Citrus Sinensis ID: 046192

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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-------
Protein Sequence
MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDINNDGLPDLEIV
Secondary Structure (PSIPRED)
cccccccccEEEEEcccHHHHHHHHHHHHccccEEEEEccHHHHHHHHcccccccccccccccccEEEEEcccccccHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEEccHHHHHHHHcccccccccccccccccEEEEEcccccccHHHHHHHHHHccccccccEEEEEccccHHHHHHHHHHccHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHEEEEcccccccccc
Coil and Loop (DISEMBL)
mgmvtdsqfHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGllnedeqtNSQVIQVNLIItdycmpgmtgYDLLRKIKesaslkdipvvimssenipsRINRCLEegaeefflkpvqladvnklkPHLMKGISkeikepnninnkrkgleeidsadrtrtrlndtidinndglpdleiv
Flexible Loop (DISEMBL)
mgmvtdsqfhvlavddsiidRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESaslkdipvvimssenipSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKgiskeikepnninnkrkgleeidsadrtrtrlndtidinndglpdleiv
Low Complexity Region (SEG)
MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISkeikepnninnkrkGLEEIDSADRTRTRLNDTIDINNDGLPDLEIV
Disordered region (IsUnstruct)
*******QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKP*****************************************************
Disordered Region (DISOPRED)
******S****LAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM*******************************************LPDLEIV
Disordered Region (DISEMBL)
********FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDINNDGLPDLEIV
Disordered Region (DISPRO)
******SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNE*******VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPN*INNKR*****IDSADRTRTRLNDTIDINNDGLPDLEIV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDINNDGLPDLEIV
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	187	2.2.26 [Sep-21-2011]
O80366	234	Two-component response re	yes	no	0.914	0.730	0.530	6e-60
O80365	225	Two-component response re	no	no	0.919	0.764	0.536	2e-58
O82798	259	Two-component response re	no	no	0.759	0.548	0.614	2e-46
Q9ZWS9	231	Two-component response re	no	no	0.764	0.619	0.601	4e-46
Q9ZWS7	206	Two-component response re	no	no	0.807	0.733	0.578	2e-44
Q9SB04	184	Two-component response re	no	no	0.754	0.766	0.602	2e-44
Q7G8V2	206	Two-component response re	no	no	0.786	0.713	0.571	2e-43
Q9FPR6	153	Two-component response re	no	no	0.700	0.856	0.611	4e-43
Q9SHC2	164	Two-component response re	no	no	0.705	0.804	0.592	4e-43
Q9ZWS6	186	Two-component response re	no	no	0.695	0.698	0.630	6e-43

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

 Score =  229 bits (585), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 121/228 (53%), Positives = 145/228 (63%), Gaps = 57/228 (25%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQ---- 56
           MGM  +SQFHVLAVDDS+ DRKLIERLL+ SS QVT VDSG+KALEFLGL    +     
Sbjct: 1   MGMAAESQFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQSTDSNDPN 60

Query: 57  ------TNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINR 110
                  N QV++VNLIITDYCMPGMTGYDLL+K+KES++ +DIPVVIMSSEN+P+RI+R
Sbjct: 61  AFSKAPVNHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSENVPARISR 120

Query: 111 CLEEGAEEFFLKPVQLADVNKLKPHLMK-------------------GISKEIKEPN--- 148
           CLEEGAEEFFLKPV+LAD+NKLKPH+MK                   G+   + +P    
Sbjct: 121 CLEEGAEEFFLKPVRLADLNKLKPHMMKTKLKNQKLEEIETTSKVENGVPTAVADPEIKD 180

Query: 149 -------------------------NINNKRKGLEEIDSADRTRTRLN 171
                                    +INNKRK +EE  S DR R R +
Sbjct: 181 STNIEIEILPLQQDLLLVQQEEQTLSINNKRKSVEEGISTDRARPRFD 228

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 =  224 bits (572), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 118/220 (53%), Positives = 144/220 (65%), Gaps = 48/220 (21%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS- 59
           M M T+S+FHVLAVDDS+ DRK+IERLL+ SS QVT VDSG+KALEFLGL  +D   N+ 
Sbjct: 1   MVMETESKFHVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNAL 60

Query: 60  -------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                  Q +++NLIITDYCMPGMTGYDLL+K+KESA+ + IPVVIMSSEN+P+RI+RCL
Sbjct: 61  STSPQIHQEVEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCL 120

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKG--------------------------------- 139
           EEGAEEFFLKPV+LAD+ KLKPH+MK                                  
Sbjct: 121 EEGAEEFFLKPVKLADLTKLKPHMMKTKLKKESEKPVAIEEIVVSKPEIEEEEEESSVIE 180

Query: 140 -------ISKEIKEPNNINNKRKGLEEIDSADRTRTRLND 172
                  I  E  EP   +NKRK +EE+ S DR+R + ND
Sbjct: 181 ILPLHQEIESEQLEPMLSSNKRKAMEEVVSTDRSRPKYND 220

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 =  185 bits (469), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 91/148 (61%), Positives = 120/148 (81%), Gaps = 6/148 (4%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           + HVLAVDDS++DR +IERLL+ +S +VTAVDSG +ALEFLGL NE        ++V+LI
Sbjct: 33  EVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGLDNEKASAEFDRLKVDLI 92

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           ITDYCMPGMTGY+LL+KIKES++ +++PVVIMSSEN+ +RI+RCLEEGA++F LKPV+LA
Sbjct: 93  ITDYCMPGMTGYELLKKIKESSNFREVPVVIMSSENVLTRIDRCLEEGAQDFLLKPVKLA 152

Query: 128 DVNKLKPHLMKGISKEIKEPNNINNKRK 155
           DV +L+ HL    +K++K  N   NKRK
Sbjct: 153 DVKRLRSHL----TKDVKLSN--GNKRK 174

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

 Score =  184 bits (466), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 89/148 (60%), Positives = 116/148 (78%), Gaps = 5/148 (3%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           Q HVLAVDDS++DR +IERLL+ +S +VTAVDSG +ALEFLGL ++        ++V+LI
Sbjct: 32  QVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGLDDDKAAVEFDRLKVDLI 91

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           ITDYCMPGMTGY+LL+KIKES S K++PVVIMSSEN+ +RI+RCLEEGAE+F LKPV+LA
Sbjct: 92  ITDYCMPGMTGYELLKKIKESTSFKEVPVVIMSSENVMTRIDRCLEEGAEDFLLKPVKLA 151

Query: 128 DVNKLKPHLMKGISKEIKEPNNINNKRK 155
           DV +L+ +L + +    +      NKRK
Sbjct: 152 DVKRLRSYLTRDVKVAAE-----GNKRK 174

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 =  178 bits (451), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 88/152 (57%), Positives = 121/152 (79%), Gaps = 1/152 (0%)

Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           VT  + HVLAVDDSI+DRK+IERLL+ SS +VT V+SG +AL++LGL      +N + ++
Sbjct: 19  VTTPELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGLDGGKGASNLKDLK 78

Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
           VNLI+TDY MPG++GYDLL+KIKES++ +++PVVIMSSENI  RI  CL+EGAEEF LKP
Sbjct: 79  VNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILPRIQECLKEGAEEFLLKP 138

Query: 124 VQLADVNKLKPHLMKGISKEIKEPNNINNKRK 155
           V+LADV ++K  +M+  ++E K  ++ +NKRK
Sbjct: 139 VKLADVKRIKQLIMRNEAEECKILSH-SNKRK 169

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 =  178 bits (451), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 91/151 (60%), Positives = 117/151 (77%), Gaps = 10/151 (6%)

Query: 9   FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQV----IQV 64
            HVLAVDDS++DRK IERLL+ SS +VT VDS  +AL++LGL   D + NS V    +++
Sbjct: 25  LHVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGL---DGENNSSVGFEDLKI 81

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           NLI+TDY MPGMTGY+LL+KIKES++ ++IPVVIMSSENI  RI+RCLEEGAE+F LKPV
Sbjct: 82  NLIMTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLLKPV 141

Query: 125 QLADVNKLKPHLMKGISKEIKEPNNINNKRK 155
           +LADV +L+  LMK   +  K   NI +KR+
Sbjct: 142 KLADVKRLRDSLMKAEERAFK---NIMHKRE 169

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 =  175 bits (444), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 84/147 (57%), Positives = 116/147 (78%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           + HVLAVDDS +DRK+IERLLK S+ +VT V+SG +AL++LGL  ++  +  + ++VNLI
Sbjct: 17  ELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGLKDLKVNLI 76

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           +TDY MPG+TGY+LL+KIKES++L++IPVVIMSSENI  RI +C+ EGAEEF LKPV+LA
Sbjct: 77  VTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFLLKPVKLA 136

Query: 128 DVNKLKPHLMKGISKEIKEPNNINNKR 154
           DV +LK  +M+G   E  +   ++ KR
Sbjct: 137 DVKRLKELIMRGGEAEEGKTKKLSPKR 163

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 =  174 bits (440), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 82/134 (61%), Positives = 114/134 (85%), Gaps = 3/134 (2%)

Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS--QVIQ 63
           + + HVLAVDD++IDRKL+ER+LK SS +VT  ++G +ALE+LGL  + +QT+S   V++
Sbjct: 17  EEELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGL-GDPQQTDSLTNVMK 75

Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
           VNLIITDYCMPGMTG++LL+K+KES++LK++PVVI+SSENIP+RIN+CL  GA+ F  KP
Sbjct: 76  VNLIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTRINKCLASGAQMFMQKP 135

Query: 124 VQLADVNKLKPHLM 137
           ++L+DV KLK HL+
Sbjct: 136 LKLSDVEKLKCHLL 149

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 =  174 bits (440), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 112/135 (82%), Gaps = 3/135 (2%)

Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS---QVI 62
           D + HVLAVDD++IDRKL+ERLLK S  +VT  ++  +ALE+LGL ++++  ++    V+
Sbjct: 26  DEELHVLAVDDNLIDRKLVERLLKISCCKVTTAENALRALEYLGLGDQNQHIDALTCNVM 85

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
           +V+LIITDYCMPGMTG++LL+K+KES++L+++PVVIMSSENIP+RIN+CL  GA+ F  K
Sbjct: 86  KVSLIITDYCMPGMTGFELLKKVKESSNLREVPVVIMSSENIPTRINKCLASGAQMFMQK 145

Query: 123 PVQLADVNKLKPHLM 137
           P++LADV KLK HLM
Sbjct: 146 PLKLADVEKLKCHLM 160

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

 Score =  173 bits (438), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 82/130 (63%), Positives = 107/130 (82%)

Query: 9   FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
            HVLAVDDS +DRK IERLL+ SS +VT VDS  +AL++LGL  E++    + ++VNLI+
Sbjct: 25  LHVLAVDDSHVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDVEEKSVGFEDLKVNLIM 84

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
           TDY MPGMTGY+LL+KIKES++ +++PVVIMSSENI  RI+RCLEEGAE+F LKPV+L+D
Sbjct: 85  TDYSMPGMTGYELLKKIKESSAFREVPVVIMSSENILPRIDRCLEEGAEDFLLKPVKLSD 144

Query: 129 VNKLKPHLMK 138
           V +L+  LMK
Sbjct: 145 VKRLRDSLMK 154

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	187
255544001	197	Two-component response regulator ARR8, p	0.925	0.878	0.693	1e-68
224075846	193	type-a response regulator [Populus trich	0.914	0.886	0.709	2e-68
309951232	193	putative A-type response regulator 4 [Po	0.909	0.880	0.713	2e-68
309951234	198	putative A-type response regulator 5 [Po	0.930	0.878	0.716	6e-67
224053258	203	type-a response regulator [Populus trich	0.930	0.857	0.697	2e-66
388506210	174	unknown [Lotus japonicus]	0.903	0.971	0.736	3e-64
225465885	220	PREDICTED: two-component response regula	0.909	0.772	0.634	2e-63
356555024	179	PREDICTED: two-component response regula	0.909	0.949	0.687	8e-63
357515051	177	Two-component response regulator ARR8 [M	0.898	0.949	0.687	8e-63
296090338	170	unnamed protein product [Vitis vinifera]	0.737	0.811	0.829	1e-62

>gi|255544001|ref|XP_002513063.1| Two-component response regulator ARR8, putative [Ricinus communis] gi|223548074|gb|EEF49566.1| Two-component response regulator ARR8, putative [Ricinus communis]

 Score =  264 bits (674), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 140/202 (69%), Positives = 154/202 (76%), Gaps = 29/202 (14%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGL---------- 50
           MGM  DSQFHVLAVDDS+IDRKLIERLLKTSS+ VTAVDSG+KALEFLGL          
Sbjct: 1   MGMAADSQFHVLAVDDSLIDRKLIERLLKTSSFHVTAVDSGSKALEFLGLNEEEEEEEEE 60

Query: 51  -----------LNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
                        +DE    Q +QVNLIITDYCMPGMTGYDLLRKIKES S KDIPVVIM
Sbjct: 61  EERRDSSPISVCPDDEH--HQDLQVNLIITDYCMPGMTGYDLLRKIKESKSFKDIPVVIM 118

Query: 100 SSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEE 159
           SSEN+PSRINRCLEEGAEEFFLKPVQL+DVNKLKPH+MKG ++E    N  NNKRKG+EE
Sbjct: 119 SSENVPSRINRCLEEGAEEFFLKPVQLSDVNKLKPHMMKGKTRE----NEPNNKRKGMEE 174

Query: 160 IDSADRTRTRLNDTIDINNDGL 181
           I S +RTRTR     + NN+GL
Sbjct: 175 IHSPERTRTRY--YANNNNNGL 194

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075846|ref|XP_002304794.1| type-a response regulator [Populus trichocarpa] gi|224075848|ref|XP_002304795.1| hypothetical protein POPTRDRAFT_693167 [Populus trichocarpa] gi|222842226|gb|EEE79773.1| type-a response regulator [Populus trichocarpa] gi|222842227|gb|EEE79774.1| hypothetical protein POPTRDRAFT_693167 [Populus trichocarpa]

 Score =  263 bits (673), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 132/186 (70%), Positives = 155/186 (83%), Gaps = 15/186 (8%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS--- 59
           + T++QFHVLAVDDS+IDRKLIERLLKTSSYQVTAVDSG+KALEFLGL  +DEQ +S   
Sbjct: 7   LATETQFHVLAVDDSLIDRKLIERLLKTSSYQVTAVDSGSKALEFLGLSGDDEQRDSNPS 66

Query: 60  --------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC 111
                   Q I++N+IITDYCMPGMTGYDLL+KIKES   KDIPVVIMSSEN+PSRINRC
Sbjct: 67  SVSPDHHHQHIEINMIITDYCMPGMTGYDLLKKIKESKYFKDIPVVIMSSENVPSRINRC 126

Query: 112 LEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEI-DSADRTRTRL 170
           LEEGAEEFFLKPVQL+DVNKL+PHLMKG  KE  +P   NNKRKG+EEI +S  RTR+R 
Sbjct: 127 LEEGAEEFFLKPVQLSDVNKLRPHLMKGRCKEEDQP---NNKRKGMEEIVNSPGRTRSRY 183

Query: 171 NDTIDI 176
           ++ +++
Sbjct: 184 SEGLEV 189

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951232|emb|CBX43986.1| putative A-type response regulator 4 [Populus x canadensis]

 Score =  263 bits (672), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 132/185 (71%), Positives = 154/185 (83%), Gaps = 15/185 (8%)

Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS---- 59
            T++QFHVLAVDDS+IDRKLIERLLKTSSYQVTAVDSG+KALEFLGL  +DEQ +S    
Sbjct: 8   ATETQFHVLAVDDSLIDRKLIERLLKTSSYQVTAVDSGSKALEFLGLHGDDEQRDSNPSS 67

Query: 60  -------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                  Q I++N+IITDYCMPGMTGYDLL+KIKES   KDIPVVIMSSEN+PSRINRCL
Sbjct: 68  VSPDHHHQHIEINMIITDYCMPGMTGYDLLKKIKESKYFKDIPVVIMSSENVPSRINRCL 127

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEI-DSADRTRTRLN 171
           EEGAEEFFLKPVQL+DVNKL+PHLMKG  KE  +P   +NKRKG+EEI +S  RTR+R N
Sbjct: 128 EEGAEEFFLKPVQLSDVNKLRPHLMKGRCKEEDQP---SNKRKGMEEIVNSPGRTRSRYN 184

Query: 172 DTIDI 176
           + +++
Sbjct: 185 EGLEV 189

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951234|emb|CBX43987.1| putative A-type response regulator 5 [Populus x canadensis]

 Score =  258 bits (660), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 134/187 (71%), Positives = 155/187 (82%), Gaps = 13/187 (6%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS--- 59
           M T++QFHVLAVDD +IDRKLIERLLKTSSYQVTAVDSG+KALEFLGL  E+E  +S   
Sbjct: 11  MATETQFHVLAVDDCLIDRKLIERLLKTSSYQVTAVDSGSKALEFLGLNGENELRDSEPA 70

Query: 60  --------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC 111
                   Q I++N+IITDYCMPGMTGYDLL+KIKES   KDIPVVIMSSEN+PSRINRC
Sbjct: 71  SVSPDPYHQHIEINMIITDYCMPGMTGYDLLKKIKESKYFKDIPVVIMSSENVPSRINRC 130

Query: 112 LEEGAEEFFLKPVQLADVNKLKPHLMKGISK-EIKEPNNINNKRKGLEEI-DSADRTRTR 169
           L+EGAEEFFLKPVQL+DVNKL+PHLMKG  K E +E +  NNKRKG+EEI +S DRTRTR
Sbjct: 131 LKEGAEEFFLKPVQLSDVNKLRPHLMKGRCKEEEEEEDQPNNKRKGMEEIVNSPDRTRTR 190

Query: 170 LNDTIDI 176
            ND +++
Sbjct: 191 YNDGLEV 197

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053258|ref|XP_002297741.1| type-a response regulator [Populus trichocarpa] gi|222844999|gb|EEE82546.1| type-a response regulator [Populus trichocarpa]

 Score =  256 bits (655), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 134/192 (69%), Positives = 155/192 (80%), Gaps = 18/192 (9%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS--- 59
           M T++QFHVLAVDD +IDRKLIERLLKTSSYQVTAVDSG+KALEFLGL  E+E  +S   
Sbjct: 11  MATETQFHVLAVDDCLIDRKLIERLLKTSSYQVTAVDSGSKALEFLGLNGENELRDSKPA 70

Query: 60  --------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC 111
                   Q I++N+IITDYCMPGMTGYDLL+KIKES   KDIPVVIMSSEN+PSRINRC
Sbjct: 71  SVSPDPYHQHIEINMIITDYCMPGMTGYDLLKKIKESKYFKDIPVVIMSSENVPSRINRC 130

Query: 112 LEEGAEEFFLKPVQLADVNKLKPHLMKGISK------EIKEPNNINNKRKGLEEI-DSAD 164
           L+EGAEEFFLKPVQL+DVNKL+PHLMKG  K      E +E +  NNKRKG+EEI +S D
Sbjct: 131 LKEGAEEFFLKPVQLSDVNKLRPHLMKGRCKEEEEEEEEEEEDQPNNKRKGMEEIVNSPD 190

Query: 165 RTRTRLNDTIDI 176
           RTRTR ND +++
Sbjct: 191 RTRTRYNDGLEV 202

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388506210|gb|AFK41171.1| unknown [Lotus japonicus]

