cC--CCCEEEEECCCChhhHHHHHHhCHHHHccCCCCHHHHHHHHHHHHHH
Confidence            33  78999999999888889999999999999999999998777665543

>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=99.87  E-value=1.8e-20  Score=140.34  Aligned_cols=129  Identities=26%  Similarity=0.371  Sum_probs=110.5

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +++||||||++..+..+...|+..|+  .+..+.++.++++.+.......    ....||+||+|+.||+++|+++++.|
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~~~~----~~~~~dlvi~d~~~~~~~g~~~~~~l   77 (140)
T 1k68_A            2 HKKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYA----NASRPDLILLXLNLPKKDGREVLAEI   77 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGG----SCCCCSEEEECSSCSSSCHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHcccccc----cCCCCcEEEEecCCCcccHHHHHHHH
Confidence            57899999999999999999999998  9999999999999983100000    01579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ++......+|+|++++..+.+...++++.|+++|+.||++.++|...++.+.+..
T Consensus        78 ~~~~~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  132 (140)
T 1k68_A           78 KSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEFW  132 (140)
T ss_dssp             HHSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HcCcccccccEEEEecCCcHHHHHHHHHhchhheecCCCCHHHHHHHHHHHHHHH
Confidence            9875334899999999999889999999999999999999999988777765543

>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=99.87  E-value=3.2e-21  Score=144.84  Aligned_cols=121  Identities=22%  Similarity=0.326  Sum_probs=110.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..+..+|+..|+.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|+
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~~l~~~~g~~~~~~l~   74 (137)
T 3hdg_A            6 VALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFG-----------LHAPDVIITDIRMPKLGGLEMLDRIK   74 (137)
T ss_dssp             -CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHH-----------HHCCSEEEECSSCSSSCHHHHHHHHH
T ss_pred             cccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHh-----------ccCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            4689999999999999999999999999999999999999983           45799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +..+  .+|||++++..+.+...++++.|+++||.||++.++|...++.+.+..
T Consensus        75 ~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  126 (137)
T 3hdg_A           75 AGGA--KPYVIVISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHIK  126 (137)
T ss_dssp             HTTC--CCEEEECCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHHHH
T ss_pred             hcCC--CCcEEEEecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHHHH
Confidence            8765  899999999999999999999999999999999999988888777654

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.87  E-value=5.8e-21  Score=143.12  Aligned_cols=118  Identities=18%  Similarity=0.381  Sum_probs=105.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .++|||+||++..+..+..+|+..|  +.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~al~~~~-----------~~~~dlvilD~~lp~~~g~~~~~~l   71 (133)
T 3b2n_A            3 LTSLIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIE-----------EYNPNVVILDIEMPGMTGLEVLAEI   71 (133)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHSSEEEEEEESCHHHHHHHHH-----------HHCCSEEEECSSCSSSCHHHHHHHH
T ss_pred             ceEEEEECCCHHHHHHHHHHHhhCCCcEEEEEcCCHHHHHHHHh-----------hcCCCEEEEecCCCCCCHHHHHHHH
Confidence            4789999999999999999999876  56778999999999883           3469999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++..+  .+|||++|+..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        72 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  122 (133)
T 3b2n_A           72 RKKHL--NIKVIIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNN  122 (133)
T ss_dssp             HHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC
T ss_pred             HHHCC--CCcEEEEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHc
Confidence            98654  8999999999998899999999999999999999999887776654

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea}

Probab=99.86  E-value=9.9e-21  Score=142.62  Aligned_cols=123  Identities=20%  Similarity=0.309  Sum_probs=109.0

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhh-cCCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTI-SSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~-~g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      ...++||||||++..+..+..+|+. .||. +..+.++.++++.+.           ...||+||+|+.||+++|+++++
T Consensus         6 ~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~-----------~~~~dlii~d~~l~~~~g~~~~~   74 (143)
T 3cnb_A            6 KNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLH-----------TVKPDVVMLDLMMVGMDGFSICH   74 (143)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHH-----------HTCCSEEEEETTCTTSCHHHHHH
T ss_pred             cCCceEEEEECCHHHHHHHHHHHHhccCccEEEEECCHHHHHHHHH-----------hcCCCEEEEecccCCCcHHHHHH
Confidence            4578999999999999999999999 8998 999999999999883           45699999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .|++......+|+|++++..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        75 ~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  130 (143)
T 3cnb_A           75 RIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQ  130 (143)
T ss_dssp             HHHTSTTTTTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             HHHhCccccCCcEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            99985444589999999999988889999999999999999999998887776654

>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=99.86  E-value=5.3e-21  Score=140.25  Aligned_cols=115  Identities=28%  Similarity=0.428  Sum_probs=104.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ++||||||++..+..++..|+..||. +..+.++.++++.+.           ...||+||+|+.||+++|++++++|++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~-----------~~~~dlil~D~~l~~~~g~~~~~~l~~   71 (120)
T 1tmy_A            3 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYK-----------ELKPDIVTMDITMPEMNGIDAIKEIMK   71 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHH-----------HHCCSEEEEECSCGGGCHHHHHHHHHH
T ss_pred             ceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHH-----------hcCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            68999999999999999999999998 568999999999883           346999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      ..+  .+|+|++++..+.....++++.|+++|+.||++.++|...++.+
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~  118 (120)
T 1tmy_A           72 IDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  118 (120)
T ss_dssp             HCT--TCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             hCC--CCeEEEEeCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHH
Confidence            755  89999999999988899999999999999999999998776654

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.86  E-value=3.9e-21  Score=145.04  Aligned_cols=118  Identities=26%  Similarity=0.394  Sum_probs=107.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..++.+|...||.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         5 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvllD~~l~~~~g~~l~~~l~~~   73 (137)
T 3cfy_A            5 PRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIE-----------RSKPQLIILDLKLPDMSGEDVLDWINQN   73 (137)
T ss_dssp             CEEEEECSCTTHHHHHHHHTTTSSSEEEEESSHHHHHHHHH-----------HHCCSEEEECSBCSSSBHHHHHHHHHHT
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhcCceEEEeCCHHHHHHHHH-----------hcCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            48999999999999999999999999999999999999883           4469999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|+|++++..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        74 ~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  122 (137)
T 3cfy_A           74 DI--PTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKR  122 (137)
T ss_dssp             TC--CCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEEecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            54  89999999999888999999999999999999999998777666543

>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=99.86  E-value=4.4e-21  Score=141.30  Aligned_cols=118  Identities=28%  Similarity=0.407  Sum_probs=101.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..++.+|+..||.+..+.++.+++..+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~~~-----------~~~~dlvi~D~~l~~~~g~~~~~~l~~~   70 (124)
T 1mb3_A            2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAR-----------ENKPDLILMDIQLPEISGLEVTKWLKED   70 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHH-----------HHCCSEEEEESBCSSSBHHHHHHHHHHS
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            47999999999999999999999999999999999999883           3469999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ...+.+|+|++++..+.....++++.|+++||.||++.++|...++.+.
T Consensus        71 ~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (124)
T 1mb3_A           71 DDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLL  119 (124)
T ss_dssp             TTTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHH
T ss_pred             ccccCCcEEEEECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHH
Confidence            5445899999999888888889999999999999999999987776654

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A

Probab=99.86  E-value=5e-21  Score=154.91  Aligned_cols=133  Identities=25%  Similarity=0.387  Sum_probs=107.3

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhh--hhhccCCCCCcccEEEEcCCCCCCCHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDE--EQSINGFDGLKVDLIITDYCMPGMTGYEL  102 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~--~~~~~~~~~~~~DlvllD~~mp~~~g~~l  102 (233)
                      ...+.+||||||++..+..+..+|+..|| .|..+.++.+|++.+....  .+.........||+||+|+.||+++|+++
T Consensus        58 ~~~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el  137 (206)
T 3mm4_A           58 FLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEA  137 (206)
T ss_dssp             TTTTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHH
T ss_pred             ccCCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccccccccCCCCCEEEEcCCCCCCCHHHH
Confidence            35678999999999999999999999998 8999999999999985310  00001112247999999999999999999


Q ss_pred             HHHHhccCC--CCCCcEEEEeCCC-cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          103 LKKIKDSSA--LREIPVVIMSSEN-ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       103 l~~Lr~~~~--~~~~piIvlt~~~-~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +++||+...  ...+|||++|++. +.....++++.|+++||.||++  +|...++.+.+.
T Consensus       138 ~~~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~~  196 (206)
T 3mm4_A          138 TREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIESK  196 (206)
T ss_dssp             HHHHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC--
T ss_pred             HHHHHhhhhhcCCCCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHhh
Confidence            999998521  1389999999987 7788889999999999999998  777776666543

>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=99.86  E-value=1.2e-20  Score=141.56  Aligned_cols=122  Identities=23%  Similarity=0.365  Sum_probs=108.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||||||++..+..++.+|+..||++..+.++.+++..+.          ....||+||+|+.||+++|+++++.||
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~----------~~~~~dlvi~D~~l~~~~g~~~~~~l~   75 (136)
T 3hdv_A            6 ARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLH----------YQKRIGLMITDLRMQPESGLDLIRTIR   75 (136)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHH----------HCTTEEEEEECSCCSSSCHHHHHHHHH
T ss_pred             CCCeEEEECCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHH----------hCCCCcEEEEeccCCCCCHHHHHHHHH
Confidence            4689999999999999999999999999999999999999884          223499999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +.. ...+|+|++++..+.....++++.|+++||.||++.++|...++.+...
T Consensus        76 ~~~-~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (136)
T 3hdv_A           76 ASE-RAALSIIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKI  127 (136)
T ss_dssp             TST-TTTCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC-
T ss_pred             hcC-CCCCCEEEEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhcC
Confidence            873 3489999999999999999999999999999999999998887766543

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi}

Probab=99.86  E-value=5.7e-21  Score=147.41  Aligned_cols=120  Identities=24%  Similarity=0.352  Sum_probs=108.7

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCC--cccEEEEcCCCCCCCHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGL--KVDLIITDYCMPGMTGYEL  102 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~--~~DlvllD~~mp~~~g~~l  102 (233)
                      ...+++||||||++..+..++.+|+..||.+. .+.++.++++.+.           ..  .||+||+|+.|++++|+++
T Consensus        33 ~~~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~l~-----------~~~~~~dliilD~~l~~~~g~~~  101 (157)
T 3hzh_A           33 TGIPFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYK-----------NHYPNIDIVTLXITMPKMDGITC  101 (157)
T ss_dssp             TTEECEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHH-----------HHGGGCCEEEECSSCSSSCHHHH
T ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHH-----------hcCCCCCEEEEeccCCCccHHHH
Confidence            34568999999999999999999999999988 8999999999984           34  6899999999999999999


Q ss_pred             HHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          103 LKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ++.||+..+  .+|||++++..+.....++++.|+++||.||++.++|...++.+.
T Consensus       102 ~~~lr~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l  155 (157)
T 3hzh_A          102 LSNIMEFDK--NARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVF  155 (157)
T ss_dssp             HHHHHHHCT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTT
T ss_pred             HHHHHhhCC--CCcEEEEeccCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHh
Confidence            999998765  899999999999999999999999999999999999987766543

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.86  E-value=1.1e-20  Score=140.82  Aligned_cols=121  Identities=19%  Similarity=0.355  Sum_probs=103.5

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .++.+||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         4 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlii~d~~l~~~~g~~~~~~l   72 (132)
T 3lte_A            4 KQSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKL-----------STFEPAIMTLDLSMPKLDGLDVIRSL   72 (132)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHTCCSEEEEESCBTTBCHHHHHHHH
T ss_pred             CCCccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHH-----------HhcCCCEEEEecCCCCCCHHHHHHHH
Confidence            3568999999999999999999999999999999999999988           34579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |+.......+||+++..... ...++++.|+++||.||++.++|...++....
T Consensus        73 ~~~~~~~~~~ii~~~~~~~~-~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~  124 (132)
T 3lte_A           73 RQNKVANQPKILVVSGLDKA-KLQQAVTEGADDYLEKPFDNDALLDRIHDLVN  124 (132)
T ss_dssp             HTTTCSSCCEEEEECCSCSH-HHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC
T ss_pred             HhcCccCCCeEEEEeCCChH-HHHHHHHhChHHHhhCCCCHHHHHHHHHHHcC
Confidence            98764346677777666555 77899999999999999999999877766544

>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=99.86  E-value=2e-20  Score=141.72  Aligned_cols=132  Identities=27%  Similarity=0.405  Sum_probs=111.4

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCC--CcccEEEEcCCCCCCCHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDG--LKVDLIITDYCMPGMTGYEL  102 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~--~~~DlvllD~~mp~~~g~~l  102 (233)
                      ...++||||||++..+..++.+|+..|+  .+..+.++.++++.+......   +-..  ..||+||+|+.||+++|+++
T Consensus         4 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~---~~~~~~~~~dlvi~D~~l~~~~g~~~   80 (149)
T 1k66_A            4 NATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSY---CNPDIAPRPAVILLDLNLPGTDGREV   80 (149)
T ss_dssp             CTTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSS---SCGGGCCCCSEEEECSCCSSSCHHHH
T ss_pred             CCCccEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHHHHHHHHhcccc---cCcccCCCCcEEEEECCCCCCCHHHH
Confidence            3568899999999999999999999998  899999999999998421000   0000  57999999999999999999


Q ss_pred             HHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          103 LKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +++|++......+|+|++++..+......+++.|+++||.||++.++|...++.+.+..
T Consensus        81 ~~~l~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  139 (149)
T 1k66_A           81 LQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYW  139 (149)
T ss_dssp             HHHHTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHh
Confidence            99999875334899999999999899999999999999999999999988777665543

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.86  E-value=1.7e-20  Score=143.80  Aligned_cols=121  Identities=26%  Similarity=0.344  Sum_probs=110.0

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .++++||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~~l~~~~g~~~~~~l   73 (154)
T 2rjn_A            5 YKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEAL-----------KGTSVQLVISDMRMPEMGGEVFLEQV   73 (154)
T ss_dssp             CSCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHH-----------TTSCCSEEEEESSCSSSCHHHHHHHH
T ss_pred             CCCCeEEEEcCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHH-----------hcCCCCEEEEecCCCCCCHHHHHHHH
Confidence            4578999999999999999999999999999999999999998           55679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcC-CceEEeCCCCHHHHHHHHHHHhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDG-AEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~G-a~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ++..+  .+|||++++..+.....++++.| +++||.||++.++|...+..+.+.
T Consensus        74 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~~  126 (154)
T 2rjn_A           74 AKSYP--DIERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQL  126 (154)
T ss_dssp             HHHCT--TSEEEEEECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHhCC--CCcEEEEecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHHH
Confidence            98755  89999999999888899999998 999999999999998777665543

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.86  E-value=7.5e-21  Score=143.37  Aligned_cols=120  Identities=26%  Similarity=0.373  Sum_probs=103.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|++
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlvi~D~~l~~~~g~~~~~~l~~   71 (138)
T 3c3m_A            3 LYTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEAL-----------NATPPDLVLLDIMMEPMDGWETLERIKT   71 (138)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHHH
T ss_pred             cceEEEEeCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHH-----------hccCCCEEEEeCCCCCCCHHHHHHHHHc
Confidence            46899999999999999999999999999999999999988           3456999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ......+|||++|+.........++..|+++||.||++.++|...++.+.+
T Consensus        72 ~~~~~~~~ii~ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~~  122 (138)
T 3c3m_A           72 DPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLA  122 (138)
T ss_dssp             STTTTTSCEEEEESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHHS
T ss_pred             CcccCCCCEEEEECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHHH
Confidence            654458999999988765555556677789999999999999877766543

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.86  E-value=7.6e-21  Score=141.89  Aligned_cols=121  Identities=26%  Similarity=0.354  Sum_probs=103.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||||||++..+..++.+|+ .||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.||
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~-~~~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~~l~~~~g~~~~~~l~   70 (133)
T 3nhm_A            3 LKPKVLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQA-----------LAHPPDVLISDVNMDGMDGYALCGHFR   70 (133)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHT-TTSEEEEESSHHHHHHHH-----------HHSCCSEEEECSSCSSSCHHHHHHHHH
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHh-CCcEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            45899999999999999999998 899999999999999998           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +....+.+|||++++..+... ..+++.|+++||.||++.++|...++.+.+..
T Consensus        71 ~~~~~~~~pii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~  123 (133)
T 3nhm_A           71 SEPTLKHIPVIFVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLARA  123 (133)
T ss_dssp             HSTTTTTCCEEEEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             hCCccCCCCEEEEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHhhh
Confidence            875556899999999887777 78999999999999999999988777666543

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.86  E-value=2.6e-20  Score=139.75  Aligned_cols=121  Identities=25%  Similarity=0.472  Sum_probs=104.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+.++||||||++..+..+..+|+..|+.|..+.++.++++.+           .... |+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~-----------~~~~-dlvllD~~lp~~~g~~~~~~l   72 (136)
T 1dcf_A            5 FTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVV-----------SHEH-KVVFMDVCMPGVENYQIALRI   72 (136)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHC-----------CTTC-SEEEEECCSSTTTTTHHHHHH
T ss_pred             cCCCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHH-----------hccC-CEEEEeCCCCCCcHHHHHHHH
Confidence            4568999999999999999999999999999999999999987           3334 999999999999999999999


Q ss_pred             hccCCC---CCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          107 KDSSAL---REIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       107 r~~~~~---~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++....   ...+||++|+..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        73 ~~~~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~  128 (136)
T 1dcf_A           73 HEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE  128 (136)
T ss_dssp             HHHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHS
T ss_pred             HHhhhhccCCCceEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            853221   13457889999888888999999999999999999999887776654

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.86  E-value=3.5e-21  Score=143.90  Aligned_cols=119  Identities=21%  Similarity=0.371  Sum_probs=105.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +++||||||++..+..++.+|+..||.+. .+.++.++++.+           ....||+||+|+.||+++|+++++.||
T Consensus         1 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~-----------~~~~~dlii~d~~l~~~~g~~~~~~l~   69 (134)
T 3f6c_A            1 SLNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRV-----------ETLKPDIVIIDVDIPGVNGIQVLETLR   69 (134)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHH-----------HHHCCSEEEEETTCSSSCHHHHHHHHH
T ss_pred             CeEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHH-----------HhcCCCEEEEecCCCCCChHHHHHHHH
Confidence            37899999999999999999999999987 899999999988           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +..+  .+|+|++|+..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        70 ~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  120 (134)
T 3f6c_A           70 KRQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG  120 (134)
T ss_dssp             HTTC--CSEEEEEECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHTT
T ss_pred             hcCC--CCeEEEEeCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            8765  89999999999888889999999999999999999998887776653

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.85  E-value=4.5e-21  Score=145.67  Aligned_cols=126  Identities=10%  Similarity=0.144  Sum_probs=111.6

Q ss_pred             CCCCCCCcEEEEEeCCHHHHHHHHHHHhhcC-CEEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCCCHH
Q 026776           23 SPSDTEEVHVLAVDDSFVDRKVIERLLTISS-CKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGMTGY  100 (233)
Q Consensus        23 ~~~~~~~~~ILIVddd~~~~~~l~~~L~~~g-~~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~~g~  100 (233)
                      .....++.+||||||++..+..+..+|+..| |.+..+.++.+++..+.          .. ..||+||+|+.||+++|+
T Consensus        14 ~~~~~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~----------~~~~~~dlvi~D~~l~~~~g~   83 (146)
T 4dad_A           14 NLYFQGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRT----------DGLDAFDILMIDGAALDTAEL   83 (146)
T ss_dssp             CCCCGGGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCH----------HHHTTCSEEEEECTTCCHHHH
T ss_pred             CCCcCCCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHH----------hcCCCCCEEEEeCCCCCccHH
Confidence            3445667999999999999999999999998 99999999998887662          22 579999999999999999


Q ss_pred             HHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          101 ELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       101 ~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ++++.|++..+  .+|||++++..+.+...++++.|+++||.||++.++|...+..+.+.
T Consensus        84 ~~~~~l~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  141 (146)
T 4dad_A           84 AAIEKLSRLHP--GLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAAQ  141 (146)
T ss_dssp             HHHHHHHHHCT--TCEEEEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCC--CCcEEEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHhh
Confidence            99999998765  89999999999999999999999999999999999998887776543

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.85  E-value=2.5e-20  Score=140.88  Aligned_cols=126  Identities=19%  Similarity=0.261  Sum_probs=109.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      +.++||||||++..+..+..+|+..|+  .+..+.++.++++.+.....      ....||+||+|+.||+++|+++++.
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~a~~~l~~~~~------~~~~~dlvi~D~~l~~~~g~~~~~~   81 (146)
T 3ilh_A            8 KIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYA------AGRWPSIICIDINMPGINGWELIDL   81 (146)
T ss_dssp             CEEEEEEECSCHHHHHHHHHHHHTTCCEEEEEEESSHHHHHHHHHHHHT------SSCCCSEEEEESSCSSSCHHHHHHH
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHhcCCCeeeeecCCHHHHHHHHHHhhc------cCCCCCEEEEcCCCCCCCHHHHHHH
Confidence            568999999999999999999999998  89999999999998842110      1267999999999999999999999


Q ss_pred             HhccC--CCCCCcEEEEeCCCcHHHHHHHHHcC-CceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSS--ALREIPVVIMSSENILARIDRCLEDG-AEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~--~~~~~piIvlt~~~~~~~~~~al~~G-a~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ||+..  ....+|+|++++..+.....+++..| +++||.||++.++|...++....
T Consensus        82 l~~~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~  138 (146)
T 3ilh_A           82 FKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLN  138 (146)
T ss_dssp             HHHHCGGGTTTCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHC
T ss_pred             HHHhhhhccCCCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            99832  23489999999999999999999999 99999999999999888776654

>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=99.85  E-value=5.3e-21  Score=141.44  Aligned_cols=119  Identities=25%  Similarity=0.377  Sum_probs=107.5

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~-----------~~~~~dlvi~D~~l~~~~g~~~~~~l~~~   71 (127)
T 2jba_A            3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQL-----------NEPWPDLILLAWMLPGGSGIQFIKHLRRE   71 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTC-----------SSSCCSEEEEESEETTEEHHHHHHHHHTS
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHH-----------hccCCCEEEEecCCCCCCHHHHHHHHHhC
Confidence            5899999999999999999999999999999999999887           55679999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ...+.+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        72 ~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  121 (127)
T 2jba_A           72 SMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMR  121 (127)
T ss_dssp             TTTTTSCEEEEEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHHH
T ss_pred             cccCCCCEEEEeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHh
Confidence            53358999999999888888899999999999999999999877766554

>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=99.85  E-value=2.9e-20  Score=135.92  Aligned_cols=116  Identities=27%  Similarity=0.405  Sum_probs=104.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|...||.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~l~~~~g~~~~~~l~~~   70 (120)
T 2a9o_A            2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFE-----------AEQPDIIILDLMLPEIDGLEVAKTIRKT   70 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HHCCSEEEECSSCSSSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCHHHHHHHHHHHHhcCcEEEEecCHHHHHHHHH-----------hCCCCEEEEeccCCCCCHHHHHHHHHhC
Confidence            47999999999999999999999999999999999999883           3469999999999999999999999974


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                       +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.+
T Consensus        71 -~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  117 (120)
T 2a9o_A           71 -S--SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR  117 (120)
T ss_dssp             -C--CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             -C--CCCEEEEecCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHHc
Confidence             3  7899999999988888899999999999999999999877766543

>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=99.85  E-value=1.5e-20  Score=140.78  Aligned_cols=118  Identities=25%  Similarity=0.350  Sum_probs=106.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|...||.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         4 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~l~~~~g~~~~~~l~~~   72 (136)
T 1mvo_A            4 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAE-----------TEKPDLIVLDVMLPKLDGIEVCKQLRQQ   72 (136)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HHCCSEEEEESSCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHh-----------hcCCCEEEEecCCCCCCHHHHHHHHHcC
Confidence            68999999999999999999999999999999999999883           4469999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|+|++++..+......+++.|+++||.||++.++|...++.+.+.
T Consensus        73 ~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (136)
T 1mvo_A           73 KL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  121 (136)
T ss_dssp             TC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             CC--CCCEEEEECCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            54  78999999988877788899999999999999999998777766543

>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=99.85  E-value=6.5e-21  Score=159.14  Aligned_cols=122  Identities=26%  Similarity=0.535  Sum_probs=110.9

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ....++||||||++.++..+..+|+..||+|..+.++.++++.+           ....||+||+|+.||+++|++++++
T Consensus       126 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l-----------~~~~~dlvl~D~~mp~~~G~~l~~~  194 (254)
T 2ayx_A          126 DNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-----------SKNHIDIVLSDVNMPNMDGYRLTQR  194 (254)
T ss_dssp             CCCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHH-----------HHSCCSEEEEEESSCSSCCHHHHHH
T ss_pred             CCCCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEcCCCCCCCHHHHHHH
Confidence            34568999999999999999999999999999999999999998           3456999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ||+..+  .+|||++|++.+.+...++++.|+++||.||++.++|...+..+.+.
T Consensus       195 ir~~~~--~~piI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  247 (254)
T 2ayx_A          195 IRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAER  247 (254)
T ss_dssp             HHHHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHhcCC--CCcEEEEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHHH
Confidence            998765  89999999998888899999999999999999999998877766544

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.85  E-value=1.2e-21  Score=166.73  Aligned_cols=116  Identities=22%  Similarity=0.229  Sum_probs=104.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC-CCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP-GMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-~~~g~~ll~~L  106 (233)
                      ..+||+|||++.++..+..+|+..||.|. .+.+|.+|++.+           ....||+||+|+.|| +|||+++++.|
T Consensus       160 ~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~-----------~~~~~dlvl~D~~MPd~mdG~e~~~~i  228 (286)
T 3n0r_A          160 ATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAV-----------TRRTPGLVLADIQLADGSSGIDAVKDI  228 (286)
T ss_dssp             CCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHH-----------HHCCCSEEEEESCCTTSCCTTTTTHHH
T ss_pred             CCcEEEEcCCHHHHHHHHHHhhccCceEEEEeCCHHHHHHHH-----------HhCCCCEEEEcCCCCCCCCHHHHHHHH
Confidence            45899999999999999999999999999 999999999998           345799999999999 89999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      |+..   .+|||++|++.+  ...+++++|+++||.||++.++|...+..+.+.
T Consensus       229 r~~~---~~piI~lT~~~~--~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~  277 (286)
T 3n0r_A          229 LGRM---DVPVIFITAFPE--RLLTGERPEPTFLITKPFQPETVKAAIGQALFF  277 (286)
T ss_dssp             HHHT---TCCEEEEESCGG--GGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHH
T ss_pred             HhcC---CCCEEEEeCCHH--HHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            9875   899999999863  466789999999999999999998877776654

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.85  E-value=6.5e-21  Score=144.07  Aligned_cols=121  Identities=22%  Similarity=0.294  Sum_probs=106.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-CCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-MTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~~g~~ll~~L  106 (233)
                      ++++||||||++..+..+..+|+..||.+..+.++.++++.+.          ....||+||+|+.||+ ++|+++++.|
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~----------~~~~~dlvi~D~~l~~~~~g~~~~~~l   73 (140)
T 3h5i_A            4 KDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVS----------GGWYPDLILMDIELGEGMDGVQTALAI   73 (140)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH----------TTCCCSEEEEESSCSSSCCHHHHHHHH
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCEEEEecChHHHHHHHh----------cCCCCCEEEEeccCCCCCCHHHHHHHH
Confidence            4689999999999999999999999999999999999999883          2267999999999995 9999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ++. +  .+|+|++++..+.....++++.|+++||.||++.++|...+..+.+..
T Consensus        74 ~~~-~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~  125 (140)
T 3h5i_A           74 QQI-S--ELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLY  125 (140)
T ss_dssp             HHH-C--CCCEEEEESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHHHH
T ss_pred             HhC-C--CCCEEEEECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHHH
Confidence            985 3  899999999988777888999999999999999999988777665543

>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=1.5e-20  Score=151.31  Aligned_cols=119  Identities=24%  Similarity=0.360  Sum_probs=107.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~lp~~~g~~~~~~l~   71 (208)
T 1yio_A            3 AKPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHR-----------RPEQHGCLVLDMRMPGMSGIELQEQLT   71 (208)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHC-----------CTTSCEEEEEESCCSSSCHHHHHHHHH
T ss_pred             CCCEEEEEcCCHHHHHHHHHHHHhCCceEEEcCCHHHHHHhh-----------hccCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            457899999999999999999999999999999999999988           556799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|||++|++.+.....++++.|+++|+.||++.++|...+..+.+
T Consensus        72 ~~~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  121 (208)
T 1yio_A           72 AISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQ  121 (208)
T ss_dssp             HTTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             hcCC--CCCEEEEeCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHh
Confidence            8755  8999999999888888899999999999999999999776665543