 Score =  249 bits (637), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 126/171 (73%), Positives = 141/171 (82%), Gaps = 2/171 (1%)

Query: 1   MGMVT--DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTN 58
           MGM T  ++QFHVLAVDDS+IDR LIERLLKTSS+ VTAVDS +KAL FLGL+ +     
Sbjct: 1   MGMATPKETQFHVLAVDDSLIDRMLIERLLKTSSFHVTAVDSASKALNFLGLVEDMASEI 60

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
            Q + VNLIITDYCMPGMTGYDLLRKIKES SLKDIPVVIMSSEN+PSRINRCLEEGAEE
Sbjct: 61  HQDVDVNLIITDYCMPGMTGYDLLRKIKESKSLKDIPVVIMSSENVPSRINRCLEEGAEE 120

Query: 119 FFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTR 169
           FFLKPVQL+DV+KLKPHLMK   KE ++   INNKRK  EE  S D+TR +
Sbjct: 121 FFLKPVQLSDVHKLKPHLMKSRVKEEQDRQPINNKRKIKEEFHSPDKTRVK 171

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465885|ref|XP_002267404.1| PREDICTED: two-component response regulator ARR9 [Vitis vinifera]

 Score =  247 bits (631), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 137/216 (63%), Positives = 152/216 (70%), Gaps = 46/216 (21%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTN-- 58
           MGM T++QFHVLAVDDSIIDRKLIE+LLKTSSYQVTAVDSG+KALEFLGL  E EQ N  
Sbjct: 1   MGMATEAQFHVLAVDDSIIDRKLIEKLLKTSSYQVTAVDSGSKALEFLGL-QEAEQRNLS 59

Query: 59  ------SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                 SQ ++VNLIITDYCMPGMTGYDLLRKIKES SLKDIPVVIMSSENIPSRINRCL
Sbjct: 60  PPSLCPSQEMEVNLIITDYCMPGMTGYDLLRKIKESTSLKDIPVVIMSSENIPSRINRCL 119

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI---------------------- 150
           EEGAE+FFLKPVQL+DVNKL+PHL+KG ++E +E                          
Sbjct: 120 EEGAEDFFLKPVQLSDVNKLRPHLLKGKAREEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 179

Query: 151 ---------------NNKRKGLEEIDSADRTRTRLN 171
                          +NKRK +EE  S DRTR R N
Sbjct: 180 EEEEEEEEEEEEELSSNKRKNVEESLSHDRTRARFN 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555024|ref|XP_003545839.1| PREDICTED: two-component response regulator ARR8-like [Glycine max]

 Score =  244 bits (624), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 123/179 (68%), Positives = 143/179 (79%), Gaps = 9/179 (5%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTN-- 58
           M M  ++QFHVLAVDDSIIDR LIERLLKTSS+ VT VDS  KAL+FLGL+ ++ +T   
Sbjct: 1   MAMTVEAQFHVLAVDDSIIDRMLIERLLKTSSFHVTTVDSATKALKFLGLVEDELRTFDT 60

Query: 59  ------SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                  Q + +NLIITDYCMPGMTGYDLLRKIKES SLK+IPVVIMSSEN+PSRINRCL
Sbjct: 61  TVASEIHQDVDINLIITDYCMPGMTGYDLLRKIKESKSLKNIPVVIMSSENVPSRINRCL 120

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLN 171
           EEGAEEFFLKPVQ ADVNKLKPHLMK  +KE ++    NNKRK +EEI S ++TR + +
Sbjct: 121 EEGAEEFFLKPVQQADVNKLKPHLMKSRAKE-EQDQPFNNKRKDMEEIHSPNKTRIKCS 178

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357515051|ref|XP_003627814.1| Two-component response regulator ARR8 [Medicago truncatula] gi|92885116|gb|ABE87636.1| Response regulator receiver [Medicago truncatula] gi|355521836|gb|AET02290.1| Two-component response regulator ARR8 [Medicago truncatula] gi|388516389|gb|AFK46256.1| unknown [Medicago truncatula]

 Score =  244 bits (624), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 123/179 (68%), Positives = 145/179 (81%), Gaps = 11/179 (6%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTN-- 58
           MGM  ++QFHVLAVDDSIIDR LIERLLKTSS+ VT VDS +KAL+FLGL+ ++ +T   
Sbjct: 1   MGMAAENQFHVLAVDDSIIDRMLIERLLKTSSFNVTTVDSASKALKFLGLVEDEMRTYDT 60

Query: 59  ------SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                 +Q + VNLIITDYCMPGMTGYDLLRKIKES S KDIPVVIMSSEN+PSRINRCL
Sbjct: 61  HVASEINQDVDVNLIITDYCMPGMTGYDLLRKIKESKSFKDIPVVIMSSENVPSRINRCL 120

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLN 171
           EEGAEEFFLKPVQL+DV+KLKPHL+K    ++KE N    KRKG+EE  S D+TR +++
Sbjct: 121 EEGAEEFFLKPVQLSDVSKLKPHLLKS---KVKEENEQPIKRKGMEETQSPDKTRPKVS 176

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090338|emb|CBI40157.3| unnamed protein product [Vitis vinifera]

 Score =  244 bits (623), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 122/147 (82%), Positives = 132/147 (89%), Gaps = 9/147 (6%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTN-- 58
           MGM T++QFHVLAVDDSIIDRKLIE+LLKTSSYQVTAVDSG+KALEFLGL  E EQ N  
Sbjct: 1   MGMATEAQFHVLAVDDSIIDRKLIEKLLKTSSYQVTAVDSGSKALEFLGL-QEAEQRNLS 59

Query: 59  ------SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                 SQ ++VNLIITDYCMPGMTGYDLLRKIKES SLKDIPVVIMSSENIPSRINRCL
Sbjct: 60  PPSLCPSQEMEVNLIITDYCMPGMTGYDLLRKIKESTSLKDIPVVIMSSENIPSRINRCL 119

Query: 113 EEGAEEFFLKPVQLADVNKLKPHLMKG 139
           EEGAE+FFLKPVQL+DVNKL+PHL+KG
Sbjct: 120 EEGAEDFFLKPVQLSDVNKLRPHLLKG 146

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	187
TAIR|locus:2040282	225	RR3 "response regulator 3" [Ar	0.737	0.613	0.698	1.4e-52
TAIR|locus:2080590	234	ARR9 "response regulator 9" [A	0.737	0.589	0.716	1.2e-51
UNIPROTKB|Q4GZK2	201	rr9 "Type A response regulator	0.737	0.686	0.720	8.3e-51
UNIPROTKB|Q4GZK7	232	rr4 "Type A response regulator	0.711	0.573	0.725	5.2e-49
TAIR|locus:2194584	259	ARR4 "response regulator 4" [A	0.711	0.513	0.639	6.6e-42
TAIR|locus:2025911	231	ARR3 "response regulator 3" [A	0.721	0.584	0.639	2.2e-41
TAIR|locus:2102509	153	RR17 "response regulator 17" [	0.700	0.856	0.611	9.6e-41
TAIR|locus:2011286	206	ARR7 "response regulator 7" [A	0.721	0.655	0.607	1.1e-39
TAIR|locus:2027237	206	ARR15 "response regulator 15"	0.705	0.640	0.613	1.1e-39
TAIR|locus:2097870	184	RR5 "response regulator 5" [Ar	0.673	0.684	0.646	1.4e-39

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

 Score = 517 (187.1 bits), Expect = 1.4e-52, Sum P(2) = 1.4e-52
 Identities = 102/146 (69%), Positives = 123/146 (84%)

Query:     1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS- 59
             M M T+S+FHVLAVDDS+ DRK+IERLL+ SS QVT VDSG+KALEFLGL  +D   N+ 
Sbjct:     1 MVMETESKFHVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNAL 60

Query:    60 -------QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL 112
                    Q +++NLIITDYCMPGMTGYDLL+K+KESA+ + IPVVIMSSEN+P+RI+RCL
Sbjct:    61 STSPQIHQEVEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCL 120

Query:   113 EEGAEEFFLKPVQLADVNKLKPHLMK 138
             EEGAEEFFLKPV+LAD+ KLKPH+MK
Sbjct:   121 EEGAEEFFLKPVKLADLTKLKPHMMK 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

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

 Score = 536 (193.7 bits), Expect = 1.2e-51, P = 1.2e-51
 Identities = 106/148 (71%), Positives = 124/148 (83%)

Query:     1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQT--- 57
             MGM  +SQFHVLAVDDS+ DRKLIERLL+ SS QVT VDSG+KALEFLGL    +     
Sbjct:     1 MGMAAESQFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQSTDSNDPN 60

Query:    58 -------NSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINR 110
                    N QV++VNLIITDYCMPGMTGYDLL+K+KES++ +DIPVVIMSSEN+P+RI+R
Sbjct:    61 AFSKAPVNHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSENVPARISR 120

Query:   111 CLEEGAEEFFLKPVQLADVNKLKPHLMK 138
             CLEEGAEEFFLKPV+LAD+NKLKPH+MK
Sbjct:   121 CLEEGAEEFFLKPVRLADLNKLKPHMMK 148

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

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

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 103/143 (72%), Positives = 126/143 (88%)

Query:     1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDE----- 55
             M +  ++ FHVLAVDDS+ DRKLIERLLKTSS+QVT VDSG+KALEFLGL + ++     
Sbjct:     1 MAVAIEAPFHVLAVDDSLPDRKLIERLLKTSSFQVTTVDSGSKALEFLGLHDHEDSPIST 60

Query:    56 QTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEG 115
             Q++ Q + VNLIITDYCMPGMTGYDLL+KIKES+ L+DIPVVIMSS+NIPSRINRCLEEG
Sbjct:    61 QSDQQEVAVNLIITDYCMPGMTGYDLLKKIKESSYLRDIPVVIMSSDNIPSRINRCLEEG 120

Query:   116 AEEFFLKPVQLADVNKLKPHLMK 138
             A+EFFLKPV+L+D++KLKPH++K
Sbjct:   121 ADEFFLKPVRLSDMSKLKPHILK 143

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

UNIPROTKB|Q4GZK7 rr4 "Type A response regulator 4" [Oryza sativa Indica Group (taxid:39946)]

 Score = 511 (184.9 bits), Expect = 5.2e-49, P = 5.2e-49
 Identities = 103/142 (72%), Positives = 121/142 (85%)

Query:     6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS------ 59
             +S+FHVLAVDDS+IDRKLIE LLK SSYQVT VDSG+KALE LGL +E + ++S      
Sbjct:     7 ESRFHVLAVDDSLIDRKLIEMLLKNSSYQVTTVDSGSKALELLGLRDEGDDSSSSPSSSS 66

Query:    60 ---QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGA 116
                Q I VNLIITDYCMPGMTGYDLL+++K S+SLKDIPVVIMSSEN+P+RINRCLE+GA
Sbjct:    67 PDHQEIDVNLIITDYCMPGMTGYDLLKRVKGSSSLKDIPVVIMSSENVPARINRCLEDGA 126

Query:   117 EEFFLKPVQLADVNKLKPHLMK 138
             EEFFLKPV+LAD+ KLK HL+K
Sbjct:   127 EEFFLKPVKLADMKKLKSHLLK 148

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

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

 Score = 444 (161.4 bits), Expect = 6.6e-42, P = 6.6e-42
 Identities = 85/133 (63%), Positives = 112/133 (84%)

Query:     8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
             + HVLAVDDS++DR +IERLL+ +S +VTAVDSG +ALEFLGL NE        ++V+LI
Sbjct:    33 EVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGLDNEKASAEFDRLKVDLI 92

Query:    68 ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
             ITDYCMPGMTGY+LL+KIKES++ +++PVVIMSSEN+ +RI+RCLEEGA++F LKPV+LA
Sbjct:    93 ITDYCMPGMTGYELLKKIKESSNFREVPVVIMSSENVLTRIDRCLEEGAQDFLLKPVKLA 152

Query:   128 DVNKLKPHLMKGI 140
             DV +L+ HL K +
Sbjct:   153 DVKRLRSHLTKDV 165

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

 Score = 439 (159.6 bits), Expect = 2.2e-41, P = 2.2e-41
 Identities = 87/136 (63%), Positives = 113/136 (83%)

Query:     6 DS-QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
             DS Q HVLAVDDS++DR +IERLL+ +S +VTAVDSG +ALEFLGL ++        ++V
Sbjct:    29 DSDQVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGLDDDKAAVEFDRLKV 88

Query:    65 NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +LIITDYCMPGMTGY+LL+KIKES S K++PVVIMSSEN+ +RI+RCLEEGAE+F LKPV
Sbjct:    89 DLIITDYCMPGMTGYELLKKIKESTSFKEVPVVIMSSENVMTRIDRCLEEGAEDFLLKPV 148

Query:   125 QLADVNKLKPHLMKGI 140
             +LADV +L+ +L + +
Sbjct:   149 KLADVKRLRSYLTRDV 164

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

 Score = 433 (157.5 bits), Expect = 9.6e-41, P = 9.6e-41
 Identities = 82/134 (61%), Positives = 114/134 (85%)

Query:     6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS--QVIQ 63
             + + HVLAVDD++IDRKL+ER+LK SS +VT  ++G +ALE+LGL  + +QT+S   V++
Sbjct:    17 EEELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGL-GDPQQTDSLTNVMK 75

Query:    64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             VNLIITDYCMPGMTG++LL+K+KES++LK++PVVI+SSENIP+RIN+CL  GA+ F  KP
Sbjct:    76 VNLIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTRINKCLASGAQMFMQKP 135

Query:   124 VQLADVNKLKPHLM 137
             ++L+DV KLK HL+
Sbjct:   136 LKLSDVEKLKCHLL 149

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

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 82/135 (60%), Positives = 110/135 (81%)

Query:     4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
             VT  + HVLAVDDSI+DRK+IERLL+ SS +VT V+SG +AL++LGL      +N + ++
Sbjct:    19 VTTPELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGLDGGKGASNLKDLK 78

Query:    64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             VNLI+TDY MPG++GYDLL+KIKES++ +++PVVIMSSENI  RI  CL+EGAEEF LKP
Sbjct:    79 VNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILPRIQECLKEGAEEFLLKP 138

Query:   124 VQLADVNKLKPHLMK 138
             V+LADV ++K  +M+
Sbjct:   139 VKLADVKRIKQLIMR 153

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

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 81/132 (61%), Positives = 110/132 (83%)

Query:     8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
             + HVLAVDDS +DRK+IERLLK S+ +VT V+SG +AL++LGL  ++  +  + ++VNLI
Sbjct:    17 ELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGLKDLKVNLI 76

Query:    68 ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
             +TDY MPG+TGY+LL+KIKES++L++IPVVIMSSENI  RI +C+ EGAEEF LKPV+LA
Sbjct:    77 VTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFLLKPVKLA 136

Query:   128 DVNKLKPHLMKG 139
             DV +LK  +M+G
Sbjct:   137 DVKRLKELIMRG 148

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

 Score = 422 (153.6 bits), Expect = 1.4e-39, P = 1.4e-39
 Identities = 86/133 (64%), Positives = 109/133 (81%)

Query:    10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQV----IQVN 65
             HVLAVDDS++DRK IERLL+ SS +VT VDS  +AL++LGL   D + NS V    +++N
Sbjct:    26 HVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGL---DGENNSSVGFEDLKIN 82

Query:    66 LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
             LI+TDY MPGMTGY+LL+KIKES++ ++IPVVIMSSENI  RI+RCLEEGAE+F LKPV+
Sbjct:    83 LIMTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLLKPVK 142

Query:   126 LADVNKLKPHLMK 138
             LADV +L+  LMK
Sbjct:   143 LADVKRLRDSLMK 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

---

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)
O80366	ARR9_ARATH	No assigned EC number	0.5307	0.9144	0.7307	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

Fail to connect to STRING server

---

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	187
PLN03029	222	PLN03029, PLN03029, type-a response regulator prot	7e-83
cd00156	113	cd00156, REC, Signal receiver domain; originally t	1e-22
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	5e-21
COG3437	360	COG3437, COG3437, Response regulator containing a	3e-18
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	5e-18
COG3706	435	COG3706, PleD, Response regulator containing a Che	3e-15
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	8e-13
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	1e-12
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	8e-12
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	5e-11
COG0745	229	COG0745, OmpR, Response regulators consisting of a	7e-11
COG2197	211	COG2197, CitB, Response regulator containing a Che	3e-10
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	8e-09
COG4753	475	COG4753, COG4753, Response regulator containing Ch	9e-09
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	2e-08
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	4e-08
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	5e-08
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	7e-08
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	5e-07
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	6e-07
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	8e-07
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	9e-07
smart00448	55	smart00448, REC, cheY-homologous receiver domain	2e-06
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	3e-06
COG3947	361	COG3947, COG3947, Response regulator containing Ch	3e-06
PRK10923	469	PRK10923, glnG, nitrogen regulation protein NR(I);	4e-06
PRK10693	303	PRK10693, PRK10693, response regulator of RpoS; Pr	5e-06
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	1e-05
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	1e-05
PRK11517	223	PRK11517, PRK11517, transcriptional regulatory pro	3e-05
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	6e-05
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	1e-04
PRK13856	241	PRK13856, PRK13856, two-component response regulat	3e-04
TIGR02956	968	TIGR02956, TMAO_torS, TMAO reductase sytem sensor	3e-04
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	3e-04
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	7e-04
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	0.001
PRK10403	215	PRK10403, PRK10403, transcriptional regulator NarP	0.001
TIGR02875	262	TIGR02875, spore_0_A, sporulation transcription fa	0.002
PRK09468	239	PRK09468, ompR, osmolarity response regulator; Pro	0.002
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	0.004
PRK10651	216	PRK10651, PRK10651, transcriptional regulator NarL	0.004
PRK10710	240	PRK10710, PRK10710, DNA-binding transcriptional re	0.004

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

 Score =  244 bits (623), Expect = 7e-83
 Identities = 127/217 (58%), Positives = 148/217 (68%), Gaps = 45/217 (20%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQT--- 57
           MG+ T+SQFHVLAVDDS+IDRKLIE+LLKTSSYQVT VDSG+KAL+FLGL  +D      
Sbjct: 1   MGITTESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDT 60

Query: 58  ------NSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC 111
                 + Q ++VNLIITDYCMPGMTGYDLL+KIKES+SL++IPVVIMSSEN+PSRI RC
Sbjct: 61  PSVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRC 120

Query: 112 LEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPN----------------------- 148
           LEEGAEEFFLKPVQL+D+N+LKPH+MK  SK  K+ N                       
Sbjct: 121 LEEGAEEFFLKPVQLSDLNRLKPHMMKTKSKNQKQENQEKQEKLEESEIQSEKQEQPSQQ 180

Query: 149 -------------NINNKRKGLEEIDSADRTRTRLND 172
                          NNKRK +EE  S DRTR R N 
Sbjct: 181 PQSQPQPQQQPQQPNNNKRKAMEEGLSPDRTRPRYNG 217

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 = 86.9 bits (216), Expect = 1e-22
 Identities = 37/118 (31%), Positives = 63/118 (53%), Gaps = 13/118 (11%)

Query: 12  LAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDY 71
           L VDD  + R+L+ RLL+   Y+V   + G +AL    LL E+        + +LI+ D 
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALA---LLAEE--------KPDLILLDI 49