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.85  E-value=1.8e-20  Score=139.61  Aligned_cols=118  Identities=19%  Similarity=0.334  Sum_probs=104.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhc-CCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTIS-SCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~-g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..++.+|... |+.+. .+.++.++++.+.           ...||+||+|+.||+++|++++++|+
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~-----------~~~~dlvllD~~l~~~~g~~~~~~l~   71 (130)
T 1dz3_A            3 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLE-----------EKRPDILLLDIIMPHLDGLAVLERIR   71 (130)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHH-----------HHCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHh-----------cCCCCEEEEecCCCCCCHHHHHHHHH
Confidence            68999999999999999999987 88765 7999999999883           34699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.. ....|+|++|+..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        72 ~~~-~~~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  122 (130)
T 1dz3_A           72 AGF-EHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  122 (130)
T ss_dssp             HHC-SSCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             hcC-CCCCcEEEEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            742 237899999999988899999999999999999999999877776654

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.85  E-value=4e-20  Score=139.61  Aligned_cols=119  Identities=22%  Similarity=0.327  Sum_probs=109.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..+...|+..||++..+.++.++++.+           ....||+||+|+ |++++|+++++.|+
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~-~~~~~g~~~~~~l~   70 (142)
T 2qxy_A            3 LTPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFL-----------RREKIDLVFVDV-FEGEESLNLIRRIR   70 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHH-----------TTSCCSEEEEEC-TTTHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHH-----------hccCCCEEEEeC-CCCCcHHHHHHHHH
Confidence            357899999999999999999999999999999999999998           556899999999 99999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +..+  .+|+|++++..+.....++++.|+++||.||++.++|...+..+.+.
T Consensus        71 ~~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  121 (142)
T 2qxy_A           71 EEFP--DTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISS  121 (142)
T ss_dssp             HHCT--TCEEEEEESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC
T ss_pred             HHCC--CCCEEEEECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHhh
Confidence            8755  89999999999988899999999999999999999998877766543

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.85  E-value=4.6e-20  Score=141.11  Aligned_cols=122  Identities=25%  Similarity=0.382  Sum_probs=108.2

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCE--EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCK--VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~--v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      ..++.+||||||++..+..+..+|...|+.  +..+.++.++++.+.           ...||+||+|+.||+++|++++
T Consensus        12 ~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~-----------~~~~dlii~d~~l~~~~g~~~~   80 (152)
T 3eul_A           12 QPEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIK-----------AHLPDVALLDYRMPGMDGAQVA   80 (152)
T ss_dssp             --CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHH-----------HHCCSEEEEETTCSSSCHHHHH
T ss_pred             CCceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHH
Confidence            456799999999999999999999998853  557999999999983           4579999999999999999999


Q ss_pred             HHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          104 KKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       104 ~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +.|++..+  .+|||++++..+.....++++.|+++||.||++.++|...+..+.+.
T Consensus        81 ~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  135 (152)
T 3eul_A           81 AAVRSYEL--PTRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKG  135 (152)
T ss_dssp             HHHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             HHHHhcCC--CCeEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcC
Confidence            99998765  89999999999999999999999999999999999998877766543

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.84  E-value=3.9e-20  Score=139.01  Aligned_cols=119  Identities=22%  Similarity=0.255  Sum_probs=107.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC-----CCCHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP-----GMTGYEL  102 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-----~~~g~~l  102 (233)
                      +.++||||||++..+..+...|+..||.+..+.++.++++.+           ....||+||+|+.|+     +++|+++
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~d~~~~~~~~~~~~g~~~   70 (140)
T 2qr3_A            2 SLGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVL-----------REENPEVVLLDMNFTSGINNGNEGLFW   70 (140)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHH-----------HHSCEEEEEEETTTTC-----CCHHHH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHH-----------HcCCCCEEEEeCCcCCCCCCCccHHHH
Confidence            358999999999999999999999999999999999999998           345699999999999     9999999


Q ss_pred             HHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          103 LKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ++.|++..+  .+|+|++++..+.....++++.|+++||.||++.++|...+..+.+
T Consensus        71 ~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  125 (140)
T 2qr3_A           71 LHEIKRQYR--DLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAAS  125 (140)
T ss_dssp             HHHHHHHCT--TCCEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHT
T ss_pred             HHHHHhhCc--CCCEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHH
Confidence            999998754  8999999999988899999999999999999999999887776654

>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=99.84  E-value=6.2e-21  Score=143.91  Aligned_cols=121  Identities=24%  Similarity=0.349  Sum_probs=99.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.+||||||++..+..+..+|+.. +.+..+.++.++++.+           ....||+||+|+.||+++|+++++.||
T Consensus         2 ~~~~iLivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~-----------~~~~~dlvi~D~~l~~~~g~~~~~~l~   69 (140)
T 3n53_A            2 SLKKILIIDQQDFSRIELKNFLDSE-YLVIESKNEKEALEQI-----------DHHHPDLVILDMDIIGENSPNLCLKLK   69 (140)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHTTT-SEEEEESSHHHHHHHH-----------HHHCCSEEEEETTC------CHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhc-ceEEEeCCHHHHHHHH-----------hcCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            3578999999999999999999888 9999999999999998           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +....+.+|+|++++..+.+...++++.|+++||.||++.++|...++.+.+.
T Consensus        70 ~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  122 (140)
T 3n53_A           70 RSKGLKNVPLILLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLRT  122 (140)
T ss_dssp             TSTTCTTCCEEEEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cCcccCCCCEEEEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHhh
Confidence            87644589999999998888888999999999999999999998777766543

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.84  E-value=1.7e-20  Score=156.14  Aligned_cols=120  Identities=21%  Similarity=0.367  Sum_probs=108.3

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +..++||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|++++++|
T Consensus        35 m~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~DlvllD~~lp~~~G~~l~~~l  103 (249)
T 3q9s_A           35 MNEQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKA-----------REDHPDLILLDLGLPDFDGGDVVQRL  103 (249)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEECCSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------hcCCCCEEEEcCCCCCCCHHHHHHHH
Confidence            4567999999999999999999999999999999999999988           34579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      |+ .+  .+|||++|+..+.+...++++.|+++||.||++.++|...++.+.+.
T Consensus       104 r~-~~--~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~~  154 (249)
T 3q9s_A          104 RK-NS--ALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLRQ  154 (249)
T ss_dssp             HT-TC--CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHCC
T ss_pred             Hc-CC--CCCEEEEECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhh
Confidence            97 33  78999999999999999999999999999999999998877766543

>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=99.84  E-value=1.7e-20  Score=143.95  Aligned_cols=120  Identities=25%  Similarity=0.406  Sum_probs=108.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+++||||||++..+..+..+|...||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus         2 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dliild~~l~~~~g~~~~~~l~   70 (155)
T 1qkk_A            2 AAPSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGL-----------SADFAGIVISDIRMPGMDGLALFRKIL   70 (155)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTC-----------CTTCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCcEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            368999999999999999999999999999999999999988           556799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +..+  .+|||++++..+......+++.|+++||.||++.++|...+..+.+.
T Consensus        71 ~~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~  121 (155)
T 1qkk_A           71 ALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK  121 (155)
T ss_dssp             HHCT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             hhCC--CCCEEEEECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHHH
Confidence            8754  89999999999888899999999999999999999998777766544

>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=99.84  E-value=4.4e-20  Score=149.38  Aligned_cols=120  Identities=25%  Similarity=0.440  Sum_probs=107.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcC-CEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISS-CKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g-~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      +.++||||||++..+..+..+|+..+ +.+ ..+.++.++++.+.           ...||+||+|+.||+++|+++++.
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~-----------~~~~dlvllD~~lp~~~g~~~~~~   72 (215)
T 1a04_A            4 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAE-----------SLDPDLILLDLNMPGMNGLETLDK   72 (215)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHH-----------HHCCSEEEEETTSTTSCHHHHHHH
T ss_pred             CceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCcHHHHHHH
Confidence            45899999999999999999998874 877 68999999999883           456999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      |++..+  .+|||++|+..+.+...++++.|+++||.||++.++|...++.+.+.
T Consensus        73 lr~~~~--~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  125 (215)
T 1a04_A           73 LREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAG  125 (215)
T ss_dssp             HHHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHS
T ss_pred             HHHhCC--CCcEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHcC
Confidence            998755  89999999999999999999999999999999999998877766553

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.84  E-value=1.1e-20  Score=142.59  Aligned_cols=124  Identities=23%  Similarity=0.377  Sum_probs=109.8

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ..+++||||||++..+..+..+|+..||+|..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlii~d~~l~~~~g~~~~~~l   73 (142)
T 3cg4_A            5 EHKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLL-----------KKGFSGVVLLDIMMPGMDGWDTIRAI   73 (142)
T ss_dssp             -CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HTCCCEEEEEESCCSSSCHHHHHHHH
T ss_pred             CCCCeEEEEcCCHHHHHHHHHHHHHCCeEEEEeCCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3578999999999999999999999999999999999999998           45579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ++......+|||++++..+.....++++.|+++||.||++.++|...++.+.+..
T Consensus        74 ~~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  128 (142)
T 3cg4_A           74 LDNSLEQGIAIVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGFV  128 (142)
T ss_dssp             HHTTCCTTEEEEEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HhhcccCCCCEEEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHHHH
Confidence            9843344899999999887777788999999999999999999988777666543

>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=99.84  E-value=9.8e-21  Score=166.48  Aligned_cols=118  Identities=19%  Similarity=0.278  Sum_probs=108.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      +||||||++..+..++.+|+..||.|..+.++.+|++.+           ....||+||+|+.||+++|++++++|++..
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l-----------~~~~~DlvllDi~mP~~dG~ell~~lr~~~   70 (368)
T 3dzd_A            2 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKI-----------KELFFPVIVLDVWMPDGDGVNFIDFIKENS   70 (368)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHBCCSEEEEESEETTEETTTHHHHHHHHC
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHHHhhC
Confidence            799999999999999999999999999999999999998           345799999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +  .+|||++|++.+.+...++++.||++||.||++.++|...+..+.+..
T Consensus        71 ~--~~pvI~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~  119 (368)
T 3dzd_A           71 P--DSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEY  119 (368)
T ss_dssp             T--TCEEEEEECSSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             C--CCeEEEEeCCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHHh
Confidence            5  899999999999899999999999999999999999987777665543

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.84  E-value=5.1e-20  Score=138.38  Aligned_cols=121  Identities=17%  Similarity=0.300  Sum_probs=108.5

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC-CCCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP-GMTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-~~~g~~ll~  104 (233)
                      ...++||||||++..+..+...|+..||.+. .+.++.++++.+.           ...||+||+|+.+| +++|+++++
T Consensus         7 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~-----------~~~~dlii~d~~~~~~~~g~~~~~   75 (140)
T 3cg0_A            7 DDLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAP-----------DLRPDIALVDIMLCGALDGVETAA   75 (140)
T ss_dssp             -CCCEEEEECCBHHHHHHHHHHHHHHTCEEEEEESSHHHHHHHHH-----------HHCCSEEEEESSCCSSSCHHHHHH
T ss_pred             CCCceEEEEECCHHHHHHHHHHHHHCCCeeEEEECCHHHHHHHHH-----------hCCCCEEEEecCCCCCCCHHHHHH
Confidence            3568999999999999999999999999999 5999999999883           44699999999998 799999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      .|++. +  .+|||++++..+.....++++.|+++||.||++.++|...++.+.+..
T Consensus        76 ~l~~~-~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  129 (140)
T 3cg0_A           76 RLAAG-C--NLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKK  129 (140)
T ss_dssp             HHHHH-S--CCCEEEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             HHHhC-C--CCCEEEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHhcc
Confidence            99987 4  899999999999988999999999999999999999988777665543

>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=99.84  E-value=5.7e-20  Score=134.56  Aligned_cols=116  Identities=24%  Similarity=0.388  Sum_probs=104.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+...|...||.+..+.++.+++..+.           ...||+||+|+.||+++|+++++.+++ 
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~D~~l~~~~g~~~~~~l~~-   69 (121)
T 1zh2_A            2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAA-----------TRKPDLIILDLGLPDGDGIEFIRDLRQ-   69 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHH-----------HHCCSEEEEESEETTEEHHHHHHHHHT-
T ss_pred             cEEEEEeCCHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCcHHHHHHHHHh-
Confidence            57999999999999999999999999999999999998873           346999999999999999999999994 


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .  +.+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        70 ~--~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  117 (121)
T 1zh2_A           70 W--SAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (121)
T ss_dssp             T--CCCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             C--CCCcEEEEECCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHH
Confidence            3  37899999999998888999999999999999999999877766544

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.84  E-value=9e-20  Score=139.47  Aligned_cols=121  Identities=25%  Similarity=0.390  Sum_probs=107.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..++||||||++..+..+..+|+. ||.+..+.++.++++.+.          ....||+||+|+.||+++|+++++.|+
T Consensus         3 ~~~~ILivdd~~~~~~~l~~~L~~-~~~v~~~~~~~~a~~~l~----------~~~~~dlvi~D~~l~~~~g~~~~~~l~   71 (151)
T 3kcn_A            3 LNERILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIK----------KSDPFSVIMVDMRMPGMEGTEVIQKAR   71 (151)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHTT-TSEEEEESSHHHHHHHHH----------HSCCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHhcc-CceEEEeCCHHHHHHHHH----------cCCCCCEEEEeCCCCCCcHHHHHHHHH
Confidence            357999999999999999999975 899999999999999984          122469999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcC-CceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDG-AEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~G-a~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +..+  .+|||++++..+.....++++.| +++||.||++.++|...+..+.+..
T Consensus        72 ~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~~~  124 (151)
T 3kcn_A           72 LISP--NSVYLMLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQY  124 (151)
T ss_dssp             HHCS--SCEEEEEECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             hcCC--CcEEEEEECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHHHH
Confidence            8765  89999999999999999999999 9999999999999987777665543

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.84  E-value=1.1e-19  Score=139.26  Aligned_cols=119  Identities=18%  Similarity=0.298  Sum_probs=108.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhh-cCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTI-SSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~-~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      +.++||||||++..+..+..+|.. .||.+. .+.++.++++.+           ....||+||+|+.|++++|++++++
T Consensus         4 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l-----------~~~~~dlii~D~~l~~~~g~~~~~~   72 (153)
T 3cz5_A            4 STARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLY-----------RETTPDIVVMDLTLPGPGGIEATRH   72 (153)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHH-----------HTTCCSEEEECSCCSSSCHHHHHHH
T ss_pred             cccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHH-----------hcCCCCEEEEecCCCCCCHHHHHHH
Confidence            468999999999999999999998 799988 899999999988           4557999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      |++..+  .+|||++++..+.....++++.|+++||.||++.++|...++.+.+
T Consensus        73 l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~  124 (153)
T 3cz5_A           73 IRQWDG--AARILIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILA  124 (153)
T ss_dssp             HHHHCT--TCCEEEEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTT
T ss_pred             HHHhCC--CCeEEEEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHh
Confidence            998755  8999999999998999999999999999999999999888776654

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.83  E-value=3.9e-20  Score=134.75  Aligned_cols=113  Identities=21%  Similarity=0.373  Sum_probs=100.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~l~~~~g~~~~~~l~~~   70 (116)
T 3a10_A            2 KRILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFF-----------SGNYDLVILDIEMPGISGLEVAGEIRKK   70 (116)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEECSCCSSSCHHHHHHHHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------cCCCCEEEEECCCCCCCHHHHHHHHHcc
Confidence            47999999999999999999999999999999999999883           4569999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      .+  .+|+|++++..+..  ..+++.|+++|+.||++.++|...++.+
T Consensus        71 ~~--~~~ii~~s~~~~~~--~~~~~~g~~~~l~Kp~~~~~l~~~i~~~  114 (116)
T 3a10_A           71 KK--DAKIILLTAYSHYR--SDMSSWAADEYVVKSFNFDELKEKVKKL  114 (116)
T ss_dssp             CT--TCCEEEEESCGGGG--GCGGGGGSSEEEECCSSTHHHHHHHHHH
T ss_pred             CC--CCeEEEEECCcchH--HHHHhccccceEECCCCHHHHHHHHHHH
Confidence            54  88999999876544  6788999999999999999997776554

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.83  E-value=3e-20  Score=140.85  Aligned_cols=118  Identities=22%  Similarity=0.276  Sum_probs=98.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhh--cCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTI--SSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~--~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ++||||||++..+..+...|..  .|+.+. .+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         3 ~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~-----------~~~~~dlvllD~~lp~~~g~~l~~~l   71 (141)
T 3cu5_A            3 LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIA-----------LKHPPNVLLTDVRMPRMDGIELVDNI   71 (141)
T ss_dssp             CEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHH-----------TTSCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            6899999999999999999973  578776 899999999988           45679999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ++..+  .+|||++|+..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        72 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  123 (141)
T 3cu5_A           72 LKLYP--DCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQT  123 (141)
T ss_dssp             HHHCT--TCEEEEECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHHH
T ss_pred             HhhCC--CCcEEEEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            98654  89999999988877788999999999999999999998777665543

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.83  E-value=3.7e-20  Score=138.15  Aligned_cols=119  Identities=18%  Similarity=0.241  Sum_probs=105.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+++||||||++..+..++.+|+..++.+..+.++++++..+           ... ||+||+|+.||+++|+++++.|+
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~-~dlvi~D~~l~~~~g~~~~~~l~   69 (135)
T 3eqz_A            2 SLNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLS-----------LNK-QDIIILDLMMPDMDGIEVIRHLA   69 (135)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHTTTCSCEEEESCHHHHTTSC-----------CCT-TEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CcceEEEEeCCHHHHHHHHHHHHhhcceeeeecCHHHHHHhh-----------ccC-CCEEEEeCCCCCCCHHHHHHHHH
Confidence            358999999999999999999998888999999999998876           455 99999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcH-----HHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENIL-----ARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~-----~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +..+  .+|+|++++..+.     ....+++..|+++||.||++.++|...++.+...
T Consensus        70 ~~~~--~~~ii~~s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~~  125 (135)
T 3eqz_A           70 EHKS--PASLILISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSNR  125 (135)
T ss_dssp             HTTC--CCEEEEEESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSCC
T ss_pred             hCCC--CCCEEEEEeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHhh
Confidence            8765  8999999998874     6667788999999999999999998888776543

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.83  E-value=1.2e-19  Score=136.98  Aligned_cols=125  Identities=24%  Similarity=0.392  Sum_probs=107.0

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++..+..+...|+..|+  .+..+.++.++++.+......     ....||+||+|+.||+++|+++++.
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~-----~~~~~dlii~D~~l~~~~g~~~~~~   80 (143)
T 2qvg_A            6 DKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKE-----NKIHPKLILLDINIPKMNGIEFLKE   80 (143)
T ss_dssp             -CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTC-----CCCCCSEEEEETTCTTSCHHHHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccc-----cCCCCCEEEEecCCCCCCHHHHHHH
Confidence            468899999999999999999999998  999999999999988421000     0257999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      |++......+|+|++++..+.....++++.|+++||.||++.++|...+...
T Consensus        81 l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~~  132 (143)
T 2qvg_A           81 LRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWIL  132 (143)
T ss_dssp             HTTSGGGTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             HHcCccccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHH
Confidence            9987533489999999999888999999999999999999999997775443

>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=99.83  E-value=6.5e-20  Score=147.46  Aligned_cols=117  Identities=22%  Similarity=0.359  Sum_probs=104.8

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +.+||||||++..+..+..+|...||.+. .+.++.++++.+.           ...||+||+|+.||+++|+++++.|+
T Consensus        13 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~-----------~~~~dlvi~D~~~p~~~g~~~~~~l~   81 (205)
T 1s8n_A           13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAE-----------LHKPDLVIMDVKMPRRDGIDAASEIA   81 (205)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHH-----------HHCCSEEEEESSCSSSCHHHHHHHHH
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHh-----------hcCCCEEEEeCCCCCCChHHHHHHHH
Confidence            46899999999999999999999999988 8999999999883           45699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+   .|||++|++.+.....++++.|+++||.||++.++|...+..+.+
T Consensus        82 ~~~~---~pii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~  130 (205)
T 1s8n_A           82 SKRI---APIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVS  130 (205)
T ss_dssp             HTTC---SCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHH
T ss_pred             hcCC---CCEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            8653   499999999998899999999999999999999999766665543

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.83  E-value=3.9e-20  Score=163.44  Aligned_cols=118  Identities=27%  Similarity=0.483  Sum_probs=103.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+++||||||++..+..++.+|+..||+|..+.++.+|++.+           ....||+||+|+.||+++|++++++||
T Consensus         4 ~~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~-----------~~~~~dlvllD~~mp~~~G~~~~~~lr   72 (394)
T 3eq2_A            4 VSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF-----------ESEQPDLVICDLRMPQIDGLELIRRIR   72 (394)
T ss_dssp             CEEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHH-----------HHSCCSEEEECCCSSSSCTHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHH-----------hhCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            358999999999999999999999999999999999999998           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC-CHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV-KLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~-~~~eL~~~~~~l~  158 (233)
                      +..+  .+|||++|+..+.+...++++.|+++||.||+ +.++|.+.+..+.
T Consensus        73 ~~~~--~~pii~lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~  122 (394)
T 3eq2_A           73 QTAS--ETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRAL  122 (394)
T ss_dssp             HTTC--CCCEEEC---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHH
T ss_pred             hhCC--CCcEEEEEcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHH
Confidence            8755  89999999999999999999999999999999 5777765554443

>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=99.83  E-value=1.1e-19  Score=147.80  Aligned_cols=118  Identities=25%  Similarity=0.370  Sum_probs=108.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+..+|...||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|++.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~-----------~~~~~dlvllD~~l~~~~g~~~~~~lr~~   71 (225)
T 1kgs_A            3 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMA-----------LNEPFDVVILDIMLPVHDGWEILKSMRES   71 (225)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHHHT
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            6899999999999999999999999999999999999988           34579999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|||++|+..+.....++++.|+++|+.||++.++|...+..+.+.
T Consensus        72 ~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  120 (225)
T 1kgs_A           72 GV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  120 (225)
T ss_dssp             TC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEeCCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHhh
Confidence            55  89999999999888899999999999999999999998877766554

>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=99.83  E-value=9.2e-20  Score=134.21  Aligned_cols=119  Identities=19%  Similarity=0.316  Sum_probs=105.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCC-CCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMP-GMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-~~~g~~ll~~Lr  107 (233)
                      +++||||||++..+..+...|+..||++..+.++.++++.+.           ...||+||+|+.|| +++|+++++.|+
T Consensus         5 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~-----------~~~~dlvi~d~~~~~~~~g~~~~~~l~   73 (127)
T 2gkg_A            5 SKKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIR-----------RDRPDLVVLAVDLSAGQNGYLICGKLK   73 (127)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHH-----------HHCCSEEEEESBCGGGCBHHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCCHHHHHHHHh
Confidence            368999999999999999999999999999999999999883           44699999999999 999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +....+.+|+|++ +..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        74 ~~~~~~~~~ii~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  124 (127)
T 2gkg_A           74 KDDDLKNVPIVII-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIG  124 (127)
T ss_dssp             HSTTTTTSCEEEE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             cCccccCCCEEEE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHHc
Confidence            8743458999999 77777888899999999999999999999877766543

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B

Probab=99.82  E-value=2.6e-19  Score=134.89  Aligned_cols=117  Identities=23%  Similarity=0.298  Sum_probs=102.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+..+|+.. |.+..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~Ilivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~lp~~~g~~~~~~l~~~   69 (139)
T 2jk1_A            2 PAILLVDDEPHSLAAMKLALEDD-FDVLTAQGAEAAIAILE-----------EEWVQVIICDQRMPGRTGVDFLTEVRER   69 (139)
T ss_dssp             CEEEEECSSHHHHHHHHHHHTTT-SCEEEESSHHHHHHHHH-----------HSCEEEEEEESCCSSSCHHHHHHHHHHH
T ss_pred             CeEEEEcCCHHHHHHHHHHhhcC-ceEEEcCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCcHHHHHHHHHHh
Confidence            47999999999999999999875 99999999999999883           4569999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHc-CCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLED-GAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~-Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|+|++++..+.....+++.. |+++||.||++.++|...++.+.+.
T Consensus        70 ~~--~~~ii~~s~~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  119 (139)
T 2jk1_A           70 WP--ETVRIIITGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARM  119 (139)
T ss_dssp             CT--TSEEEEEESCTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEeCCCChHHHHHHHHhhchhhhccCCCCHHHHHHHHHHHHHH
Confidence            54  7899999998877777888875 5999999999999998777665543

>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=99.82  E-value=6.1e-20  Score=150.02  Aligned_cols=122  Identities=27%  Similarity=0.381  Sum_probs=108.9

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +..++||||||++..+..+..+|...||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~-----------~~~~~dlvllD~~l~~~~g~~~~~~l   73 (233)
T 1ys7_A            5 VTSPRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSA-----------TENRPDAIVLDINMPVLDGVSVVTAL   73 (233)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESSCSSSCHHHHHHHH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3468999999999999999999999999999999999999988           34579999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      ++..+  .+|||++|+..+.....++++.|+++||.||++.++|...+..+.+..
T Consensus        74 ~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~  126 (233)
T 1ys7_A           74 RAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR  126 (233)
T ss_dssp             HHTTC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence            98754  899999999988888888999999999999999999988777665543

>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=99.82  E-value=2e-19  Score=161.64  Aligned_cols=119  Identities=32%  Similarity=0.449  Sum_probs=107.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+..+|...||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~-----------~~~~~dlvllD~~mp~~~G~~~~~~l~~~   70 (459)
T 1w25_A            2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMA-----------ARDLPDIILLDVMMPGMDGFTVCRKLKDD   70 (459)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESCCSSSCHHHHHHHHHHS
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEEcCCCCCCCHHHHHHHHhcC
Confidence            4799999999999999999999999999999999999988           34569999999999999999999999986


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .....+|||++|+..+.....++++.||++||.||++.++|...++.+.+
T Consensus        71 ~~~~~~pii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~  120 (459)
T 1w25_A           71 PTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR  120 (459)
T ss_dssp             TTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHH
Confidence            54458999999999999999999999999999999999999776665544

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.82  E-value=1.4e-19  Score=138.62  Aligned_cols=120  Identities=28%  Similarity=0.324  Sum_probs=97.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CC-EEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCCCHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SC-KVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      +.++||||||++..+..+..+|... |+ .+..+.++.++++.+           .. ..||+||+|+.|++++|+++++
T Consensus         2 ~~~~iLivdd~~~~~~~l~~~L~~~~g~~~v~~~~~~~~a~~~l-----------~~~~~~dlvi~d~~l~~~~g~~~~~   70 (154)
T 2qsj_A            2 SLTVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFL-----------EADNTVDLILLDVNLPDAEAIDGLV   70 (154)
T ss_dssp             -CEEEEEECSCHHHHHHHHHHHHHHCTTEEEEEESSHHHHHHHH-----------HTTCCCSEEEECC------CHHHHH
T ss_pred             CccEEEEEcCCHHHHHHHHHHHHhCCCceEEEEecCHHHHHHHH-----------hccCCCCEEEEeCCCCCCchHHHHH
Confidence            4689999999999999999999987 87 788999999999998           34 6799999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .|++..+  .+|||++++..+......+++.|+++||.||++.++|...+..+.+.
T Consensus        71 ~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~~  124 (154)
T 2qsj_A           71 RLKRFDP--SNAVALISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILEG  124 (154)
T ss_dssp             HHHHHCT--TSEEEEC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHTT
T ss_pred             HHHHhCC--CCeEEEEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHcC
Confidence            9998755  89999999988888888999999999999999999998877766553

>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=99.81  E-value=1.7e-19  Score=159.51  Aligned_cols=117  Identities=26%  Similarity=0.486  Sum_probs=107.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+..+|+..||.|..+.++.++++.+           ....||+||+|+.||+++|++++++|++.
T Consensus         1 m~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l-----------~~~~~DlvllD~~mp~~dG~ell~~lr~~   69 (387)
T 1ny5_A            1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL-----------SEKHFNVVLLDLLLPDVNGLEILKWIKER   69 (387)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCCHHHHHHHHHhh
Confidence            5799999999999999999999999999999999999988           34579999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|||++|++.+.+...++++.||++||.||++.++|...+..+.+
T Consensus        70 ~~--~~pvIvlT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  117 (387)
T 1ny5_A           70 SP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIE  117 (387)
T ss_dssp             CT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEeCCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHHH
Confidence            55  8999999999999999999999999999999999999776665543

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.81  E-value=6.9e-19  Score=132.88  Aligned_cols=119  Identities=26%  Similarity=0.379  Sum_probs=101.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .+++||||||++..+..+..+|+.. ++. +..+.++.++++.+           ....||+||+|+.||+++|+++++.
T Consensus         8 ~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l-----------~~~~~dlvi~d~~l~~~~g~~~~~~   76 (143)
T 2qv0_A            8 EKMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFL-----------QHNKVDAIFLDINIPSLDGVLLAQN   76 (143)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHHH-----------HHCCCSEEEECSSCSSSCHHHHHHH
T ss_pred             CceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHH-----------HhCCCCEEEEecCCCCCCHHHHHHH
Confidence            4689999999999999999999876 787 45899999999988           3456999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      |++...  ..+||++++..+  ...++++.|+++||.||++.++|...++.+.+..
T Consensus        77 l~~~~~--~~~ii~~s~~~~--~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  128 (143)
T 2qv0_A           77 ISQFAH--KPFIVFITAWKE--HAVEAFELEAFDYILKPYQESRIINMLQKLTTAW  128 (143)
T ss_dssp             HTTSTT--CCEEEEEESCCT--THHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHccCC--CceEEEEeCCHH--HHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Confidence            998654  678898988743  5678999999999999999999988777766544