Query: 72  CMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
            MPGM G +LLR+I++     DIP++ +++          L+ GA+++  KP    ++
Sbjct: 50  MMPGMDGLELLRRIRK--RGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEEL 105

Length = 113

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

 Score = 83.4 bits (206), Expect = 5e-21
 Identities = 41/120 (34%), Positives = 66/120 (55%), Gaps = 11/120 (9%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDD  ++R+L++RLL+   Y+V     G    E L LL E  Q        +LI+ 
Sbjct: 7   RVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGE--EEALELLRELPQ-------PDLILL 57

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MPGM G +LLR+++  A   +IPV+++++    +   R L  GA+++  KP+ L + 
Sbjct: 58  DINMPGMDGIELLRRLR--ARGPNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEE 115

Length = 130

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

 Score = 80.5 bits (199), Expect = 3e-18
 Identities = 45/177 (25%), Positives = 82/177 (46%), Gaps = 16/177 (9%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
                D +  VL VDD   + + + +LL+   Y+V   ++G +AL+ L           Q
Sbjct: 7   GKNEPDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLL-----------Q 55

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKE-SASLKDIPVVIMSSENIPSRINRCLEEGAEEF 119
               +L++ D  MP M G ++L K+K  S S + IPV+++++        R LE GA+++
Sbjct: 56  EEPPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDY 115

Query: 120 FLKPVQLAD-VNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTID 175
             KP+   + V ++  HL     K  ++     N    L+E+        ++ D +D
Sbjct: 116 LSKPISPKELVARVSSHLQL---KRNEDFLLDQNLYLELQELRRRTEELAQIEDNLD 169

Length = 360

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

 Score = 75.3 bits (186), Expect = 5e-18
 Identities = 38/118 (32%), Positives = 56/118 (47%), Gaps = 13/118 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL VDD  + R+L+ +LL+   Y V   D G +ALE L     D           LI+ D
Sbjct: 1   VLIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELLKEKRPD-----------LILLD 49

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
             MPGM G +LLR+I+        PV+++++          L+ GA +F  KP    +
Sbjct: 50  IRMPGMDGLELLRRIRRRPP--TTPVIVLTAHGDEEDAVEALKAGANDFLSKPFDPEE 105

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 = 72.0 bits (177), Expect = 3e-15
 Identities = 30/114 (26%), Positives = 57/114 (50%), Gaps = 11/114 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD    R+ + R+L+   ++V     G +AL     L E           +L++ D
Sbjct: 135 ILVVDDDATQRERLRRILQVEGFRVVEATDGEEALL---QLAEL--------PPDLVLLD 183

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             MP M G +L  ++++    +DIP++++SS++    + R  E G  ++  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 = 65.4 bits (160), Expect = 8e-13
 Identities = 38/120 (31%), Positives = 59/120 (49%), Gaps = 13/120 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
               +L VDD    R+L+E+ L+ + Y+V   +S  +ALE    L+E           +L
Sbjct: 3   MMARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALE---ALSESP--------FDL 51

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           ++ D  MPGM G +LL++IK      D+PV++M+           L  GA +F  KP  L
Sbjct: 52  VLLDIRMPGMDGLELLKEIKSRD--PDLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDL 109

Length = 464

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

 Score = 64.7 bits (158), Expect = 1e-12
 Identities = 34/125 (27%), Positives = 58/125 (46%), Gaps = 13/125 (10%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           Q  +L VDD   +R +I  +L     QVT   SG +ALE             +  + +L+
Sbjct: 690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALEL-----------GRQHRFDLV 738

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKD--IPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           + D  MPG+ G +  +  ++  +  D    +V +++   P  I+RC + G   +  KPV 
Sbjct: 739 LMDIRMPGLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVT 798

Query: 126 LADVN 130
           LA + 
Sbjct: 799 LAQLA 803

Length = 921

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

 Score = 62.6 bits (153), Expect = 8e-12
 Identities = 36/114 (31%), Positives = 59/114 (51%), Gaps = 11/114 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD   + KL+E  L    Y V    SG +A+              +  Q ++I+ D
Sbjct: 5   ILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAIC-----------EREQPDIILLD 53

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             MPGM G+++ R++K   +   IPVV++++ + P    R LE GA++F  KP+
Sbjct: 54  VMMPGMDGFEVCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPI 107

Length = 457

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

 Score = 60.1 bits (146), Expect = 5e-11
 Identities = 34/118 (28%), Positives = 52/118 (44%), Gaps = 13/118 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R ++E+ L  + Y+V    +    L  L     D           L+ITD
Sbjct: 1   VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQPD-----------LLITD 49

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
             MPG  G DLL +IK+      +PV++M++ +         + GA E+  KP  L +
Sbjct: 50  VRMPGEDGLDLLPQIKKRHP--QLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDE 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|223816 COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]

 Score = 58.5 bits (142), Expect = 7e-11
 Identities = 25/115 (21%), Positives = 52/115 (45%), Gaps = 13/115 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D     +L++  L+   Y+V     G +ALE                Q +L++ 
Sbjct: 2   RILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAARE------------QPDLVLL 49

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           D  +P + G +L R+++        P++++++ +        LE GA+++  KP 
Sbjct: 50  DLMLPDLDGLELCRRLRA-KKGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPF 103

Length = 229

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

 Score = 56.9 bits (138), Expect = 3e-10
 Identities = 31/115 (26%), Positives = 58/115 (50%), Gaps = 11/115 (9%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDD  + R+ + +LL+     +  V   +   E L L  E        ++ ++++ 
Sbjct: 2   KVLIVDDHPLVREGLRQLLELEP-DLEVVGEASNGEEALDLARE--------LKPDVVLL 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           D  MPGM G + L++++      DI VV++++ + P+ + R L  GA+ + LK  
Sbjct: 53  DLSMPGMDGLEALKQLRARG--PDIKVVVLTAHDDPAYVIRALRAGADGYLLKDA 105

Length = 211

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

 Score = 52.7 bits (127), Expect = 8e-09
 Identities = 33/124 (26%), Positives = 55/124 (44%), Gaps = 17/124 (13%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           M  +   HV  VDD    R  +  LL+++ +QV    S     EFL     D        
Sbjct: 1   MPREPLVHV--VDDDESVRDALAFLLESAGFQVKCFASAE---EFLAAAPLDR------- 48

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFL 121
               ++ D  MPGM+G +L  ++ E      +PV+ ++   +IP  + + ++ GA +F  
Sbjct: 49  -PGCLLLDVRMPGMSGLELQDRLAERGI--RLPVIFLTGHGDIPMAV-QAMKAGAVDFLE 104

Query: 122 KPVQ 125
           KP  
Sbjct: 105 KPFS 108

Length = 202

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

 Score = 53.5 bits (129), Expect = 9e-09
 Identities = 39/143 (27%), Positives = 72/143 (50%), Gaps = 16/143 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           VL VDD  + R+ ++ L+   +  +  V    +G +ALE   L+ E         Q +++
Sbjct: 4   VLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALE---LIQE--------TQPDIV 52

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           ITD  MPGM G DL++ IKE     D   +I+S  +      + ++ G +++ LKPV  A
Sbjct: 53  ITDINMPGMDGLDLIKAIKE--QSPDTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKA 110

Query: 128 DVNKLKPHLMKGISKEIKEPNNI 150
           ++ +    ++  + ++ K   +I
Sbjct: 111 ELEEALKKIIGKLEEQQKVKQDI 133

Length = 475

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

 Score = 52.7 bits (127), Expect = 2e-08
 Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 13/118 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD  I+R+L+   L +  YQ    + G  AL  L         N     +++++T
Sbjct: 803 MILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-------SKNH----IDIVLT 851

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           D  MP M GY L +++++      +PV+ +++  +     RCLE G +    KPV L 
Sbjct: 852 DVNMPNMDGYRLTQRLRQLG--LTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLD 907

Length = 924

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

 Score = 49.6 bits (118), Expect = 4e-08
 Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 12/125 (9%)

Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109

Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

Length = 129

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

 Score = 50.9 bits (122), Expect = 5e-08
 Identities = 33/122 (27%), Positives = 65/122 (53%), Gaps = 16/122 (13%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
            + +S+  +L VDD    RK++E  L    Y+V     G +AL+             +  
Sbjct: 1   TMENSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLF-----------RKE 49

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFL 121
           Q +L+I D  MP + GY + ++I++ +   D+P++++++  ++  RI   LE GA+++ +
Sbjct: 50  QPDLVILDVMMPKLDGYGVCQEIRKES---DVPIIMLTALGDVSDRI-TGLELGADDYVV 105

Query: 122 KP 123
           KP
Sbjct: 106 KP 107

Length = 240

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

 Score = 50.0 bits (120), Expect = 7e-08
 Identities = 32/115 (27%), Positives = 55/115 (47%), Gaps = 15/115 (13%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            V  VDD    R  +  LL ++ ++V   +S    L+ L  L               ++T
Sbjct: 5   VVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRF-----------GCVVT 53

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKP 123
           D  MPG+ G +LLR++K   S   +PV++M+   ++P  +   ++ GA +F  KP
Sbjct: 54  DVRMPGIDGIELLRRLKARGSP--LPVIVMTGHGDVPLAV-EAMKLGAVDFIEKP 105

Length = 202

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

 Score = 47.7 bits (114), Expect = 5e-07
 Identities = 32/113 (28%), Positives = 59/113 (52%), Gaps = 11/113 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L V+D    R+LI   L+ + Y V     G++AL    L+NE           +LI+ D
Sbjct: 5   ILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALT---LINERGP--------DLILLD 53

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
           + +PG +G +L R+++     + IP++++++        R LE GA+++  KP
Sbjct: 54  WMLPGTSGIELCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKP 106

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|182277 PRK10161, PRK10161, transcriptional regulator PhoB; Provisional

 Score = 47.8 bits (113), Expect = 6e-07
 Identities = 28/94 (29%), Positives = 50/94 (53%), Gaps = 5/94 (5%)

Query: 53  EDEQTNSQVIQVN-----LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSR 107
           E E  +S V Q+N     LI+ D+ +PG +G   ++ +K  +  +DIPVV++++      
Sbjct: 31  EAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEED 90

Query: 108 INRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS 141
             R LE GA+++  KP    ++      +M+ IS
Sbjct: 91  RVRGLETGADDYITKPFSPKELVARIKAVMRRIS 124

Length = 229

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

 Score = 47.7 bits (113), Expect = 8e-07
 Identities = 44/157 (28%), Positives = 73/157 (46%), Gaps = 19/157 (12%)

Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           +T     +L VDD I    +++ LL+   Y V   +SG +AL         EQ   QV  
Sbjct: 1   MTHDNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQAL---------EQVREQVF- 50

Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
            +L++ D  M  M G   L++IK  A    IPV+IM++ +        L+ GA ++ +KP
Sbjct: 51  -DLVLCDVRMAEMDGIATLKEIK--ALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKP 107

Query: 124 VQLADVNKLKPHLMKGI--SKEIK-EPNNINNKRKGL 157
           +   D + L+  L K +  +  I  E   +   + G+
Sbjct: 108 L---DFDNLQATLEKALAHTHSIDAETPAVTASQFGM 141

Length = 441

>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 = 47.7 bits (114), Expect = 9e-07
 Identities = 39/120 (32%), Positives = 57/120 (47%), Gaps = 24/120 (20%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           VL VDDS + RK+I  +L      +V  TA + G +A++ +  L  D           +I
Sbjct: 4   VLVVDDSALMRKVISDILNSDPDIEVVGTARN-GREAIDKVKKLKPD-----------VI 51

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSR----INRCLEEGAEEFFLKP 123
             D  MP M G + LRKI     L+ +PV+++SS  +           LE GA +F  KP
Sbjct: 52  TLDVEMPVMDGLEALRKIM---RLRPLPVIMVSS--LTEEGAEATLEALELGAVDFIAKP 106

Length = 350

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

 Score = 43.3 bits (103), Expect = 2e-06
 Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 11/65 (16%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L VDD  + R+L++ LL+   Y+V     G +ALE L           +  + +LI+ 
Sbjct: 2  RILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELL-----------KEEKPDLILL 50

Query: 70 DYCMP 74
          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|234828 PRK00742, PRK00742, chemotaxis-specific methylesterase; Provisional

 Score = 46.3 bits (111), Expect = 3e-06
 Identities = 45/120 (37%), Positives = 56/120 (46%), Gaps = 24/120 (20%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           VL VDDS   R+LI  +L      +V  TA D G +A E +  LN D           +I
Sbjct: 6   VLVVDDSAFMRRLISEILNSDPDIEVVGTAPD-GLEAREKIKKLNPD-----------VI 53

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS---ENIPSRIN-RCLEEGAEEFFLKP 123
             D  MP M G D L KI     L+  PVV++SS       + I  R LE GA +F  KP
Sbjct: 54  TLDVEMPVMDGLDALEKIMR---LRPTPVVMVSSLTERG--AEITLRALELGAVDFVTKP 108

Length = 354

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

 Score = 46.0 bits (109), Expect = 3e-06
 Identities = 25/121 (20%), Positives = 53/121 (43%), Gaps = 15/121 (12%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           ++ VDD     KL+  +L  + ++V +     +AL+ L           +V + +LI  D
Sbjct: 3   IIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLL-----------EVFKPDLIFLD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVN 130
             MP M G +   ++++      +P++ +SS       +       +++  KPV    +N
Sbjct: 52  IVMPYMNGIEFAEQVRD--IESAVPIIFISSHA--EYADDSFGMNLDDYLPKPVTPEKLN 107

Query: 131 K 131
           +
Sbjct: 108 R 108

Length = 361

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

 Score = 46.0 bits (109), Expect = 4e-06
 Identities = 34/109 (31%), Positives = 57/109 (52%), Gaps = 14/109 (12%)

Query: 15  DDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP 74
           DDS I R ++ER L  +    T  ++GN+ LE L          S+   V  +++D  MP
Sbjct: 11  DDSSI-RWVLERALAGAGLTCTTFENGNEVLEAL---------ASKTPDV--LLSDIRMP 58

Query: 75  GMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
           GM G  LL++IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 59  GMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

Length = 469

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

 Score = 45.4 bits (108), Expect = 5e-06
 Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 15/98 (15%)

Query: 36  TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIP 95
               +G  ALE LG               +LII D  MP M G + +  ++        P
Sbjct: 1   VLAANGVDALELLG-----------GFTPDLIICDLAMPRMNGIEFVEHLRNRGD--QTP 47

Query: 96  VVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK 133
           V+++S+    + I + L  G ++  LKPV   D+N+L+
Sbjct: 48  VLVISATENMADIAKALRLGVQDVLLKPV--KDLNRLR 83

Length = 303

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

 Score = 43.6 bits (103), Expect = 1e-05
 Identities = 37/171 (21%), Positives = 79/171 (46%), Gaps = 24/171 (14%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L V+D     + +++ L  S Y V A  +G   L    L  +D          +LII D
Sbjct: 1   ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGL---HLALKD--------DYDLIILD 49

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +PGM G+ +L+ ++ S   K  PV+ +++ +++  ++ + L+ GA+++ +KP      
Sbjct: 50  VMLPGMDGWQILQTLRRSG--KQTPVLFLTARDSVADKV-KGLDLGADDYLVKPFSF--- 103

Query: 130 NKLKPHLMKGISKEIKEPNNINNKRKGLE--EIDSADRTRTRLNDTIDINN 178
                 L+  +   ++  +++N+    +    +DS     +R N  I +  
Sbjct: 104 ----SELLARVRTLLRRSHSLNSTVLEIADLRMDSVRHRVSRGNIRITLTR 150

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|236848 PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional

 Score = 44.1 bits (105), Expect = 1e-05
 Identities = 34/123 (27%), Positives = 59/123 (47%), Gaps = 14/123 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V+AVDD+  + KLI  LL+     V   DSG++A+E            ++    +LI+ D
Sbjct: 670 VMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQ-----------AKQRPFDLILMD 718

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVN 130
             MPGM G      I++    ++ P++ +++  +     R L  G +++  KP+   D  
Sbjct: 719 IQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKPI---DEA 775

Query: 131 KLK 133
            LK
Sbjct: 776 MLK 778

Length = 919

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

 Score = 43.0 bits (101), Expect = 3e-05
 Identities = 28/119 (23%), Positives = 58/119 (48%), Gaps = 14/119 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L ++D+   ++ + + L  + Y + AV  G   L     L +D           LII D
Sbjct: 3   ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLA--LKDD---------YALIILD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +PGM G+ +L+ ++ +   K  PV+ +++ +      R L+ GA ++ +KP   +++
Sbjct: 52  IMLPGMDGWQILQTLRTA---KQTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSEL 107

Length = 223

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

 Score = 42.4 bits (99), Expect = 6e-05
 Identities = 38/129 (29%), Positives = 60/129 (46%), Gaps = 16/129 (12%)

Query: 8    QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            +  +L  DD   +R L++R L    Y V     G +AL  + + + D           L+
Sbjct: 958  KLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYD-----------LL 1006

Query: 68   ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
            ITD  MP M G++L RK++E  S   +P+  +++    +   + L  G      KP+ L 
Sbjct: 1007 ITDVNMPNMDGFELTRKLREQNS--SLPIWGLTANAQANEREKGLSCGMNLCLFKPLTL- 1063

Query: 128  DVNKLKPHL 136
            DV  LK HL
Sbjct: 1064 DV--LKTHL 1070

Length = 1197

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

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 35/116 (30%), Positives = 58/116 (50%), Gaps = 15/116 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           H+L VDD     KL+   L +  Y V   +SG +AL    +LN +        +V+L+I+
Sbjct: 7   HLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALR---VLNRE--------KVDLVIS 55

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPV 124
           D  M  M G  L  +I++      +PV+I+++  +IP  +    ++G   F  KPV
Sbjct: 56  DLRMDEMDGMQLFAEIQKVQP--GMPVIILTAHGSIPDAVA-ATQQGVFSFLTKPV 108

Length = 444

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

 Score = 39.8 bits (93), Expect = 3e-04
 Identities = 33/116 (28%), Positives = 58/116 (50%), Gaps = 17/116 (14%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           HVL +DD +  R LI   L   +++VTAV DS     +F  +L  +         V++++
Sbjct: 3   HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQ----QFNRVLASE--------TVDVVV 50

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINR-CLEEGAEEFFLKP 123
            D  +    G +++R +   A+  D+P++I+S + +        LE GA +F  KP
Sbjct: 51  VDLNLGREDGLEIVRSL---ATKSDVPIIIISGDRLEEADKVVALELGATDFIAKP 103

Length = 241

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

 Score = 40.5 bits (95), Expect = 3e-04
 Identities = 28/142 (19%), Positives = 57/142 (40%), Gaps = 18/142 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL V+D+ +++ + +  L    ++VT  +SG  ALE                  +L + 
Sbjct: 704 RVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECF-----------HQHAFDLALL 752

Query: 70  DYCMPGMTGYDLLRKIKE-SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  +P   G  LL++++    +  ++  +  S+      + + L  G + F  KPV    
Sbjct: 753 DINLPDGDGVTLLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVE-- 810

Query: 129 VNKLKP---HLMKGISKEIKEP 147
             +L      ++ G     + P
Sbjct: 811 -EQLTAMIAVILAGGKSNTEAP 831

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|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein AtoC; Provisional

 Score = 40.2 bits (94), Expect = 3e-04
 Identities = 28/137 (20%), Positives = 60/137 (43%), Gaps = 15/137 (10%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD    R+++        ++    ++G  AL     ++ D           +++ D
Sbjct: 7   ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPD-----------VVLMD 55

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVN 130
             MP M G   L++++        PV++M++          L  GA ++ +KP  L ++N
Sbjct: 56  IRMPEMDGIKALKEMRSHE--TRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELN 113

Query: 131 KL--KPHLMKGISKEIK 145
            +  +   ++ + KEI+
Sbjct: 114 LIVQRALQLQSMKKEIR 130

Length = 457

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

 Score = 38.8 bits (91), Expect = 7e-04
 Identities = 29/121 (23%), Positives = 57/121 (47%), Gaps = 21/121 (17%)

Query: 7   SQFHVLAVDD--SIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
            Q  +L V+D  +I D   +   L++  + V   + G  AL+ L     D          
Sbjct: 2   QQPTILLVEDEQAIAD--TLVYALQSEGFTVEWFERGLPALDKLRQQPPD---------- 49

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC--LEEGAEEFFLK 122
            L+I D  +P ++G++L R++        +PV+ +++ +    ++R   LE GA+++  K
Sbjct: 50  -LVILDVGLPDISGFELCRQLLAFHP--ALPVIFLTARS--DEVDRLVGLEIGADDYVAK 104

Query: 123 P 123
           P
Sbjct: 105 P 105

Length = 228

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

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 20/63 (31%), Positives = 36/63 (57%), Gaps = 2/63 (3%)

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           +I D  +PGM G D+LR+ +E    +  PV+I+++ +  +     L  GA+++  KP  L
Sbjct: 48  VILDLTLPGMDGRDILREWREKG--QREPVLILTARDALAERVEGLRLGADDYLCKPFAL 105

Query: 127 ADV 129
            +V
Sbjct: 106 IEV 108

Length = 219

>gnl|CDD|182431 PRK10403, PRK10403, transcriptional regulator NarP; Provisional

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 30/115 (26%), Positives = 57/115 (49%), Gaps = 13/115 (11%)

Query: 9   FHVLAVDDSIIDRKLIERLLKT-SSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           F VL VDD  + R+ + +LL+    ++V A ++G+ A   + L N  +         ++I
Sbjct: 7   FQVLIVDDHPLMRRGVRQLLELDPGFEVVA-EAGDGA-SAIDLANRLD--------PDVI 56

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
           + D  M GM+G D L  ++       I  +I++  +  S +   ++ GA+ + LK
Sbjct: 57  LLDLNMKGMSGLDTLNALRRDGVTAQI--IILTVSDASSDVFALIDAGADGYLLK 109

Length = 215

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

 Score = 37.5 bits (87), Expect = 0.002
 Identities = 20/86 (23%), Positives = 38/86 (44%)

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
           Q ++++ D  MP + G  +L K+ E        V+++S+        R +  GA+ + LK
Sbjct: 48  QPDVVVLDIIMPHLDGIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLK 107

Query: 123 PVQLADVNKLKPHLMKGISKEIKEPN 148
           P  L  +      L  G + +I   +
Sbjct: 108 PFDLEILAARIRQLAWGTNADILADS 133

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|181883 PRK09468, ompR, osmolarity response regulator; Provisional

 Score = 37.3 bits (87), Expect = 0.002
 Identities = 30/121 (24%), Positives = 59/121 (48%), Gaps = 17/121 (14%)

Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
               + +L VDD +  R L+ER L    +QV +  +  + ++ L L  E           
Sbjct: 2   MQENYKILVVDDDMRLRALLERYLTEQGFQVRSAANA-EQMDRL-LTRE---------SF 50

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS--ENIPSRINRCLEEGAEEFFLK 122
           +L++ D  +PG  G  + R+++   +    P++++++  E +  RI   LE GA+++  K
Sbjct: 51  HLMVLDLMLPGEDGLSICRRLRSQNN--PTPIIMLTAKGEEV-DRIVG-LEIGADDYLPK 106

Query: 123 P 123
           P
Sbjct: 107 P 107

Length = 239

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

 Score = 36.5 bits (85), Expect = 0.004
 Identities = 22/118 (18%), Positives = 47/118 (39%), Gaps = 15/118 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           +VL ++D  +  ++  R +K       V    +  +A   +     D           LI
Sbjct: 2   NVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKPD-----------LI 50

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           + D  MP   G +LL +++       + V+++++ +    I   L  G  ++ +KP  
Sbjct: 51  LLDIYMPDGNGIELLPELRSQH--YPVDVIVITAASDMETIKEALRYGVVDYLIKPFT 106

Length = 224

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

 Score = 36.2 bits (84), Expect = 0.004
 Identities = 30/122 (24%), Positives = 53/122 (43%), Gaps = 15/122 (12%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSS-YQVTA-VDSGNKALEFLGLLNEDEQTNSQ 60
           M       +L +DD  + R  +++L+  +    V     +G + +E    L+ D      
Sbjct: 1   MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPD------ 54

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF 120
                LI+ D  MPGM G + L K++E +      +V+ S  N    +   L+ GA+ + 
Sbjct: 55  -----LILLDLNMPGMNGLETLDKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYL 107

Query: 121 LK 122
           LK
Sbjct: 108 LK 109

Length = 216

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

 Score = 36.2 bits (84), Expect = 0.004
 Identities = 33/123 (26%), Positives = 62/123 (50%), Gaps = 18/123 (14%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
            + ++   +L V+D     +L+   L+ +SY  T +  G++ L ++       QT     
Sbjct: 5   PIDENTPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYV------RQTPP--- 55

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC--LEEGAEEFF 120
             +LI+ D  +PG  G  L R+I+      DIP+V+++++     I+R   LE GA+++ 
Sbjct: 56  --DLILLDLMLPGTDGLTLCREIR---RFSDIPIVMVTAKI--EEIDRLLGLEIGADDYI 108

Query: 121 LKP 123
            KP
Sbjct: 109 CKP 111

Length = 240

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	187
COG2197	211	CitB Response regulator containing a CheY-like rec	99.95
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.95
COG0745	229	OmpR Response regulators consisting of a CheY-like	99.93
PRK10840	216	transcriptional regulator RcsB; Provisional	99.91
COG2204	464	AtoC Response regulator containing CheY-like recei	99.91
COG4753	475	Response regulator containing CheY-like receiver d	99.9
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.88
PF00072	112	Response_reg: Response regulator receiver domain;	99.87
PRK09483	217	response regulator; Provisional	99.87
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.87
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.85
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.85
COG3437	360	Response regulator containing a CheY-like receiver	99.84
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.84
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.84
PRK09935	210	transcriptional regulator FimZ; Provisional	99.84
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.84
PLN03029	222	type-a response regulator protein; Provisional	99.83
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.83
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.83
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.82
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.82
PRK10651	216	transcriptional regulator NarL; Provisional	99.81
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.81
CHL00148	240	orf27 Ycf27; Reviewed	99.81
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.81
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.81
PRK10161	229	transcriptional regulator PhoB; Provisional	99.8
PRK10403	215	transcriptional regulator NarP; Provisional	99.8
COG4567	182	Response regulator consisting of a CheY-like recei	99.8
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.79
COG3706	435	PleD Response regulator containing a CheY-like rec	99.79
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.78
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.78
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.77
PRK09468	239	ompR osmolarity response regulator; Provisional	99.77
PRK15369	211	two component system sensor kinase SsrB; Provision	99.77
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.77
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.77
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.76
PRK11173	237	two-component response regulator; Provisional	99.76
PRK09390	202	fixJ response regulator FixJ; Provisional	99.75
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.74
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.74
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.73
COG3947	361	Response regulator containing CheY-like receiver a	99.73
PRK15115	444	response regulator GlrR; Provisional	99.73
PRK13856	241	two-component response regulator VirG; Provisional	99.73
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.72
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.72
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.72
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.72
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.71
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.7
PRK14084	246	two-component response regulator; Provisional	99.69
PRK15347	921	two component system sensor kinase SsrA; Provision	99.69
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.68
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.68
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.68
PRK09581	457	pleD response regulator PleD; Reviewed	99.68
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.67
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.66
PRK11697	238	putative two-component response-regulatory protein	99.65
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.65
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.65
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.64
PRK09581	457	pleD response regulator PleD; Reviewed	99.63
PRK13435	145	response regulator; Provisional	99.62
COG3707	194	AmiR Response regulator with putative antiterminat	99.61
PRK13558	665	bacterio-opsin activator; Provisional	99.61
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.59
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.56
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.47
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.47
PRK09191	261	two-component response regulator; Provisional	99.46
cd00156	113	REC Signal receiver domain; originally thought to	99.45
PRK13557	540	histidine kinase; Provisional	99.42
PRK10693	303	response regulator of RpoS; Provisional	99.37
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.27
PRK15029	755	arginine decarboxylase; Provisional	99.26
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.71
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	98.43
COG3706	435	PleD Response regulator containing a CheY-like rec	98.2
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	97.87
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	97.86
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	97.71
PRK02261	137	methylaspartate mutase subunit S; Provisional	97.67
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	97.45
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.22
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	96.57
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	96.48
PRK15399	713	lysine decarboxylase LdcC; Provisional	96.48
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	96.44
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	96.33
PRK15400	714	lysine decarboxylase CadA; Provisional	96.25
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	96.14
PRK10618	894	phosphotransfer intermediate protein in two-compon	95.94
PRK15320	251	transcriptional activator SprB; Provisional	95.87
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	95.48
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	95.35
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	95.2
COG4999	140	Uncharacterized domain of BarA-like signal transdu	95.11
PF07688	283	KaiA: KaiA domain; InterPro: IPR011648 KaiA is a c	95.01
PRK10558	256	alpha-dehydro-beta-deoxy-D-glucarate aldolase; Pro	94.94
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	94.72
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	94.64
PRK00208	250	thiG thiazole synthase; Reviewed	94.52
PRK10128	267	2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	94.45
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	94.34
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	94.28
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	94.2
TIGR03239	249	GarL 2-dehydro-3-deoxyglucarate aldolase. In E. co	94.19
TIGR02311	249	HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	93.19
PRK05749	425	3-deoxy-D-manno-octulosonic-acid transferase; Revi	93.17
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	92.77
TIGR01182	204	eda Entner-Doudoroff aldolase. 2-deydro-3-deoxypho	92.34
PRK15201	198	fimbriae regulatory protein FimW; Provisional	92.25
COG0512	191	PabA Anthranilate/para-aminobenzoate synthases com	91.57
PRK09140	206	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; R	91.29
PF05690	247	ThiG: Thiazole biosynthesis protein ThiG; InterPro	91.18
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	91.09
PF02254	116	TrkA_N: TrkA-N domain; InterPro: IPR003148 The reg	91.09
PLN02871	465	UDP-sulfoquinovose:DAG sulfoquinovosyltransferase	91.06
COG3967	245	DltE Short-chain dehydrogenase involved in D-alani	90.27
PRK06015	201	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	89.7
PRK03659	601	glutathione-regulated potassium-efflux system prot	89.38
PF01081	196	Aldolase: KDPG and KHG aldolase; InterPro: IPR0008	88.95
COG2022	262	ThiG Uncharacterized enzyme of thiazole biosynthes	88.82
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	88.67
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	88.63
TIGR03088	374	stp2 sugar transferase, PEP-CTERM/EpsH1 system ass	88.34
PRK10669	558	putative cation:proton antiport protein; Provision	87.99
PRK15484	380	lipopolysaccharide 1,2-N-acetylglucosaminetransfer	87.89
PRK07114	222	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	87.78
KOG4175	268	consensus Tryptophan synthase alpha chain [Amino a	87.27
cd03823	359	GT1_ExpE7_like This family is most closely related	86.99
PRK03562	621	glutathione-regulated potassium-efflux system prot	86.89
PRK12704	520	phosphodiesterase; Provisional	86.87
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	86.73
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	86.66
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	86.43
smart00052	241	EAL Putative diguanylate phosphodiesterase. Putati	86.09
TIGR03151	307	enACPred_II putative enoyl-(acyl-carrier-protein)	85.94
COG3836	255	HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	85.88
PRK15427	406	colanic acid biosynthesis glycosyltransferase WcaL	85.83
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	85.76
cd01948	240	EAL EAL domain. This domain is found in diverse ba	85.52
PRK14098	489	glycogen synthase; Provisional	85.51
PRK11359	799	cyclic-di-GMP phosphodiesterase; Provisional	84.72
PRK03958	176	tRNA 2'-O-methylase; Reviewed	84.65
cd04962	371	GT1_like_5 This family is most closely related to	84.49
PRK10060	663	RNase II stability modulator; Provisional	84.25
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	84.22
TIGR00566	188	trpG_papA glutamine amidotransferase of anthranila	84.11
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	83.93
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	83.53
TIGR01305	343	GMP_reduct_1 guanosine monophosphate reductase, eu	82.82
PRK06774	191	para-aminobenzoate synthase component II; Provisio	82.48
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	82.39
cd03813	475	GT1_like_3 This family is most closely related to	82.31
PRK05096	346	guanosine 5'-monophosphate oxidoreductase; Provisi	82.19
PF01993	276	MTD: methylene-5,6,7,8-tetrahydromethanopterin deh	82.18
PRK09490	1229	metH B12-dependent methionine synthase; Provisiona	82.16
PLN02335	222	anthranilate synthase	82.09
cd04723	233	HisA_HisF Phosphoribosylformimino-5-aminoimidazole	81.79
PRK06843	404	inosine 5-monophosphate dehydrogenase; Validated	81.72
PRK00994	277	F420-dependent methylenetetrahydromethanopterin de	81.51
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	81.48
TIGR02082	1178	metH 5-methyltetrahydrofolate--homocysteine methyl	81.47
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	81.08
COG2200	256	Rtn c-di-GMP phosphodiesterase class I (EAL domain	80.7
cd02065	125	B12-binding_like B12 binding domain (B12-BD). Most	80.65
PRK09922	359	UDP-D-galactose:(glucosyl)lipopolysaccharide-1,6-D	80.62
PRK15490	578	Vi polysaccharide biosynthesis protein TviE; Provi	80.55
PRK13125	244	trpA tryptophan synthase subunit alpha; Provisiona	80.49
PRK04302	223	triosephosphate isomerase; Provisional	80.33

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

Probab=99.95  E-value=4.4e-27  Score=177.45  Aligned_cols=165  Identities=22%  Similarity=0.367  Sum_probs=135.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-ceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-YQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||||.++..+..+|+..+ ++|+. +.++.++++.+.           ..+||++++|+.||+++|+++++.|+
T Consensus         1 ~~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~~-----------~~~pdvvl~Dl~mP~~~G~e~~~~l~   69 (211)
T COG2197           1 IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLAR-----------ELKPDVVLLDLSMPGMDGLEALKQLR   69 (211)
T ss_pred             CeEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHhh-----------hcCCCEEEEcCCCCCCChHHHHHHHH
Confidence            479999999999999999998775 77765 777999999974           44566999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccc-cccccccc-h
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRK-GLEEIDSA-D  164 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~  164 (187)
                      +..|  +++|+++|...+..++..+++.||++|+.|+.+++++..+++.+..|..+.+........... ........ .
T Consensus        70 ~~~p--~~~vvvlt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (211)
T COG2197          70 ARGP--DIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAGGTYLPPDIARKLAGLLPSSSAEAPLAE  147 (211)
T ss_pred             HHCC--CCcEEEEeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCCeEeCHHHHHHHHhhcccccccccccC
Confidence            8877  889999999999999999999999999999999999999999999997543322111100000 00001111 4


Q ss_pred             hhhhhcccccccCCCCCCCccC
Q 046192          165 RTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      .++.||.+|+.++++|+|||||
T Consensus       148 ~LT~RE~eVL~lla~G~snkeI  169 (211)
T COG2197         148 LLTPRELEVLRLLAEGLSNKEI  169 (211)
T ss_pred             CCCHHHHHHHHHHHCCCCHHHH
Confidence            6999999999999999999998

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.95  E-value=4e-27  Score=169.28  Aligned_cols=160  Identities=21%  Similarity=0.285  Sum_probs=138.5

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ...|.|||||..+|+.+..+|+..||.+.++.++.+++......+|+           |+|+|..||+++|.++.+.|.+
T Consensus         4 ~~~V~vVDDD~~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~~~pG-----------clllDvrMPg~sGlelq~~L~~   72 (202)
T COG4566           4 EPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRPG-----------CLLLDVRMPGMSGLELQDRLAE   72 (202)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHHhCCceeeeecCHHHHHhhccCCCCC-----------eEEEecCCCCCchHHHHHHHHh
Confidence            46789999999999999999999999999999999999886555555           9999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTR  167 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (187)
                      .++  ..|||++|++.|.....+|++.||-|||.|||+...|.+++++.+...............      -......++
T Consensus        73 ~~~--~~PVIfiTGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~~~~~~~~~~~~~~------~~~~l~tLT  144 (202)
T COG4566          73 RGI--RLPVIFLTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALARDASRRAEADRQAA------IRARLATLT  144 (202)
T ss_pred             cCC--CCCEEEEeCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHHHHHHHHHhHHHHHH------HHHHHHhcC
Confidence            987  999999999999999999999999999999999999999999998775433222111111      123446689


Q ss_pred             hhcccccccCCCCCCCccC
Q 046192          168 TRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       168 ~~e~~~l~l~~~g~~~~ei  186 (187)
                      +||++|+...-.|+.||+|
T Consensus       145 ~RERqVl~~vV~G~~NKqI  163 (202)
T COG4566         145 PRERQVLDLVVRGLMNKQI  163 (202)
T ss_pred             HHHHHHHHHHHcCcccHHH
Confidence            9999999999999999997

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

Probab=99.93  E-value=2.1e-25  Score=169.89  Aligned_cols=120  Identities=21%  Similarity=0.396  Sum_probs=111.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++||||||++..+..+...|++.||.|..+.++.++++.+.           .. ||+||+|+.+|+++|+++|+++|+.
T Consensus         1 ~~ILiveDd~~i~~~l~~~L~~~g~~v~~~~~~~~a~~~~~-----------~~-~dlviLD~~lP~~dG~~~~~~iR~~   68 (229)
T COG0745           1 MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAR-----------EQ-PDLVLLDLMLPDLDGLELCRRLRAK   68 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------cC-CCEEEEECCCCCCCHHHHHHHHHhh
Confidence            38999999999999999999999999999999999999994           34 6799999999999999999999965


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                       ....+|||++|+.++......++++|||||+.|||++.||...++.++++..
T Consensus        69 -~~~~~PIi~Lta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~~  120 (229)
T COG0745          69 -KGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRNA  120 (229)
T ss_pred             -cCCCCcEEEEECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcCc
Confidence             3348899999999999999999999999999999999999999999998754

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.91  E-value=1.2e-23  Score=159.23  Aligned_cols=164  Identities=21%  Similarity=0.292  Sum_probs=132.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc-e-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC---CCHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY-Q-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG---MTGYDLL   82 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~-~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~---~~g~~~~   82 (187)
                      +++|+|+||++..+..+...|+..++ . +..+.++.+++..+.           ...||++++|+.+|+   .+|.+++
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~-----------~~~~DlvllD~~l~~~~~~~g~~~~   71 (216)
T PRK10840          3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLP-----------KLDAHVLITDLSMPGDKYGDGITLI   71 (216)
T ss_pred             ceEEEEECCcHHHHHHHHHHHhcCCCCEEEEEECCHHHHHHHHH-----------hCCCCEEEEeCcCCCCCCCCHHHHH
Confidence            47999999999999999999987654 4 456899999999884           344679999999999   5999999