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.81  E-value=7.3e-19  Score=130.68  Aligned_cols=119  Identities=24%  Similarity=0.306  Sum_probs=104.5

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCC-cccEEEEcCCCCC-CCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL-KVDLIITDYCMPG-MTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~-~~DlvllD~~mp~-~~g~~ll~  104 (233)
                      +++++||||||++..+..+...|...||.+..+.++.++++.+           ... .||+||+|+.||+ ++|+++++
T Consensus         3 m~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~~dlvi~d~~l~~~~~g~~~~~   71 (132)
T 2rdm_A            3 LEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEML-----------KSGAAIDGVVTDIRFCQPPDGWQVAR   71 (132)
T ss_dssp             CSSCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HTTCCCCEEEEESCCSSSSCHHHHHH
T ss_pred             CCCceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HcCCCCCEEEEeeeCCCCCCHHHHHH
Confidence            3568999999999999999999999999999999999999998           344 7999999999997 99999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .|++..+  .+|+|++++..+......+++.|  +||.||++.++|...++.+.+.
T Consensus        72 ~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~~  123 (132)
T 2rdm_A           72 VAREIDP--NMPIVYISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNA  123 (132)
T ss_dssp             HHHHHCT--TCCEEEEESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHHT
T ss_pred             HHHhcCC--CCCEEEEeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHhc
Confidence            9998754  89999999988777776776665  7999999999998877766553

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B*

Probab=99.80  E-value=1.8e-19  Score=136.72  Aligned_cols=112  Identities=29%  Similarity=0.369  Sum_probs=93.9

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhc-CCEEE-EECCHHHHHHHhhhhhhhhccCCCCC-cccEEEEcCCCCCCCHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTIS-SCKVT-AVDSGRRALQFLGLDEEQSINGFDGL-KVDLIITDYCMPGMTGYEL  102 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~-g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~-~~DlvllD~~mp~~~g~~l  102 (233)
                      ...+.+||||||++..+..++.+|+.. |+.+. .+.++.++++.+.           .. .||+||+|+.||+++|+++
T Consensus        10 ~~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~-----------~~~~~dlvilD~~l~~~~g~~~   78 (145)
T 3kyj_B           10 HGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLA-----------AQPNVDLILLDIEMPVMDGMEF   78 (145)
T ss_dssp             -CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHH-----------HCTTCCEEEECTTSCCCTTCHH
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHh-----------cCCCCCEEEEeCCCCCCCHHHH
Confidence            456789999999999999999999988 88864 8999999999883           34 6999999999999999999


Q ss_pred             HHHHhccCCCCCCcEEEEeC--CCcHHHHHHHHHcCCceEEeCCCCHHHHH
Q 026776          103 LKKIKDSSALREIPVVIMSS--ENILARIDRCLEDGAEDFIVKPVKLSDVK  151 (233)
Q Consensus       103 l~~Lr~~~~~~~~piIvlt~--~~~~~~~~~al~~Ga~dyL~KP~~~~eL~  151 (233)
                      +++||+..   ..++|+++.  ..+.....++++.|+++||.||++.++|.
T Consensus        79 ~~~lr~~~---~~~iiil~~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~  126 (145)
T 3kyj_B           79 LRHAKLKT---RAKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHD  126 (145)
T ss_dssp             HHHHHHHC---CCEEC-CBSSCSTTSSHHHHHHHTTCSCCCBCCCSCC---
T ss_pred             HHHHHhcC---CCCeEEEEEeccCChHHHHHHHhCCCCEEEeCCCCHHHHH
Confidence            99999764   478888887  45556678899999999999999966653

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.80  E-value=5.3e-20  Score=150.30  Aligned_cols=121  Identities=9%  Similarity=0.056  Sum_probs=102.4

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhh-cCCEEEE-ECCHHHHHHH-hhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTI-SSCKVTA-VDSGRRALQF-LGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELL  103 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~-~g~~v~~-a~~~~~al~~-l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll  103 (233)
                      ...++||||||++..+..++.+|+. .||.+.. +.++.+++.. +           ....||+||+|+.||+++|++++
T Consensus         5 ~~~~~IlivdD~~~~~~~l~~~L~~~~~~~v~~~~~~~~~~~~~~~-----------~~~~~dlvllD~~mp~~~G~~~~   73 (225)
T 3klo_A            5 ENKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKP-----------ESRSIQMLVIDYSRISDDVLTDY   73 (225)
T ss_dssp             CSSEEEEEESCCSHHHHHHHHHHHHHSSEEEEEECGGGHHHHTTCS-----------GGGGCCEEEEEGGGCCHHHHHHH
T ss_pred             CCceEEEEEcCcHHHHHHHHHHHhhCCCceEEEEeCCcHHHHHHHh-----------hccCCCEEEEeCCCCCCCHHHHH
Confidence            4578999999999999999999985 6888755 4555555543 3           35579999999999999999999


Q ss_pred             HHHhc-cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          104 KKIKD-SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       104 ~~Lr~-~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ++||+ ..+  .+|||++|+..+......+++.|+++||.||++.++|...++.+.+.
T Consensus        74 ~~lr~~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  129 (225)
T 3klo_A           74 SSFKHISCP--DAKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQD  129 (225)
T ss_dssp             HHHHHHHCT--TCEEEEEEECTTCCHHHHTTSTTEEEEEETTCCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhCC--CCcEEEEECCcchhHHHHHHHhCCCEEEecCCCHHHHHHHHHHHHCC
Confidence            99998 555  89999999998877888999999999999999999998877776553

>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=99.80  E-value=6.4e-19  Score=143.80  Aligned_cols=117  Identities=24%  Similarity=0.375  Sum_probs=106.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+..+|+..||.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++.
T Consensus         5 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlvllD~~l~~~~g~~~~~~l~~~   73 (230)
T 2oqr_A            5 TSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFD-----------RAGADIVLLDLMLPGMSGTDVCKQLRAR   73 (230)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHH-----------HHCCSEEEEESSCSSSCHHHHHHHHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------ccCCCEEEEECCCCCCCHHHHHHHHHcC
Confidence            68999999999999999999999999999999999999883           3469999999999999999999999985


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                       +  .+|||++|+..+......+++.|+++||.||++.++|...++.+.+.
T Consensus        74 -~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (230)
T 2oqr_A           74 -S--SVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRR  121 (230)
T ss_dssp             -C--SCSEEEEECCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTT
T ss_pred             -C--CCCEEEEeCCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence             3  89999999998888889999999999999999999998877766553

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.79  E-value=5.6e-19  Score=153.54  Aligned_cols=119  Identities=24%  Similarity=0.392  Sum_probs=105.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHh-hcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLT-ISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~-~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      ...+||||||++..+..+..+|. ..||.|..+.++.+|++.+.           ...||+||+|+.||+++|+++++.|
T Consensus        17 ~~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~-----------~~~~dlvl~D~~mp~~~G~~~~~~l   85 (358)
T 3bre_A           17 GAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVAN-----------QIKPTVILQDLVMPGVDGLTLLAAY   85 (358)
T ss_dssp             -CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHH-----------HHCCSEEEEESBCSSSBHHHHHHHH
T ss_pred             cCceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            35789999999999999999996 46899999999999999983           4469999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      |+....+.+|||++|+..+.....++++.|+++||.||++.++|...+..+
T Consensus        86 ~~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~  136 (358)
T 3bre_A           86 RGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYH  136 (358)
T ss_dssp             TTSTTTTTSCEEEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHH
T ss_pred             hcCcccCCCcEEEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHH
Confidence            986545589999999999999999999999999999999999986655543

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.79  E-value=4.9e-19  Score=133.52  Aligned_cols=117  Identities=21%  Similarity=0.351  Sum_probs=99.3

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .++||||||++..+..+..+|+..|+.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|++
T Consensus        10 ~~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l-----------~~~~~dlvllD~~lp~~~g~~~~~~l~~   78 (140)
T 3c97_A           10 PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAY-----------QNRQFDVIIMDIQMPVMDGLEAVSEIRN   78 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHH-----------HHSCCSEEEECTTCCSSCHHHHHHHHHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            46899999999999999999999999999999999999988           3456999999999999999999999987


Q ss_pred             cC---CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SS---ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~---~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..   ..+.+++|++++........   ..|+++||.||++.++|...+..+.+
T Consensus        79 ~~~~~~~~~~~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~  129 (140)
T 3c97_A           79 YERTHNTKRASIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHS  129 (140)
T ss_dssp             HHHHHTCCCCCCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             hhhhcCCCceEEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhC
Confidence            42   12378999998876443322   78999999999999999887776654

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.79  E-value=4.1e-18  Score=127.81  Aligned_cols=116  Identities=20%  Similarity=0.282  Sum_probs=104.7

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      .....+||||||++..+..+..+|+..||.+..+.++.++++.+           ....||+||    ||+++|+++++.
T Consensus        15 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlvi----~~~~~g~~~~~~   79 (137)
T 2pln_A           15 PRGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLM-----------DIRNYDLVM----VSDKNALSFVSR   79 (137)
T ss_dssp             CTTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHH-----------HHSCCSEEE----ECSTTHHHHHHH
T ss_pred             CCCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHH-----------HcCCCCEEE----EcCccHHHHHHH
Confidence            35678999999999999999999999999999999999999988           345799999    899999999999


Q ss_pred             HhccCCCC-CCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC-CHHHHHHHHHHHhh
Q 026776          106 IKDSSALR-EIPVVIMSSENILARIDRCLEDGAEDFIVKPV-KLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~-~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~-~~~eL~~~~~~l~~  159 (233)
                      |++.   . .+|||++++..+.....++++.|+++||.||+ +.++|...+..+.+
T Consensus        80 l~~~---~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~  132 (137)
T 2pln_A           80 IKEK---HSSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLR  132 (137)
T ss_dssp             HHHH---STTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC
T ss_pred             HHhc---CCCccEEEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHh
Confidence            9986   4 78999999999989999999999999999999 99999877766543

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.79  E-value=8.3e-19  Score=127.08  Aligned_cols=113  Identities=21%  Similarity=0.239  Sum_probs=100.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+.+++++|+++++.+++.
T Consensus         2 ~~iliv~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~l~-----------~~~~dlii~d~~~~~~~~~~~~~~l~~~   70 (119)
T 2j48_A            2 GHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLD-----------LLQPIVILMAWPPPDQSCLLLLQHLREH   70 (119)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHH-----------HHCCSEEEEECSTTCCTHHHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHHHHhCCcEEEEecCHHHHHHHHH-----------hcCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            58999999999999999999999999999999999999883           4469999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHH
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDY  156 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~  156 (233)
                      .....+|+|+++...+..   .+++.|+++|+.||++.++|...+..
T Consensus        71 ~~~~~~~ii~~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~  114 (119)
T 2j48_A           71 QADPHPPLVLFLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQG  114 (119)
T ss_dssp             CCCSSCCCEEEESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHT
T ss_pred             cccCCCCEEEEeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHH
Confidence            644589999999887654   88999999999999999998776654

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.79  E-value=8e-19  Score=144.44  Aligned_cols=118  Identities=25%  Similarity=0.439  Sum_probs=106.7

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +++||||||++..+..+..+|+..||.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.|++
T Consensus         5 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~dlvilD~~l~~~~g~~~~~~lr~   73 (238)
T 2gwr_A            5 RQRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVR-----------ELRPDLVLLDLMLPGMNGIDVCRVLRA   73 (238)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHH-----------HHCCSEEEEESSCSSSCHHHHHHHHHT
T ss_pred             cCeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            368999999999999999999999999999999999999883           446999999999999999999999997


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ..   .+|||++|+..+......+++.|+++||.||++.++|...+..+.+.
T Consensus        74 ~~---~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  122 (238)
T 2gwr_A           74 DS---GVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRR  122 (238)
T ss_dssp             TC---CCCEEEEEETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCCC
T ss_pred             CC---CCcEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            53   78999999998888888999999999999999999998877766543

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.78  E-value=1.6e-19  Score=147.65  Aligned_cols=118  Identities=22%  Similarity=0.278  Sum_probs=106.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-CEE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-CKV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++||||||++..+..+..+|...| |.+ ..+.++.++++.+.           ...||+||+|+.||+++|+++++.|+
T Consensus         2 ~~ILivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~l~-----------~~~~dlvllD~~lp~~~g~~~~~~lr   70 (225)
T 3c3w_A            2 VKVFLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVP-----------AARPDVAVLDVRLPDGNGIELCRDLL   70 (225)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTCTTEEEEEEESSHHHHHHHHH-----------HHCCSEEEECSEETTEEHHHHHHHHH
T ss_pred             cEEEEEcCCHHHHHHHHHHHhcCCCcEEEEEECCHHHHHHHHh-----------hcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            689999999999999999999886 874 47999999999883           44699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +..+  .+|||++|+..+.....++++.|+++||.||++.++|...++.+.+.
T Consensus        71 ~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  121 (225)
T 3c3w_A           71 SRMP--DLRCLILTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGAG  121 (225)
T ss_dssp             HHCT--TCEEEEGGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCC--CCcEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            8755  89999999999999999999999999999999999998777766554

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.78  E-value=2.9e-18  Score=133.29  Aligned_cols=110  Identities=31%  Similarity=0.359  Sum_probs=93.1

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcC-C-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISS-C-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g-~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      .+.++||||||++..+..++.+|+..| + .+..+.++.++++.+.           ...||+||+|+.||+++|+++++
T Consensus        23 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~-----------~~~~dlvilD~~l~~~~g~~l~~   91 (164)
T 3t8y_A           23 DRVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAI-----------ELKPDVITMDIEMPNLNGIEALK   91 (164)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHH-----------HHCCSEEEECSSCSSSCHHHHHH
T ss_pred             cCccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhc-----------cCCCCEEEEeCCCCCCCHHHHHH
Confidence            356899999999999999999999875 3 4457999999999883           45699999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHH--HHHHHHHcCCceEEeCCCCHHHH
Q 026776          105 KIKDSSALREIPVVIMSSENILA--RIDRCLEDGAEDFIVKPVKLSDV  150 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~--~~~~al~~Ga~dyL~KP~~~~eL  150 (233)
                      .|++..   .+++|+++...+..  ...++++.|+++||.||++.++|
T Consensus        92 ~lr~~~---~~~ii~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l  136 (164)
T 3t8y_A           92 LIMKKA---PTRVIMVSSLTEEGAAITIEALRNGAVDFITKPHGSISL  136 (164)
T ss_dssp             HHHHHS---CCEEEEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCG
T ss_pred             HHHhcC---CceEEEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHH
Confidence            999865   37899999876543  66789999999999999994443

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.78  E-value=5.8e-19  Score=156.54  Aligned_cols=120  Identities=22%  Similarity=0.296  Sum_probs=104.1

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhh-cCCEEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTI-SSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~-~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++..+..+..+|+. .|+.|..+.++.+|++.+.           . ..||+||+|+.||++||++++++
T Consensus         2 ~~~~ILivDD~~~~~~~l~~~L~~~~~~~v~~a~~g~eal~~l~-----------~~~~~DlvllDi~mP~~dG~ell~~   70 (400)
T 3sy8_A            2 NDLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILE-----------SCGHVDIAICDLQMSGMDGLAFLRH   70 (400)
T ss_dssp             CCEEEEEECSSHHHHHHHHHHHHHHCSEEEEEESSHHHHHHHHH-----------HHSCEEEEEECSSCSSSCHHHHHHH
T ss_pred             CCceEEEEcCCHHHHHHHHHHHHhcCCcEEEEecCHHHHHHHHh-----------hCCCCCEEEEeCCCCCCCHHHHHHH
Confidence            358999999999999999999988 5789999999999999983           3 36999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcH-----HHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENIL-----ARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~-----~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      |++..+  ..+||++|+....     ....++++.|+++||.||++.++|...+..+.+.
T Consensus        71 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~~~  128 (400)
T 3sy8_A           71 ASLSGK--VHSVILSSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYNAR  128 (400)
T ss_dssp             HHHHTC--EEEEEESCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHHHH
T ss_pred             HHhcCC--CceEEEEcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHHHh
Confidence            998764  6777777777655     5677889999999999999999998887776554

>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=99.78  E-value=1.4e-20  Score=138.22  Aligned_cols=119  Identities=29%  Similarity=0.444  Sum_probs=106.2

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+|||+||++..+..+...|...||.+..+.++.++++.+           ....||+||+|+.||+++|+++++.|+
T Consensus         2 ~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~dlvi~d~~~~~~~g~~~~~~l~   70 (124)
T 1dc7_A            2 QRGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAAL-----------ASKTPDVLLSDIRMPGMDGLALLKQIK   70 (124)
T ss_dssp             CCCCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHS-----------SSCCCSCEEECSCSSHHHHCSTHHHHH
T ss_pred             CccEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHH-----------hcCCCCEEEEeeecCCCCHHHHHHHHH
Confidence            356799999999999999999999999999999999999988           456799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|+|++++..+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        71 ~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  120 (124)
T 1dc7_A           71 QRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (124)
T ss_dssp             HHCT--TSCCCCBCCSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHH
T ss_pred             hhCC--CCCEEEEecCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHH
Confidence            8654  8899999998877778889999999999999999999877766543

>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=99.78  E-value=4.5e-18  Score=137.97  Aligned_cols=115  Identities=20%  Similarity=0.267  Sum_probs=104.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+..+|+..| .+..+.++.++++.+             ..||+||+|+.||+++|+++++.|++.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~-------------~~~dlvllD~~lp~~~g~~~~~~lr~~   68 (220)
T 1p2f_A            3 WKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE-------------EAFHVVVLDVMLPDYSGYEICRMIKET   68 (220)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC-------------SCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc-------------CCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            689999999999999999999888 899999999998753             469999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|+|++|+..+.....++++.|+++||.||++.++|...+..+.+.
T Consensus        69 ~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  117 (220)
T 1p2f_A           69 RP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLER  117 (220)
T ss_dssp             CT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            64  89999999999999999999999999999999999998877766554

>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=99.77  E-value=1.5e-18  Score=130.35  Aligned_cols=116  Identities=21%  Similarity=0.297  Sum_probs=98.8

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCC-CcccEEEEcCCCCCCCHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDG-LKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~-~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      .....+||||||++..+..+..+|+..||.+..+.++.++++.+           .. ..||+||+|+.||+++|+++++
T Consensus        12 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~~dlvilD~~l~~~~g~~~~~   80 (138)
T 2b4a_A           12 HMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHR-----------SQLSTCDLLIVSDQLVDLSIFSLLD   80 (138)
T ss_dssp             --CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTG-----------GGGGSCSEEEEETTCTTSCHHHHHH
T ss_pred             CCCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHH-----------HhCCCCCEEEEeCCCCCCCHHHHHH
Confidence            34678999999999999999999999999999999999999988           44 5799999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEe-CCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          105 KIKDSSALREIPVVIMS-SENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt-~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      .|++..+  .+|+|+++ +..+... .+++   +++|+.||++.++|...++.+.
T Consensus        81 ~l~~~~~--~~~ii~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~  129 (138)
T 2b4a_A           81 IVKEQTK--QPSVLILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHK  129 (138)
T ss_dssp             HHTTSSS--CCEEEEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTC
T ss_pred             HHHhhCC--CCCEEEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHH
Confidence            9998644  89999999 7765554 5555   9999999999999987776544

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.76  E-value=3.7e-18  Score=136.17  Aligned_cols=113  Identities=14%  Similarity=0.136  Sum_probs=98.3

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +.++||||||++..+..+..+|...||.+..+.++.+++               ...||+||+|+.||+++|+ +++.++
T Consensus        11 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al---------------~~~~dlvl~D~~mp~~~g~-l~~~~~   74 (196)
T 1qo0_D           11 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF---------------DVPVDVVFTSIFQNRHHDE-IAALLA   74 (196)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC---------------SSCCSEEEEECCSSTHHHH-HHHHHH
T ss_pred             cCCeEEEEcCChhHHHHHHHHHHHcCCeEEEecCchhhC---------------CCCCCEEEEeCCCCccchH-HHHHHh
Confidence            468999999999999999999999999998887765543               2469999999999999999 999998


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ...  +.+|||++|++.+.+...++++.|+++||.||++.++|...+..+.
T Consensus        75 ~~~--~~~~ii~lt~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~  123 (196)
T 1qo0_D           75 AGT--PRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSAR  123 (196)
T ss_dssp             HSC--TTCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHH
T ss_pred             ccC--CCCCEEEEEcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHH
Confidence            764  3899999999999999999999999999999999999876665443

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.75  E-value=2e-17  Score=134.43  Aligned_cols=114  Identities=20%  Similarity=0.275  Sum_probs=104.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ++||||||++..+..+..+|...||.|..+.++.++++.+           ....||+||    ||+++|+++++.|++.
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlvi----lp~~~g~~~~~~lr~~   65 (223)
T 2hqr_A            1 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLM-----------DIRNYDLVM----VSDKNALSFVSRIKEK   65 (223)
T ss_dssp             CCEEEECSCHHHHHHHHHHHGGGTCCEEEESSHHHHHHHH-----------TTSCCSEEE----ECCTTHHHHHHHHHHH
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHCCcEEEEECCHHHHHHHH-----------hcCCCCEEE----eCCCCHHHHHHHHHhC
Confidence            4799999999999999999999999999999999999998           566799999    8999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCC-CHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV-KLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~-~~~eL~~~~~~l~~~  160 (233)
                      .  ..+|||++|+..+.....++++.|+++||.||+ +.++|...+..+.+.
T Consensus        66 ~--~~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~~L~~~i~~~~~~  115 (223)
T 2hqr_A           66 H--SSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF  115 (223)
T ss_dssp             C--TTSEEEEEESSCCHHHHHHHHHHTCSEEEETTCSCTHHHHHHHHHHTSS
T ss_pred             C--CCCcEEEEECCCCHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHHhcc
Confidence            2  379999999999999999999999999999999 999998887776554

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.73  E-value=5e-17  Score=141.87  Aligned_cols=106  Identities=29%  Similarity=0.408  Sum_probs=93.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhc-CCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTIS-SCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~-g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++..+..+..+|+.. ||+ +..+.++.++++.+.           ...||+||+|+.||+++|++++++
T Consensus         2 ~~~rVLIVDD~~~~r~~L~~~L~~~~g~~vv~~a~~~~eAl~~l~-----------~~~pDlVllDi~mp~~dGlell~~   70 (349)
T 1a2o_A            2 SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIK-----------KFNPDVLTLDVEMPRMDGLDFLEK   70 (349)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHH-----------HHCCSEEEEECCCSSSCHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHh-----------ccCCCEEEEECCCCCCCHHHHHHH
Confidence            3589999999999999999999986 888 568999999999883           456999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcH--HHHHHHHHcCCceEEeCCCCH
Q 026776          106 IKDSSALREIPVVIMSSENIL--ARIDRCLEDGAEDFIVKPVKL  147 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~--~~~~~al~~Ga~dyL~KP~~~  147 (233)
                      |++..   .+|+|++|+..+.  +...++++.|+++||.||++.
T Consensus        71 l~~~~---p~pVIvlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~  111 (349)
T 1a2o_A           71 LMRLR---PMPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQLG  111 (349)
T ss_dssp             HHHSS---CCCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSSS
T ss_pred             HHhcC---CCcEEEEECCCcccHHHHHHHHhCCceEEEECCCCc
Confidence            99864   3899999988765  447889999999999999983

>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=99.72  E-value=1.7e-17  Score=138.93  Aligned_cols=103  Identities=20%  Similarity=0.368  Sum_probs=86.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhh-cCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTI-SSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~-~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +.+||||||++..++.+...|.. .|+.+..++. .+++..+           ....||+||+|+.||+++|+++++++|
T Consensus         4 ~~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~~~-~~~~~~~-----------~~~~~dlvllD~~mP~~~G~~~~~~lr   71 (259)
T 3luf_A            4 KQKILIVEDSMTIRRMLIQAIAQQTGLEIDAFDT-LEGARHC-----------QGDEYVVALVDLTLPDAPSGEAVKVLL   71 (259)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHHHHCCEEEEESS-TGGGTTC-----------CTTTEEEEEEESCBTTBTTSHHHHHHH
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCeEEEEeCh-HHHHHHh-----------hcCCCcEEEEeCCCCCCCHHHHHHHHH
Confidence            36899999999999999999976 4787765544 4444433           445799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCH
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL  147 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~  147 (233)
                      +.    .+|||++|++.+.+...+++++||++|+.||+..
T Consensus        72 ~~----~~pvi~lt~~~~~~~~~~a~~~Ga~dyl~Kp~~~  107 (259)
T 3luf_A           72 ER----GLPVVILTADISEDKREAWLEAGVLDYVMKDSRH  107 (259)
T ss_dssp             HT----TCCEEEEECC-CHHHHHHHHHTTCCEEEECSSHH
T ss_pred             hC----CCCEEEEEccCCHHHHHHHHHCCCcEEEeCCchh
Confidence            74    5899999999999999999999999999999754

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.69  E-value=5.8e-17  Score=154.31  Aligned_cols=117  Identities=21%  Similarity=0.316  Sum_probs=104.0

Q ss_pred             cEEEEEeCCH-HH-------HHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCC-cccEEEEcCCCCC----
Q 026776           30 VHVLAVDDSF-VD-------RKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGL-KVDLIITDYCMPG----   96 (233)
Q Consensus        30 ~~ILIVddd~-~~-------~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~-~~DlvllD~~mp~----   96 (233)
                      |+||||||+. ..       ++.|...|+..||+|..+.++++++..+           ... .+|+||+|++||+    
T Consensus         1 m~ILiVdDd~~~~~~~~~~~~~~L~~~L~~~g~~v~~a~~g~~al~~~-----------~~~~~~d~vilDi~lp~~~~~   69 (755)
T 2vyc_A            1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAIL-----------SSNEAIDCLMFSYQMEHPDEH   69 (755)
T ss_dssp             CEEEEECCTTSTTSHHHHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------TTTCCCSEEEEECCCCSHHHH
T ss_pred             CeEEEEeCCccccccccHHHHHHHHHHHHhCCCEEEEECCHHHHHHHH-----------hcCCCCcEEEEeCCCCccccc
Confidence            4899999999 88       9999999999999999999999999998           444 5999999999999    


Q ss_pred             CCHHHHHHHHhccCCCCCCcEEEEeCCCc-HHHHHHHHHcCCceEEeCCCCHHH-H-HHHHHHHhh
Q 026776           97 MTGYELLKKIKDSSALREIPVVIMSSENI-LARIDRCLEDGAEDFIVKPVKLSD-V-KRIKDYLTR  159 (233)
Q Consensus        97 ~~g~~ll~~Lr~~~~~~~~piIvlt~~~~-~~~~~~al~~Ga~dyL~KP~~~~e-L-~~~~~~l~~  159 (233)
                      ++|++++++||+...  .+|||++|+... .+.....+..|+|||+.||++..+ | .++...++|
T Consensus        70 ~~G~~ll~~iR~~~~--~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~rr  133 (755)
T 2vyc_A           70 QNVRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMTR  133 (755)
T ss_dssp             HHHHHHHHHHHHHST--TCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHhCC--CCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHHH
Confidence            999999999999865  899999999877 778888999999999999999999 5 455555544

>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=99.20  E-value=4.7e-10  Score=100.38  Aligned_cols=117  Identities=20%  Similarity=0.281  Sum_probs=96.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ...+|+++||+......+...|.. .+.+....++.+++..            ....||++++|+.||+++|+++++.+|
T Consensus       151 ~~~~ilivdd~~~~~~~i~~~L~~-~~~~~~~~~~~~~~~~------------~~~~~dlil~D~~mp~~dG~~~~~~ir  217 (459)
T 1w25_A          151 LGGRVLIVDDNERQAQRVAAELGV-EHRPVIESDPEKAKIS------------AGGPVDLVIVNAAAKNFDGLRFTAALR  217 (459)
T ss_dssp             CSCEEEEECSCHHHHHHHHHHHTT-TSEEEEECCHHHHHHH------------HHSSCSEEEEETTCSSSCHHHHHHHHH
T ss_pred             CCCeEEEECCchhhHHHHHHHHhc-ccceeeccCHHHHhhh------------ccCCCCEEEEecCCCCCcHHHHHHHHH
Confidence            456899999999888888888754 4566777788777532            123589999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      .......+|++++++.........+++.|+++|+.||+...++...+..+
T Consensus       218 ~~~~~~~~pii~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~  267 (459)
T 1w25_A          218 SEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQ  267 (459)
T ss_dssp             TSGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             hCccccCCcEEEEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHH
Confidence            87666689999999999988889999999999999999999875444433

>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=99.13  E-value=2.5e-11  Score=98.62  Aligned_cols=88  Identities=26%  Similarity=0.390  Sum_probs=70.3