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcccccccccccccc
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDS  162 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (187)
                      +.+++..+  .+|||++++..+......+++.|+++|+.||.+.++|..+++.+..|....+...........  .....
T Consensus        72 ~~l~~~~~--~~~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~g~~~~~~~~~~~~~~~~--~~~~~  147 (216)
T PRK10840         72 KYIKRHFP--SLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLLEKIS--AGGYG  147 (216)
T ss_pred             HHHHHHCC--CCcEEEEEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHCCCeecCHHHHHHHHHhc--cCCCc
Confidence            99998766  899999999999999999999999999999999999999999999886543221100000000  00011


Q ss_pred             chhhhhhcccccccCCCCCCCccC
Q 046192          163 ADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       163 ~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ...+++||.++|.++.+|+|++||
T Consensus       148 ~~~Lt~rE~evl~~~~~G~s~~eI  171 (216)
T PRK10840        148 DKRLSPKESEVLRLFAEGFLVTEI  171 (216)
T ss_pred             cccCCHHHHHHHHHHHCCCCHHHH
Confidence            245999999999999999999997

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

Probab=99.91  E-value=3.4e-23  Score=169.63  Aligned_cols=166  Identities=23%  Similarity=0.369  Sum_probs=133.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+||||||++..+..+...|+..||.|..+.++.+|++.+.           ...+|+|++|+.||+++|+++++.+++
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            457999999999999999999999999999999999999994           335789999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccC----------CCccccccccc
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKE----------PNNINNKRKGL  157 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~----------~~~~~~~~~~~  157 (187)
                      ..+  ++|||++|++.+.+.+..|++.||.||+.|||++++|...+++++.........          .....-.+..+
T Consensus        73 ~~~--~~pVI~~Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~~~~~~e~~~~~~~~~~~~~~liG~S~am  150 (464)
T COG2204          73 RDP--DLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALELRELQRENRRSLKRAKSLGGELVGESPAM  150 (464)
T ss_pred             hCC--CCCEEEEeCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHHhhhhhhhhhhhhccccccCCceecCHHH
Confidence            987  999999999999999999999999999999999999999999999764322111          11111112223


Q ss_pred             cccccchhhhhhcccccccCCCCCCCccC
Q 046192          158 EEIDSADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       158 ~~~~~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      +++.............+-++++..|+||+
T Consensus       151 ~~l~~~i~kvA~s~a~VLI~GESGtGKEl  179 (464)
T COG2204         151 QQLRRLIAKVAPSDASVLITGESGTGKEL  179 (464)
T ss_pred             HHHHHHHHHHhCCCCCEEEECCCCCcHHH
Confidence            33333333344455566778888888875

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

Probab=99.90  E-value=8e-23  Score=167.28  Aligned_cols=121  Identities=30%  Similarity=0.539  Sum_probs=111.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHH--hCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLK--TSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~--~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .+||||||++.+|++|..++.  +.|+.++. |.+|.+|++.+           ...+||+||.|+.||+++|+++++.+
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            799999999999999999995  45887775 89999999999           55567799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ++..|  ++.+|++|++++-+++.+|++.|+.|||+||++.++|.+++.++......
T Consensus        71 ke~~p--~~~~IILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~kl~~  125 (475)
T COG4753          71 KEQSP--DTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIGKLEE  125 (475)
T ss_pred             HHhCC--CceEEEEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHHHHHH
Confidence            99987  99999999999999999999999999999999999999999999877544

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.88  E-value=1.8e-21  Score=148.33  Aligned_cols=165  Identities=11%  Similarity=0.173  Sum_probs=127.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhC-Cce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTS-SYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~-~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .+++|+|+||++..+..+...|+.. ++. +..+.++.++++.+..           ..||+|++|+.+|+.+|+++++.
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~-----------~~pdlvllD~~mp~~~gle~~~~   71 (225)
T PRK10046          3 APLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIER-----------FKPGLILLDNYLPDGRGINLLHE   71 (225)
T ss_pred             CcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-----------cCCCEEEEeCCCCCCcHHHHHHH
Confidence            3689999999999999999999864 675 5569999999999944           44669999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCc---c-c----cccc-
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNN---I-N----NKRK-  155 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~---~-~----~~~~-  155 (187)
                      +++..+  ..|||++|+..+......+++.||++|+.||++.++|..+++++..+..........   . .    .... 
T Consensus        72 l~~~~~--~~~iivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (225)
T PRK10046         72 LVQAHY--PGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQRKHMLESIDSASQKQIDEMFNAYARG  149 (225)
T ss_pred             HHhcCC--CCCEEEEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHHHHHHHhccCccCHHHHHHHHhhcccc
Confidence            998765  689999999999999999999999999999999999999999987765432111000   0 0    0000 


Q ss_pred             -ccccc-ccchhhhhhcccccccCCCC---CCCccC
Q 046192          156 -GLEEI-DSADRTRTRLNDTIDINNDG---LPDLEI  186 (187)
Q Consensus       156 -~~~~~-~~~~~~~~~e~~~l~l~~~g---~~~~ei  186 (187)
                       ..... .....++.+  +|+.++.+|   +|++||
T Consensus       150 ~~~~~~~~~~~~Lt~r--~Vl~~~~~g~~g~s~~eI  183 (225)
T PRK10046        150 EPKDELPTGIDPLTLN--AVRKLFKEPGVQHTAETV  183 (225)
T ss_pred             cccccCCCCCCHHHHH--HHHHHHHcCCCCcCHHHH
Confidence             00000 112346665  899999995   788887

>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=99.87  E-value=7.5e-21  Score=129.07  Aligned_cols=111  Identities=32%  Similarity=0.573  Sum_probs=103.8

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      |||+||++..+..+...|+..|+ .+..+.++.++++.+.           ...||++++|+.+++.+|.++++.|+...
T Consensus         1 Ilivd~~~~~~~~l~~~l~~~~~~~v~~~~~~~~~~~~~~-----------~~~~d~iiid~~~~~~~~~~~~~~i~~~~   69 (112)
T PF00072_consen    1 ILIVDDDPEIRELLEKLLERAGYEEVTTASSGEEALELLK-----------KHPPDLIIIDLELPDGDGLELLEQIRQIN   69 (112)
T ss_dssp             EEEEESSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHH-----------HSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred             cEEEECCHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHhc-----------ccCceEEEEEeeecccccccccccccccc
Confidence            79999999999999999998899 8889999999999994           44567999999999999999999999988


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHH
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKP  134 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~  134 (187)
                      +  .+|+|++++..+.....++++.|+++|+.||++.++|..+++
T Consensus        70 ~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~  112 (112)
T PF00072_consen   70 P--SIPIIVVTDEDDSDEVQEALRAGADDYLSKPFSPEELRAAIN  112 (112)
T ss_dssp             T--TSEEEEEESSTSHHHHHHHHHTTESEEEESSSSHHHHHHHHH
T ss_pred             c--cccEEEecCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHhhC
Confidence            6  999999999999999999999999999999999999988764

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 ....

>PRK09483 response regulator; Provisional

Probab=99.87  E-value=1.6e-21  Score=146.72  Aligned_cols=165  Identities=19%  Similarity=0.238  Sum_probs=132.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||++..+..+...|... ++.+. .+.++.+++..+.           ...||++++|+.+|+.+|.++++.++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~d~~~~~~~g~~~~~~l~   70 (217)
T PRK09483          2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCR-----------TNAVDVVLMDMNMPGIGGLEATRKIL   70 (217)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCCEEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            68999999999999999999874 78776 5889999998884           34577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcccccc-ccccccccchh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKR-KGLEEIDSADR  165 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  165 (187)
                      +..+  .+|+|+++...+......++..|+++|+.||++.++|..+++.+..+............... ...........
T Consensus        71 ~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (217)
T PRK09483         71 RYTP--DVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPATENPFAS  148 (217)
T ss_pred             HHCC--CCeEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCCcccCHHHHHHHHHhhcccCCCccccc
Confidence            8776  89999999999999999999999999999999999999999999988543221100000000 00001112345


Q ss_pred             hhhhcccccccCCCCCCCccC
Q 046192          166 TRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ++.+|.+++.++.+|.|++||
T Consensus       149 Lt~rE~~vl~~~~~G~~~~~I  169 (217)
T PRK09483        149 LSERELQIMLMITKGQKVNEI  169 (217)
T ss_pred             cCHHHHHHHHHHHCCCCHHHH
Confidence            999999999999999999987

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

Probab=99.87  E-value=5.3e-21  Score=140.27  Aligned_cols=120  Identities=18%  Similarity=0.359  Sum_probs=109.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhC-CceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTS-SYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~-~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|||||||+.+.+.-+.++++. ||.++. +.++++|...+...+||           +|++|+-||+.+|++++..++
T Consensus         1 i~VLIiEDD~mVaeih~~yv~~~~gF~~vg~A~~~~ea~~~i~~~~pD-----------LILLDiYmPd~~Gi~lL~~ir   69 (224)
T COG4565           1 INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKPD-----------LILLDIYMPDGNGIELLPELR   69 (224)
T ss_pred             CcEEEEcCchHHHHHHHHHHHhCCCceEEEeeccHHHHHHHHHhhCCC-----------EEEEeeccCCCccHHHHHHHH
Confidence            58999999999999999999875 788876 89999999999665554           999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ..+.  .+-||++|+.++.+.+.+|++.|+.|||+|||..++|..++.+-.+...
T Consensus        70 ~~~~--~~DVI~iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~~r~  122 (224)
T COG4565          70 SQHY--PVDVIVITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQKRH  122 (224)
T ss_pred             hcCC--CCCEEEEeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHHHHH
Confidence            9886  8899999999999999999999999999999999999999887776643

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.85  E-value=2.9e-21  Score=145.19  Aligned_cols=147  Identities=14%  Similarity=0.175  Sum_probs=116.3

Q ss_pred             HHHHHHHHHHhC---CceEEEeCCHHHHHHHHhccCcccccccccccccEEE---EeccCCCCCHHHHHHHHHhhcCCCC
Q 046192           20 DRKLIERLLKTS---SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII---TDYCMPGMTGYDLLRKIKESASLKD   93 (187)
Q Consensus        20 ~~~~l~~~l~~~---~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi---~d~~~~~~~g~~~~~~l~~~~~~~~   93 (187)
                      .|.++..+|...   ++.+..+.++.++++.+           ...+||++|   +|+.||+++|+++++.+++..|  .
T Consensus         2 ~r~gi~~lL~~~~~~~~~v~~~~~~~~~l~~~-----------~~~~pd~vl~dl~d~~mp~~~Gl~~~~~l~~~~p--~   68 (207)
T PRK11475          2 SSIGIESLFRKFPGNPYKLHTFSSQSSFQDAM-----------SRISFSAVIFSLSAMRSERREGLSCLTELAIKFP--R   68 (207)
T ss_pred             chHHHHHHHhcCCCCeeEEEEeCCHHHHHHHh-----------ccCCCCEEEeeccccCCCCCCHHHHHHHHHHHCC--C
Confidence            477889999652   45556789999999988           334567998   6788899999999999999887  8


Q ss_pred             CcEEEEeCCCChhHHHHHH-HhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhhhhccc
Q 046192           94 IPVVIMSSENIPSRINRCL-EEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLND  172 (187)
Q Consensus        94 ~~iI~ls~~~~~~~~~~a~-~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~  172 (187)
                      +|||++|...+......++ +.||++|+.||.+.++|..+++.+.+|..+........    .   .......+++||.+
T Consensus        69 ~~iIvlt~~~~~~~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G~~~~~~~~~~~----~---~~~~~~~LT~RE~e  141 (207)
T PRK11475         69 MRRLVIADDDIEARLIGSLSPSPLDGVLSKASTLEILQQELFLSLNGVRQATDRLNNQ----W---YINQSRMLSPTERE  141 (207)
T ss_pred             CCEEEEeCCCCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCCCcccCHHHHHH----h---hccCcCCCCHHHHH
Confidence            9999999987776666665 79999999999999999999999999865432211100    0   00112359999999


Q ss_pred             ccccCCCCCCCccC
Q 046192          173 TIDINNDGLPDLEI  186 (187)
Q Consensus       173 ~l~l~~~g~~~~ei  186 (187)
                      ||.++.+|+|||||
T Consensus       142 VL~ll~~G~snkeI  155 (207)
T PRK11475        142 ILRFMSRGYSMPQI  155 (207)
T ss_pred             HHHHHHCCCCHHHH
Confidence            99999999999997

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.85  E-value=4e-21  Score=145.38  Aligned_cols=164  Identities=11%  Similarity=0.117  Sum_probs=123.1

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH-
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL-   82 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~-   82 (187)
                      .+...+++++||+|..+..+..+|+. ++.+ ..+.++.+++..+           .  +||+|++|+.+|+.+|++++ 
T Consensus         7 ~~~~~~~~~v~~~~l~~~~l~~~L~~-~~~v~~~~~~~~~~~~~~-----------~--~~DvvllDi~~p~~~G~~~~~   72 (216)
T PRK10100          7 SSHGHTLLLITKPSLQATALLQHLKQ-SLAITGKLHNIQRSLDDI-----------S--SGSIILLDMMEADKKLIHYWQ   72 (216)
T ss_pred             cccCceEEEEeChHhhhHHHHHHHHH-hCCCeEEEcCHHHhhccC-----------C--CCCEEEEECCCCCccHHHHHH
Confidence            45567899999999999999999984 4444 4577888887764           1  26799999999999999987 


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHH--hCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcccccccc-ccc
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLE--EGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKG-LEE  159 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~--~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~-~~~  159 (187)
                      +.++...|  +++||++|...+  ....++.  .||.+|+.|+.+.++|.++++.+..|..+.............. ...
T Consensus        73 ~~i~~~~p--~~~vvvlt~~~~--~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G~~~~~~~~~~~l~~~~~~~~~  148 (216)
T PRK10100         73 DTLSRKNN--NIKILLLNTPED--YPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGECYFTQKLASYLITHSGNYRY  148 (216)
T ss_pred             HHHHHhCC--CCcEEEEECCch--hHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcCCcccCHHHHHHHHHhhccccc
Confidence            56887776  899999999865  4445555  4999999999999999999999999976543221100000000 000


Q ss_pred             -cccchhhhhhcccccccCCCCCCCccC
Q 046192          160 -IDSADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       160 -~~~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                       ......++.+|.+++.+..+|+|++||
T Consensus       149 ~~~~~~~Lt~rE~~Vl~l~~~G~s~~eI  176 (216)
T PRK10100        149 NSTESALLTHREKEILNKLRIGASNNEI  176 (216)
T ss_pred             CCCccCCCCHHHHHHHHHHHcCCCHHHH
Confidence             001234899999999999999999997

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

Probab=99.84  E-value=2.8e-20  Score=146.06  Aligned_cols=125  Identities=29%  Similarity=0.481  Sum_probs=111.8

Q ss_pred             CCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHH
Q 046192            2 GMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDL   81 (187)
Q Consensus         2 ~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~   81 (187)
                      +++..++++|+++||++..+..++.+|+..||.+..+.+|+++++..           ...++|++++|++||+++|.++
T Consensus         8 ~~~~~~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~-----------~~~~~dlvllD~~mp~mdg~ev   76 (360)
T COG3437           8 KNEPDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLL-----------QEEPPDLVLLDVRMPEMDGAEV   76 (360)
T ss_pred             CCCCcccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHh-----------cccCCceEEeeccCCCccHHHH
Confidence            34566789999999999999999999999999999999999999988           3445779999999999999999


Q ss_pred             HHHHHh-hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           82 LRKIKE-SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        82 ~~~l~~-~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      +.+|+. ......+||+++|+..+.+...+++..||++|+.||+++.+|...+....
T Consensus        77 ~~~lk~~~p~t~~ip~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv~~~~  133 (360)
T COG3437          77 LNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARVSSHL  133 (360)
T ss_pred             HHHHHhcCCcccccceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHHHHHH
Confidence            999999 44445789999999999999999999999999999999999988875443

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

Probab=99.84  E-value=2.8e-20  Score=140.09  Aligned_cols=151  Identities=7%  Similarity=0.019  Sum_probs=120.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCC--ceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEecc--CCCCCHHHHHHH
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSS--YQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC--MPGMTGYDLLRK   84 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~--~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~--~~~~~g~~~~~~   84 (187)
                      .|+|+||++.++..++.+|+..+  +.+ ..+.++.+++..+.           ...||++++|+.  +++.+|.++++.
T Consensus         2 ~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~~-----------~~~pDlvLlDl~~~l~~~~g~~~i~~   70 (207)
T PRK15411          2 STIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIACD-----------SLRPSVVFINEDCFIHDASNSQRIKQ   70 (207)
T ss_pred             CEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHHh-----------ccCCCEEEEeCcccCCCCChHHHHHH
Confidence            68999999999999999998655  334 35899999999884           334679999966  888899999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCc-eeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccc
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEE-FFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSA  163 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~-yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (187)
                      |++..|  ++++|++|+..+..... ++..|+.. |+.|+.++++|..+++.+..|..+.....    .      ..+  
T Consensus        71 i~~~~p--~~~iivlt~~~~~~~~~-~~~~~~~~~~~~K~~~~~~L~~aI~~v~~g~~~~~~~~----~------~~~--  135 (207)
T PRK15411         71 IINQHP--NTLFIVFMAIANIHFDE-YLLVRKNLLISSKSIKPESLDDLLGDILKKETTITSFL----N------LPT--  135 (207)
T ss_pred             HHHHCC--CCeEEEEECCCchhHHH-HHHHHhhceeeeccCCHHHHHHHHHHHHcCCcccCccc----c------CCc--
Confidence            999887  89999999887665543 55556555 88999999999999999998865432110    0      001  


Q ss_pred             hhhhhhcccccccCCCCCCCccC
Q 046192          164 DRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ..+++||.++|.++++|+|+|||
T Consensus       136 ~~LT~RE~eVL~lla~G~snkeI  158 (207)
T PRK15411        136 LSLSRTESSMLRMWMAGQGTIQI  158 (207)
T ss_pred             ccCCHHHHHHHHHHHcCCCHHHH
Confidence            24999999999999999999997

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.84  E-value=2.7e-20  Score=138.78  Aligned_cols=162  Identities=17%  Similarity=0.230  Sum_probs=131.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      +|+++||++..+..+...|+..|+.+. .+.++.++++.+.           ...||++++|..+|+.+|.++++.+++.
T Consensus         2 ~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~-----------~~~~dlvi~d~~~~~~~g~~~~~~l~~~   70 (204)
T PRK09958          2 NAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVE-----------TLKPDIVIIDVDIPGVNGIQVLETLRKR   70 (204)
T ss_pred             cEEEECCcHHHHHHHHHHHhcCCCEEEEEeCCHHHHHHHHH-----------ccCCCEEEEeCCCCCCCHHHHHHHHHhh
Confidence            789999999999999999988899887 5899999999884           3356799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRT  168 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (187)
                      .+  ..|+|++++..+......+++.|+++|+.||++.++|...++.+.++....+.....  ..+...........++.
T Consensus        71 ~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~lt~  146 (204)
T PRK09958         71 QY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNR--FVGSLTSDQQKLDSLSK  146 (204)
T ss_pred             CC--CCeEEEEeCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHcCCcccCHHHHH--HHHhccCCCcccccCCH
Confidence            65  789999999999999999999999999999999999999999998774432111000  00000111112235889


Q ss_pred             hcccccccCCCCCCCccC
Q 046192          169 RLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       169 ~e~~~l~l~~~g~~~~ei  186 (187)
                      +|.+++.++..|.+++||
T Consensus       147 ~E~~vl~~l~~g~~~~~I  164 (204)
T PRK09958        147 QEISVMRYILDGKDNNDI  164 (204)
T ss_pred             HHHHHHHHHHcCCCHHHH
Confidence            999999999999999887

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.84  E-value=3.6e-20  Score=138.35  Aligned_cols=166  Identities=25%  Similarity=0.308  Sum_probs=131.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +.+|+++||++..+..+...|... ++.+. .+.++.+++..+.           ...||++++|..+|+.+|.++++.+
T Consensus         3 ~~~iliv~d~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~dlvild~~l~~~~g~~~~~~l   71 (210)
T PRK09935          3 PASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLR-----------TRPVDLIIMDIDLPGTDGFTFLKRI   71 (210)
T ss_pred             cceEEEECCcHHHHHHHHHHHhhCCCceEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            578999999999999999999876 57765 5788899988873           3457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADR  165 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (187)
                      +...+  .+|+|++++..+......++..|+++|+.||++.++|..+++.+..+..........................
T Consensus        72 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (210)
T PRK09935         72 KQIQS--TVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCSTNSSTDTV  149 (210)
T ss_pred             HHhCC--CCcEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHcCCceeCHHHHHHHHhcccccCcccccc
Confidence            98765  7999999999999999999999999999999999999999999888753211110000000000011112345


Q ss_pred             hhhhcccccccCCCCCCCccC
Q 046192          166 TRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ++.+|.+++.++.+|+|++||
T Consensus       150 lt~re~~vl~~l~~g~s~~eI  170 (210)
T PRK09935        150 LSNREVTILRYLVSGLSNKEI  170 (210)
T ss_pred             CCHHHHHHHHHHHcCCCHHHH
Confidence            899999999999999999987

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.84  E-value=5.7e-20  Score=138.91  Aligned_cols=165  Identities=16%  Similarity=0.212  Sum_probs=130.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|+.+|+.+|+++++.+++.
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvl~d~~~~~~~g~~~~~~l~~~   72 (228)
T PRK11083          4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLR-----------QQPPDLVILDVGLPDISGFELCRQLLAF   72 (228)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHHhh
Confidence            68999999999999999999988999888999999988873           3456799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccc--ccc--cc---ccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNIN--NKR--KG---LEEID  161 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~--~~~--~~---~~~~~  161 (187)
                      .+  .+|+|++++..+......+++.|+++|+.||++.++|..+++.+.++............  ...  ..   .....
T Consensus        73 ~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (228)
T PRK11083         73 HP--ALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRVKKFAAPSPVIRIGHFELDEPAARISYFG  150 (228)
T ss_pred             CC--CCCEEEEEcCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHCccccccCCCceeEECCEEEecCccEEEECC
Confidence            65  89999999998888899999999999999999999999999988876433111100000  000  00   00011


Q ss_pred             cchhhhhhcccccccCCCC----CCCccC
Q 046192          162 SADRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       162 ~~~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ....++.+|.++|.++.+|    +|++||
T Consensus       151 ~~~~Lt~~E~~il~~l~~~~~~~~s~~~i  179 (228)
T PRK11083        151 TPLTLTRYEFLLLKTLLLSPGRVFSRQQL  179 (228)
T ss_pred             EEeecCHHHHHHHHHHHhCCCceECHHHH
Confidence            2245899999999999986    787766

>PLN03029 type-a response regulator protein; Provisional

Probab=99.83  E-value=4.6e-19  Score=134.94  Aligned_cols=139  Identities=78%  Similarity=1.222  Sum_probs=116.8

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccc--------c-ccccccccEEEEec
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQ--------T-NSQVIQVNLIITDY   71 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~--------~-~~~~~~~dlvi~d~   71 (187)
                      |.|....+++||+|||++..+..+...|+..||.+..+.++.++++.+....+|..        . ......+|+||+|+
T Consensus         1 ~~~~~~~~~~VLiVdd~~~~~~~l~~~L~~~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~   80 (222)
T PLN03029          1 MGITTESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDY   80 (222)
T ss_pred             CCCCCCCCccEEEEeCCHHHHHHHHHHHHHcCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcC
Confidence            77778888999999999999999999999999999999999999998864432200        0 00123578999999


Q ss_pred             cCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           72 CMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        72 ~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .||+++|+++++.+++......+|+|++++........++++.|+++|+.||++..+|...+..+.+.
T Consensus        81 ~mp~~~G~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~  148 (222)
T PLN03029         81 CMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKT  148 (222)
T ss_pred             CCCCCCHHHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHHH
Confidence            99999999999999986543479999999999999999999999999999999999998777665544

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.83  E-value=1.1e-19  Score=137.00  Aligned_cols=167  Identities=18%  Similarity=0.304  Sum_probs=128.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.++..
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~d~vi~d~~~~~~~g~~~~~~l~~~   71 (226)
T TIGR02154         3 RRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLIN-----------ERGPDLILLDWMLPGTSGIELCRRLRRR   71 (226)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHH-----------hcCCCEEEEECCCCCCcHHHHHHHHHcc
Confidence            58999999999999999999988999988999999999884           3456799999999999999999999976


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc------cccccccccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI------NNKRKGLEEIDS  162 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~  162 (187)
                      .+.+.+|+|++++..+......+++.|+++|+.||++.++|...++.+.++...........      .........-..
T Consensus        72 ~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (226)
T TIGR02154        72 PETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRRIRPQLSDEVIEVGDLSLDPVAHRVFRGGQ  151 (226)
T ss_pred             ccCCCCCEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhcccccccccCceEECCEEEEcCccEEEECCE
Confidence            43347899999999999999999999999999999999999999999887643211110000      000000000111


Q ss_pred             chhhhhhcccccccCCC----CCCCccC
Q 046192          163 ADRTRTRLNDTIDINND----GLPDLEI  186 (187)
Q Consensus       163 ~~~~~~~e~~~l~l~~~----g~~~~ei  186 (187)
                      ...++.+|.+++.++..    |+|+++|
T Consensus       152 ~~~Lt~~E~~il~~l~~~~~~~~s~~~i  179 (226)
T TIGR02154       152 PLSLGPTEFRLLHFFMTHPERVYSREQL  179 (226)
T ss_pred             EEEcCHHHHHHHHHHHhCCCceEcHHHH
Confidence            23589999999999887    4555443

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.

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.83  E-value=1.4e-19  Score=136.06  Aligned_cols=165  Identities=20%  Similarity=0.310  Sum_probs=128.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|+++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|.++++.+++.
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvild~~l~~~~g~~~~~~i~~~   69 (219)
T PRK10336          1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALY-----------SAPYDAVILDLTLPGMDGRDILREWREK   69 (219)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------hCCCCEEEEECCCCCCCHHHHHHHHHhc
Confidence            37999999999999999999988999888999999988873           3357799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCC--c---cccccccccccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPN--N---INNKRKGLEEIDSA  163 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~~~  163 (187)
                      .+  .+|+|++++..+......++..||++|+.||++.++|...++.+.+..........  .   ..............
T Consensus        70 ~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (219)
T PRK10336         70 GQ--REPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTNGQASNELRHGNVMLDPGKRIATLAGEP  147 (219)
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHhccccCCCCceeECCEEEEcccCEEEECCEE
Confidence            65  88999999999999999999999999999999999999999888764321110000  0   00000000001122


Q ss_pred             hhhhhhcccccccCCCC----CCCccC
Q 046192          164 DRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ..++.+|.+++.++..|    .|+++|
T Consensus       148 ~~Lt~~E~~il~~l~~~~~~~~s~~~i  174 (219)
T PRK10336        148 LTLKPKEFALLELLMRNAGRVLPRKLI  174 (219)
T ss_pred             EecCHHHHHHHHHHHhCCCccCcHHHH
Confidence            34889999999999988    777765

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.82  E-value=5.4e-19  Score=133.05  Aligned_cols=164  Identities=18%  Similarity=0.260  Sum_probs=127.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +|+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.++...
T Consensus         2 ~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~d~illd~~~~~~~g~~~~~~l~~~~   70 (222)
T PRK10643          2 KILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLE-----------SGHYSLVVLDLGLPDEDGLHLLRRWRQKK   70 (222)
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHH-----------hCCCCEEEEECCCCCCCHHHHHHHHHhcC
Confidence            7999999999999999999988998888999999998883           34567999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcccccc-----ccccccccch
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKR-----KGLEEIDSAD  164 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  164 (187)
                      +  ..|+|++++..+......+++.|+++|+.||++.++|...++.+.++...............     .....-....
T Consensus        71 ~--~~pii~ls~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (222)
T PRK10643         71 Y--TLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRRHQGQGENELQVGNLTLNLGRQQVWLDGQEL  148 (222)
T ss_pred             C--CCcEEEEECCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhhhccccCCceEECCEEEEcCCCEEEECCEEE
Confidence            5  78999999999999999999999999999999999999999888866432211111000000     0000011223


Q ss_pred             hhhhhcccccccCC--CCCCC-ccC
Q 046192          165 RTRTRLNDTIDINN--DGLPD-LEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~--~g~~~-~ei  186 (187)
                      .++.+|.+++.++.  .|.+. +|+
T Consensus       149 ~Lt~~E~~il~~l~~~~g~~~~~~~  173 (222)
T PRK10643        149 ILTPKEFALLSRLMLKAGSPVHREI  173 (222)
T ss_pred             ecCHHHHHHHHHHHhCCCceEcHHH
Confidence            58889999998754  77763 544

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.82  E-value=5.8e-19  Score=133.74  Aligned_cols=164  Identities=16%  Similarity=0.186  Sum_probs=128.5

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHHHHHh
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLRKIKE   87 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~~l~~   87 (187)
                      +|+++||++..+..+...|+..||.+..+.++.+++..+.           ...||++++|..+|+  .+|+++++.+++
T Consensus         2 ~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvild~~l~~~~~~g~~~~~~i~~   70 (227)
T TIGR03787         2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFR-----------QRLPDLAIIDIGLGEEIDGGFMLCQDLRS   70 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHH-----------hCCCCEEEEECCCCCCCCCHHHHHHHHHh
Confidence            6899999999999999999988999988999999999883           345679999999998  589999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccC-C-Ccccc---c-----cccc
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKE-P-NNINN---K-----RKGL  157 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~-~-~~~~~---~-----~~~~  157 (187)
                      ..+  ++|+|++++..+......+++.||++|+.||++.++|...++.+.++....... . .....   .     ....
T Consensus        71 ~~~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (227)
T TIGR03787        71 LSA--TLPIIFLTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRRAEALQKPQKQDDLITRGPLTLDSDRMTV  148 (227)
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHhhhhccccccccceEEECCEEEEcccCEE
Confidence            765  789999999999999999999999999999999999999999988764321110 0 00000   0     0000


Q ss_pred             cccccchhhhhhcccccccCCC--CC--CCccC
Q 046192          158 EEIDSADRTRTRLNDTIDINND--GL--PDLEI  186 (187)
Q Consensus       158 ~~~~~~~~~~~~e~~~l~l~~~--g~--~~~ei  186 (187)
                      ..-.....++.+|.++|.++..  |.  |+++|
T Consensus       149 ~~~~~~~~Lt~~E~~il~~l~~~~g~v~s~~~i  181 (227)
T TIGR03787       149 FWQDQPIDLTVTEFWMVHALAKHPGHVKSRQQL  181 (227)
T ss_pred             EECCEEecCCHHHHHHHHHHHhCCCccccHHHH
Confidence            0011224589999999999998  64  76665

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.

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.81  E-value=2.9e-19  Score=133.75  Aligned_cols=170  Identities=22%  Similarity=0.356  Sum_probs=132.4

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDL   81 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~   81 (187)
                      ++....+|+++++++..+..+...|... ++.+. .+.++.+++..+.           ...||++++|..+++.+|.++
T Consensus         2 ~~~~~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~dlvl~d~~l~~~~~~~~   70 (216)
T PRK10651          2 SNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAE-----------SLDPDLILLDLNMPGMNGLET   70 (216)
T ss_pred             CCCcceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHHH-----------hCCCCEEEEeCCCCCCcHHHH
Confidence            4556789999999999999999999764 56554 5889999999883           345779999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc-c-ccccc-cc
Q 046192           82 LRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI-N-NKRKG-LE  158 (187)
Q Consensus        82 ~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~-~-~~~~~-~~  158 (187)
                      ++.+++..+  ..|+++++...+......+++.|+++|+.||++..+|...++.+..+........... . ..... ..
T Consensus        71 ~~~l~~~~~--~~~vi~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (216)
T PRK10651         71 LDKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRAT  148 (216)
T ss_pred             HHHHHHhCC--CCcEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCCcccCHHHHHHHHHHhhcccCc
Confidence            999998765  7899999999899999999999999999999999999999999987743211100000 0 00000 00


Q ss_pred             ccccchhhhhhcccccccCCCCCCCccC
Q 046192          159 EIDSADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       159 ~~~~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      .......++.+|.+++.++.+|+++++|
T Consensus       149 ~~~~~~~Lt~rE~~vl~~l~~g~~~~~i  176 (216)
T PRK10651        149 TERDVNQLTPRERDILKLIAQGLPNKMI  176 (216)
T ss_pred             cccccccCCHHHHHHHHHHHcCCCHHHH
Confidence            0111234899999999999999999986

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.81  E-value=3.9e-19  Score=134.78  Aligned_cols=157  Identities=17%  Similarity=0.308  Sum_probs=123.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +|++++|++..+..+...|+..|+.+..+.++.++++.+.           ...||++++|..+|+.+|+++++.+++..
T Consensus         2 ~iliv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~-----------~~~~dlvild~~~~~~~g~~~~~~lr~~~   70 (227)
T PRK09836          2 KLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAM-----------TGDYDLIILDIMLPDVNGWDIVRMLRSAN   70 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------hCCCCEEEEECCCCCCCHHHHHHHHHhcC
Confidence            7999999999999999999988998888999999998873           34577999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCC-Cccccc-----cccccccccc
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEP-NNINNK-----RKGLEEIDSA  163 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~~-----~~~~~~~~~~  163 (187)
                      +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.+......... ......     ......-...
T Consensus        71 ~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (227)
T PRK09836         71 K--GMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVIIESQFQVADLMVDLVSRKVTRSGTR  148 (227)
T ss_pred             C--CCCEEEEEcCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhcccccCCCCcEEEcCEEEEcccCEEEECCEE
Confidence            5  8999999999999999999999999999999999999999988876532111110 000000     0001111223


Q ss_pred             hhhhhhcccccccCCC
Q 046192          164 DRTRTRLNDTIDINND  179 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~  179 (187)
                      -.++.+|.+++.++..
T Consensus       149 i~Lt~~E~~ll~~l~~  164 (227)
T PRK09836        149 ITLTSKEFTLLEFFLR  164 (227)
T ss_pred             EecCHHHHHHHHHHHh
Confidence            3478888888887775

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.81  E-value=4.1e-19  Score=135.45  Aligned_cols=169  Identities=22%  Similarity=0.348  Sum_probs=130.5

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      +..++++|+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|+.+|+.+|+++++
T Consensus         2 ~~~~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~~-----------~~~~d~illd~~~~~~~g~~~~~   70 (240)
T CHL00148          2 MENSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFR-----------KEQPDLVILDVMMPKLDGYGVCQ   70 (240)
T ss_pred             CCCCCceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHH
Confidence            4556789999999999999999999988999888899999998873           34577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccC----CCcccc---c---
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKE----PNNINN---K---  153 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~----~~~~~~---~---  153 (187)
                      .+++. +  ++|+|++++..+......+++.|+++|+.||++.++|...++.+.++.......    ......   .   
T Consensus        71 ~l~~~-~--~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (240)
T CHL00148         71 EIRKE-S--DVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRTNKKSFSSKIPNSSIIRIGFLKID  147 (240)
T ss_pred             HHHhc-C--CCcEEEEECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhhccccccccccCCCceEEECCEEEE
Confidence            99974 4  799999999999999999999999999999999999999998887664321100    000000   0   


Q ss_pred             --cccccccccchhhhhhcccccccCCC----CCCCccC
Q 046192          154 --RKGLEEIDSADRTRTRLNDTIDINND----GLPDLEI  186 (187)
Q Consensus       154 --~~~~~~~~~~~~~~~~e~~~l~l~~~----g~~~~ei  186 (187)
                        ......-.....++.+|.+++.++..    |+|++||
T Consensus       148 ~~~~~~~~~~~~~~Lt~~E~~il~~l~~~~~~~~s~~~i  186 (240)
T CHL00148        148 LNKKQVYKNNERIRLTGMEFSLLELLISKSGEIFSRATI  186 (240)
T ss_pred             cCCCEEEECCEEEEcCHHHHHHHHHHHHCCCEEEcHHHH
Confidence              00000111223488899999988853    6787765

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.81  E-value=3.2e-19  Score=137.10  Aligned_cols=118  Identities=24%  Similarity=0.343  Sum_probs=103.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|||+||++..+..+...|... ++.+. .+.++.+++..+..         ....||+|++|+.+|+++|+++++.++
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 67655 57889999887732         123478999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      +..+  .+|||++|+..+......+++.|+++|+.||++.++|..++....
T Consensus        73 ~~~~--~~~vI~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~~  121 (239)
T PRK10430         73 EAGC--KSDVIVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWR  121 (239)
T ss_pred             hhCC--CCCEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence            8776  899999999999999999999999999999999999999998743

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.81  E-value=3.3e-19  Score=132.08  Aligned_cols=155  Identities=23%  Similarity=0.306  Sum_probs=124.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhC-Cce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTS-SYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~-~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||++..+..+...|... ++. +..+.++.+++..+.           ...||+|++|..+|+.+|.++++.++
T Consensus         2 ~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~~-----------~~~~dlvi~d~~~~~~~g~~~~~~l~   70 (196)
T PRK10360          2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLP-----------GRGVQVCICDISMPDISGLELLSQLP   70 (196)
T ss_pred             eEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHc
Confidence            58999999999999999999754 565 456899999999883           34567999999999999999999886


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRT  166 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (187)
                      .     ..|+|++++..+......+++.|+++|+.||++.+++..+++.+.++.........  ...   ..  .....+
T Consensus        71 ~-----~~~vi~~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~~~~~~~~~~--~~~---~~--~~~~~L  138 (196)
T PRK10360         71 K-----GMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIA--IKL---AS--GRQDPL  138 (196)
T ss_pred             c-----CCCEEEEECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcCCeeeCHHHH--HHH---Hh--ccccCC
Confidence            3     67899999999999999999999999999999999999999999987432111000  000   00  112358


Q ss_pred             hhhcccccccCCCCCCCccC
Q 046192          167 RTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       167 ~~~e~~~l~l~~~g~~~~ei  186 (187)
                      +++|.+++.++.+|+++++|
T Consensus       139 t~~E~~il~~l~~g~~~~~I  158 (196)
T PRK10360        139 TKRERQVAEKLAQGMAVKEI  158 (196)
T ss_pred             CHHHHHHHHHHHCCCCHHHH
Confidence            88999999999999999886