Q ss_pred             CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHH
Q 026776           54 CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCL  133 (233)
Q Consensus        54 ~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al  133 (233)
                      +.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.||+..+  ..++++++.....+...+++
T Consensus         6 ~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~~p~~~g~~~~~~l~~~~~--~~~i~vi~~~~~~~~~~~~~   72 (237)
T 3cwo_X            6 LIVDDATNGREAVEKYK-----------ELKPDIVTMDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAI   72 (237)
T ss_dssp             EEEECCCSSSTTHHHHH-----------HHCCSCEEEECCSTTSSHHHHHHHHHHHSS--SCCEEEECCSSTHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHHHHhCC--CCCEEEEECCCCHHHHHHHH
Confidence            45556788888888873           346999999999999999999999998655  55666666666678889999


Q ss_pred             HcCCceEEeCC--CCHHHHHHHH
Q 026776          134 EDGAEDFIVKP--VKLSDVKRIK  154 (233)
Q Consensus       134 ~~Ga~dyL~KP--~~~~eL~~~~  154 (233)
                      +.|+++|+.||  ++..++...+
T Consensus        73 ~~Ga~~~l~kp~~~~~~~l~~~i   95 (237)
T 3cwo_X           73 KAGAKDFIVNTAAVENPSLITQI   95 (237)
T ss_dssp             HTTCCEEEESHHHHHCTHHHHHH
T ss_pred             HCCHHheEeCCcccChHHHHHHH
Confidence            99999999999  6666665433

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=97.73  E-value=0.00058  Score=47.80  Aligned_cols=107  Identities=17%  Similarity=0.192  Sum_probs=82.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +-.||+|..|-...-.+++++....|+++.....       .          .+...|+|+|.+-+-..       .+..
T Consensus        12 ~~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~~-------~----------~e~~AdlIfCEYlLLPe-------~ifS   67 (121)
T 3q7r_A           12 PKHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQY-------K----------QELSADLVVCEYSLLPR-------EIRS   67 (121)
T ss_dssp             CEEEEEECSCHHHHHHHHHHSCTTTEEEEEESSC-------C----------CCTTEEEEEEEGGGSCT-------TCCC
T ss_pred             CcEEEEEecCchhhHHHHHhcCCcceeEEecccc-------C----------CcccceeEEEeeecChH-------HhcC
Confidence            4668999999888888999997778888776532       0          34568999999865321       2333


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .......-+|++-.--+++...+.++.|+. ||.+|++..-+..+++...++
T Consensus        68 ~k~~~~~dliVLfD~F~EEa~v~vLd~Ga~-yLlrPIT~kvldAvIraFLrq  118 (121)
T 3q7r_A           68 PKSLEGSFVLVLLDFFDEETSVDLLDRGFW-YLIRPITPRILKSAISLFLSQ  118 (121)
T ss_dssp             CTTCCSCEEEEEESSCCHHHHHHHHHTTCE-EEESCCCHHHHHHHHHHHHHH
T ss_pred             CCCCCcccEEEEehhhchHHHHHHHhCCce-eEeccCcHHHHHHHHHHHHhc
Confidence            333346678888888889999999999999 999999999999888887764

>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=97.58  E-value=0.00034  Score=57.36  Aligned_cols=96  Identities=15%  Similarity=0.090  Sum_probs=69.1

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ..++.+||||||+...+..+..+|..+|+++..+.+       .           ....+|++|+|+.++...+      
T Consensus         8 ~l~~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~-------~-----------~~~~~~~ii~d~~~~~~~~------   63 (254)
T 2ayx_A            8 GLSGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEG-------Q-----------EPTPEDVLITDEVVSKKWQ------   63 (254)
T ss_dssp             TTTTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSS-------C-----------CCCTTCEEEEESSCSCCCC------
T ss_pred             ccCCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecC-------C-----------CCCcCcEEEEcCCCccccc------
Confidence            356789999999999999999999999999988764       1           2346899999999987543      


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                              ...++.++......    ....+...|+.||+...++..++..+
T Consensus        64 --------~~~~i~~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~l~~~  103 (254)
T 2ayx_A           64 --------GRAVVTFCRRHIGI----PLEKAPGEWVHSVAAPHELPALLARI  103 (254)
T ss_dssp             --------SSEEEEECSSCCCS----CCTTSTTEEEECSSCCSHHHHHHHHH
T ss_pred             --------cceEEEEecccCCC----cccccCCceeccccchHHHHHHHHHH
Confidence                    11255555543210    11234568999999988877666554

>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=97.57  E-value=5.8e-05  Score=71.26  Aligned_cols=94  Identities=11%  Similarity=0.094  Sum_probs=72.6

Q ss_pred             HHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEe
Q 026776           42 RKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMS  121 (233)
Q Consensus        42 ~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt  121 (233)
                      ...|...|+..||+|..+.+.++++..+..          +..+++||+|++++   +.+++++||+.+.  .+||++++
T Consensus        19 i~~L~~~Le~~g~~V~~a~s~~Da~~~i~~----------~~~i~avIld~d~~---~~~ll~~Ir~~~~--~iPVFl~~   83 (715)
T 3n75_A           19 IRELHRALERLNFQIVYPNDRDDLLKLIEN----------NARLCGVIFDWDKY---NLELCEEISKMNE--NLPLYAFA   83 (715)
T ss_dssp             HHHHHHHHHHTTCEEECCSSHHHHHHHHHH----------CTTEEEEEEEHHHH---HHHHHHHHHHHCT--TCEEEEEC
T ss_pred             HHHHHHHHHHCCcEEEEeCCHHHHHHHHHh----------CCCceEEEEecccc---HHHHHHHHHHhCC--CCCEEEEe
Confidence            344557788899999999999999999952          34589999999885   7899999999876  99999998


Q ss_pred             CCCcHHHHHHHHHcCCceEEeCCCCHHHH
Q 026776          122 SENILARIDRCLEDGAEDFIVKPVKLSDV  150 (233)
Q Consensus       122 ~~~~~~~~~~al~~Ga~dyL~KP~~~~eL  150 (233)
                      .......+....-.++++|+.+..+..++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (715)
T 3n75_A           84 NTYSTLDVSLNDLRLQISFFEYALGAAED  112 (715)
T ss_dssp             CTTCCCCGGGTTSCCEEEEECCCTTCHHH
T ss_pred             cCCcccccchhhhhccCeEEEeCCCCHHH
Confidence            87543222111235789999998765554

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=97.00  E-value=0.018  Score=44.00  Aligned_cols=117  Identities=18%  Similarity=0.172  Sum_probs=78.4

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      ++.+|++.    |-+..-...+..+|+..||+|...   ...++..+.+           ....+|+|.+...+...  .
T Consensus        17 ~~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa-----------~~~~~diV~lS~~~~~~~~~   85 (161)
T 2yxb_A           17 RRYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAA-----------VQEDVDVIGVSILNGAHLHL   85 (161)
T ss_dssp             CSCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHH-----------HHTTCSEEEEEESSSCHHHH
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HhcCCCEEEEEeechhhHHH
Confidence            46778877    677788888899999999999864   3667777776           45679999998776531  2


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      --++++.|++... .+++|++- +.........+.+.|+|.++..-.+..+....+..+
T Consensus        86 ~~~~i~~L~~~g~-~~i~v~vG-G~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~  142 (161)
T 2yxb_A           86 MKRLMAKLRELGA-DDIPVVLG-GTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKL  142 (161)
T ss_dssp             HHHHHHHHHHTTC-TTSCEEEE-ECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCCEEEEe-CCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHH
Confidence            3556777877542 25665544 444444444567899998776555555554444333

>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=96.35  E-value=0.0057  Score=48.60  Aligned_cols=66  Identities=11%  Similarity=0.298  Sum_probs=51.8

Q ss_pred             ccEEEEcC-CCCCCCH--HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEE------eCCCCHHHHHHH
Q 026776           85 VDLIITDY-CMPGMTG--YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFI------VKPVKLSDVKRI  153 (233)
Q Consensus        85 ~DlvllD~-~mp~~~g--~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL------~KP~~~~eL~~~  153 (233)
                      .++++.++ .++.++|  .+.+++++..   ...|+|++++....+...++++.|+++++      .+|++..++.+.
T Consensus       145 ~~vli~~~~~~g~~~g~~~~~i~~~~~~---~~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~~~~~~~~~~~  219 (237)
T 3cwo_X          145 GEILLTSIDRDGTKSGYDTEMIRFVRPL---TTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFREIDVRELKEY  219 (237)
T ss_dssp             SEEEEEETTTTTCCSCCCHHHHHHHGGG---CCSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTTSSCHHHHHHH
T ss_pred             CeEEEEecCCCCccccccHHHHHHHHHh---cCCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcCCCCHHHHHHH
Confidence            45888886 5666666  4566666654   38899999999999999999999999995      788888887654

>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=95.79  E-value=0.14  Score=37.77  Aligned_cols=110  Identities=12%  Similarity=0.027  Sum_probs=71.0

Q ss_pred             cEEEEE----eCCHHHHHHHHHHHhhcCCEEEE---ECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCC--HH
Q 026776           30 VHVLAV----DDSFVDRKVIERLLTISSCKVTA---VDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMT--GY  100 (233)
Q Consensus        30 ~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~---a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~--g~  100 (233)
                      .+|++.    |-+..-...+..+|+..||+|..   .-..++.++.+           ....+|+|.+...+....  .-
T Consensus         4 ~~vvla~~~~d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a-----------~~~~~d~v~lS~~~~~~~~~~~   72 (137)
T 1ccw_A            4 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAA-----------IETKADAILVSSLYGQGEIDCK   72 (137)
T ss_dssp             CEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHH-----------HHHTCSEEEEEECSSTHHHHHT
T ss_pred             CEEEEEeCCCchhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HhcCCCEEEEEecCcCcHHHHH
Confidence            455544    44566667788889999999884   45778888777           345799999988775321  23


Q ss_pred             HHHHHHhccCCCCCCcEEEEeCC----CcHH-HHHHHHHcCCceEEeCCCCHHHHH
Q 026776          101 ELLKKIKDSSALREIPVVIMSSE----NILA-RIDRCLEDGAEDFIVKPVKLSDVK  151 (233)
Q Consensus       101 ~ll~~Lr~~~~~~~~piIvlt~~----~~~~-~~~~al~~Ga~dyL~KP~~~~eL~  151 (233)
                      ++++.|++... ++++|++--..    .+.. ....+.+.|++.|+.--.+..++.
T Consensus        73 ~~i~~l~~~g~-~~i~v~vGG~~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~  127 (137)
T 1ccw_A           73 GLRQKCDEAGL-EGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGI  127 (137)
T ss_dssp             THHHHHHHTTC-TTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHH
T ss_pred             HHHHHHHhcCC-CCCEEEEECCCcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHH
Confidence            46777777543 25666544321    1222 244577899999987666666654

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=94.67  E-value=0.3  Score=40.07  Aligned_cols=82  Identities=16%  Similarity=0.127  Sum_probs=58.5

Q ss_pred             HHHHhhcCCEEE--EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-----CCHHHHHHHHhccCCCCCCcEE
Q 026776           46 ERLLTISSCKVT--AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-----MTGYELLKKIKDSSALREIPVV  118 (233)
Q Consensus        46 ~~~L~~~g~~v~--~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-----~~g~~ll~~Lr~~~~~~~~piI  118 (233)
                      .+.|.+.||.|.  +.++...+....            ...+++| +.+..|.     ....++++.+++. .  ++|||
T Consensus       128 a~~L~~~Gf~Vlpy~~dd~~~akrl~------------~~G~~aV-mPlg~pIGsG~Gi~~~~lI~~I~e~-~--~vPVI  191 (265)
T 1wv2_A          128 AEQLVKDGFDVMVYTSDDPIIARQLA------------EIGCIAV-MPLAGLIGSGLGICNPYNLRIILEE-A--KVPVL  191 (265)
T ss_dssp             HHHHHTTTCEEEEEECSCHHHHHHHH------------HSCCSEE-EECSSSTTCCCCCSCHHHHHHHHHH-C--SSCBE
T ss_pred             HHHHHHCCCEEEEEeCCCHHHHHHHH------------HhCCCEE-EeCCccCCCCCCcCCHHHHHHHHhc-C--CCCEE
Confidence            345567799876  567777665553            2346666 5544432     2237899999884 3  78999


Q ss_pred             EEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          119 IMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       119 vlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      +=.+-...+++..+++.|+++++.-
T Consensus       192 ~eGGI~TPsDAa~AmeLGAdgVlVg  216 (265)
T 1wv2_A          192 VDAGVGTASDAAIAMELGCEAVLMN  216 (265)
T ss_dssp             EESCCCSHHHHHHHHHHTCSEEEES
T ss_pred             EeCCCCCHHHHHHHHHcCCCEEEEC
Confidence            8777788999999999999999764

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=94.57  E-value=0.22  Score=39.39  Aligned_cols=100  Identities=8%  Similarity=0.066  Sum_probs=67.7

Q ss_pred             CcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--CH
Q 026776           29 EVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--TG   99 (233)
Q Consensus        29 ~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~g   99 (233)
                      +-+|++.    |-+..-...+..+|+..||+|....   ..++.++.+           ....+|+|.+...+...  .-
T Consensus        88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~-----------~~~~~d~v~lS~~~~~~~~~~  156 (210)
T 1y80_A           88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAV-----------KKYQPDIVGMSALLTTTMMNM  156 (210)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHH-----------HHHCCSEEEEECCSGGGTHHH
T ss_pred             CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEeccccccHHHH
Confidence            4577777    6667777888999999999998754   456666665           34579999998876532  24


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          100 YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      -++++.||+....++++|++-....+.+.   +.+.|+|.|..
T Consensus       157 ~~~i~~l~~~~~~~~~~v~vGG~~~~~~~---~~~~gad~~~~  196 (210)
T 1y80_A          157 KSTIDALIAAGLRDRVKVIVGGAPLSQDF---ADEIGADGYAP  196 (210)
T ss_dssp             HHHHHHHHHTTCGGGCEEEEESTTCCHHH---HHHHTCSEECS
T ss_pred             HHHHHHHHhcCCCCCCeEEEECCCCCHHH---HHHcCCeEEEC
Confidence            56777888754323577776554445433   34579987754

>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=94.14  E-value=0.23  Score=39.66  Aligned_cols=101  Identities=10%  Similarity=0.105  Sum_probs=67.8

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEE--cCCCCC-C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIIT--DYCMPG-M   97 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~Dlvll--D~~mp~-~   97 (233)
                      .+.+|++.    |-+..-...+..+|+..||+|....   ..++.++.+           ..+.+|+|.+  ..-|.. +
T Consensus        91 ~~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~-----------~~~~~d~v~l~~S~l~~~~~  159 (215)
T 3ezx_A           91 EAGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEA-----------AKHKGEKVLLVGSALMTTSM  159 (215)
T ss_dssp             -CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHH-----------HHTTTSCEEEEEECSSHHHH
T ss_pred             CCCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHH-----------HHcCCCEEEEEchhcccCcH
Confidence            35677776    5567777788888999999998753   566676776           4567999999  776652 2


Q ss_pred             -CHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776           98 -TGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus        98 -~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                       .--++++.|++.....+++|++-...-..+.   +-+.|+|.|-.
T Consensus       160 ~~~~~~i~~l~~~~~~~~v~v~vGG~~~~~~~---a~~iGad~~~~  202 (215)
T 3ezx_A          160 LGQKDLMDRLNEEKLRDSVKCMFGGAPVSDKW---IEEIGADATAE  202 (215)
T ss_dssp             THHHHHHHHHHHTTCGGGSEEEEESSSCCHHH---HHHHTCCBCCS
T ss_pred             HHHHHHHHHHHHcCCCCCCEEEEECCCCCHHH---HHHhCCeEEEC
Confidence             2456778888764322567665544445443   34669998864

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=93.66  E-value=0.75  Score=37.58  Aligned_cols=101  Identities=12%  Similarity=0.051  Sum_probs=68.4

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-CC-
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-MT-   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~~-   98 (233)
                      .+.+||+.    |-+..-...+..+|+..||+|...   -..++.++.+           ....+|+|.+...+.. +. 
T Consensus       122 ~~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~-----------~~~~~d~V~lS~l~~~~~~~  190 (258)
T 2i2x_B          122 TKGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAV-----------QKEKPIMLTGTALMTTTMYA  190 (258)
T ss_dssp             CSCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHH-----------HHHCCSEEEEECCCTTTTTH
T ss_pred             CCCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEEeeccCCHHH
Confidence            45677777    556777788888999999998653   3556666666           3457999999887663 33 


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCC
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP  144 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP  144 (233)
                      --++++.|++...  .++|++-......+.   +-+.|++.|..-.
T Consensus       191 ~~~~i~~l~~~~~--~~~v~vGG~~~~~~~---~~~igad~~~~da  231 (258)
T 2i2x_B          191 FKEVNDMLLENGI--KIPFACGGGAVNQDF---VSQFALGVYGEEA  231 (258)
T ss_dssp             HHHHHHHHHTTTC--CCCEEEESTTCCHHH---HHTSTTEEECSST
T ss_pred             HHHHHHHHHhcCC--CCcEEEECccCCHHH---HHHcCCeEEECCH
Confidence            4567888888655  577766554444433   2377987776533

>2xij_A Methylmalonyl-COA mutase, mitochondrial; isomerase, organic aciduria, vitamin B12; HET: B12 5AD BTB; 1.95A {Homo sapiens} PDB: 2xiq_A* 3bic_A

Probab=93.12  E-value=1.2  Score=42.18  Aligned_cols=113  Identities=15%  Similarity=0.070  Sum_probs=74.4

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      ++.+|++.    |.+..-...+..+|+..||+|..-   .+.++.++..           ....+|+|.+..-+..-  .
T Consensus       603 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA-----------~e~~adiVglSsl~~~~~~~  671 (762)
T 2xij_A          603 RRPRLLVAKMGQDGHDRGAKVIATGFADLGFDVDIGPLFQTPREVAQQA-----------VDADVHAVGVSTLAAGHKTL  671 (762)
T ss_dssp             SCCEEEEECCSSCCCCHHHHHHHHHHHHTTCEEEECCTTCCHHHHHHHH-----------HHTTCSEEEEEECSSCHHHH
T ss_pred             CCCEEEEEecCcchhhHHHHHHHHHHHhCCeEEeeCCCCCCHHHHHHHH-----------HHcCCCEEEEeeecHHHHHH
Confidence            45778776    455666677788899999999864   3567777776           34578999987766432  3


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRI  153 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~  153 (233)
                      .-++++.|++... ..++|+ +.+-.-......+.+.|+++|+..-.+..++...
T Consensus       672 ~~~vi~~Lr~~G~-~dv~Vi-vGG~~P~~d~~~l~~~GaD~~f~pgtd~~e~~~~  724 (762)
T 2xij_A          672 VPELIKELNSLGR-PDILVM-CGGVIPPQDYEFLFEVGVSNVFGPGTRIPKAAVQ  724 (762)
T ss_dssp             HHHHHHHHHHTTC-TTSEEE-EEESCCGGGHHHHHHHTCCEEECTTCCHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCCEEE-EeCCCCcccHHHHHhCCCCEEeCCCCCHHHHHHH
Confidence            4667888887654 244443 3321111233456789999999866677776443

>1req_A Methylmalonyl-COA mutase; isomerase, intramolecular transferase; HET: B12 DCA; 2.00A {Propionibacterium freudenreichii subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 2req_A* 3req_A* 4req_A* 6req_A* 7req_A* 5req_A* 1e1c_A*

Probab=92.66  E-value=1.2  Score=41.98  Aligned_cols=117  Identities=14%  Similarity=0.080  Sum_probs=76.2

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      ++.+|++.    |.+..-...+..+|+..||+|..-.   +.++.++..           ....+|+|.+..-|..-  .
T Consensus       595 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA-----------~e~~adiVglSsl~~~~~~~  663 (727)
T 1req_A          595 RRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQA-----------VEADVHVVGVSSLAGGHLTL  663 (727)
T ss_dssp             SCCEEEEECBTTCCCCHHHHHHHHHHHHHTCEEEECCTTBCHHHHHHHH-----------HHTTCSEEEEEECSSCHHHH
T ss_pred             CCCEEEEEeCCcchhHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH-----------HHcCCCEEEEeeecHhHHHH
Confidence            45777776    5566666777888999999998743   567777776           34578999988766532  3


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH-HHHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK-RIKDYL  157 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~-~~~~~l  157 (233)
                      .-++++.|++... .+++|+ +.+-.-......+.+.|+++|+..-.+..++. .++..+
T Consensus       664 ~~~vi~~L~~~G~-~~i~Vi-vGG~~p~~d~~~l~~~GaD~~f~~gt~~~e~a~~l~~~l  721 (727)
T 1req_A          664 VPALRKELDKLGR-PDILIT-VGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKL  721 (727)
T ss_dssp             HHHHHHHHHHTTC-TTSEEE-EEESCCGGGHHHHHHTTEEEEECTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCCEEE-EcCCCccccHHHHHhCCCCEEEcCCccHHHHHHHHHHHH
Confidence            4567888887653 244443 33311122334567899999998766666654 344444

>1xrs_B D-lysine 5,6-aminomutase beta subunit; TIM barrel, rossmann domain, PLP, cobalamin, 5'-deoxyad radical, adenosylcobalamin; HET: B12 PLP 5AD; 2.80A {Clostridium sticklandii} SCOP: c.23.6.1 d.230.4.1

Probab=92.66  E-value=1.4  Score=36.20  Aligned_cols=110  Identities=11%  Similarity=0.041  Sum_probs=71.3

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHH--------Hhhc-CCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEc
Q 026776           28 EEVHVLAV----DDSFVDRKVIERL--------LTIS-SCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITD   91 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~--------L~~~-g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD   91 (233)
                      ++.+|++.    |-+..-...+..+        |+.. ||+|....   ..++.++.+           ....+|+|.+.
T Consensus       119 ~~~~Vvlatv~gD~HdiG~~iv~~~k~~~~~~~L~~~~G~eVi~LG~~vp~e~iv~aa-----------~e~~~d~VglS  187 (262)
T 1xrs_B          119 RKIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKA-----------VELEADVLLVS  187 (262)
T ss_dssp             SCEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHH-----------HHTTCSEEEEE
T ss_pred             CCCEEEEEeCCCCCchHHHHHHhhhhcccchHHHHhcCCcEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEE
Confidence            35667665    4556556666666        8899 99997633   667777776           45679999999


Q ss_pred             CCCCCCC-----HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH
Q 026776           92 YCMPGMT-----GYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK  151 (233)
Q Consensus        92 ~~mp~~~-----g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~  151 (233)
                      ..+...+     --++++.|++.....+++|++=-...+.+   .+.+.|++.|..--....++.
T Consensus       188 ~l~t~~~~~~~~~~~~i~~L~~~g~~~~i~vivGG~~~~~~---~a~~iGad~~~~da~~~~~~a  249 (262)
T 1xrs_B          188 QTVTQKNVHIQNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVA  249 (262)
T ss_dssp             CCCCTTSHHHHHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHH
T ss_pred             eecCCccchHHHHHHHHHHHHhcCCCCCCEEEEECCcCCHH---HHHHcCCeEEECCchHHHHHH
Confidence            8887522     23467777765432236665443333333   366789999887767666654

>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=92.57  E-value=0.25  Score=42.58  Aligned_cols=58  Identities=10%  Similarity=0.160  Sum_probs=48.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhh---cCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTI---SSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG   96 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~---~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~   96 (233)
                      -++++.|+|.|....+.|..++.+   ..+++..+.+.+.+.+.++           ...+|++|+|-.+..
T Consensus        20 ~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~-----------~~~~dilli~e~~~~   80 (373)
T 3fkq_A           20 MKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVK-----------EYRIDVLIAEEDFNI   80 (373)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHH-----------HHTCSEEEEETTCCC
T ss_pred             ceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHh-----------cCCCCEEEEcchhhh
Confidence            479999999999999999999864   3589999999999999873           346899999876654

>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal binding protein; HET: PLP B12 5AD; 2.01A {Clostridium sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A* 3kox_A*

Probab=92.07  E-value=1.2  Score=41.27  Aligned_cols=117  Identities=10%  Similarity=0.055  Sum_probs=74.0

Q ss_pred             CCcEEEEE----eCCHHHHHHH----HHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC
Q 026776           28 EEVHVLAV----DDSFVDRKVI----ERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG   96 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l----~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~   96 (233)
                      ++.+|++.    |-+..-...+    ..+|+..||+|....   ..++.++.+           ....+|+|.+..-|..
T Consensus       601 ~kGKVVIATVgGD~HDIGKklVaNIVa~~LE~aGFEVIDLGvdVPpEeIVeAA-----------~EedADVVGLSsLLTt  669 (763)
T 3kp1_A          601 TPLKIVAATVGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAA-----------IELKADAILASTIISH  669 (763)
T ss_dssp             SCCEEEEEEBTTCCCCHHHHHTTSTTTTCGGGGTCEEEECCSSBCHHHHHHHH-----------HHTTCSEEEEECCCCG
T ss_pred             cCCEEEEEeCCCChhhhhhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEeccccC
Confidence            35678777    3343333222    467899999998643   677888777           4567999999988876


Q ss_pred             ----CCH-HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHH-HHHHHHh
Q 026776           97 ----MTG-YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVK-RIKDYLT  158 (233)
Q Consensus        97 ----~~g-~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~-~~~~~l~  158 (233)
                          +.. -++++.|++......++|++=......+.   +.+.|++.|........++. .++..+.
T Consensus       670 ~dihL~~MkevIelLrE~GlrDkIkVIVGGa~~tqd~---AkeIGADa~f~DATeAVeVA~~Ll~~l~  734 (763)
T 3kp1_A          670 DDIHYKNMKRIHELAVEKGIRDKIMIGCGGTQVTPEV---AVKQGVDAGFGRGSKGIHVATFLVKKRR  734 (763)
T ss_dssp             GGHHHHHHHHHHHHHHHTTCTTTSEEEEECTTCCHHH---HHTTTCSEEECTTCCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhcCCCCCCEEEEECCCCCHHH---HHHcCCcEEECCcchHHHHHHHHHHHHH
Confidence                233 35777788765422355554433334332   45899999988777666653 3444443

>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=91.70  E-value=2.1  Score=34.34  Aligned_cols=87  Identities=13%  Similarity=0.122  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCC------CCCCCHHHHHHHHhccCCCC
Q 026776           41 DRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYC------MPGMTGYELLKKIKDSSALR  113 (233)
Q Consensus        41 ~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~------mp~~~g~~ll~~Lr~~~~~~  113 (233)
                      ....+.+.+++.|..+. .+.+.+++.....            ..+|+|.+...      .....++++++++++.    
T Consensus       117 ~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~------------~Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~~~----  180 (229)
T 3q58_A          117 DIDSLLTRIRLHGLLAMADCSTVNEGISCHQ------------KGIEFIGTTLSGYTGPITPVEPDLAMVTQLSHA----  180 (229)
T ss_dssp             CHHHHHHHHHHTTCEEEEECSSHHHHHHHHH------------TTCSEEECTTTTSSSSCCCSSCCHHHHHHHHTT----
T ss_pred             HHHHHHHHHHHCCCEEEEecCCHHHHHHHHh------------CCCCEEEecCccCCCCCcCCCCCHHHHHHHHHc----
Confidence            33444445566676444 4678888776652            34787764221      1234568899999863    


Q ss_pred             CCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          114 EIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       114 ~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      .+|+|.-.+-.+.+.+.++++.|+++++.=
T Consensus       181 ~ipvIA~GGI~t~~d~~~~~~~GadgV~VG  210 (229)
T 3q58_A          181 GCRVIAEGRYNTPALAANAIEHGAWAVTVG  210 (229)
T ss_dssp             TCCEEEESSCCSHHHHHHHHHTTCSEEEEC
T ss_pred             CCCEEEECCCCCHHHHHHHHHcCCCEEEEc
Confidence            789998888778899999999999999864

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=91.64  E-value=0.33  Score=40.00  Aligned_cols=81  Identities=19%  Similarity=0.157  Sum_probs=54.6

Q ss_pred             HHhhcCCEEE--EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH-----HHHHHHHhccCCCCC-CcEEE
Q 026776           48 LLTISSCKVT--AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG-----YELLKKIKDSSALRE-IPVVI  119 (233)
Q Consensus        48 ~L~~~g~~v~--~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g-----~~ll~~Lr~~~~~~~-~piIv  119 (233)
                      .|.+.||.|.  +..|...+-...            ...+++| +.+..|-..|     .++++.+++...  + +|||+
T Consensus       119 ~L~k~Gf~Vlpy~~~D~~~ak~l~------------~~G~~aV-mPlg~pIGsG~Gi~~~~~L~~i~~~~~--~~vPVI~  183 (268)
T 2htm_A          119 RLIEEDFLVLPYMGPDLVLAKRLA------------ALGTATV-MPLAAPIGSGWGVRTRALLELFAREKA--SLPPVVV  183 (268)
T ss_dssp             HHHHTTCEECCEECSCHHHHHHHH------------HHTCSCB-EEBSSSTTTCCCSTTHHHHHHHHHTTT--TSSCBEE
T ss_pred             HHHHCCCEEeeccCCCHHHHHHHH------------hcCCCEE-EecCccCcCCcccCCHHHHHHHHHhcC--CCCeEEE
Confidence            4456688765  556765444433            1245666 6655543322     566888887433  6 89998