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.80  E-value=9e-19  Score=132.95  Aligned_cols=121  Identities=24%  Similarity=0.427  Sum_probs=108.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|.++++.+++.
T Consensus         3 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~-----------~~~~dlvild~~l~~~~g~~~~~~l~~~   71 (229)
T PRK10161          3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLN-----------EPWPDLILLDWMLPGGSGIQFIKHLKRE   71 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------ccCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            58999999999999999999988999999999999999884           3456799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ...+.+|+|++++..+......+++.|+++|+.||++.++|...++.+.++.
T Consensus        72 ~~~~~~pvi~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~~~  123 (229)
T PRK10161         72 SMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI  123 (229)
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence            4334789999999999999999999999999999999999999999888763

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.80  E-value=1.2e-18  Score=130.22  Aligned_cols=169  Identities=22%  Similarity=0.325  Sum_probs=131.0

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHh-CCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKT-SSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~-~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      .....+|+++++++..+..+...|.. .++.+. .+.++.+++..+.           ...||++++|..+++.+|.+++
T Consensus         3 ~~~~~~ilii~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~dlvi~d~~~~~~~~~~~~   71 (215)
T PRK10403          3 EATPFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLAN-----------RLDPDVILLDLNMKGMSGLDTL   71 (215)
T ss_pred             CceeEEEEEEcCCHHHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHH-----------hcCCCEEEEecCCCCCcHHHHH
Confidence            34468999999999999999999975 467765 5889999988873           3457799999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccc-cccccc
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRK-GLEEID  161 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  161 (187)
                      +.+++..+  ..|+++++...+......+++.|+++|+.||++.++|..+++.+..+................ ......
T Consensus        72 ~~l~~~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (215)
T PRK10403         72 NALRRDGV--TAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMFGAEED  149 (215)
T ss_pred             HHHHHhCC--CCeEEEEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhCCCeecCHHHHHHHHhhhccCCCCc
Confidence            99998765  789999998888889999999999999999999999999999887764321110000000000 000111


Q ss_pred             cchhhhhhcccccccCCCCCCCccC
Q 046192          162 SADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       162 ~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ....++.+|.+++.+..+|.|++||
T Consensus       150 ~~~~Lt~~e~~vl~~~~~g~s~~~i  174 (215)
T PRK10403        150 PFSVLTERELDVLHELAQGLSNKQI  174 (215)
T ss_pred             ccccCCHHHHHHHHHHHCCCCHHHH
Confidence            2245899999999999999999987

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

Probab=99.80  E-value=2.6e-18  Score=119.45  Aligned_cols=120  Identities=16%  Similarity=0.237  Sum_probs=108.7

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .....+.||+|||..+...|.+.+++-||.|..+.+.++++..+.           ..+|...++|+.+.+.+|+.+++.
T Consensus         6 ~~pd~~lllvdDD~~f~~~LaRa~e~RGf~v~~a~~~~eal~~ar-----------t~~PayAvvDlkL~~gsGL~~i~~   74 (182)
T COG4567           6 IGPDKSLLLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAAR-----------TAPPAYAVVDLKLGDGSGLAVIEA   74 (182)
T ss_pred             cCCCceeEEecCChHHHHHHHHHHhccCceeEeeccHHHHHHHHh-----------cCCCceEEEEeeecCCCchHHHHH
Confidence            333347899999999999999999999999999999999999994           445669999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      |++..+  +..+|++|.+.+-..+.+|.+.||.+||.||-+.+++..++.+-.
T Consensus        75 lr~~~~--d~rivvLTGy~sIATAV~AvKlGA~~YLaKPAdaDdi~aAl~~~~  125 (182)
T COG4567          75 LRERRA--DMRIVVLTGYASIATAVEAVKLGACDYLAKPADADDILAALLRRE  125 (182)
T ss_pred             HHhcCC--cceEEEEecchHHHHHHHHHHhhhhhhcCCCCChHHHHHHHhhcC
Confidence            999987  999999999999999999999999999999999999887765544

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.79  E-value=1.6e-18  Score=130.13  Aligned_cols=157  Identities=19%  Similarity=0.311  Sum_probs=124.7

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcC
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESAS   90 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~   90 (187)
                      |+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|..+|+.+|.++++.+++..+
T Consensus         1 iliidd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvl~d~~~~~~~g~~~~~~l~~~~~   69 (218)
T TIGR01387         1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLAL-----------KDDYDLIILDVMLPGMDGWQILQTLRRSGK   69 (218)
T ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHHccCC
Confidence            589999999999999999988998888999999999883           345779999999999999999999998765


Q ss_pred             CCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccc-----cccccccccchh
Q 046192           91 LKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNK-----RKGLEEIDSADR  165 (187)
Q Consensus        91 ~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~  165 (187)
                        .+|+|++++..+......++..|+++|+.||++.+++...++.+.++..............     ......-.....
T Consensus        70 --~~~iivls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (218)
T TIGR01387        70 --QTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSHSLNSTVLEIADLRMDSVRHRVSRGNIRIT  147 (218)
T ss_pred             --CCcEEEEEcCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhcccccCCCCeEEECCEEEEcccCEEEECCEEEe
Confidence              8999999999999999999999999999999999999999998887654322111100000     000001112235


Q ss_pred             hhhhcccccccCCCC
Q 046192          166 TRTRLNDTIDINNDG  180 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g  180 (187)
                      ++.+|.+++.++..+
T Consensus       148 Lt~~E~~il~~l~~~  162 (218)
T TIGR01387       148 LTRKEFQLLWLLMRR  162 (218)
T ss_pred             CCHHHHHHHHHHHhC
Confidence            888999999988877

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.

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

Probab=99.79  E-value=5e-18  Score=138.42  Aligned_cols=125  Identities=23%  Similarity=0.467  Sum_probs=115.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ...+||++||+...+..++.+|...||.+..+.++.+|+..+..           .+||+|++|+.||++||++++..+|
T Consensus       131 ~~~kILvvdD~~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~~~e-----------~~~dlil~d~~mp~~dg~el~~~lr  199 (435)
T COG3706         131 APKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQLAE-----------LPPDLVLLDANMPDMDGLELCTRLR  199 (435)
T ss_pred             cCceEEEEcCcHHHHHHHHHHHHhccceeeeecCHHHHHHHHhc-----------CCCcEEEEecCCCccCHHHHHHHHh
Confidence            45899999999999999999999999999999999999999943           4677999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      .......+|+|++++.++......||+.|++||+.||++..++...+++.++...+
T Consensus       200 ~~~~t~~ipii~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~Rl~~~l~~~~~  255 (435)
T COG3706         200 QLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPIEEGELRARLRRQLRRKRY  255 (435)
T ss_pred             cccccccccEEEEecccchHHHHHHHHcCCcceEecCCCHHHHHHHHHHHHHhhhH
Confidence            98877789999999999999999999999999999999999998888888877553

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.78  E-value=7.7e-18  Score=127.76  Aligned_cols=160  Identities=19%  Similarity=0.298  Sum_probs=125.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|+..|+.+..+.++.+++..+.            ..||++++|+.+|+.+|.++++.+++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~------------~~~d~vl~d~~~~~~~g~~~~~~l~~~   69 (232)
T PRK10955          2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLD------------DSIDLLLLDVMMPKKNGIDTLKELRQT   69 (232)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHhh------------cCCCEEEEeCCCCCCcHHHHHHHHHhc
Confidence            48999999999999999999988999888999999998772            147799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCC---cc-----cccc--cccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPN---NI-----NNKR--KGLE  158 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~---~~-----~~~~--~~~~  158 (187)
                      .   ..|+|++++..+......+++.|+++|+.||++.++|...++.+.++.........   ..     ....  ....
T Consensus        70 ~---~~~ii~lt~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (232)
T PRK10955         70 H---QTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNGSPTLEVDALSLNPGRQ  146 (232)
T ss_pred             C---CCcEEEEECCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHhccccccccccccCCCceEEECCEEEecCCC
Confidence            4   38999999998888899999999999999999999999999988876432111100   00     0000  0000


Q ss_pred             c---cccchhhhhhcccccccCCCCCCC
Q 046192          159 E---IDSADRTRTRLNDTIDINNDGLPD  183 (187)
Q Consensus       159 ~---~~~~~~~~~~e~~~l~l~~~g~~~  183 (187)
                      .   -.....++.+|.++|.++..|.+.
T Consensus       147 ~~~~~~~~~~Lt~~E~~~l~~l~~~~~~  174 (232)
T PRK10955        147 EASFDGQTLELTGTEFTLLYLLAQHLGQ  174 (232)
T ss_pred             EEEECCEEecCCHHHHHHHHHHHhCCCc
Confidence            0   011235899999999999988764

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

Probab=99.78  E-value=2.3e-17  Score=114.56  Aligned_cols=120  Identities=35%  Similarity=0.626  Sum_probs=101.9

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHH-HHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGN-KALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~-~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .+..+||++||++..+..+...|...|+.+..+.++. ++++.+...+          .||++++|+.||+++|+++++.
T Consensus         3 ~~~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~~~~~----------~~dlii~D~~mp~~~G~~~~~~   72 (130)
T COG0784           3 LSGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELP----------QPDLILLDINMPGMDGIELLRR   72 (130)
T ss_pred             CCCcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHHHhCC----------CCCEEEEeCCCCCCCHHHHHHH
Confidence            3568999999999999999999999999999999996 9999994321          3779999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHH-HHHHHHHHh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD-VNKLKPHLM  137 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~-l~~~i~~~~  137 (187)
                      +++..+  .+|++++|+.........+++.|+++|+.||+...+ |...+....
T Consensus        73 l~~~~~--~~pvv~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~  124 (130)
T COG0784          73 LRARGP--NIPVILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALRRLL  124 (130)
T ss_pred             HHhCCC--CCCEEEEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHHHHH
Confidence            999743  778888888877776777899999999999977776 666665433

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.77  E-value=2.4e-17  Score=124.64  Aligned_cols=118  Identities=22%  Similarity=0.391  Sum_probs=108.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +|+++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.+++..
T Consensus         2 ~iLlv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~-----------~~~~dlvild~~l~~~~g~~l~~~lr~~~   70 (223)
T PRK10816          2 RVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLN-----------EHLPDIAIVDLGLPDEDGLSLIRRWRSND   70 (223)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------hCCCCEEEEECCCCCCCHHHHHHHHHhcC
Confidence            7999999999999999999999999999999999998883           34577999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +  ++|+|++++..+......+++.||++|+.||++..+|...++.+.++.
T Consensus        71 ~--~~pii~ls~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~~~  119 (223)
T PRK10816         71 V--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRN  119 (223)
T ss_pred             C--CCCEEEEEcCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhcc
Confidence            5  899999999999999999999999999999999999999998887653

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.77  E-value=3.4e-17  Score=125.17  Aligned_cols=123  Identities=20%  Similarity=0.412  Sum_probs=111.1

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      +.+..+||++||++..+..+...|+..|+.+..+.++.+++..+           ....||+|++|..+|+.+|+++++.
T Consensus         2 ~~~~~~iLiv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~   70 (239)
T PRK09468          2 MQENYKILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLL-----------TRESFHLMVLDLMLPGEDGLSICRR   70 (239)
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHH
Confidence            34457899999999999999999999999999999999999888           3445779999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +++..+  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.++.
T Consensus        71 lr~~~~--~~pii~ls~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~r~  124 (239)
T PRK09468         71 LRSQNN--PTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQ  124 (239)
T ss_pred             HHhcCC--CCCEEEEECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhccc
Confidence            998765  899999999999999999999999999999999999999999887653

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.77  E-value=5.7e-18  Score=125.74  Aligned_cols=166  Identities=17%  Similarity=0.253  Sum_probs=128.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+|+++++++..+..+...|... ++.+. .+.++.+++..+           ....||++++|..+++.+|.++++.+
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~dlvl~d~~~~~~~~~~~~~~l   71 (211)
T PRK15369          3 NYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNAC-----------RQLEPDIVILDLGLPGMNGLDVIPQL   71 (211)
T ss_pred             ccEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHH-----------HhcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            378999999999999999999765 46654 578888888877           33457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADR  165 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (187)
                      ++..+  ..|+|++++..+......+++.|+++|+.||++..+|...+..+..+..........................
T Consensus        72 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (211)
T PRK15369         72 HQRWP--AMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPL  149 (211)
T ss_pred             HHHCC--CCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCCCceeCHHHHHHHHHHhccCCCCcccC
Confidence            98765  7899999999999999999999999999999999999999998877643211000000000000000112234


Q ss_pred             hhhhcccccccCCCCCCCccC
Q 046192          166 TRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ++.+|.+++.+..+|.+++||
T Consensus       150 lt~~e~~vl~l~~~g~~~~~I  170 (211)
T PRK15369        150 LTPRERQILKLITEGYTNRDI  170 (211)
T ss_pred             CCHHHHHHHHHHHCCCCHHHH
Confidence            888999999999999999886

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.77  E-value=2.1e-17  Score=124.69  Aligned_cols=158  Identities=16%  Similarity=0.294  Sum_probs=123.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +|+++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.+++. 
T Consensus         2 ~iliv~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~l~~~~-----------~~~~dlvi~d~~~~~~~g~~~~~~l~~~-   69 (223)
T PRK11517          2 KILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLAL-----------KDDYALIILDIMLPGMDGWQILQTLRTA-   69 (223)
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------cCCCCEEEEECCCCCCCHHHHHHHHHcC-
Confidence            7999999999999999999988998888999999998883           3457799999999999999999999874 


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCC-c---cccccccccccccchh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPN-N---INNKRKGLEEIDSADR  165 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~  165 (187)
                      +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.++......... .   ..........-.....
T Consensus        70 ~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (223)
T PRK11517         70 K--QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISGLRMDSVSQSVSRDNISIT  147 (223)
T ss_pred             C--CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHccccCcCCeEEECCEEEEcCCCEEEECCEEEe
Confidence            3  78999999999999999999999999999999999999999888765322111000 0   0000000011112235


Q ss_pred             hhhhcccccccCCCCC
Q 046192          166 TRTRLNDTIDINNDGL  181 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g~  181 (187)
                      ++.+|.+++.++..+.
T Consensus       148 Lt~~E~~il~~l~~~~  163 (223)
T PRK11517        148 LTRKEFQLLWLLASRA  163 (223)
T ss_pred             CCHHHHHHHHHHHhCC
Confidence            8889999988887753

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.77  E-value=4e-17  Score=123.47  Aligned_cols=118  Identities=22%  Similarity=0.379  Sum_probs=106.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|+.+|+.+|.++++.+++.
T Consensus         2 ~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~-----------~~~~dlvild~~l~~~~g~~~~~~lr~~   70 (225)
T PRK10529          2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAA-----------TRKPDLIILDLGLPDGDGIEFIRDLRQW   70 (225)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            58999999999999999999989999988999999988773           3457799999999999999999999974


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                       +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.++.
T Consensus        71 -~--~~pvi~lt~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~~~  119 (225)
T PRK10529         71 -S--AIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH  119 (225)
T ss_pred             -C--CCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhc
Confidence             3  789999999999999999999999999999999999999998887653

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.76  E-value=2e-17  Score=126.15  Aligned_cols=165  Identities=19%  Similarity=0.248  Sum_probs=126.5

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+++||++..+..+...|...|+.+..+.++.+++..+.           ...||++++|..+|+.+|.++++.++.
T Consensus        10 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvl~d~~~~~~~g~~~~~~l~~   78 (240)
T PRK10710         10 TPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVR-----------QTPPDLILLDLMLPGTDGLTLCREIRR   78 (240)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------hCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            458999999999999999999988999888999999999883           345779999999999999999999986


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCC--Cccccc-----ccccccc
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEP--NNINNK-----RKGLEEI  160 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~--~~~~~~-----~~~~~~~  160 (187)
                      . +  .+|++++++..+......+++.|+++|+.||++.++|...++.+.++........  ......     .......
T Consensus        79 ~-~--~~pii~l~~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (240)
T PRK10710         79 F-S--DIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCKPQRELQQQDAESPLIIDESRFQASWR  155 (240)
T ss_pred             c-C--CCCEEEEEcCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHhhccccCCCccceEeCCEEEEcCceEEEEC
Confidence            3 3  7899999999888888999999999999999999999999888876532211100  000000     0000011


Q ss_pred             ccchhhhhhcccccccCCC----CCCCccC
Q 046192          161 DSADRTRTRLNDTIDINND----GLPDLEI  186 (187)
Q Consensus       161 ~~~~~~~~~e~~~l~l~~~----g~~~~ei  186 (187)
                      .....++.+|.+++.++..    ++|..+|
T Consensus       156 ~~~~~Lt~~e~~il~~l~~~~~~~~s~~~i  185 (240)
T PRK10710        156 GKMLDLTPAEFRLLKTLSHEPGKVFSREQL  185 (240)
T ss_pred             CEEeecCHHHHHHHHHHHhCCCceEcHHHH
Confidence            1223588899999998876    5665554

>PRK11173 two-component response regulator; Provisional

Probab=99.76  E-value=6.4e-17  Score=123.62  Aligned_cols=118  Identities=22%  Similarity=0.450  Sum_probs=107.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+||++||++..+..+...|+..|+.+..+.++.+++..+           ....||+|++|..+|+.+|+++++.+++.
T Consensus         4 ~~iLiv~dd~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~-----------~~~~~dlvild~~l~~~~g~~~~~~lr~~   72 (237)
T PRK11173          4 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL-----------SENDINLVIMDINLPGKNGLLLARELREQ   72 (237)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hhCCCCEEEEcCCCCCCCHHHHHHHHhcC
Confidence            6899999999999999999999999999999999999988           34457799999999999999999999974


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                       +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+++..
T Consensus        73 -~--~~pii~lt~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~r~  121 (237)
T PRK11173         73 -A--NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRT  121 (237)
T ss_pred             -C--CCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence             3  789999999999888999999999999999999999998888887653

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.75  E-value=1.9e-17  Score=122.22  Aligned_cols=160  Identities=23%  Similarity=0.303  Sum_probs=129.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+++++++..+..+...|...|+.+..+.++.+++..+           ....||++++|..+++.+|+++++.+++
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~-----------~~~~~d~ii~d~~~~~~~~~~~~~~l~~   71 (202)
T PRK09390          3 KGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDAL-----------PGLRFGCVVTDVRMPGIDGIELLRRLKA   71 (202)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHh-----------ccCCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            47899999999999999999988899998899999998887           3445779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTR  167 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (187)
                      ..+  .+|+|++++..+......+++.|+.+|+.||++..++...++.+..+.........    ...  ........++
T Consensus        72 ~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~~~~~~~~~~~~----~~~--~~~~~~~~l~  143 (202)
T PRK09390         72 RGS--PLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEA----VAA--DIRARIASLS  143 (202)
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHHHhhhhcccchh----HHH--HHHHHHHhhh
Confidence            765  89999999999999999999999999999999999999888887765332111000    000  0011234577


Q ss_pred             hhcccccccCCCCCCCccC
Q 046192          168 TRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       168 ~~e~~~l~l~~~g~~~~ei  186 (187)
                      .++.+++.+...|.++++|
T Consensus       144 ~~e~~vl~~~~~~~~~~~i  162 (202)
T PRK09390        144 ERERQVMDGLVAGLSNKVI  162 (202)
T ss_pred             hhHHHHHHHHHccCchHHH
Confidence            8899999998889988875