Q ss_pred             EeCCCcHHHHHHHHHcCCceEEeC
Q 026776          120 MSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       120 lt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      =.+-...+++..++++|+++++.-
T Consensus       184 ~GGI~tpsDAa~AmeLGAdgVlVg  207 (268)
T 2htm_A          184 DAGLGLPSHAAEVMELGLDAVLVN  207 (268)
T ss_dssp             ESCCCSHHHHHHHHHTTCCEEEES
T ss_pred             eCCCCCHHHHHHHHHcCCCEEEEC
Confidence            777788999999999999999754

>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=90.73  E-value=3.4  Score=33.93  Aligned_cols=83  Identities=11%  Similarity=0.164  Sum_probs=68.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ..+.|.+.-.++.....+..+|....|.+..+.+.++.++.+..         ..+++|++|+..  .+..-..+...|.
T Consensus         8 ~~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~---------~~e~iDcLvle~--~~~~~~~~~~~L~   76 (289)
T 1r8j_A            8 SQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQT---------HRDQIDCLILVA--ANPSFRAVVQQLC   76 (289)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHH---------STTSCSEEEEET--TSTTHHHHHHHHH
T ss_pred             cceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHh---------ccccCCEEEEEe--CCCccHHHHHHHH
Confidence            46889999999999999999998888999999999999998854         456799999875  1345778889998


Q ss_pred             ccCCCCCCcEEEEeCC
Q 026776          108 DSSALREIPVVIMSSE  123 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~  123 (233)
                      +.+.  -.|+|++...
T Consensus        77 ~~g~--lLP~vil~~~   90 (289)
T 1r8j_A           77 FEGV--VVPAIVVGDR   90 (289)
T ss_dssp             HTTC--CCCEEEESCC
T ss_pred             HcCc--cccEEEeccC
Confidence            8766  7899988664

>2ekc_A AQ_1548, tryptophan synthase alpha chain; structural genomics, lyase, NPPSFA, national project on PROT structural and functional analyses; 2.00A {Aquifex aeolicus}

Probab=88.77  E-value=1.4  Score=35.97  Aligned_cols=60  Identities=20%  Similarity=0.327  Sum_probs=43.3

Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+++++++|+..+  .+|+++++...      .......+.++|+++++.-.+..+++...+..+.+.
T Consensus        81 ~~~~v~~ir~~~~--~~Pi~~m~y~n~v~~~g~~~f~~~~~~aG~dgvii~dl~~ee~~~~~~~~~~~  146 (262)
T 2ekc_A           81 VLELSETLRKEFP--DIPFLLMTYYNPIFRIGLEKFCRLSREKGIDGFIVPDLPPEEAEELKAVMKKY  146 (262)
T ss_dssp             HHHHHHHHHHHCT--TSCEEEECCHHHHHHHCHHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcC--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHc
Confidence            4566888887533  68998874332      145667788999999999888888877777666543

>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=88.22  E-value=4.3  Score=32.51  Aligned_cols=87  Identities=18%  Similarity=0.118  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCC------CCCCCHHHHHHHHhccCCCC
Q 026776           41 DRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYC------MPGMTGYELLKKIKDSSALR  113 (233)
Q Consensus        41 ~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~------mp~~~g~~ll~~Lr~~~~~~  113 (233)
                      ....+.+.+++.|..+. .+.+.+++.....            ..+|+|.+...      .....++++++++++.    
T Consensus       117 ~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~------------~Gad~Ig~~~~g~t~~~~~~~~~~~~i~~l~~~----  180 (232)
T 3igs_A          117 AVEALLARIHHHHLLTMADCSSVDDGLACQR------------LGADIIGTTMSGYTTPDTPEEPDLPLVKALHDA----  180 (232)
T ss_dssp             CHHHHHHHHHHTTCEEEEECCSHHHHHHHHH------------TTCSEEECTTTTSSSSSCCSSCCHHHHHHHHHT----
T ss_pred             HHHHHHHHHHHCCCEEEEeCCCHHHHHHHHh------------CCCCEEEEcCccCCCCCCCCCCCHHHHHHHHhc----
Confidence            33444445566676444 4667777766542            34677754221      1233468899999874    


Q ss_pred             CCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          114 EIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       114 ~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      .+|+|.-.+-.+.+.+.++++.|+++++.=
T Consensus       181 ~ipvIA~GGI~t~~d~~~~~~~GadgV~VG  210 (232)
T 3igs_A          181 GCRVIAEGRYNSPALAAEAIRYGAWAVTVG  210 (232)
T ss_dssp             TCCEEEESCCCSHHHHHHHHHTTCSEEEEC
T ss_pred             CCcEEEECCCCCHHHHHHHHHcCCCEEEEe
Confidence            689988887778899999999999999764

>1geq_A Tryptophan synthase alpha-subunit; hyperthermophIle, pyrococ furiosus, X-RAY analysis, stability, calorimetry, lyase; 2.00A {Pyrococcus furiosus} SCOP: c.1.2.4 PDB: 1wdw_A* 2dzu_A 2dzp_A 2e09_A 2dzw_A 2dzs_A 2dzv_A 2dzt_A 2dzx_A

Probab=87.86  E-value=2.9  Score=33.40  Aligned_cols=57  Identities=16%  Similarity=0.300  Sum_probs=40.2

Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCc------HHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENI------LARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~------~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      ++++++.+|+..   ++|+++++....      .+.+..++++|++.++.-....++..++++.+.
T Consensus        68 ~~~~i~~i~~~~---~~pv~~~~~~~~~~~~~~~~~~~~~~~~Gad~v~~~~~~~~~~~~~~~~~~  130 (248)
T 1geq_A           68 AFWIVKEFRRHS---STPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEFTEIAR  130 (248)
T ss_dssp             HHHHHHHHHTTC---CCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTCCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHhhC---CCCEEEEeccchhhhcCHHHHHHHHHHCCCCEEEECCCChhhHHHHHHHHH
Confidence            477888888752   578888774332      567888999999999987666666555555444

>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB: 1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A* 1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A* 1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...

Probab=86.67  E-value=2.1  Score=34.99  Aligned_cols=60  Identities=23%  Similarity=0.411  Sum_probs=43.6

Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ++++++.+|+...  .+|+++++...      ....+..+.++|+++++.-.+..+++.+.+..+.+.
T Consensus        81 ~~~~v~~ir~~~~--~~Pv~lm~y~n~v~~~g~~~~~~~~~~aGadgii~~d~~~e~~~~~~~~~~~~  146 (268)
T 1qop_A           81 CFEMLAIIREKHP--TIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEESAPFRQAALRH  146 (268)
T ss_dssp             HHHHHHHHHHHCS--SSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGCHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCC--CCCEEEEEcccHHHHhhHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHc
Confidence            4577888887533  67888775222      256778899999999999888887777777666543

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=86.29  E-value=1  Score=37.07  Aligned_cols=58  Identities=10%  Similarity=0.321  Sum_probs=44.2

Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCCC------cHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          100 YELLKKIKDSSALREIPVVIMSSEN------ILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~~------~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +++++.+|+...  ++|+++++-.+      ......++.++|+++++.-.+..++..+.+..+.+
T Consensus        83 ~~~v~~ir~~~~--~~Pivlm~Y~npv~~~g~e~f~~~~~~aGvdgvii~Dlp~ee~~~~~~~~~~  146 (267)
T 3vnd_A           83 FDIITKVRAQHP--DMPIGLLLYANLVFANGIDEFYTKAQAAGVDSVLIADVPVEESAPFSKAAKA  146 (267)
T ss_dssp             HHHHHHHHHHCT--TCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHhcCC--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEeCCCCHhhHHHHHHHHHH
Confidence            677888886533  78998886533      25678889999999999988888887777666654

>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural genomics, CSG center for structural genomics of infectious diseases; 2.10A {Vibrio cholerae o1 biovar el tor} SCOP: c.1.2.4

Probab=86.17  E-value=1.2  Score=36.71  Aligned_cols=60  Identities=17%  Similarity=0.359  Sum_probs=44.7

Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCC------CcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSE------NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~------~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +.+++++++|+...  .+|+++++-.      +......+|.++|+++++.-.+..++.......+.+
T Consensus        83 ~~~~~v~~~r~~~~--~~Pivlm~Y~n~v~~~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~~~~~~  148 (271)
T 3nav_A           83 ICFELIAQIRARNP--ETPIGLLMYANLVYARGIDDFYQRCQKAGVDSVLIADVPTNESQPFVAAAEK  148 (271)
T ss_dssp             HHHHHHHHHHHHCT--TSCEEEEECHHHHHHTCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEecCcHHHHHhHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            34678888887533  7899998633      345678899999999999988888887666666554

>3bul_A Methionine synthase; transferase, reactivation conformation, cobalamin, intermodular interactions, amino-acid biosynthesis, cobalt; HET: B12; 2.30A {Escherichia coli} SCOP: a.46.1.1 c.23.6.1 d.173.1.1 PDB: 3iv9_A* 3iva_A* 1k7y_A* 1k98_A* 1bmt_A*

Probab=84.07  E-value=4.5  Score=37.06  Aligned_cols=104  Identities=12%  Similarity=0.179  Sum_probs=67.4

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      .+.+||+.    |-+..-...+..+|+..||+|....   ..++.++.+           ....+|+|.+...+...  .
T Consensus        97 ~~~kVLlatv~GD~HdiG~~iva~~L~~~G~eVi~LG~~vP~e~iv~aa-----------~~~~~diVgLS~l~t~~~~~  165 (579)
T 3bul_A           97 TNGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTA-----------KEVNADLIGLSGLITPSLDE  165 (579)
T ss_dssp             CSCEEEEEEBTTCCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHH-----------HHHTCSEEEEECCSTHHHHH
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HHcCCCEEEEEecCCCCHHH
Confidence            35677777    5567777788888999999998643   566666666           34579999998866521  1


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHH---HcCCceEEeCC
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSENILARIDRCL---EDGAEDFIVKP  144 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al---~~Ga~dyL~KP  144 (233)
                      --++++.|++...  +++|++-...........-+   -.|+|.|....
T Consensus       166 m~~~i~~Lr~~g~--~i~ViVGGa~~~~~~a~~~i~p~~~GAD~ya~DA  212 (579)
T 3bul_A          166 MVNVAKEMERQGF--TIPLLIGGATTSKAHTAVKIEQNYSGPTVYVQNA  212 (579)
T ss_dssp             HHHHHHHHHHTTC--CSCEEEESTTCCHHHHHHHTGGGCSSCEEECCSH
T ss_pred             HHHHHHHHHHcCC--CCeEEEEccccchhhhhhhhhhcccCCeEEECCH
Confidence            2356778877654  78877655544444332111   12888776543

>3ec7_A Putative dehydrogenase; alpha-beta, structural genomics, PSI-2, protein structure in midwest center for structural genomics, MCSG; HET: MSE NAD EPE; 2.15A {Salmonella typhimurium}

Probab=83.86  E-value=4.9  Score=34.06  Aligned_cols=116  Identities=19%  Similarity=0.154  Sum_probs=60.2

Q ss_pred             CCCCCCCCcEEEEEeCCHHHHHHHHHHH-hhcCCEEEEE-CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCH
Q 026776           22 LSPSDTEEVHVLAVDDSFVDRKVIERLL-TISSCKVTAV-DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTG   99 (233)
Q Consensus        22 ~~~~~~~~~~ILIVddd~~~~~~l~~~L-~~~g~~v~~a-~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g   99 (233)
                      -+..++++++|.||.--..-...+..+. ...++++..+ +...+..+.+..          ...+.+-..+      +-
T Consensus        16 ~~~~~m~~~rvgiIG~G~~g~~~~~~l~~~~~~~~lvav~d~~~~~~~~~a~----------~~g~~~~~~~------~~   79 (357)
T 3ec7_A           16 NLYFQGMTLKAGIVGIGMIGSDHLRRLANTVSGVEVVAVCDIVAGRAQAALD----------KYAIEAKDYN------DY   79 (357)
T ss_dssp             ------CCEEEEEECCSHHHHHHHHHHHHTCTTEEEEEEECSSTTHHHHHHH----------HHTCCCEEES------SH
T ss_pred             ccccCCCeeeEEEECCcHHHHHHHHHHHhhCCCcEEEEEEeCCHHHHHHHHH----------HhCCCCeeeC------CH
Confidence            4444567899999998776665566555 3357777643 322222222210          0111111111      21


Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCC--CcHHHHHHHHHcCCceEEeCCC--CHHHHHHHHHHHhhh
Q 026776          100 YELLKKIKDSSALREIPVVIMSSE--NILARIDRCLEDGAEDFIVKPV--KLSDVKRIKDYLTRD  160 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~--~~~~~~~~al~~Ga~dyL~KP~--~~~eL~~~~~~l~~~  160 (233)
                      -++   |...    .+-+|+++..  ...+.+..++++|..=|+.||+  +.++..++++...+.
T Consensus        80 ~~l---l~~~----~~D~V~i~tp~~~h~~~~~~al~aGk~Vl~EKPla~~~~e~~~l~~~a~~~  137 (357)
T 3ec7_A           80 HDL---INDK----DVEVVIITASNEAHADVAVAALNANKYVFCEKPLAVTAADCQRVIEAEQKN  137 (357)
T ss_dssp             HHH---HHCT----TCCEEEECSCGGGHHHHHHHHHHTTCEEEEESSSCSSHHHHHHHHHHHHHH
T ss_pred             HHH---hcCC----CCCEEEEcCCcHHHHHHHHHHHHCCCCEEeecCccCCHHHHHHHHHHHHHh
Confidence            222   2221    3444444433  3456778899999999999996  466666666655543

>3abi_A Putative uncharacterized protein PH1688; L-lysine dehydrogenase, oxidoreductase; HET: NAD; 2.44A {Pyrococcus horikoshii}

Probab=83.67  E-value=5.1  Score=34.05  Aligned_cols=108  Identities=13%  Similarity=0.072  Sum_probs=54.0

Q ss_pred             eeeeeccccccCCCCCCCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEE
Q 026776           10 LRLISDEIDGFDLSPSDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII   89 (233)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~Dlvl   89 (233)
                      .|++++.|+.        ++|||+|+.- -.+...+.+.|.+ .++|..++-..+.++.+.           . ....+-
T Consensus         5 ~~~~~~~~~g--------~~mkilvlGa-G~vG~~~~~~L~~-~~~v~~~~~~~~~~~~~~-----------~-~~~~~~   62 (365)
T 3abi_A            5 VHHHHHHIEG--------RHMKVLILGA-GNIGRAIAWDLKD-EFDVYIGDVNNENLEKVK-----------E-FATPLK   62 (365)
T ss_dssp             -------------------CCEEEEECC-SHHHHHHHHHHTT-TSEEEEEESCHHHHHHHT-----------T-TSEEEE
T ss_pred             cccccccccC--------CccEEEEECC-CHHHHHHHHHHhc-CCCeEEEEcCHHHHHHHh-----------c-cCCcEE
Confidence            3555566665        6789999987 6667777778864 477777765455555552           1 123344


Q ss_pred             EcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHH
Q 026776           90 TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS  148 (233)
Q Consensus        90 lD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~  148 (233)
                      +|.    .|--.+.+.+++.    ++.|..+-.+.....+..|++.|.+ |+.--+..+
T Consensus        63 ~d~----~d~~~l~~~~~~~----DvVi~~~p~~~~~~v~~~~~~~g~~-yvD~s~~~~  112 (365)
T 3abi_A           63 VDA----SNFDKLVEVMKEF----ELVIGALPGFLGFKSIKAAIKSKVD-MVDVSFMPE  112 (365)
T ss_dssp             CCT----TCHHHHHHHHTTC----SEEEECCCGGGHHHHHHHHHHHTCE-EEECCCCSS
T ss_pred             Eec----CCHHHHHHHHhCC----CEEEEecCCcccchHHHHHHhcCcc-eEeeeccch
Confidence            554    2333444444432    2222222222345667788888875 665444433

>2v5j_A 2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; lyase, class II aldolase, homoprotocatechuate, aromatic DEGR aromatic hydrocarbons catabolism; 1.60A {Escherichia coli} PDB: 2v5k_A

Probab=83.44  E-value=18  Score=29.87  Aligned_cols=75  Identities=15%  Similarity=0.141  Sum_probs=50.2

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe-CCCCHHHHHHHHHHH
Q 026776           82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV-KPVKLSDVKRIKDYL  157 (233)
Q Consensus        82 ~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~-KP~~~~eL~~~~~~l  157 (233)
                      ...+|.|++|++-...+--.+...++..... ..++++=+...+...+..+++.|++..+. |--+.+++.++++.+
T Consensus        58 ~~GaD~v~lDlEh~~~~~~~~~~~l~a~~~~-~~~~~VRv~~~d~~di~~~ld~ga~~ImlP~V~saeea~~~~~~~  133 (287)
T 2v5j_A           58 GAGFDWLLIDGEHAPNNVQTVLTQLQAIAPY-PSQPVVRPSWNDPVQIKQLLDVGTQTLLVPMVQNADEAREAVRAT  133 (287)
T ss_dssp             TSCCSEEEEESSSSSCCHHHHHHHHHHHTTS-SSEEEEECSSSCHHHHHHHHHTTCCEEEESCCCSHHHHHHHHHHT
T ss_pred             hCCCCEEEEeCCCccchHHHHHHHHHHHHhc-CCCEEEEECCCCHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHHHh
Confidence            4568999999976666655565555543322 45566555666677888999999987654 334567777666544

>3ffs_A Inosine-5-monophosphate dehydrogenase; beta-alpha barrel, TIM fold, oxidoreductase; 3.19A {Cryptosporidium parvum}

Probab=83.11  E-value=19  Score=31.34  Aligned_cols=101  Identities=16%  Similarity=0.196  Sum_probs=62.1

Q ss_pred             cEEEEEeC----CHHHHHHHHHHHhhcCCEEE--EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCC---------
Q 026776           30 VHVLAVDD----SFVDRKVIERLLTISSCKVT--AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCM---------   94 (233)
Q Consensus        30 ~~ILIVdd----d~~~~~~l~~~L~~~g~~v~--~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~m---------   94 (233)
                      ..++++|-    .....+.++.+-+..+..|.  .+.+.+++..+..            ...|.|++...-         
T Consensus       157 vdvIvldta~G~~~~~~e~I~~ik~~~~i~Vi~g~V~t~e~A~~a~~------------aGAD~I~vG~g~Gs~~~tr~~  224 (400)
T 3ffs_A          157 VDVIVLDSAHGHSLNIIRTLKEIKSKMNIDVIVGNVVTEEATKELIE------------NGADGIKVGIGPGSICTTRIV  224 (400)
T ss_dssp             CSEEEECCSCCSBHHHHHHHHHHHTTCCCEEEEEEECSHHHHHHHHH------------TTCSEEEECC---------CC
T ss_pred             CCEEEEeCCCCCcccHHHHHHHHHhcCCCeEEEeecCCHHHHHHHHH------------cCCCEEEEeCCCCcCcccccc
Confidence            45666642    23334555544444465554  4778888877652            347888873210         


Q ss_pred             --CCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776           95 --PGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus        95 --p~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                        .+...++++.++.+......+|||.-.+-.+...+.+++.+||+.+..
T Consensus       225 ~g~g~p~~~al~~v~~~~~~~~IPVIA~GGI~~~~di~kalalGAd~V~v  274 (400)
T 3ffs_A          225 AGVGVPQITAIEKCSSVASKFGIPIIADGGIRYSGDIGKALAVGASSVMI  274 (400)
T ss_dssp             SCBCCCHHHHHHHHHHHHTTTTCCEEEESCCCSHHHHHHHHTTTCSEEEE
T ss_pred             cccchhHHHHHHHHHHHHHhcCCCEEecCCCCCHHHHHHHHHcCCCEEEE
Confidence              012345666666543222378998877777889999999999998864

>1ujp_A Tryptophan synthase alpha chain; riken structural genomics/P initiative, RSGI, structural genomics, lyase; HET: CIT; 1.34A {Thermus thermophilus} SCOP: c.1.2.4 PDB: 1wxj_A*

Probab=82.90  E-value=1.9  Score=35.59  Aligned_cols=58  Identities=14%  Similarity=0.164  Sum_probs=42.6

Q ss_pred             HHHHHHHhccCCCCCCcEEEEeCC------CcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          100 YELLKKIKDSSALREIPVVIMSSE------NILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       100 ~~ll~~Lr~~~~~~~~piIvlt~~------~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      +++++++|+. .  .+|+++++-.      +.......+.++|+++++.-.+..+++......+.+.
T Consensus        80 ~~~v~~ir~~-~--~~Pii~m~y~n~v~~~g~~~f~~~~~~aG~dGviv~Dl~~ee~~~~~~~~~~~  143 (271)
T 1ujp_A           80 LELVREVRAL-T--EKPLFLMTYLNPVLAWGPERFFGLFKQAGATGVILPDLPPDEDPGLVRLAQEI  143 (271)
T ss_dssp             HHHHHHHHHH-C--CSCEEEECCHHHHHHHCHHHHHHHHHHHTCCEEECTTCCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHhc-C--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHHc
Confidence            5778888876 3  7899997532      2245677789999999999888887777766666543

>2vws_A YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escherichia coli K-12 protein YFAU, 2-keto-3-deoxy SU aldolase, degradation of homoprotocatechuate; 1.39A {Escherichia coli} PDB: 2vwt_A

Probab=81.80  E-value=19  Score=29.18  Aligned_cols=75  Identities=15%  Similarity=0.134  Sum_probs=49.9

Q ss_pred             CCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe-CCCCHHHHHHHHHHH
Q 026776           82 GLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIV-KPVKLSDVKRIKDYL  157 (233)
Q Consensus        82 ~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~-KP~~~~eL~~~~~~l  157 (233)
                      ...+|.|++|++-...+--++...++..... ..++++=+...+...+..+++.|++..+. |--+.+++.++++.+
T Consensus        37 ~~GaD~v~lDlE~~~~~~~~~~~~~~a~~~~-~~~~~VRv~~~~~~~i~~~l~~g~~~I~~P~V~s~ee~~~~~~~~  112 (267)
T 2vws_A           37 TSGYDWLLIDGEHAPNTIQDLYHQLQAVAPY-ASQPVIRPVEGSKPLIKQVLDIGAQTLLIPMVDTAEQARQVVSAT  112 (267)
T ss_dssp             TTCCSEEEEETTTSCCCHHHHHHHHHHHTTS-SSEEEEECSSCCHHHHHHHHHTTCCEEEECCCCSHHHHHHHHHHT
T ss_pred             hCCCCEEEEcCCCCCCCHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCCHHHHHHHHHHH
Confidence            4568999999976656655565555543322 44555545556778888999999987644 335577777766554

>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.83A {Planctomyces limnophilus}

Probab=81.16  E-value=0.65  Score=38.17  Aligned_cols=78  Identities=18%  Similarity=0.146  Sum_probs=46.1

Q ss_pred             CcEEEEEeCC--HHHHHHHHHHHhhcCCEEEEECCHHH--HHHHhhhhhhhhccCCCCCcccEEEEcCCCC-CC--CHHH
Q 026776           29 EVHVLAVDDS--FVDRKVIERLLTISSCKVTAVDSGRR--ALQFLGLDEEQSINGFDGLKVDLIITDYCMP-GM--TGYE  101 (233)
Q Consensus        29 ~~~ILIVddd--~~~~~~l~~~L~~~g~~v~~a~~~~~--al~~l~~~~~~~~~~~~~~~~DlvllD~~mp-~~--~g~~  101 (233)
                      ..+||||+++  +.....+.++|+..||+|.......-  -.+.+             ..||+||++-... ..  +-.+
T Consensus         4 m~~vLiV~g~~~~~~a~~l~~aL~~~g~~V~~i~~~~~~~~~~~L-------------~~yDvIIl~d~~~~~l~~~~~~   70 (259)
T 3rht_A            4 MTRVLYCGDTSLETAAGYLAGLMTSWQWEFDYIPSHVGLDVGELL-------------AKQDLVILSDYPAERMTAQAID   70 (259)
T ss_dssp             --CEEEEESSCTTTTHHHHHHHHHHTTCCCEEECTTSCBCSSHHH-------------HTCSEEEEESCCGGGBCHHHHH
T ss_pred             CceEEEECCCCchhHHHHHHHHHHhCCceEEEecccccccChhHH-------------hcCCEEEEcCCccccCCHHHHH
Confidence            3579999988  66778899999999999988664321  01122             2589998863221 12  2333


Q ss_pred             HHHHHhccCCCCCCcEEEEeCC
Q 026776          102 LLKKIKDSSALREIPVVIMSSE  123 (233)
Q Consensus       102 ll~~Lr~~~~~~~~piIvlt~~  123 (233)
                      .++..-+.    ..-+|++.+.
T Consensus        71 ~L~~yV~~----GGgLi~~gG~   88 (259)
T 3rht_A           71 QLVTMVKA----GCGLVMLGGW   88 (259)
T ss_dssp             HHHHHHHT----TCEEEEECST
T ss_pred             HHHHHHHh----CCeEEEecCc
Confidence            44433322    3456766554

>3l9w_A Glutathione-regulated potassium-efflux system Pro linker, ancillary protein KEFF; potassium channel regulation, domains, antiport; HET: FMN AMP GSH; 1.75A {Escherichia coli} PDB: 3eyw_A* 3l9x_A*

Probab=81.00  E-value=14  Score=32.09  Aligned_cols=55  Identities=15%  Similarity=0.199  Sum_probs=36.4

Q ss_pred             cccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeC
Q 026776           84 KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus        84 ~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      ..|+||+-+.- +.....++..+|+..+  .+.||+-+..  ........++|++.++.-
T Consensus        68 ~A~~viv~~~~-~~~n~~i~~~ar~~~p--~~~Iiara~~--~~~~~~L~~~Gad~Vi~~  122 (413)
T 3l9w_A           68 KAEVLINAIDD-PQTNLQLTEMVKEHFP--HLQIIARARD--VDHYIRLRQAGVEKPERE  122 (413)
T ss_dssp             TCSEEEECCSS-HHHHHHHHHHHHHHCT--TCEEEEEESS--HHHHHHHHHTTCSSCEET
T ss_pred             ccCEEEECCCC-hHHHHHHHHHHHHhCC--CCeEEEEECC--HHHHHHHHHCCCCEEECc
Confidence            57888875532 2234556777777655  7778777654  455666788999988753

---

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	233
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	1e-20
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	1e-20
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	6e-20
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	7e-20
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-19
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	3e-19
d1peya_	119	c.23.1.1 (A:) Sporulation response regulator Spo0F	1e-18
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	2e-18
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	3e-18
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	5e-18
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	6e-18
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	1e-17
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	1e-17
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	3e-17
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	8e-17
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	9e-17
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	4e-16
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	1e-15
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	6e-15
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	7e-15
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	9e-15
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	2e-14
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	2e-14
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	5e-14
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	4e-13
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	5e-13
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	5e-13
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	1e-12
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	1e-12
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	2e-12
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	2e-12
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	2e-12
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	5e-12
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	2e-11

>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 = 81.9 bits (202), Expect = 1e-20
 Identities = 36/129 (27%), Positives = 62/129 (48%), Gaps = 12/129 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L V+D    R+++  +L  +  +    +    A+  L                DLI+ D
Sbjct: 3   ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWP-----------DLILLD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
           + +PG +G + +K +K  S  R+IPVV++++        R LE GA+D+I KP    + V
Sbjct: 52  WMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELV 111

Query: 151 KRIKDYLTR 159
            RIK  + R
Sbjct: 112 ARIKAVMRR 120

>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 = 82.0 bits (202), Expect = 1e-20
 Identities = 37/138 (26%), Positives = 63/138 (45%), Gaps = 10/138 (7%)

Query: 32  VLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           +  V+D+  D ++I+  L  S    +V  V  G  A+ +L  + E +    +  + DLI+
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYA----NASRPDLIL 60

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  +P   G E+L +IK    L+ IPVV++S+      I    +     +I K   LS 
Sbjct: 61  LDLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQ 120

Query: 150 ----VKRIKDYLTRDVNL 163
               VK I+++      L
Sbjct: 121 LFQIVKGIEEFWLSTATL 138

>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 = 80.4 bits (198), Expect = 6e-20
 Identities = 32/139 (23%), Positives = 61/139 (43%), Gaps = 16/139 (11%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           S+   + VL +D++ V R V + LL    C+VT V S    L+ +  +            
Sbjct: 3   SNFTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHE------------ 50

Query: 85  VDLIITDYCMPGMTGYELLKKIKD---SSALREIPVVIMSSENILARIDRCLEDGAEDFI 141
             ++  D CMPG+  Y++  +I +       +   +V +S     +  ++C+  G +  +
Sbjct: 51  HKVVFMDVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVL 110

Query: 142 VKPVKLSD-VKRIKDYLTR 159
           +KPV L +    + D L  
Sbjct: 111 LKPVSLDNIRDVLSDLLEP 129

>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 = 80.5 bits (198), Expect = 7e-20
 Identities = 34/139 (24%), Positives = 66/139 (47%), Gaps = 10/139 (7%)

Query: 31  HVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
            +L V+DS  D ++++ +L  S    ++  +  G  A+ FL    +Q     +  + +LI
Sbjct: 5   VILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL----QQQGEYENSPRPNLI 60

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           + D  +P   G E+L +IK +  L+ IPVV++++ +    +    E     ++ K   L 
Sbjct: 61  LLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLK 120

Query: 149 D----VKRIKDYLTRDVNL 163
           D    V+ I+ +    V L
Sbjct: 121 DLFKMVQGIESFWLETVTL 139

>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 = 79.5 bits (195), Expect = 2e-19
 Identities = 35/130 (26%), Positives = 63/130 (48%), Gaps = 4/130 (3%)

Query: 31  HVLAVDDSFVDRKVIERLLTIS--SCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
            +L V+DS  D    +RLL        +    +G +AL F         N     +  +I
Sbjct: 8   PLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDF-LYQTGSYCNPDIAPRPAVI 66

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
           + D  +PG  G E+L++IK    L++IPVVIM++ +    I+ C       +IVKP+++ 
Sbjct: 67  LLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEID 126

Query: 149 D-VKRIKDYL 157
              + ++ ++
Sbjct: 127 RLTETVQTFI 136

>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 = 78.1 bits (192), Expect = 3e-19
 Identities = 36/129 (27%), Positives = 59/129 (45%), Gaps = 12/129 (9%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D+ ++ K+   LL     +      G  AL                 K DLI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIA-----------RENKPDLILMD 52

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +P ++G E+ K +K+   L  IPVV +++  +    +R  E G E +I KP+ +   +
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFL 112

Query: 151 KRIKDYLTR 159
           + IK  L R
Sbjct: 113 ETIKRLLER 121

>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 = 76.5 bits (188), Expect = 1e-18
 Identities = 33/127 (25%), Positives = 54/127 (42%), Gaps = 14/127 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD    R ++  +      +     +G +AL  +              + DL++ D
Sbjct: 4   ILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-----------TKERPDLVLLD 52

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +PGM G E+LK++K       I V+IM++   L  I    E GA     KP  + +  
Sbjct: 53  MKIPGMDGIEILKRMKVID--ENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIR 110

Query: 151 KRIKDYL 157
             +K YL
Sbjct: 111 DAVKKYL 117

>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 = 75.8 bits (186), Expect = 3e-18
 Identities = 31/132 (23%), Positives = 60/132 (45%), Gaps = 9/132 (6%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLI 88
           V +L V+D+ V+++VI+R+L +   + +     G+ A   +     +  N       ++I
Sbjct: 2   VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGEN------YNMI 55

Query: 89  ITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLS 148
             D  MP + G    K I+        P+V +++    + I  CLE G   F+ KP+K  
Sbjct: 56  FMDVQMPKVDGLLSTKMIR-RDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRP 114

Query: 149 DVK-RIKDYLTR 159
            +K  + ++   
Sbjct: 115 KLKTILTEFCAA 126

>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 = 74.9 bits (184), Expect = 5e-18
 Identities = 23/131 (17%), Positives = 48/131 (36%), Gaps = 16/131 (12%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           +   V  V+D      +I+  L     +VT   SG    Q                  DL
Sbjct: 1   QPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHR----------SQLSTCDL 50

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           +I    +  ++ + LL  +K+ +  ++  V+I+++      +    E     ++ KP  +
Sbjct: 51  LIVSDQLVDLSIFSLLDIVKEQT--KQPSVLILTTGR--HELIESSEHNL-SYLQKPFAI 105

Query: 148 SD-VKRIKDYL 157
           S+    I  + 
Sbjct: 106 SELRAAIDYHK 116

>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 = 75.1 bits (184), Expect = 6e-18
 Identities = 37/155 (23%), Positives = 70/155 (45%), Gaps = 26/155 (16%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
           SD +++ +L VDD  ++R+++   L     +    + G             ++N      
Sbjct: 4   SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDG-----------VDALNVLSKNH 52

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           +D++++D  MP M GY L ++I+       +PV+ +++  +     RCLE G +  + KP
Sbjct: 53  IDIVLSDVNMPNMDGYRLTQRIR--QLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKP 110

Query: 145 VKLSDVK-RIKDYLTRDVNLGNEGRGINKRKARES 178
           V L  +K  +  Y  R             RK+R+S
Sbjct: 111 VTLDVIKQTLTLYAER------------VRKSRDS 133

>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 = 74.3 bits (182), Expect = 1e-17
 Identities = 30/137 (21%), Positives = 60/137 (43%), Gaps = 13/137 (9%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGL 83
           S  E++ VL VDD    R ++   L     K +TA   G + ++ +  +           
Sbjct: 2   SLAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNPH--------- 52

Query: 84  KVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVK 143
              L+I+D+ MP M G  LL+ ++ + A ++   +I++++   A + +    GA + + K
Sbjct: 53  --HLVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAK 110

Query: 144 PVKLSD-VKRIKDYLTR 159
           P  +      I+     
Sbjct: 111 PFTIEKMKAAIEAVFGA 127

>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 = 73.7 bits (181), Expect = 1e-17
 Identities = 23/133 (17%), Positives = 56/133 (42%), Gaps = 15/133 (11%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCK--VTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           + V   DD+     +++  ++       +    +G+  LQ L           +  + D+
Sbjct: 2   IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQML-----------EEKRPDI 50

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           ++ D  MP + G  +L++I+      +  V+++++        + +E GA  FI+KP  +
Sbjct: 51  LLLDIIMPHLDGLAVLERIRAGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDM 109

Query: 148 SD-VKRIKDYLTR 159
            +    I+    +
Sbjct: 110 ENLAHHIRQVYGK 122

>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 = 73.4 bits (180), Expect = 3e-17
 Identities = 31/137 (22%), Positives = 64/137 (46%), Gaps = 16/137 (11%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
           E   +L +DD  + R  +++L++++     V    +G + ++             + L  
Sbjct: 1   EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELA-----------ESLDP 49

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           DLI+ D  MPGM G E L K+++ S      +V+ S  N    +   L+ GA+ +++K +
Sbjct: 50  DLILLDLNMPGMNGLETLDKLREKS--LSGRIVVFSVSNHEEDVVTALKRGADGYLLKDM 107

Query: 146 KLSD-VKRIKDYLTRDV 161
           +  D +K +      ++
Sbjct: 108 EPEDLLKALHQAAAGEM 124

>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 = 71.7 bits (175), Expect = 8e-17
 Identities = 36/130 (27%), Positives = 59/130 (45%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V  VDD    R V+ER L  +    T  ++G   L  L                D++++
Sbjct: 5   IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTP-----------DVLLS 53

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  MPGM G  LLK+IK       +PV+IM++ + L       + GA D++ KP  + + 
Sbjct: 54  DIRMPGMDGLALLKQIKQRH--PMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEA 111

Query: 150 VKRIKDYLTR 159
           V  ++  ++ 
Sbjct: 112 VALVERAISH 121

>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 = 72.3 bits (177), Expect = 9e-17
 Identities = 28/120 (23%), Positives = 50/120 (41%), Gaps = 14/120 (11%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKV 85
            ++ VL+VDDS + R+++  ++   S    V        A   +                
Sbjct: 2   SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLI-----------KKFNP 50

Query: 86  DLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPV 145
           D++  D  MP M G + L+K+     +  + V  ++ +     + R LE GA DF+ KP 
Sbjct: 51  DVLTLDVEMPRMDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTL-RALELGAIDFVTKPQ 109

>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 = 69.6 bits (170), Expect = 4e-16
 Identities = 32/126 (25%), Positives = 60/126 (47%), Gaps = 15/126 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            VL VDD+   R +++ ++T +  +      +GR A++            +  LK D++ 
Sbjct: 3   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEK-----------YKELKPDIVT 51

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  MP M G + +K+I          +++ S+    A +   ++ GA+DFIVKP + S 
Sbjct: 52  MDITMPEMNGIDAIKEIMKID--PNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSR 109

Query: 150 -VKRIK 154
            V+ + 
Sbjct: 110 VVEALN 115

>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 = 68.1 bits (166), Expect = 1e-15
 Identities = 33/129 (25%), Positives = 60/129 (46%), Gaps = 15/129 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           +L VDD      +I+  +T    +V    +GR AL+             +  + D+II D
Sbjct: 3   ILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQF-----------EAEQPDIIILD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +P + G E+ K I+       +P++++S+++        LE GA+D++ KP    +  
Sbjct: 52  LMLPEIDGLEVAKTIR---KTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQ 108

Query: 151 KRIKDYLTR 159
            R+K  L R
Sbjct: 109 ARVKALLRR 117

>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 = 67.4 bits (164), Expect = 6e-15
 Identities = 29/130 (22%), Positives = 58/130 (44%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V  +DD    RK +++ L ++   V++  S             +++ G       ++I+
Sbjct: 2   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASA-----------TEALAGLSADFAGIVIS 50

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  MPGM G  L +KI       ++P+++++    +    + ++DGA DFI KP      
Sbjct: 51  DIRMPGMDGLALFRKILALD--PDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRL 108

Query: 150 VKRIKDYLTR 159
           V+  +    +
Sbjct: 109 VQSARRAEEK 118

>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 = 66.6 bits (162), Expect = 7e-15
 Identities = 28/130 (21%), Positives = 55/130 (42%), Gaps = 15/130 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           H+L V+D  V R  ++ +       V     G    Q L               ++L+I 
Sbjct: 4   HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL-----------SEYDINLVIM 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +PG  G  L +++++ +    + ++ ++  +        LE GA+D+I KP    + 
Sbjct: 53  DINLPGKNGLLLARELREQA---NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPREL 109

Query: 150 VKRIKDYLTR 159
             R ++ L+R
Sbjct: 110 TIRARNLLSR 119

>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 = 66.2 bits (161), Expect = 9e-15
 Identities = 29/130 (22%), Positives = 59/130 (45%), Gaps = 15/130 (11%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           H++ V+D  V +  ++   T     V+   SG    + +               VDLI+ 
Sbjct: 3   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM-----------QNQSVDLILL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +P   G  L + +++      + +++++  +        LE GA+D++ KP++L + 
Sbjct: 52  DINLPDENGLMLTRALRER---STVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELREL 108

Query: 150 VKRIKDYLTR 159
           V R+K+ L R
Sbjct: 109 VVRVKNLLWR 118

>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 = 67.6 bits (164), Expect = 2e-14
 Identities = 29/131 (22%), Positives = 59/131 (45%), Gaps = 16/131 (12%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAV-DSGRRALQFLGLDEEQSINGFDGLKVDLII 89
            VL  +D  + R  +  +L     ++      G+ A++             +  K DL+I
Sbjct: 5   RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVEL-----------AELHKPDLVI 53

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  MP   G +   +I    + R  P+V++++ +    ++R  + GA  ++VKP  +SD
Sbjct: 54  MDVKMPRRDGIDAASEIA---SKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISD 110

Query: 150 -VKRIKDYLTR 159
            +  I+  ++R
Sbjct: 111 LIPAIELAVSR 121

>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 = 65.5 bits (159), Expect = 2e-14
 Identities = 30/130 (23%), Positives = 55/130 (42%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            V  VDD    R+ +  LL  +  +V   D     L+    ++              ++ 
Sbjct: 4   TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQH-----------GCLVL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  MPGM+G EL +++   S    IP+V +++   +    R ++ GA +F+ KP +    
Sbjct: 53  DMRMPGMSGIELQEQLTAIS--DGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQAL 110

Query: 150 VKRIKDYLTR 159
           +  I+  L  
Sbjct: 111 LDAIEQGLQL 120

>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 = 64.3 bits (156), Expect = 5e-14
 Identities = 32/133 (24%), Positives = 58/133 (43%), Gaps = 14/133 (10%)

Query: 28  EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDL 87
           ++  V  VDD    RK +  +LT++   V    S    L F              ++  +
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFA-----------PDVRNGV 50

Query: 88  IITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKL 147
           ++TD  MP M+G ELL+ + D      IP ++++    +      ++ GA DFI KP + 
Sbjct: 51  LVTDLRMPDMSGVELLRNLGDLK--INIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFED 108

Query: 148 SD-VKRIKDYLTR 159
           +  ++ I+     
Sbjct: 109 TVIIEAIERASEH 121

>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 = 62.4 bits (151), Expect = 4e-13
 Identities = 27/130 (20%), Positives = 49/130 (37%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL VDD+    + +   L +    V   D  +  +               G  VDL+I 
Sbjct: 15  RVLIVDDNERQAQRVAAELGVEHRPVIESDPEKAKI-------------SAGGPVDLVIV 61

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           +       G      ++     R++PV+ M   +   R+ + LE G  D + +P+   + 
Sbjct: 62  NAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQEL 121

Query: 150 VKRIKDYLTR 159
             R+K  + R
Sbjct: 122 SARVKTQIQR 131

>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 = 61.6 bits (149), Expect = 5e-13
 Identities = 31/130 (23%), Positives = 57/130 (43%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD      +++  L  S   V     G  AL+             +  K DLI+ 
Sbjct: 4   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKK-----------AETEKPDLIVL 52

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +P + G E+ K+++        P++++++++        LE GA+D++ KP    + 
Sbjct: 53  DVMLPKLDGIEVCKQLRQQK--LMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREV 110

Query: 150 VKRIKDYLTR 159
             R+K  L R
Sbjct: 111 NARVKAILRR 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 = 61.6 bits (149), Expect = 5e-13
 Identities = 36/130 (27%), Positives = 61/130 (46%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            VL VDD       +ER L +S  +V     G  AL+    +           + D I+ 
Sbjct: 3   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATEN-----------RPDAIVL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  MP + G  ++  ++      ++PV ++S+ + +      LE GA+D++VKP  L++ 
Sbjct: 52  DINMPVLDGVSVVTALRAMD--NDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAEL 109

Query: 150 VKRIKDYLTR 159
           V R+K  L R
Sbjct: 110 VARVKALLRR 119

>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 = 60.5 bits (146), Expect = 1e-12
 Identities = 30/129 (23%), Positives = 57/129 (44%), Gaps = 15/129 (11%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D    R+ +   L     +V   ++ +R L                 K DLII D
Sbjct: 3   VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEA-----------ATRKPDLIILD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +P   G E ++ ++       +PV+++S+ +  +     L+ GA+D++ KP  + +  
Sbjct: 52  LGLPDGDGIEFIRDLRQW---SAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQ 108

Query: 151 KRIKDYLTR 159
            R++  L R
Sbjct: 109 ARLRVALRR 117

>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 = 62.0 bits (149), Expect = 1e-12
 Identities = 15/120 (12%), Positives = 27/120 (22%), Gaps = 18/120 (15%)

Query: 25  SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLK 84
               E+ VL ++        +   L    C V        A                   
Sbjct: 7   GSLRELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFDVP--------------- 51

Query: 85  VDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKP 144
           VD++ T                          +V +      A + + +E      I +P
Sbjct: 52  VDVVFTSIFQNRHHDEIAALLAA---GTPRTTLVALVEYESPAVLSQIIELECHGVITQP 108

>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 = 60.8 bits (147), Expect = 2e-12
 Identities = 31/130 (23%), Positives = 60/130 (46%), Gaps = 14/130 (10%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
           +VL ++D  V R ++E  L++   KV + + G+ A + L                ++++ 
Sbjct: 2   NVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKHF-----------NVVLL 50

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +P + G E+LK IK+ S   E  V++++    +      ++ GA DF+ KP  L + 
Sbjct: 51  DLLLPDVNGLEILKWIKERS--PETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEI 108

Query: 150 VKRIKDYLTR 159
              I   +  
Sbjct: 109 ELTINKAIEH 118

>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 = 59.7 bits (144), Expect = 2e-12
 Identities = 23/129 (17%), Positives = 58/129 (44%), Gaps = 14/129 (10%)

Query: 32  VLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITD 91
           VL V+D+ + R  ++  +  +  +V   +  + A  +L           +    D+ I D
Sbjct: 3   VLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYL-----------NEHIPDIAIVD 51

Query: 92  YCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-V 150
             +P   G  L+++ + +     +P++++++          L  GA+D++ KP  + + +
Sbjct: 52  LGLPDEDGLSLIRRWRSND--VSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVM 109

Query: 151 KRIKDYLTR 159
            R++  + R
Sbjct: 110 ARMQALMRR 118

>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 = 60.3 bits (145), Expect = 2e-12
 Identities = 36/130 (27%), Positives = 59/130 (45%), Gaps = 12/130 (9%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +L VDD   + +++E  LT    +V+    G  AL                   D+I+ 
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAM-----------AARDLPDIILL 51

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  MPGM G+ + +K+KD    R IPVV++++ +      + LE GA DF+ KP+     
Sbjct: 52  DVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVML 111

Query: 150 VKRIKDYLTR 159
             R++     
Sbjct: 112 FARVRSLTRF 121

>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 = 59.0 bits (142), Expect = 5e-12
 Identities = 29/131 (22%), Positives = 56/131 (42%), Gaps = 14/131 (10%)

Query: 30  VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLII 89
           V VL V+D      +I   L      V     G   +                   D++I
Sbjct: 2   VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMA-----------LNEPFDVVI 50

Query: 90  TDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD 149
            D  +P   G+E+LK +++S      PV+++++ + +    + L  GA+D++ KP  L +
Sbjct: 51  LDIMLPVHDGWEILKSMRESG--VNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRE 108

Query: 150 -VKRIKDYLTR 159
            + R++  + R
Sbjct: 109 LIARVRALIRR 119

>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 = 57.0 bits (137), Expect = 2e-11
 Identities = 28/130 (21%), Positives = 57/130 (43%), Gaps = 17/130 (13%)

Query: 31  HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIIT 90
            +  VDD     K +   L     +V    +G   L      +E++          +++ 
Sbjct: 4   KIAVVDDDKNILKKVSEKLQ-QLGRVKTFLTGEDFLN-----DEEAF--------HVVVL 49

Query: 91  DYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD- 149
           D  +P  +GYE+ + IK++    E  V++++  +    + +  E GA+D++ KP      
Sbjct: 50  DVMLPDYSGYEICRMIKETR--PETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEIL 107

Query: 150 VKRIKDYLTR 159
           + R+K +L R
Sbjct: 108 LARVKRFLER 117

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	233
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	99.96
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.96
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.95
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.95
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.95
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.95
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.95
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.95
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.95
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.95
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.95
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.94
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.94
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.94
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.94
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.94
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.94
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.94
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.94
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.94
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.94
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.94
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.94
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.94
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.94
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.93
d1s8na_	190	Probable two-component system transcriptional regu	99.93
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.93
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.93
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.93
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.92
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	99.91
d1a2oa1	140	Methylesterase CheB, N-terminal domain {Salmonella	99.9
d1qo0d_	189	Positive regulator of the amidase operon AmiR {Pse	99.85
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	96.67
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	96.29
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	95.58
d1r8ja2	135	N-terminal domain of the circadian clock protein K	94.38
d1dxea_	253	2-dehydro-3-deoxy-galactarate aldolase {Escherichi	92.74
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	92.08
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	89.62
d1id1a_	153	Rck domain from putative potassium channel Kch {Es	88.04
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	87.57
d1izca_	299	Macrophomate synthase {Macrophoma commelinae [TaxI	87.15
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	83.94
d1zh8a1	181	Hypothetical protein TM0312 {Thermotoga maritima [	83.45
d1o4ua1	170	Quinolinic acid phosphoribosyltransferase (Nicotin	83.41
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	83.15
d1xm3a_	251	Thiazole biosynthesis protein ThiG {Bacillus subti	81.49

>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=99.96  E-value=5.3e-28  Score=178.54  Aligned_cols=117  Identities=21%  Similarity=0.412  Sum_probs=109.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ||||||||++..+..++.+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         1 mrILvVDDd~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l-----------~~~~~dliilD~~mP~~~G~e~~~~i~~~   69 (119)
T d2pl1a1           1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYL-----------NEHIPDIAIVDLGLPDEDGLSLIRRWRSN   69 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEECSCCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhcccceeehhccCCCchhHHHHHHHHhc
Confidence            6899999999999999999999999999999999999999           45679999999999999999999999997


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|+|++|+..+.+...+++++||++||.||++.++|...++.+.+
T Consensus        70 ~~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lr  117 (119)
T d2pl1a1          70 DV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (119)
T ss_dssp             TC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             Cc--ccceEeeeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHc
Confidence            65  8999999999999999999999999999999999999877766654

>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=99.96  E-value=1.1e-27  Score=177.89  Aligned_cols=119  Identities=26%  Similarity=0.401  Sum_probs=110.7

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +..+||||||++..++.++.+|+..||+|..+.++++|++.+           ...+||+||+|+.||++||++++++||
T Consensus         2 ~~~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~-----------~~~~~dlvi~D~~mp~~~G~e~~~~lr   70 (123)
T d1dbwa_           2 QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFA-----------PDVRNGVLVTDLRMPDMSGVELLRNLG   70 (123)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHG-----------GGCCSEEEEEECCSTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hhcCCcEEEEeccCccccchHHHHHHH
Confidence            568999999999999999999999999999999999999998           556899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|+|++|++.+.+...++++.|+++||.||++.++|...+++..+
T Consensus        71 ~~~~--~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~e  120 (123)
T d1dbwa_          71 DLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASE  120 (123)
T ss_dssp             HTTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHT
T ss_pred             hcCC--CCeEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            8765  8999999999999999999999999999999999999877766543

>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=99.95  E-value=2.4e-27  Score=175.43  Aligned_cols=118  Identities=27%  Similarity=0.418  Sum_probs=110.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      |||||||++..++.+..+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|++++++||+..
T Consensus         2 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l-----------~~~~~dlil~D~~mp~~~G~~l~~~lr~~~   70 (121)
T d1zesa1           2 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQL-----------NEPWPDLILLDWMLPGGSGIQFIKHLKRES   70 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHS-----------SSSCCSEEEECSSCTTSCHHHHHHHHHHST
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEECChHHHHHHH-----------HccCCCEEEeecCCCCCCHHHHHHHHHhCc
Confidence            699999999999999999999999999999999999998           567899999999999999999999999877


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ....+|+|++|++.+.....++++.|+++|+.||++.++|...++.+.+
T Consensus        71 ~~~~~pvi~lt~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lr  119 (121)
T d1zesa1          71 MTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR  119 (121)
T ss_dssp             TTTTSCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            7778999999999999999999999999999999999999877766554

>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=99.95  E-value=9e-28  Score=182.18  Aligned_cols=119  Identities=25%  Similarity=0.404  Sum_probs=109.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .+||||||++.++..+..+|+..||.+..+.++.+|++.+           ..+.||+||+|+.||+++|++++++||+.
T Consensus         1 P~ILiVDDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l-----------~~~~~dlil~D~~mP~~~G~el~~~lr~~   69 (140)
T d1qkka_           1 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGL-----------SADFAGIVISDIRMPGMDGLALFRKILAL   69 (140)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTC-----------CTTCCSEEEEESCCSSSCHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEeCChHHHHHHH-----------hccCcchHHHhhccCCCCHHHHHHHHHHh
Confidence            4799999999999999999999999999999999999998           66789999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      .+  .+|||++|++.+.+...+|++.||+|||.||++.++|...++...+..
T Consensus        70 ~~--~~pvI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~~  119 (140)
T d1qkka_          70 DP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKR  119 (140)
T ss_dssp             CT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHHH
Confidence            65  899999999999999999999999999999999999977666655443

>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=99.95  E-value=8.8e-28  Score=180.69  Aligned_cols=124  Identities=27%  Similarity=0.541  Sum_probs=114.0

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           25 SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        25 ~~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      ++.+.++||||||++..++.+..+|+..||+|..+.++.+|++.+           ...+||+||+|+.||+++|+++++
T Consensus         4 ~~~~~~~ILiVDD~~~~~~~l~~~L~~~g~~v~~a~~g~ea~~~~-----------~~~~~dlillD~~mP~~dG~el~~   72 (133)
T d2ayxa1           4 SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-----------SKNHIDIVLSDVNMPNMDGYRLTQ   72 (133)
T ss_dssp             CCCCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHH-----------HHSCCSEEEEEESSCSSCCHHHHH
T ss_pred             CCCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEECcHHHHHHHH-----------hccCceEEEEeccCCCCCHHHHHH
Confidence            455789999999999999999999999999999999999999998           456799999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +||+...  .+|||++|++.+.+...++++.|+++||.||++.++|.+.+..+.++.
T Consensus        73 ~ir~~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~r~  127 (133)
T d2ayxa1          73 RIRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERV  127 (133)
T ss_dssp             HHHHHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCC--CCCEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            9999865  899999999999999999999999999999999999988777666544

>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=99.95  E-value=2e-27  Score=177.79  Aligned_cols=124  Identities=23%  Similarity=0.413  Sum_probs=113.5

Q ss_pred             CCCCcEEEEEeCCHHHHHHHHHHHhhcCC-EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           26 DTEEVHVLAVDDSFVDRKVIERLLTISSC-KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        26 ~~~~~~ILIVddd~~~~~~l~~~L~~~g~-~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      ..+++|||||||++..+..+..+|+..|| .|..+.++++|++.+           .+..||+||+|++||++||+++++
T Consensus         3 ~~~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l-----------~~~~~dlii~D~~mP~~~G~el~~   71 (129)
T d1p6qa_           3 LAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM-----------AQNPHHLVISDFNMPKMDGLGLLQ   71 (129)
T ss_dssp             CSSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHH-----------HTSCCSEEEECSSSCSSCHHHHHH
T ss_pred             CCCCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHH-----------HhCCCCeEEeeeecCCCChHHHHH
Confidence            34689999999999999999999999999 578899999999999           456899999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .||+......+|||++|++.+.+...++++.|+++||.||++.++|...++.+...
T Consensus        72 ~lr~~~~~~~~pii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~~  127 (129)
T d1p6qa_          72 AVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             HHTTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             HHHhCcccCCCeEEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            99987777789999999999999999999999999999999999998887776543

>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=99.95  E-value=1.5e-27  Score=177.06  Aligned_cols=119  Identities=29%  Similarity=0.444  Sum_probs=110.5

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++-+|||||||+..+..++.+|+..||+|..+.++.+|++.+           ....||+||+|+.||+++|++++++||
T Consensus         2 ~k~~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~l-----------~~~~~dlii~D~~mp~~~G~el~~~l~   70 (123)
T d1krwa_           2 QRGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAAL-----------ASKTPDVLLSDIRMPGMDGLALLKQIK   70 (123)
T ss_dssp             CCCEEEEESSSHHHHHHHHHHHHHTTCEEEEESSSHHHHHHH-----------TTCCCSEEEECCSSSSSTTHHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhCCCCEEEehhhcCCchHHHHHHHHH
Confidence            456899999999999999999999999999999999999999           567899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +..+  .+|||++|++.+.+...++++.|+++||.||++.++|...++++.+
T Consensus        71 ~~~~--~~piI~~t~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~  120 (123)
T d1krwa_          71 QRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (123)
T ss_dssp             HHSS--SCCEEESCCCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHH
T ss_pred             HhCC--CCeEEEEecCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHH
Confidence            8765  8999999999999999999999999999999999999777665544

>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=99.95  E-value=3.1e-27  Score=175.05  Aligned_cols=117  Identities=25%  Similarity=0.374  Sum_probs=109.0

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      +||||||||+..++.++.+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|+++++++|+.
T Consensus         2 irILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l-----------~~~~~dlillD~~mp~~~g~~~~~~lr~~   70 (122)
T d1kgsa2           2 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMA-----------LNEPFDVVILDIMLPVHDGWEILKSMRES   70 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHH-----------HhhCccccccccccccchhHHHHHHHHhc
Confidence            7999999999999999999999999999999999999998           45689999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..  .+|||++|++.+.....+++++|+++||.||++.++|...++.+.+
T Consensus        71 ~~--~~piI~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~  118 (122)
T d1kgsa2          71 GV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIR  118 (122)
T ss_dssp             TC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEcCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHH
Confidence            65  8999999999999999999999999999999999999777666554

>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=99.95  E-value=5.1e-27  Score=173.21  Aligned_cols=114  Identities=26%  Similarity=0.412  Sum_probs=106.9

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      |||||||++..+..++.+|+..||+|..+.++.+|++.+           ...+||+||+|+.||+++|++++++||+..
T Consensus         3 rILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~-----------~~~~~dlillD~~mP~~~G~el~~~lr~~~   71 (119)
T d1peya_           3 KILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV-----------TKERPDLVLLDMKIPGMDGIEILKRMKVID   71 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESCCTTCCHHHHHHHHHHHC
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHH-----------HhCCCCEEEEeccCCCCCHHHHHHHHHHhC
Confidence            799999999999999999999999999999999999998           445799999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      +  .+|||++|++.+.+...+++++|+++||.||++.++|...++++
T Consensus        72 ~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~  116 (119)
T d1peya_          72 E--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKY  116 (119)
T ss_dssp             T--TCEEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             C--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Confidence            5  89999999999999999999999999999999999998776654

>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=99.95  E-value=1.6e-27  Score=176.46  Aligned_cols=117  Identities=28%  Similarity=0.403  Sum_probs=108.4

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .|||||||++..++.+..+|+..||+|..+.++.+|++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         2 PkILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~-----------~~~~~dlvl~D~~mP~~~G~el~~~ir~~   70 (121)
T d1ys7a2           2 PRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSA-----------TENRPDAIVLDINMPVLDGVSVVTALRAM   70 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESSCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhCCCCEEEEEeeccCcccHHHHHHHHhc
Confidence            4899999999999999999999999999999999999999           45679999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..  .+|||++|++.+.+...+++++|+++||.||++.++|...++.+.+
T Consensus        71 ~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  118 (121)
T d1ys7a2          71 DN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLR  118 (121)
T ss_dssp             TC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            65  8999999999998989999999999999999999999877766554

>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=99.94  E-value=1.5e-27  Score=180.29  Aligned_cols=118  Identities=25%  Similarity=0.483  Sum_probs=109.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      ||||||||++..+..++.+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|++++++||+.
T Consensus         1 mkILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eAl~~l-----------~~~~~dlvilD~~mp~~~G~e~~~~lr~~   69 (137)
T d1ny5a1           1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL-----------SEKHFNVVLLDLLLPDVNGLEILKWIKER   69 (137)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEecCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHh-----------hccccccchHHHhhhhhhHHHHHHHHHHh
Confidence            6899999999999999999999999999999999999998           44579999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .+  .+|||++|++.+.+...+++++||+|||.||++.++|...+.++.+.
T Consensus        70 ~~--~~piI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  118 (137)
T d1ny5a1          70 SP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH  118 (137)
T ss_dssp             CT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            65  89999999999999999999999999999999999997766655443

>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=99.94  E-value=1.2e-26  Score=170.68  Aligned_cols=115  Identities=28%  Similarity=0.427  Sum_probs=106.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      |||||||++..+..+..+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|++++++|++..
T Consensus         2 rILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~-----------~~~~~dlillD~~mp~~~G~~~~~~i~~~~   70 (117)
T d2a9pa1           2 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQF-----------EAEQPDIIILDLMLPEIDGLEVAKTIRKTS   70 (117)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEECSSCSSSCHHHHHHHHHTTC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhcCCCEEEeccccCCCCccHHHHHHHhCC
Confidence            699999999999999999999999999999999999999           456799999999999999999999999753


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                         .+|||++|+..+.....+++++|++|||.||++.++|...++.+.+
T Consensus        71 ---~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lr  116 (117)
T d2a9pa1          71 ---SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR  116 (117)
T ss_dssp             ---CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             ---CCCEEEEecCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhC
Confidence               7899999999999999999999999999999999999877766544

>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=99.94  E-value=1.7e-26  Score=170.87  Aligned_cols=117  Identities=22%  Similarity=0.420  Sum_probs=108.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ..+||||||++..++.+..+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|+++++.+|+
T Consensus         2 tp~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l-----------~~~~~dlii~D~~mp~~~G~~~~~~~r~   70 (121)
T d1xhfa1           2 TPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL-----------SEYDINLVIMDINLPGKNGLLLARELRE   70 (121)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHH-----------HHSCCSEEEECSSCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEECChHHHHHHH-----------HhcCCCEEEeecccCCccCcHHHHHHHh
Confidence            35999999999999999999999999999999999999999           4568999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..   .+|||++|++.+.....+++++|++|||.||++.++|...++.+.+
T Consensus        71 ~~---~~pii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~  118 (121)
T d1xhfa1          71 QA---NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  118 (121)
T ss_dssp             HC---CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             cC---CCcEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            63   7999999999999999999999999999999999999776666544

>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=99.94  E-value=6.5e-27  Score=173.52  Aligned_cols=118  Identities=28%  Similarity=0.412  Sum_probs=104.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      |||||||++..++.+..+|+..||+|..+.++.+|++.+.           ...||+||+|+.||++||++++++||+..
T Consensus         3 rILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~-----------~~~~dlil~D~~mp~~dG~el~~~ir~~~   71 (123)
T d1mb3a_           3 KVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIAR-----------ENKPDLILMDIQLPEISGLEVTKWLKEDD   71 (123)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHH-----------HHCCSEEEEESBCSSSBHHHHHHHHHHST
T ss_pred             eEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hCCCCEEEEEeccCCCcHHHHHHHHHhCC
Confidence            6999999999999999999999999999999999999983           45799999999999999999999999987


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ....+|+|++|+........+++++|+++||.||++.++|...++.+.+
T Consensus        72 ~~~~iPii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~  120 (123)
T d1mb3a_          72 DLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE  120 (123)
T ss_dssp             TTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHS
T ss_pred             CcCCCCeEEEEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            7779999999999988888999999999999999999999877766654

>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=99.94  E-value=7.6e-27  Score=172.25  Aligned_cols=115  Identities=25%  Similarity=0.396  Sum_probs=106.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhccC
Q 026776           31 HVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDSS  110 (233)
Q Consensus        31 ~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~  110 (233)
                      +||||||++..++.++.+|+..||+|..+.++++|++.+           ....||+||+|+.||+++|++++++||+..
T Consensus         2 nILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l-----------~~~~~dliilD~~mP~~~G~e~~~~ir~~~   70 (119)
T d1zh2a1           2 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEA-----------ATRKPDLIILDLGLPDGDGIEFIRDLRQWS   70 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESEETTEEHHHHHHHHHTTC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhcCCCEEEeccccCCCCCchHHHHHHhcc
Confidence            699999999999999999999999999999999999999           445799999999999999999999999753


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          111 ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                         ..|+|++|+..+.+...++++.||++||.||++.++|...++.+.+
T Consensus        71 ---~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr  116 (119)
T d1zh2a1          71 ---AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  116 (119)
T ss_dssp             ---CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             ---CCcEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence               6799999999999999999999999999999999999877666554

>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=99.94  E-value=8.4e-27  Score=172.46  Aligned_cols=117  Identities=25%  Similarity=0.364  Sum_probs=107.7

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      -|||||||++.+++.++.+|+..||+|..+.++++|++.+           ...+||+||+|+.||+++|+++++++|..
T Consensus         3 krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l-----------~~~~~dlillD~~mp~~~G~~~~~~~r~~   71 (121)
T d1mvoa_           3 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKA-----------ETEKPDLIVLDVMLPKLDGIEVCKQLRQQ   71 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESSCSSSCHHHHHHHHHHT
T ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcccccEEEecccccCCCCchhhhhhhcc
Confidence            3799999999999999999999999999999999999999           44579999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..  ..|||++|+..+.+...+++++|+++||.||++.++|...++.+.+
T Consensus        72 ~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lr  119 (121)
T d1mvoa_          72 KL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILR  119 (121)
T ss_dssp             TC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             CC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            65  7899999999988888999999999999999999999877666554

>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=99.94  E-value=3.6e-26  Score=168.73  Aligned_cols=118  Identities=22%  Similarity=0.363  Sum_probs=108.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +.|||||||++..++.+..+|+..||+|..+.+++++++.+           ..+.||+||+|+.||+++|+++++.+|.
T Consensus         1 P~rILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~-----------~~~~~dliilD~~mp~~~g~~~~~~~~~   69 (120)
T d1zgza1           1 PHHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM-----------QNQSVDLILLDINLPDENGLMLTRALRE   69 (120)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHSCCSEEEEESCCSSSCHHHHHHHHHT
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------HhcCCCEEeeehhhccchhHHHHHHHhc
Confidence            46899999999999999999999999999999999999998           4568999999999999999999999987


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ..   .+|+|++|++.+.....+++++||+|||.||++.++|...++.+.++
T Consensus        70 ~~---~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrR  118 (120)
T d1zgza1          70 RS---TVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  118 (120)
T ss_dssp             TC---CCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cC---CCeEEEEEccCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            53   78999999999999999999999999999999999998777666554

>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=99.94  E-value=4e-26  Score=170.46  Aligned_cols=123  Identities=26%  Similarity=0.431  Sum_probs=108.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +|||||||++.+++.++.+|+..|+. |..+.+|++|++.++....      ....||+||+|+.||++||++++++||+
T Consensus         2 irVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~------~~~~~dlillD~~mP~~dG~el~~~ir~   75 (128)
T d2r25b1           2 VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTS------KGENYNMIFMDVQMPKVDGLLSTKMIRR   75 (128)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHH------HTCCCSEEEECSCCSSSCHHHHHHHHHH
T ss_pred             eEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhh------ccCCCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            78999999999999999999999985 7889999999998853211      2457999999999999999999999987


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ... ..+|||++|++.+.....+++++|+++||.||++.++|.++++.+..
T Consensus        76 ~~~-~~~piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  125 (128)
T d2r25b1          76 DLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCA  125 (128)
T ss_dssp             HSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCT
T ss_pred             ccC-CCCeEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            543 37899999999999999999999999999999999999888876654

>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=99.94  E-value=2.6e-26  Score=169.11  Aligned_cols=115  Identities=29%  Similarity=0.447  Sum_probs=106.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      .|||||||++..++.++.+|+..||+|. .+.++.+|++.+           .+..||+||+|+.||+++|++++++||+
T Consensus         2 krILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~-----------~~~~~dliilD~~mp~~~G~e~~~~ir~   70 (118)
T d1u0sy_           2 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKY-----------KELKPDIVTMDITMPEMNGIDAIKEIMK   70 (118)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHH-----------HHHCCSEEEEECSCGGGCHHHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHH-----------HhccCCEEEEecCCCCCCHHHHHHHHHH
Confidence            5899999999999999999999999876 689999999998           3457999999999999999999999998


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      ..+  .+|||++|++.+.+...++++.||++||.||++.++|.+.++++
T Consensus        71 ~~~--~~pvi~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          71 IDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             HCT--TCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             hCC--CCcEEEEEccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            765  89999999999999999999999999999999999998877654

>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=99.94  E-value=3.2e-26  Score=173.29  Aligned_cols=120  Identities=32%  Similarity=0.433  Sum_probs=110.8

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      -|||||||++..++.++.+|+..||+|..+.++.+|++.+           ..+.||+||+|+.||+++|+++++.+|..
T Consensus         2 arILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~-----------~~~~~dlil~D~~~p~~~G~~~~~~ir~~   70 (139)
T d1w25a1           2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMA-----------ARDLPDIILLDVMMPGMDGFTVCRKLKDD   70 (139)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHH-----------HHHCCSEEEEESCCSSSCHHHHHHHHHHS
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEEccchhhhhhh-----------hcccceeeeeeccccCCCchHHHHHhhhc
Confidence            4899999999999999999999999999999999999998           45579999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      .....+|||++|++.+.....+++++|++|||.||++..+|...++.+.+.
T Consensus        71 ~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr~  121 (139)
T d1w25a1          71 PTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRF  121 (139)
T ss_dssp             TTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ccccCCCEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            777799999999999999999999999999999999999997766665543

>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=99.94  E-value=2.1e-25  Score=169.76  Aligned_cols=129  Identities=23%  Similarity=0.358  Sum_probs=112.9

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      +.+||||||++..++.++.+|+..|  ++|..+.+|.+|++.++...+.    .....||+||+|++||+++|++++++|
T Consensus         3 pk~ILiVdD~~~~~~~l~~~L~~~g~~~~v~~a~~g~~Al~~l~~~~~~----~~~~~pdlIllD~~mP~~~G~el~~~i   78 (144)
T d1i3ca_           3 PKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY----ENSPRPNLILLDLNLPKKDGREVLAEI   78 (144)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG----TTCCCCSEEEECSCCSSSCHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHhchhh----hccCCCCEEEEECccccccchHHHHHH
Confidence            4689999999999999999998766  5889999999999999532211    123469999999999999999999999


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      |+......+|||++|++.+.+...+|+++||++||.||++.++|.+.++.+.+.+
T Consensus        79 r~~~~~~~iPvi~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~l~~~~  133 (144)
T d1i3ca_          79 KQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESFW  133 (144)
T ss_dssp             HHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HhCcccCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            9987777899999999999999999999999999999999999988877776643

>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=99.94  E-value=9.6e-26  Score=170.87  Aligned_cols=128  Identities=27%  Similarity=0.371  Sum_probs=112.6

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      -|||||||++..++.++.+|+..|  |+|..+.+|.+|++.+....+.    .....||+||+|++||++||++++++||
T Consensus         3 krILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~----~~~~~pdlillD~~mP~~dG~el~~~ir   78 (140)
T d1k68a_           3 KKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEY----ANASRPDLILLDLNLPKKDGREVLAEIK   78 (140)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGG----GSCCCCSEEEECSSCSSSCHHHHHHHHH
T ss_pred             CcEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHhHHh----hccCCCCEEEEeeccccccChHHHHHHH
Confidence            379999999999999999999876  6899999999999998543221    1345699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRDV  161 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~~  161 (233)
                      +......+|||++|++.+.+...+++++|+++||.||++.++|...++.+.+..
T Consensus        79 ~~~~~~~iPvI~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~i~~~~  132 (140)
T d1k68a_          79 SDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEFW  132 (140)
T ss_dssp             HSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             hCcccCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            987767899999999999999999999999999999999999988887776653

>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=99.94  E-value=1.4e-26  Score=172.88  Aligned_cols=118  Identities=24%  Similarity=0.363  Sum_probs=109.0

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      +.+|||||||+.+++.+..+|+..||.|..+.++++|++.+           ....||+||+|+.||+++|+++++.++.
T Consensus         2 kP~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~-----------~~~~~dliilD~~mp~~~G~~~~~~i~~   70 (128)
T d1yioa2           2 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHR-----------RPEQHGCLVLDMRMPGMSGIELQEQLTA   70 (128)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHC-----------CTTSCEEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCccccccHHHHHHHH-----------HhcCCCEeehhhhcccchhHHHHHHHHh
Confidence            35999999999999999999999999999999999999998           5678999999999999999999999999


Q ss_pred             cCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          109 SSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ..+  ..||+++|++++.+...++++.|+++||.||++.++|...++.+.+
T Consensus        71 ~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  119 (128)
T d1yioa2          71 ISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQ  119 (128)
T ss_dssp             TTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             hCC--CCeEEEEEEECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            876  8999999999988888999999999999999999999776665544

>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=99.94  E-value=1.4e-25  Score=168.72  Aligned_cols=123  Identities=25%  Similarity=0.475  Sum_probs=109.5

Q ss_pred             CCCCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           25 SDTEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        25 ~~~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      ++.+++|||||||++.++..++.+|+.+||++..+.++.+|++.+            ...||+||+|++||++||+++++
T Consensus         3 ~d~~g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l------------~~~~dlillD~~mP~~dG~el~~   70 (134)
T d1dcfa_           3 SNFTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVV------------SHEHKVVFMDVCMPGVENYQIAL   70 (134)
T ss_dssp             CCCTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHC------------CTTCSEEEEECCSSTTTTTHHHH
T ss_pred             CCCCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHh------------hcCCCeEEEEeccCCCchHHHHH
Confidence            455789999999999999999999999999999999999999976            24699999999999999999999


Q ss_pred             HHhccC---CCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          105 KIKDSS---ALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       105 ~Lr~~~---~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +||+..   ....+|||++|++.+.+...+++++|+++||.||++.++|...+..+.+
T Consensus        71 ~ir~~~~~~~~~~~~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~  128 (134)
T d1dcfa_          71 RIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE  128 (134)
T ss_dssp             HHHHHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHS
T ss_pred             HHHHhcccccCCCCeEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhh
Confidence            998532   2346789999999999999999999999999999999999887766543

>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=99.93  E-value=1.4e-25  Score=169.55  Aligned_cols=119  Identities=25%  Similarity=0.450  Sum_probs=108.4

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ++++||||||++.+++.++.+|+..|  +.|..+.++.++++.+           ...+||+||+|+.||++||++++++
T Consensus         1 ePi~VLiVDD~~~~r~~l~~~L~~~~~~~~v~~a~~~~~al~~~-----------~~~~~DlvllD~~mP~~~G~el~~~   69 (138)
T d1a04a2           1 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELA-----------ESLDPDLILLDLNMPGMNGLETLDK   69 (138)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHH-----------HHHCCSEEEEETTSTTSCHHHHHHH
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHH-----------HhcCCCEEEEecCCCCCCHHHHHHH
Confidence            36899999999999999999998876  5677899999999998           4457999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      ||+..+  ..++|++|++.+.+...+++++||++||.||++.++|.+.++.+.+
T Consensus        70 ir~~~~--~~~vivlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~  121 (138)
T d1a04a2          70 LREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA  121 (138)
T ss_dssp             HHHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHH
T ss_pred             HHhhCC--CCCEEEEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHC
Confidence            998765  8999999999999999999999999999999999999888776654

>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=99.93  E-value=5.2e-26  Score=180.70  Aligned_cols=115  Identities=23%  Similarity=0.370  Sum_probs=105.4

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEE-EECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVT-AVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~-~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      ++|||||||++.++..++.+|+..||+++ .+.++.+|++.+           ....||+||+|++||++||+++++.||
T Consensus         3 p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~-----------~~~~pDlvllDi~mP~~dG~e~~~~ir   71 (190)
T d1s8na_           3 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELA-----------ELHKPDLVIMDVKMPRRDGIDAASEIA   71 (190)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHH-----------HHHCCSEEEEESSCSSSCHHHHHHHHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHH-----------hcCCCCEEEEeccccCcchHHHHHHHH
Confidence            68999999999999999999999999875 689999999998           456899999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      +..   .+|||++|++.+.+...+|+++||+|||.||++.++|...+...
T Consensus        72 ~~~---~~pIi~lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~  118 (190)
T d1s8na_          72 SKR---IAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELA  118 (190)
T ss_dssp             HTT---CSCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHH
T ss_pred             hcC---CCCEEEEeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHH
Confidence            863   68999999999999999999999999999999999987655443

>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=99.93  E-value=3.4e-25  Score=169.53  Aligned_cols=132  Identities=27%  Similarity=0.407  Sum_probs=112.9

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCC--EEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSC--KVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~--~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      ..-+||||||++..+..++.+|+..|+  +|..+.+|.+|++.+...... .+......||+||+|++||++||++++++
T Consensus         5 ~~~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~-~~~~~~~~pdlillD~~mP~~~G~el~~~   83 (149)
T d1k66a_           5 ATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSY-CNPDIAPRPAVILLDLNLPGTDGREVLQE   83 (149)
T ss_dssp             TTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSS-SCGGGCCCCSEEEECSCCSSSCHHHHHHH
T ss_pred             CCCcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhccc-cccccccCCCeEEccccccCCCcHHHHHH
Confidence            345799999999999999999999987  789999999999998532110 00112346999999999999999999999


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhhh
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTRD  160 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~~  160 (233)
                      ||+......+|||++|++.+.+...+++++|+++||.||++.++|...++.+.+.
T Consensus        84 ir~~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  138 (149)
T d1k66a_          84 IKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKY  138 (149)
T ss_dssp             HTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HHhccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            9988766799999999999999999999999999999999999998777766654

>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=99.93  E-value=2.4e-25  Score=164.33  Aligned_cols=114  Identities=21%  Similarity=0.289  Sum_probs=103.3

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhcc
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKDS  109 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~~  109 (233)
                      .|||||||++..++.++.+|+..|+ +..+.++.++++             ....||+||+|+.||+++|+++++++|..
T Consensus         3 ~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~-------------~~~~~dlillD~~mP~~~G~~~~~~lr~~   68 (120)
T d1p2fa2           3 WKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLN-------------DEEAFHVVVLDVMLPDYSGYEICRMIKET   68 (120)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHH-------------CCSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHh-------------cCCCCCEEEEeCcccccchhHHHHHHhhc
Confidence            6899999999999999999999886 888999999876             23469999999999999999999999987


Q ss_pred             CCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          110 SALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       110 ~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      .+  .+|||++|+..+.+...+|++.||+|||.||++.++|...++.+.+
T Consensus        69 ~~--~~~ii~it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  116 (120)
T d1p2fa2          69 RP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLE  116 (120)
T ss_dssp             CT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            65  8999999999999999999999999999999999999777666554

>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=99.93  E-value=1.6e-25  Score=165.95  Aligned_cols=118  Identities=19%  Similarity=0.350  Sum_probs=104.2

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcC-CE-EEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISS-CK-VTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g-~~-v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +|||||||++..++.++.+|+..| +. |..+.+|.+|++.+           ....||+||+|+.||++||++++++||
T Consensus         2 irILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~-----------~~~~~dlillD~~mP~~dG~e~~~~ir   70 (123)
T d1dz3a_           2 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQML-----------EEKRPDILLLDIIMPHLDGLAVLERIR   70 (123)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHH-----------HHHCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHH-----------HhcCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            799999999999999999998876 44 55799999999998           445799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHhh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLTR  159 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~~  159 (233)
                      +... ...+||++|++.+.....+++++||++||.||++.++|...++.+.+
T Consensus        71 ~~~~-~~~~ii~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~~  121 (123)
T d1dz3a_          71 AGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  121 (123)
T ss_dssp             HHCS-SCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             hcCC-CCCeEEEEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            7544 24679999999999999999999999999999999999877766543

>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=99.92  E-value=1.4e-24  Score=166.84  Aligned_cols=118  Identities=20%  Similarity=0.293  Sum_probs=102.8

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      .+.|||||||++.+++.+...|+..||.|..  ++.+++..+           ....||+||+|+.||++||+++++.||
T Consensus        12 ~~~rILiVDD~~~~~~~l~~~L~~~g~~v~~--~~~~~~~~~-----------~~~~~DlillD~~mP~~dG~el~~~ir   78 (153)
T d1w25a2          12 LGGRVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKIS-----------AGGPVDLVIVNAAAKNFDGLRFTAALR   78 (153)
T ss_dssp             CSCEEEEECSCHHHHHHHHHHHTTTSEEEEE--CCHHHHHHH-----------HHSSCSEEEEETTCSSSCHHHHHHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEE--ccHHHHHHH-----------hcCCCCEEEEECccccccchHHHHHHH
Confidence            3569999999999999999999999998744  455666665           345799999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHHh
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYLT  158 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l~  158 (233)
                      .......+|||++|++.+.....+|+++||+|||.||++.++|...++.+.
T Consensus        79 ~~~~~~~iPiI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l  129 (153)
T d1w25a2          79 SEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQI  129 (153)
T ss_dssp             TSGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             hccccccceeEEeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHH
Confidence            877667999999999999999999999999999999999999975555443

>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=99.91  E-value=1.9e-24  Score=158.99  Aligned_cols=114  Identities=21%  Similarity=0.304  Sum_probs=97.6

Q ss_pred             CCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           28 EEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        28 ~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +++|||||||++..++.+..+|+..||+|..+.++.+|++.+.          +...||+||+|+.||+++|++++++||
T Consensus         1 qp~rILvVdDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~----------~~~~~dliilD~~lp~~~G~el~~~ir   70 (118)
T d2b4aa1           1 QPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRS----------QLSTCDLLIVSDQLVDLSIFSLLDIVK   70 (118)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGG----------GGGSCSEEEEETTCTTSCHHHHHHHHT
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHhcCCCeEEECCHHHHHHHHH----------hcCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            4689999999999999999999999999999999999998763          234699999999999999999999999


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHH
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDY  156 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~  156 (233)
                      +...  .+|||++|+..+.  ..++...|+ |||.||++.++|...++.
T Consensus        71 ~~~~--~~pii~lt~~~~~--~~~~~~~~~-dyl~KP~~~~eL~~~i~~  114 (118)
T d2b4aa1          71 EQTK--QPSVLILTTGRHE--LIESSEHNL-SYLQKPFAISELRAAIDY  114 (118)
T ss_dssp             TSSS--CCEEEEEESCC----CCCCSSSCE-EEEESSCCHHHHHHHHHH
T ss_pred             hcCC--CCcEEEEECCccH--HHHHhhcCC-CEEECCCCHHHHHHHHHH
Confidence            8754  8999999987653  334566676 899999999999766543

>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=99.90  E-value=6.3e-24  Score=160.71  Aligned_cols=107  Identities=27%  Similarity=0.344  Sum_probs=91.9

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcC--CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISS--CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g--~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      ++++|||||||++.+++.++.+|+..|  +.|..+.||.+|++.+           ....||+||+|+.||++||+++++
T Consensus         1 M~kirVLiVDD~~~~r~~l~~~L~~~g~~~~v~~a~~g~~al~~~-----------~~~~pDlvllDi~MP~~dG~e~~~   69 (140)
T d1a2oa1           1 MSKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLI-----------KKFNPDVLTLDVEMPRMDGLDFLE   69 (140)
T ss_dssp             CCCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHH-----------HHHCCSEEEEECCCSSSCHHHHHH
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHhCCCeEEEEEECCHHHHHHHH-----------HhcCCCEEEEcCCCCCCCHHHHHH
Confidence            357999999999999999999999988  4677899999999998           456799999999999999999999


Q ss_pred             HHhccCCCCCCcEEEEeCCC-cHHHHHHHHHcCCceEEeCCCC
Q 026776          105 KIKDSSALREIPVVIMSSEN-ILARIDRCLEDGAEDFIVKPVK  146 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~-~~~~~~~al~~Ga~dyL~KP~~  146 (233)
                      +||+..+  ...+++++... ..+...+|++.|+++||.||+.
T Consensus        70 ~ir~~~~--~~~i~i~~~~~~~~~~~~~al~~Ga~~yl~KP~~  110 (140)
T d1a2oa1          70 KLMRLRP--MPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQL  110 (140)
T ss_dssp             HHHHSSC--CCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSS
T ss_pred             HHHHhCC--CCcEEEEEecCCChHHHHHHHHcCCCEEEECCCC
Confidence            9998765  55666666554 3356778999999999999964

>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=99.85  E-value=1.6e-21  Score=153.91  Aligned_cols=113  Identities=14%  Similarity=0.102  Sum_probs=98.4

Q ss_pred             CCCcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           27 TEEVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        27 ~~~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      .+.++||||||++.+++.+...|+..||+|..+.++.+++               ...||+||+|++||+++|..+.+..
T Consensus         9 l~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al---------------~~~~Dlvl~D~~mp~~~~~~~~~~~   73 (189)
T d1qo0d_           9 LRELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF---------------DVPVDVVFTSIFQNRHHDEIAALLA   73 (189)
T ss_dssp             GGGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC---------------SSCCSEEEEECCSSTHHHHHHHHHH
T ss_pred             ccCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhc---------------cCCCCEEEEcCCCCCcHHHHHHHHH
Confidence            4578999999999999999999999999999998887664               3469999999999998887665544


Q ss_pred             hccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHHHHHHH
Q 026776          107 KDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKRIKDYL  157 (233)
Q Consensus       107 r~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~~~l  157 (233)
                      + ..+  .+|||++|++.+.+.+.+|++.|+++||.||++.++|...+..+
T Consensus        74 ~-~~p--~~pvI~lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~  121 (189)
T d1qo0d_          74 A-GTP--RTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSA  121 (189)
T ss_dssp             H-SCT--TCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHH
T ss_pred             H-cCC--CCCEEEEeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhc
Confidence            4 444  89999999999999999999999999999999999987666544

>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=96.67  E-value=0.012  Score=43.55  Aligned_cols=121  Identities=13%  Similarity=0.076  Sum_probs=79.2

Q ss_pred             CCCcEEEEE----eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--
Q 026776           27 TEEVHVLAV----DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--   97 (233)
Q Consensus        27 ~~~~~ILIV----ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--   97 (233)
                      .++.+|++.    |-+..-...+..+|+..||+|...   .+.++..+..           ....+|+|.+...+...  
T Consensus        35 gr~pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa-----------~~~~advI~iSs~~~~~~~  103 (168)
T d7reqa2          35 GRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQA-----------VEADVHVVGVSSLAGGHLT  103 (168)
T ss_dssp             SSCCEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHH-----------HHHTCSEEEEEECSSCHHH
T ss_pred             CCCCeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHH-----------HccCCCEEEEecCcccchH
Confidence            456788887    557777888999999999999874   4777888777           34579999998655532  


Q ss_pred             CHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHHHHhhh
Q 026776           98 TGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDYLTRD  160 (233)
Q Consensus        98 ~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~~l~~~  160 (233)
                      .--++++.|++... .+++|+ +.+.--..+.....+.|+++++..--...+ ...+++.+..+
T Consensus       104 ~~~~l~~~L~~~g~-~~v~Vi-vGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e~a~~~~~~~~~~  165 (168)
T d7reqa2         104 LVPALRKELDKLGR-PDILIT-VGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKLRAS  165 (168)
T ss_dssp             HHHHHHHHHHHTTC-TTSEEE-EEESCCGGGHHHHHHHTEEEEECTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-CCeEEE-EeCCCCHHHHHHHHhCCCCEEECcCCCHHHHHHHHHHHHHHH
Confidence            23456777777642 344444 433222344456778999997654444444 34555555443

>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=96.29  E-value=0.034  Score=39.54  Aligned_cols=115  Identities=13%  Similarity=0.053  Sum_probs=76.9

Q ss_pred             CCcEEEE--E--eCCHHHHHHHHHHHhhcCCEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCC--
Q 026776           28 EEVHVLA--V--DDSFVDRKVIERLLTISSCKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMT--   98 (233)
Q Consensus        28 ~~~~ILI--V--ddd~~~~~~l~~~L~~~g~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~--   98 (233)
                      ++-+|++  +  |-+..-...+..+|+..||+|...   ...++.++.+           ....+|+|.+...|....  
T Consensus         2 ~k~kVvi~~~~gD~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~-----------~~~~~d~v~lS~~~~~~~~~   70 (137)
T d1ccwa_           2 EKKTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAA-----------IETKADAILVSSLYGQGEID   70 (137)
T ss_dssp             CCCEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHH-----------HHHTCSEEEEEECSSTHHHH
T ss_pred             CCCEEEEEecCCChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHH-----------HhcCCCEEEEeeccccchHH
Confidence            3456666  4  445666778888999999999864   4777888877           456799999998887532  


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCC----C-cHHHHHHHHHcCCceEEeCCCCHHHHHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSE----N-ILARIDRCLEDGAEDFIVKPVKLSDVKRIK  154 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~----~-~~~~~~~al~~Ga~dyL~KP~~~~eL~~~~  154 (233)
                      .-++++.||+.. ..+++|++=-.-    . ......+..+.|++..+......+++...+
T Consensus        71 ~~~~~~~l~~~~-~~~i~iivGG~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l  130 (137)
T d1ccwa_          71 CKGLRQKCDEAG-LEGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADL  130 (137)
T ss_dssp             HTTHHHHHHHTT-CTTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHhc-cCCCEEEEeCCcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHH
Confidence            234566676654 236776654321    2 234455666889998888777777765443

>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=95.58  E-value=0.12  Score=37.50  Aligned_cols=116  Identities=10%  Similarity=0.029  Sum_probs=75.8

Q ss_pred             CCcEEEEE----eCCHHHHHHHHHHHhhcC---------CEEEEE---CCHHHHHHHhhhhhhhhccCCCCCcccEEEEc
Q 026776           28 EEVHVLAV----DDSFVDRKVIERLLTISS---------CKVTAV---DSGRRALQFLGLDEEQSINGFDGLKVDLIITD   91 (233)
Q Consensus        28 ~~~~ILIV----ddd~~~~~~l~~~L~~~g---------~~v~~a---~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD   91 (233)
                      ++++|++.    |-+..=...+..+|+..|         |+|...   -..++.++.+           ..+.+|+|-+.
T Consensus        18 r~~~vv~~~~g~D~HdiG~~iv~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~a-----------~e~~~d~VglS   86 (160)
T d1xrsb1          18 RKIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKA-----------VELEADVLLVS   86 (160)
T ss_dssp             SCEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHH-----------HHTTCSEEEEE
T ss_pred             CCcEEEEEEeCCcHHHHHHHHHHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHHH-----------HhcCCCEEEEe
Confidence            45666644    445666677888888888         788753   3677777777           45689999999


Q ss_pred             CCCCCCCH-----HHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHHHHH-HHHHH
Q 026776           92 YCMPGMTG-----YELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSDVKR-IKDYL  157 (233)
Q Consensus        92 ~~mp~~~g-----~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~eL~~-~~~~l  157 (233)
                      .-|....+     -++++.|++......++|++=-..-+.+   -+.+.|+|.|...-....++.. ++..+
T Consensus        87 ~l~t~~~~h~~~~~~~i~~l~~~g~~d~v~vivGG~~~~~~---~a~~~GaD~~f~~g~~a~~~a~~l~~~l  155 (160)
T d1xrsb1          87 QTVTQKNVHIQNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVKTL  155 (160)
T ss_dssp             CCCCTTSHHHHHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHHHH
T ss_pred             ecccccchhHHHHHHHHHHHHHcCCCCceEEEEcCCCCCHH---HHHHcCCCEEcCCCCCHHHHHHHHHHHH
Confidence            98876543     3566777776432234444433333433   3567899999988777777654 33343

>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=94.38  E-value=0.39  Score=33.61  Aligned_cols=83  Identities=11%  Similarity=0.173  Sum_probs=65.6

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHhc
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIKD  108 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr~  108 (233)
                      ++.|.+.=.++.....++++|....|.+..+.++++.++.+..         ..+++|++|+--.  +.+-..+..+|++
T Consensus         4 ~LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~---------~~e~iDcLVl~~~--~~~l~~l~~qL~~   72 (135)
T d1r8ja2           4 QIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQT---------HRDQIDCLILVAA--NPSFRAVVQQLCF   72 (135)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHH---------STTSCSEEEEETT--STTHHHHHHHHHH
T ss_pred             eEEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHh---------CcccCCEEEEEec--CCccHHHHHHHHh
Confidence            5778888889999999999998888999999999999999964         4567999886221  3444566788888


Q ss_pred             cCCCCCCcEEEEeCCC
Q 026776          109 SSALREIPVVIMSSEN  124 (233)
Q Consensus       109 ~~~~~~~piIvlt~~~  124 (233)
                      .+.  -.|.|++....
T Consensus        73 ~Gl--LlPaViv~~~~   86 (135)
T d1r8ja2          73 EGV--VVPAIVVGDRD   86 (135)
T ss_dssp             TTC--CCCEEEESCCC
T ss_pred             cCc--cccEEEEecCC
Confidence            765  78999886443

>d1dxea_ c.1.12.5 (A:) 2-dehydro-3-deoxy-galactarate aldolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: HpcH/HpaI aldolase
domain: 2-dehydro-3-deoxy-galactarate aldolase
species: Escherichia coli [TaxId: 562]

Probab=92.74  E-value=1.5  Score=33.88  Aligned_cols=75  Identities=13%  Similarity=0.057  Sum_probs=55.7

Q ss_pred             CCCcccEEEEcCCCCCCCHHHHHHHHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEeCCCCHHH-HHHHHHH
Q 026776           81 DGLKVDLIITDYCMPGMTGYELLKKIKDSSALREIPVVIMSSENILARIDRCLEDGAEDFIVKPVKLSD-VKRIKDY  156 (233)
Q Consensus        81 ~~~~~DlvllD~~mp~~~g~~ll~~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~~~e-L~~~~~~  156 (233)
                      ....||.|++|++-...+--++...++..... .+..++=....+...+.++++.|+++.+.--+...+ .+++++.
T Consensus        34 a~~G~Dfv~iD~EHg~~~~~~~~~~i~a~~~~-g~~~~VRvp~~~~~~i~~~LD~Ga~GIivP~v~s~eea~~~v~~  109 (253)
T d1dxea_          34 GLAGFDWLVLDGEHAPNDISTFIPQLMALKGS-ASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETKEEAELAVAS  109 (253)
T ss_dssp             TTSCCSEEEEESSSSSCCHHHHHHHHHHTTTC-SSEEEEECSSSCHHHHHHHHHTTCCEEEESCCCSHHHHHHHHHT
T ss_pred             HcCCCCEEEEecccCCCChhHHHHHHHHHhcc-CCCceecCCCCCHHHHHHHHhcCccEEEecccCCHHHHHHHHHh
Confidence            34569999999998888888887777776543 444444455678899999999999999997766444 4455443

>d3bula2 c.23.6.1 (A:741-896) Methionine synthase, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methionine synthase, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.08  E-value=0.29  Score=35.26  Aligned_cols=94  Identities=13%  Similarity=0.206  Sum_probs=62.2

Q ss_pred             eCCHHHHHHHHHHHhhcCCEEEEEC---CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCC-C-CHHHHHHHHhccC
Q 026776           36 DDSFVDRKVIERLLTISSCKVTAVD---SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPG-M-TGYELLKKIKDSS  110 (233)
Q Consensus        36 ddd~~~~~~l~~~L~~~g~~v~~a~---~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~-~-~g~~ll~~Lr~~~  110 (233)
                      |-+..=...+..+|+..||+|....   ..++.++.+           ..+.+|+|.+..-|.. + .-.++++.|++..
T Consensus        17 D~HdiG~~iv~~~l~~~G~~Vi~LG~~~p~e~~~~~~-----------~~~~~d~i~lS~l~~~~~~~~~~~~~~l~~~g   85 (156)
T d3bula2          17 DVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTA-----------KEVNADLIGLSGLITPSLDEMVNVAKEMERQG   85 (156)
T ss_dssp             CCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHH-----------HHHTCSEEEEECCSTHHHHHHHHHHHHHHHTT
T ss_pred             ChhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-----------HhhCCCEEEEecccccchHHHHHHHHHHHhcc
Confidence            4456667788888999999998743   677777777           4567999999988874 2 2346677778765


Q ss_pred             CCCCCcEEEEeCCCcHHHHHHHH---HcCCceEEe
Q 026776          111 ALREIPVVIMSSENILARIDRCL---EDGAEDFIV  142 (233)
Q Consensus       111 ~~~~~piIvlt~~~~~~~~~~al---~~Ga~dyL~  142 (233)
                      .  +.++++-.+.........-.   -.|++.|-.
T Consensus        86 ~--~~~vivGG~~~~~~~~~~~~~~~y~gad~ya~  118 (156)
T d3bula2          86 F--TIPLLIGGATTSKAHTAVKIEQNYSGPTVYVQ  118 (156)
T ss_dssp             C--CSCEEEESTTCCHHHHHHHTGGGCSSCEEECC
T ss_pred             c--cceEEEecccccchHHHhhhccccccceeecc
Confidence            5  67776655544444332211   136665553

>d1qpoa1 c.1.17.1 (A:117-285) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.62  E-value=0.26  Score=36.00  Aligned_cols=93  Identities=16%  Similarity=0.097  Sum_probs=61.1

Q ss_pred             EEEEeCCHHHHHHHHHHHhh---cC---CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLLTI---SS---CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK  105 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~---~g---~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~  105 (233)
                      |||-|++-.....+...++.   ..   .-.+.+++.+++.+.+.            ..+|+|++| +|...+--++++.
T Consensus        53 ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv~s~~q~~~a~~------------~~~diImLD-N~sp~~~k~~v~~  119 (169)
T d1qpoa1          53 ALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLP------------EKPELILLD-NFAVWQTQTAVQR  119 (169)
T ss_dssp             EEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGG------------GCCSEEEEE-TCCHHHHHHHHHH
T ss_pred             EEeehhHHhHhcchhhhhhhhhhhcCCCceEEEeccHHHhhhhhh------------cCCcEEEec-CcChHhHHHHHHH
Confidence            77777776655555544432   21   24456899999998872            358999999 4443344455666


Q ss_pred             HhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceE
Q 026776          106 IKDSSALREIPVVIMSSENILARIDRCLEDGAEDF  140 (233)
Q Consensus       106 Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dy  140 (233)
                      ++...   ...++-.++.-+.+.+.+....|+|-.
T Consensus       120 ~~~~~---~~i~lEaSGgI~~~ni~~ya~~GvD~I  151 (169)
T d1qpoa1         120 RDSRA---PTVMLESSGGLSLQTAATYAETGVDYL  151 (169)
T ss_dssp             HHHHC---TTCEEEEESSCCTTTHHHHHHTTCSEE
T ss_pred             hhccC---CeeEEEEeCCCCHHHHHHHHHcCCCEE
Confidence            66543   335666777777777888888998754

>d1id1a_ c.2.1.9 (A:) Rck domain from putative potassium channel Kch {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Potassium channel NAD-binding domain
domain: Rck domain from putative potassium channel Kch
species: Escherichia coli [TaxId: 562]

Probab=88.04  E-value=1.8  Score=30.09  Aligned_cols=98  Identities=12%  Similarity=0.035  Sum_probs=54.2

Q ss_pred             CcEEEEEeCCHHHHHHHHHHHhhcCCEEEEEC-CHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           29 EVHVLAVDDSFVDRKVIERLLTISSCKVTAVD-SGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        29 ~~~ILIVddd~~~~~~l~~~L~~~g~~v~~a~-~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      +..|.+||.++.........+...|+.+...+ +-.+.|+.+.           -...+.+++-..- +..-+.++..+|
T Consensus        26 ~~~v~vId~d~~~~~~~~~~~~~~~~~vi~Gd~~d~~~L~~a~-----------i~~a~~vi~~~~~-d~~n~~~~~~~r   93 (153)
T d1id1a_          26 GQNVTVISNLPEDDIKQLEQRLGDNADVIPGDSNDSSVLKKAG-----------IDRCRAILALSDN-DADNAFVVLSAK   93 (153)
T ss_dssp             TCCEEEEECCCHHHHHHHHHHHCTTCEEEESCTTSHHHHHHHT-----------TTTCSEEEECSSC-HHHHHHHHHHHH
T ss_pred             CCCEEEEeccchhHHHHHHHhhcCCcEEEEccCcchHHHHHhc-----------cccCCEEEEcccc-HHHHHHHHHHHH
Confidence            35577777766443333333444566665533 2234555542           2346777765422 223445555666


Q ss_pred             ccCCCCCCcEEEEeCCCcHHHHHHHHHcCCceEEe
Q 026776          108 DSSALREIPVVIMSSENILARIDRCLEDGAEDFIV  142 (233)
Q Consensus       108 ~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~dyL~  142 (233)
                      +..+  ...+|+.+...  +......++|++.++.
T Consensus        94 ~~~~--~~~iia~~~~~--~~~~~l~~~Gad~vi~  124 (153)
T d1id1a_          94 DMSS--DVKTVLAVSDS--KNLNKIKMVHPDIILS  124 (153)
T ss_dssp             HHTS--SSCEEEECSSG--GGHHHHHTTCCSEEEC
T ss_pred             HhCC--CCceEEEEcCH--HHHHHHHHCCCCEEEC
Confidence            6544  77788776554  4444566889986654

>d7reqb2 c.23.6.1 (B:476-638) Methylmalonyl-CoA mutase beta 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 beta subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=87.57  E-value=0.39  Score=34.74  Aligned_cols=108  Identities=11%  Similarity=0.059  Sum_probs=64.8

Q ss_pred             CCcEEEEE--eCC---HHHHHHHHHHHhhcCCEEEEE--CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCC--C
Q 026776           28 EEVHVLAV--DDS---FVDRKVIERLLTISSCKVTAV--DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGM--T   98 (233)
Q Consensus        28 ~~~~ILIV--ddd---~~~~~~l~~~L~~~g~~v~~a--~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~--~   98 (233)
                      ++.+|+|+  ...   ..-......+|...||++...  -+..++.+..           .....|+|++-..+...  -
T Consensus        34 ~rP~v~la~lG~~a~h~ara~f~~n~f~~gGfev~~~~~~~~~e~v~aa-----------~~~~a~vvvicssd~~y~~~  102 (163)
T d7reqb2          34 ERPKVFLACLGTRRDFGGREGFSSPVWHIAGIDTPQVEGGTTAEIVEAF-----------KKSGAQVADLCSSAKVYAQQ  102 (163)
T ss_dssp             SCCBCEEEECSCHHHHHHHHHHHHHHHHHTTCBCCEEESCCHHHHHHHH-----------HHHTCSEEEEECCHHHHHHH
T ss_pred             CCCeEEEEcCCChhhhhhHHHHHHHHHHccCeeeccCCCCCcHHHHHHH-----------HhCCCCEEEEecCccchHHH
Confidence            45666665  333   233445677888889877652  2445555555           23457877775433222  1


Q ss_pred             HHHHHHHHhccCCCCCCcEEEEeCC-CcHHHHHHHHHcCCceEEeCCCCHHHH
Q 026776           99 GYELLKKIKDSSALREIPVVIMSSE-NILARIDRCLEDGAEDFIVKPVKLSDV  150 (233)
Q Consensus        99 g~~ll~~Lr~~~~~~~~piIvlt~~-~~~~~~~~al~~Ga~dyL~KP~~~~eL  150 (233)
                      .-++++.||+...  .  ++++.+. ........+.++|+|+|+.--.+.-+.
T Consensus       103 ~~~~~~aLk~ag~--~--~~vlaGg~~~~~d~~~l~~aGVd~~i~~G~d~~~~  151 (163)
T d7reqb2         103 GLEVAKALKAAGA--K--ALYLSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDT  151 (163)
T ss_dssp             HHHHHHHHHHTTC--S--EEEEESCGGGGGGGHHHHHHHCCEEECTTCCHHHH
T ss_pred             HHHHHHHHHhccc--c--eeEEEecCCCcccHHHHHhCCCCeEecCCCcHHHH
Confidence            3368889988653  3  3344443 333444567789999999988766554

>d1izca_ c.1.12.5 (A:) Macrophomate synthase {Macrophoma commelinae [TaxId: 108330]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Phosphoenolpyruvate/pyruvate domain
family: HpcH/HpaI aldolase
domain: Macrophomate synthase
species: Macrophoma commelinae [TaxId: 108330]

Probab=87.15  E-value=4.9  Score=31.54  Aligned_cols=106  Identities=15%  Similarity=0.153  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhhcC---CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHH---HhccCCCCC
Q 026776           41 DRKVIERLLTISS---CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKK---IKDSSALRE  114 (233)
Q Consensus        41 ~~~~l~~~L~~~g---~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~---Lr~~~~~~~  114 (233)
                      ++..|+..+...+   +-++..-......+.+           ....||.|++|++-...|--++...   ++..... .
T Consensus        27 ~r~~l~~~~~~~~~~~~G~~~~~~s~~~~e~~-----------a~~g~D~v~iD~EHg~~~~~~~~~~i~a~~~~~~~-~   94 (299)
T d1izca_          27 LRQALKDAMADPSKTLMGVAHGIPSTFVTKVL-----------AATKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEG-R   94 (299)
T ss_dssp             HHHHHHHHHHCGGGCEEEEEECSCCHHHHHHH-----------HHTCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTT-C
T ss_pred             HHHHHHHHhhccCCceeeeeccCCCHHHHHHH-----------HcCCCCEEEEcCCCCCCCHHHHHHHHHHHHHhCCC-C
Confidence            4667777665432   2223322223334444           2346999999999887775555444   4432221 2


Q ss_pred             CcEEEEeCCCcHHHHHHHHHcCCceEEeCCCC-HHHHHHHHHHHh
Q 026776          115 IPVVIMSSENILARIDRCLEDGAEDFIVKPVK-LSDVKRIKDYLT  158 (233)
Q Consensus       115 ~piIvlt~~~~~~~~~~al~~Ga~dyL~KP~~-~~eL~~~~~~l~  158 (233)
                      ++.++=....+...+.+++++|+++++.--++ .++.+++++.+.
T Consensus        95 ~~~iVRvp~~~~~~I~~~LD~Ga~GIivP~V~s~eea~~~v~~~r  139 (299)
T d1izca_          95 SLVIVRVPKHDEVSLSTALDAGAAGIVIPHVETVEEVREFVKEMY  139 (299)
T ss_dssp             SEEEEECCTTCHHHHHHHHHHTCSEEEETTCCCHHHHHHHHHHHS
T ss_pred             CCeEEeCCCCChHHHHHHHHhCcCeeeccccccHHHHHHHHHhhh
Confidence            33333345567888999999999999986655 455666666553

>d2fhpa1 c.66.1.46 (A:1-182) Putative methylase EF2452 {Enterococcus faecalis [TaxId: 1351]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methylase EF2452
species: Enterococcus faecalis [TaxId: 1351]

Probab=83.94  E-value=3.6  Score=29.66  Aligned_cols=71  Identities=21%  Similarity=0.250  Sum_probs=50.1

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCC--EE-EEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHH
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSC--KV-TAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKI  106 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~--~v-~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~L  106 (233)
                      -+|..||-+......+++.++..+.  .+ ....+....++.+..         ....||+|++|---...+..+++..|
T Consensus        65 ~~v~~ve~~~~a~~~~~~N~~~~~~~~~~~i~~~D~~~~l~~~~~---------~~~~fDlIflDPPY~~~~~~~~l~~i  135 (182)
T d2fhpa1          65 DKSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYE---------EKLQFDLVLLDPPYAKQEIVSQLEKM  135 (182)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHH---------TTCCEEEEEECCCGGGCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhhcccccccccccchhhhhhhcc---------cCCCcceEEechhhhhhHHHHHHHHH
Confidence            4799999999999999988876552  22 345677777766532         34579999999633345677788887


Q ss_pred             hcc
Q 026776          107 KDS  109 (233)
Q Consensus       107 r~~  109 (233)
                      .+.
T Consensus       136 ~~~  138 (182)
T d2fhpa1         136 LER  138 (182)
T ss_dssp             HHT
T ss_pred             HHC
Confidence            553

>d1zh8a1 c.2.1.3 (A:4-131,A:276-328) Hypothetical protein TM0312 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: Hypothetical protein TM0312
species: Thermotoga maritima [TaxId: 2336]

Probab=83.45  E-value=4.7  Score=28.64  Aligned_cols=46  Identities=17%  Similarity=0.275  Sum_probs=31.9

Q ss_pred             CCcEEEEeCCC--cHHHHHHHHHcCCceEEeCCC--CHHHHHHHHHHHhh
Q 026776          114 EIPVVIMSSEN--ILARIDRCLEDGAEDFIVKPV--KLSDVKRIKDYLTR  159 (233)
Q Consensus       114 ~~piIvlt~~~--~~~~~~~al~~Ga~dyL~KP~--~~~eL~~~~~~l~~  159 (233)
                      .+-+++++...  ..+.+..+++.|.+=|+.||+  +.+++.++.+...+
T Consensus        67 ~id~v~I~tp~~~h~~~~~~al~~gk~V~~EKPl~~~~~e~~~l~~~~~~  116 (181)
T d1zh8a1          67 LVDAVDLTLPVELNLPFIEKALRKGVHVICEKPISTDVETGKKVVELSEK  116 (181)
T ss_dssp             CCSEEEECCCGGGHHHHHHHHHHTTCEEEEESSSSSSHHHHHHHHHHHHH
T ss_pred             ccceeeccccccccccccccccccchhhhcCCCCcCCHHHHHHHHHHHHH
Confidence            34444444433  467788999999999999997  56667777666554

>d1o4ua1 c.1.17.1 (A:104-273) Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Nicotinate/Quinolinate PRTase C-terminal domain-like
family: NadC C-terminal domain-like
domain: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=83.41  E-value=0.27  Score=35.98  Aligned_cols=92  Identities=15%  Similarity=0.118  Sum_probs=58.1

Q ss_pred             EEEEeCCHHHHHHHHHHHhh----cC---CEEEEECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHH
Q 026776           32 VLAVDDSFVDRKVIERLLTI----SS---CKVTAVDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLK  104 (233)
Q Consensus        32 ILIVddd~~~~~~l~~~L~~----~g---~~v~~a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~  104 (233)
                      |||-|++-.+...+...++.    .+   .-.+.+++.+++.+.+.            ..+|+|++| +|...+--++.+
T Consensus        51 ilikdNHi~~~g~~~~~~~~~~~~~~~~~~I~VEv~~~~e~~~a~~------------~g~d~i~LD-n~~pe~~k~~~~  117 (170)
T d1o4ua1          51 VMIKDNHLKMYGSAERAVQEVRKIIPFTTKIEVEVENLEDALRAVE------------AGADIVMLD-NLSPEEVKDISR  117 (170)
T ss_dssp             EEECHHHHHHHSSHHHHHHHHHTTSCTTSCEEEEESSHHHHHHHHH------------TTCSEEEEE-SCCHHHHHHHHH
T ss_pred             eEEcccHHHHhccHHHHHHHHHhhCCCCceEEEEeCcHHHHHHHHh------------cCccEEEEc-CcChhhHhHHHH
Confidence            77777776655555555532    22   24456899999998873            358999999 343333345556


Q ss_pred             HHhccCCCCCCcEEEEeCCCcHHHHHHHHHcCCce
Q 026776          105 KIKDSSALREIPVVIMSSENILARIDRCLEDGAED  139 (233)
Q Consensus       105 ~Lr~~~~~~~~piIvlt~~~~~~~~~~al~~Ga~d  139 (233)
                      .++...+  . ..|-.++.-+.+.+.+....|+|-
T Consensus       118 ~lk~~~~--~-i~lEaSGGI~~~ni~~~a~~GVD~  149 (170)
T d1o4ua1         118 RIKDINP--N-VIVEVSGGITEENVSLYDFETVDV  149 (170)
T ss_dssp             HHHHHCT--T-SEEEEEECCCTTTGGGGCCTTCCE
T ss_pred             HHHhhCC--c-EEEEEECCCCHHHHHHHHHcCCCE
Confidence            6766543  3 455566666666666666788774

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=83.15  E-value=1.7  Score=31.43  Aligned_cols=68  Identities=12%  Similarity=0.115  Sum_probs=46.9

Q ss_pred             cEEEEEeCCHHHHHHHHHHHhhcCC-EEEE-ECCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCCHHHHHHHHh
Q 026776           30 VHVLAVDDSFVDRKVIERLLTISSC-KVTA-VDSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMTGYELLKKIK  107 (233)
Q Consensus        30 ~~ILIVddd~~~~~~l~~~L~~~g~-~v~~-a~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~g~~ll~~Lr  107 (233)
                      -+|..||-+....+.+++.++..+. .+.. ..+   +++.+..         ....||+|++|---.....-+++..|.
T Consensus        67 ~~v~~VE~~~~a~~~~k~N~~~~~~~~~~ii~~d---~~~~l~~---------~~~~fDlIf~DPPY~~~~~~~~l~~l~  134 (183)
T d2fpoa1          67 AGATLIEMDRAVSQQLIKNLATLKAGNARVVNSN---AMSFLAQ---------KGTPHNIVFVDPPFRRGLLEETINLLE  134 (183)
T ss_dssp             SEEEEECSCHHHHHHHHHHHHHTTCCSEEEECSC---HHHHHSS---------CCCCEEEEEECCSSSTTTHHHHHHHHH
T ss_pred             ceeEEEEEeechhhHHHHHHhhccccceeeeeec---ccccccc---------cccccCEEEEcCccccchHHHHHHHHH
Confidence            4799999999999999998877653 2222 233   4555532         345799999996444555677788776


Q ss_pred             cc
Q 026776          108 DS  109 (233)
Q Consensus       108 ~~  109 (233)
                      +.
T Consensus       135 ~~  136 (183)
T d2fpoa1         135 DN  136 (183)
T ss_dssp             HT
T ss_pred             HC
Confidence            64

>d1xm3a_ c.1.31.1 (A:) Thiazole biosynthesis protein ThiG {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: ThiG-like
family: ThiG-like
domain: Thiazole biosynthesis protein ThiG
species: Bacillus subtilis [TaxId: 1423]

Probab=81.49  E-value=1.6  Score=33.47  Aligned_cols=82  Identities=18%  Similarity=0.095  Sum_probs=55.2

Q ss_pred             HHHHhhcCCEEEEE--CCHHHHHHHhhhhhhhhccCCCCCcccEEEEcCCCCCCC-----HHHHHHHHhccCCCCCCcEE
Q 026776           46 ERLLTISSCKVTAV--DSGRRALQFLGLDEEQSINGFDGLKVDLIITDYCMPGMT-----GYELLKKIKDSSALREIPVV  118 (233)
Q Consensus        46 ~~~L~~~g~~v~~a--~~~~~al~~l~~~~~~~~~~~~~~~~DlvllD~~mp~~~-----g~~ll~~Lr~~~~~~~~piI  118 (233)
                      .+.|-+.||.|..+  +|..-+.++....             -.+++=+..|-.+     ....++.|++. .  ++|+|
T Consensus       118 ae~Lv~eGF~VlpY~~~D~v~ak~Le~~G-------------c~avMPlgsPIGSg~Gl~n~~~l~~i~~~-~--~vPvI  181 (251)
T d1xm3a_         118 SEQLLEEGFIVLPYTSDDVVLARKLEELG-------------VHAIMPGASPIGSGQGILNPLNLSFIIEQ-A--KVPVI  181 (251)
T ss_dssp             HHHHHHTTCCEEEEECSCHHHHHHHHHHT-------------CSCBEECSSSTTCCCCCSCHHHHHHHHHH-C--SSCBE
T ss_pred             HHHHHhCCcEEEEecCCCHHHHHHHHHcC-------------ChhHHHhhhhhhcCCCcCChHHHHHHHhc-C--CccEE
Confidence            34456788877654  4444444433111             1234455555333     34667888775 3  89999


Q ss_pred             EEeCCCcHHHHHHHHHcCCceEEeC
Q 026776          119 IMSSENILARIDRCLEDGAEDFIVK  143 (233)
Q Consensus       119 vlt~~~~~~~~~~al~~Ga~dyL~K  143 (233)
                      +=.+-+...++.++++.|+|++|..
T Consensus       182 vDAGIG~pSdAa~AMElG~daVLvN  206 (251)
T d1xm3a_         182 VDAGIGSPKDAAYAMELGADGVLLN  206 (251)
T ss_dssp             EESCCCSHHHHHHHHHTTCSEEEES
T ss_pred             EecCCCCHHHHHHHHHccCCEEEec
Confidence            9999999999999999999999985