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.74  E-value=1.4e-16  Score=120.14  Aligned_cols=117  Identities=25%  Similarity=0.446  Sum_probs=106.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++||++..+..+...|...|+.+..+.++.++++.+           ....||++++|..+|+.+|.++++.+++.
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            5899999999999999999998999999999999999888           33457799999999999999999999974


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                       +  .+|+|++++..+......+++.||++|+.||++..+|...+..+.+.
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  78999999999999999999999999999999999999988887765

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.74  E-value=5.5e-17  Score=122.00  Aligned_cols=159  Identities=18%  Similarity=0.311  Sum_probs=124.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +|+++|+++..+..+...|...|+.+..+.++.++...+.           ...||++++|..+|+.+|.++++.++...
T Consensus         2 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~d~vild~~~~~~~~~~~~~~i~~~~   70 (221)
T PRK15479          2 RLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQ-----------SEMYALAVLDINMPGMDGLEVLQRLRKRG   70 (221)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------hCCCCEEEEeCCCCCCcHHHHHHHHHhcC
Confidence            7899999999999999999888998888999999988773           34577999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcccccc---cc-ccccccchh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKR---KG-LEEIDSADR  165 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~  165 (187)
                      +  +.|+|++++..+......+++.|+++|+.||++..++...++.+..+...............   .. ...-.....
T Consensus        71 ~--~~~ii~lt~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (221)
T PRK15479         71 Q--TLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRSAGQVQEVQQLGELIFHDEGYFLLQGQPLA  148 (221)
T ss_pred             C--CCCEEEEECCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHhhhccCcCccEEECCEEEccCCeEEECCEEEe
Confidence            5  78999999998899999999999999999999999999999888765432211111100000   00 000011235


Q ss_pred             hhhhcccccccCCCCC
Q 046192          166 TRTRLNDTIDINNDGL  181 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g~  181 (187)
                      ++++|.+++.++..|.
T Consensus       149 Lt~~E~~il~~l~~~~  164 (221)
T PRK15479        149 LTPREQALLTVLMYRR  164 (221)
T ss_pred             cCHHHHHHHHHHHhCC
Confidence            8999999998887754

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.73  E-value=2.5e-16  Score=120.52  Aligned_cols=118  Identities=22%  Similarity=0.259  Sum_probs=106.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+||++||++..+..+...|+..|+.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.+++.
T Consensus         2 ~~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~-----------~~~~dlvild~~l~~~~g~~~~~~ir~~   70 (240)
T PRK10701          2 NKIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATIL-----------REQPDLVLLDIMLPGKDGMTICRDLRPK   70 (240)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHh-----------hCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            48999999999999999999999999999999999999883           3456799999999999999999999984


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .   ..|+|++++..+......+++.|+++|+.||++..+|...++.+.+..
T Consensus        71 ~---~~pii~l~~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~~~  119 (240)
T PRK10701         71 W---QGPIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQN  119 (240)
T ss_pred             C---CCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhcc
Confidence            3   679999999888888889999999999999999999999998877653

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

Probab=99.73  E-value=2.9e-17  Score=125.76  Aligned_cols=117  Identities=22%  Similarity=0.421  Sum_probs=106.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|+||||+......|..+|++.|..+..|+...+++..+...+|           |++++|+.||+++|++|+++++..
T Consensus         1 ~~~iiVDdd~a~~~~l~~iLs~~~~~~~~~~~~~eal~~Le~~kp-----------DLifldI~mp~~ngiefaeQvr~i   69 (361)
T COG3947           1 PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEVFKP-----------DLIFLDIVMPYMNGIEFAEQVRDI   69 (361)
T ss_pred             CcEEEEcchHHHHHHHHHHHHhccchhhccCCHHHHHHHHHhcCC-----------CEEEEEeecCCccHHHHHHHHHHh
Confidence            478999999999999999999999888889999999999965554           599999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+  .+|||++|++  .++...++...+.||+.||++++.|.+++.+..+..
T Consensus        70 ~~--~v~iifIssh--~eya~dsf~~n~~dYl~KPvt~ekLnraIdr~~k~v  117 (361)
T COG3947          70 ES--AVPIIFISSH--AEYADDSFGMNLDDYLPKPVTPEKLNRAIDRRLKRV  117 (361)
T ss_pred             hc--cCcEEEEecc--hhhhhhhcccchHhhccCCCCHHHHHHHHHHHhccc
Confidence            86  9999999996  778888898999999999999999999999888653

>PRK15115 response regulator GlrR; Provisional

Probab=99.73  E-value=7.4e-17  Score=134.35  Aligned_cols=122  Identities=27%  Similarity=0.407  Sum_probs=110.7

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .....+||||||++..+..+...|+..|+.+..+.++.+++..+.           ...||+||+|..+|+++|+++++.
T Consensus         2 ~~~~~~vLiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~eal~~l~-----------~~~~dlvilD~~lp~~~g~~ll~~   70 (444)
T PRK15115          2 SRKPAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLN-----------REKVDLVISDLRMDEMDGMQLFAE   70 (444)
T ss_pred             CCCCCeEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------cCCCCEEEEcCCCCCCCHHHHHHH
Confidence            344689999999999999999999999999999999999999884           345679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++..+  .+|||++++..+......+++.|+++|+.||++.++|...+..+...
T Consensus        71 l~~~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~~  123 (444)
T PRK15115         71 IQKVQP--GMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQ  123 (444)
T ss_pred             HHhcCC--CCcEEEEECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHHh
Confidence            998766  89999999999999999999999999999999999999999887764

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.73  E-value=3e-16  Score=120.38  Aligned_cols=118  Identities=25%  Similarity=0.391  Sum_probs=104.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+||++||++..+..+...|+..||.+..+.++.+++..+.           ...||++++|..+|+.+|+++++.++..
T Consensus         2 ~~ILived~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~d~~l~~~~g~~l~~~i~~~   70 (241)
T PRK13856          2 KHVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLA-----------SETVDVVVVDLNLGREDGLEIVRSLATK   70 (241)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHh-----------hCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            38999999999999999999989999999999999998883           3456799999999999999999999874


Q ss_pred             cCCCCCcEEEEeCC-CChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~-~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                       +  .+|+|++++. .+......+++.||++|+.||++.++|...++.+.+..
T Consensus        71 -~--~~pii~lt~~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~~~  120 (241)
T PRK13856         71 -S--DVPIIIISGDRLEEADKVVALELGATDFIAKPFGTREFLARIRVALRVR  120 (241)
T ss_pred             -C--CCcEEEEECCCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHhhc
Confidence             2  7899999985 46677789999999999999999999999998877653

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.72  E-value=2.4e-16  Score=141.37  Aligned_cols=122  Identities=27%  Similarity=0.441  Sum_probs=111.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .++||||||++..+..+...|+..|+.+..+.++.++++.+           ....||+|++|+.||+++|+++++.|++
T Consensus       667 ~~~vLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~~-----------~~~~~dlil~D~~mp~~~g~~~~~~lr~  735 (919)
T PRK11107        667 PLTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQA-----------KQRPFDLILMDIQMPGMDGIRACELIRQ  735 (919)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            57899999999999999999999999999999999999998           4446779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .....++|||++|+..+......+++.|+++|+.||++..+|...+++.....
T Consensus       736 ~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~~  788 (919)
T PRK11107        736 LPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYKPGP  788 (919)
T ss_pred             cccCCCCCEEEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHcccc
Confidence            64444899999999999999999999999999999999999999998887653

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

Probab=99.72  E-value=2.7e-16  Score=141.03  Aligned_cols=120  Identities=28%  Similarity=0.532  Sum_probs=110.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ...+|||+||++..+..+...|+..||.+..+.++.++++.+           ....||+|++|+.||+++|+++++.++
T Consensus       800 ~~~~ILvVdD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l-----------~~~~~DlVl~D~~mP~mdG~el~~~ir  868 (924)
T PRK10841        800 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-----------SKNHIDIVLTDVNMPNMDGYRLTQRLR  868 (924)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------HhCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            357899999999999999999999999999999999999999           444577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..+  .+|||++|+....+....+++.|+++|+.||++.++|...+.+....
T Consensus       869 ~~~~--~~pII~lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~~~  919 (924)
T PRK10841        869 QLGL--TLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYAER  919 (924)
T ss_pred             hcCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            9765  89999999999999999999999999999999999999998877654

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.72  E-value=2.7e-16  Score=130.77  Aligned_cols=122  Identities=27%  Similarity=0.453  Sum_probs=110.5

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ....++|+||||++..+..+...|+..|+.+..+.++.+++..+.           ...||+|++|+.+|+++|+++++.
T Consensus         2 ~~~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~DlvilD~~m~~~~G~~~~~~   70 (441)
T PRK10365          2 THDNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVR-----------EQVFDLVLCDVRMAEMDGIATLKE   70 (441)
T ss_pred             CCCcceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHH
Confidence            345689999999999999999999999999999999999999883           345779999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++..+  .+|+|++|+..+......+++.|+.+|+.||++.++|...+..+...
T Consensus        71 ir~~~~--~~~vi~lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l~~  123 (441)
T PRK10365         71 IKALNP--AIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAH  123 (441)
T ss_pred             HHhhCC--CCeEEEEECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHHHH
Confidence            998765  89999999999999999999999999999999999999998887654

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

Probab=99.72  E-value=2.6e-16  Score=131.96  Aligned_cols=119  Identities=28%  Similarity=0.437  Sum_probs=109.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+||||||++..+..+...|+..||.+..+.++.+++..+.           ...||+|++|..+|+++|+++++.++.
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~g~~v~~~~s~~~al~~l~-----------~~~~DlvllD~~lp~~dgl~~l~~ir~   71 (469)
T PRK10923          3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALA-----------SKTPDVLLSDIRMPGMDGLALLKQIKQ   71 (469)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHh-----------cCCCCEEEECCCCCCCCHHHHHHHHHh
Confidence            368999999999999999999999999999999999999984           345779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|+|++++..+......+++.|+++|+.||++.+++...+.++...
T Consensus        72 ~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  121 (469)
T PRK10923         72 RHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (469)
T ss_pred             hCC--CCeEEEEECCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHHHH
Confidence            765  89999999999999999999999999999999999999998887764

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.71  E-value=7.2e-16  Score=119.87  Aligned_cols=121  Identities=23%  Similarity=0.345  Sum_probs=106.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +++||++||++..+..+...|... ++.+. .+.++.+++..+.           ...||+|++|+.||+++|+++++.+
T Consensus         2 ~~~vLivdd~~~~~~~l~~~L~~~~~~~~~~~a~~~~eal~~l~-----------~~~~DlvllD~~mp~~dG~~~l~~i   70 (262)
T TIGR02875         2 KIRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIK-----------EQQPDVVVLDIIMPHLDGIGVLEKL   70 (262)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCeEEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            478999999999999999999764 55555 5899999999984           3456799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++..+...+|+|++++..+......+++.|+++|+.||++.++|...++++..+
T Consensus        71 ~~~~~~~~~~iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~~~  124 (262)
T TIGR02875        71 NEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG  124 (262)
T ss_pred             HhhccccCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            987653348999999999999999999999999999999999999999888755

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.

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.70  E-value=5.5e-16  Score=139.12  Aligned_cols=121  Identities=21%  Similarity=0.304  Sum_probs=110.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|||+||++..+..+...|+..|+.|..+.++.++++.+..          ..+||+|++|+.||+++|+++++.+++
T Consensus       681 ~~~vLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~----------~~~~Dlvl~D~~mp~~~G~~~~~~lr~  750 (914)
T PRK11466        681 GLRLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQN----------SEPFAAALVDFDLPDYDGITLARQLAQ  750 (914)
T ss_pred             CcceEEEeCCHHHHHHHHHHHHhcCCceEEeCCHHHHHHHHHc----------CCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            4689999999999999999999999999999999999998732          235789999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ..+  ++|+|++++.........+++.|+++|+.||++.++|..++.++..+.
T Consensus       751 ~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~~  801 (914)
T PRK11466        751 QYP--SLVLIGFSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQLQ  801 (914)
T ss_pred             hCC--CCCEEEEeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhhhc
Confidence            766  899999999999999999999999999999999999999999988664

>PRK14084 two-component response regulator; Provisional

Probab=99.69  E-value=1.4e-15  Score=117.05  Aligned_cols=117  Identities=19%  Similarity=0.323  Sum_probs=100.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-c-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-Y-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||++..+..+...|...+ + .+..+.++.+++..+.           ...||++++|+.||+++|+++++.++
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~~l~~~~-----------~~~~dlv~lDi~m~~~~G~~~~~~i~   69 (246)
T PRK14084          1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALL-----------INQYDIIFLDINLMDESGIELAAKIQ   69 (246)
T ss_pred             CEEEEECCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            479999999999999999998765 4 4556899999999883           34577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +..+  ..++|++++..  ....++++.|+.+|+.||++.++|..+++++..+.
T Consensus        70 ~~~~--~~~iI~~t~~~--~~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~~~~  119 (246)
T PRK14084         70 KMKE--PPAIIFATAHD--QFAVKAFELNATDYILKPFEQKRIEQAVNKVRATK  119 (246)
T ss_pred             hcCC--CCEEEEEecCh--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHhh
Confidence            8765  67788888763  46789999999999999999999999999887553

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.69  E-value=1e-15  Score=137.33  Aligned_cols=120  Identities=28%  Similarity=0.486  Sum_probs=108.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .++||||||++..+..+...|+..|+.+..+.++.++++.+           ....||+|++|+.||+++|+++++.+|+
T Consensus       690 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~-----------~~~~~dlil~D~~mp~~~G~~~~~~ir~  758 (921)
T PRK15347        690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELG-----------RQHRFDLVLMDIRMPGLDGLETTQLWRD  758 (921)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHH-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            46899999999999999999999999999999999999998           4446779999999999999999999997


Q ss_pred             hcC--CCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           88 SAS--LKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        88 ~~~--~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ...  .+.+|||++|+..+......+++.|+++|+.||++.++|..++.++..
T Consensus       759 ~~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  811 (921)
T PRK15347        759 DPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAAE  811 (921)
T ss_pred             chhhcCCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHh
Confidence            421  137899999999999999999999999999999999999999887654

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

Probab=99.68  E-value=6.1e-16  Score=136.16  Aligned_cols=119  Identities=31%  Similarity=0.540  Sum_probs=109.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+||++||++..+......|++.|.++..+.+|.+++..+.          ..+.||+|++|++||.+||++..+.||+
T Consensus       666 g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~sg~e~l~~~~----------~~~~y~~ifmD~qMP~mDG~e~~~~irk  735 (786)
T KOG0519|consen  666 GPKILLVDDNPVNRKVATGMLKKLGAEVTEVNSGQEALDKLK----------PPHSYDVIFMDLQMPEMDGYEATREIRK  735 (786)
T ss_pred             CCceEEEecccchHHHHHHHHHHhCCeeEeecCcHHHHHhcC----------CCCcccEEEEEcCCcccchHHHHHHHHH
Confidence            578999999999999999999999999999889999999984          2357999999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ... .++|||.+|+..+.....++++.|.|+|+.||++.+.+...+.+.+
T Consensus       736 ~~~-~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~~l~~~l~~~~  784 (786)
T KOG0519|consen  736 KER-WHLPIVALTADADPSTEEECLEVGMDGYLSKPFTLEKLVKILREFL  784 (786)
T ss_pred             hhc-CCCCEEEEecCCcHHHHHHHHHhCCceEEcccccHHHHHHHHHHHh
Confidence            764 4899999999999999999999999999999999999988887765

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.68  E-value=1.8e-15  Score=126.48  Aligned_cols=119  Identities=21%  Similarity=0.410  Sum_probs=108.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|||+||++..+..+...|...||.+..+.++.+++..+.           ...||+|++|..+|+++|+++++.+++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~dlillD~~~p~~~g~~ll~~i~~   72 (457)
T PRK11361          4 INRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFA-----------DIHPDVVLMDIRMPEMDGIKALKEMRS   72 (457)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            568999999999999999999999999999999999999884           345779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|+|++++..+......+++.|+++|+.||++.++|...+..+...
T Consensus        73 ~~~--~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~  122 (457)
T PRK11361         73 HET--RTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQL  122 (457)
T ss_pred             cCC--CCCEEEEeCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhccc
Confidence            765  89999999999999999999999999999999999999888876643

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.68  E-value=1.2e-15  Score=137.62  Aligned_cols=121  Identities=22%  Similarity=0.383  Sum_probs=110.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+||||||++..+..+...|+..||.|..+.++.++++.+.           ...||+|++|+.||+++|+++++.+++
T Consensus       702 ~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvl~D~~mp~~~g~~~~~~ir~  770 (968)
T TIGR02956       702 PQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFH-----------QHAFDLALLDINLPDGDGVTLLQQLRA  770 (968)
T ss_pred             ccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHH-----------CCCCCEEEECCCCCCCCHHHHHHHHHh
Confidence            357999999999999999999999999999999999999993           446789999999999999999999998


Q ss_pred             hcCCCC-CcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKD-IPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~-~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+... +|||++|+.........+++.|+++|+.||++.++|...+..+..+
T Consensus       771 ~~~~~~~~pii~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  823 (968)
T TIGR02956       771 IYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILAG  823 (968)
T ss_pred             CccccCCCeEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhcc
Confidence            765323 8999999999999999999999999999999999999999988754

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).

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.68  E-value=8e-16  Score=127.59  Aligned_cols=120  Identities=18%  Similarity=0.350  Sum_probs=105.4

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ...+||++||++..+..+...|.. .+.+..+.++.+++..+           ....||+|++|+.||+++|+++++.++
T Consensus       154 ~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~-----------~~~~~d~vi~d~~~p~~~g~~l~~~i~  221 (457)
T PRK09581        154 EDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNA-----------AETNYDLVIVSANFENYDPLRLCSQLR  221 (457)
T ss_pred             cCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhc-----------ccCCCCEEEecCCCCCchHhHHHHHHH
Confidence            467899999999999999999965 46677789999999987           444577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      +....+.+|+|++|++.+..+...+++.||++|+.||+++++|...+.....
T Consensus       222 ~~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~~~  273 (457)
T PRK09581        222 SKERTRYVPILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIR  273 (457)
T ss_pred             hccccCCCcEEEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHHHH
Confidence            7543348999999999999999999999999999999999999888776544

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.67  E-value=2.3e-15  Score=133.21  Aligned_cols=122  Identities=20%  Similarity=0.408  Sum_probs=106.7

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ...+|||+||++..+..+...|+..|+.+..+.++.++++.+.           ...||+|++|+.||+++|+++++.|+
T Consensus       524 ~~~~ILivdD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~-----------~~~~Dlvl~D~~mp~~~G~e~~~~ir  592 (779)
T PRK11091        524 PALNILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMFD-----------PDEYDLVLLDIQLPDMTGLDIARELR  592 (779)
T ss_pred             cccceEEEcCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhh-----------cCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            3578999999999999999999999999999999999999983           44577999999999999999999999


Q ss_pred             hhcCCCC-CcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKD-IPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~-~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +..+... +|+|++++... .....+++.|+++|+.||++.++|...++++....
T Consensus       593 ~~~~~~~~~~ii~~ta~~~-~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~~  646 (779)
T PRK11091        593 ERYPREDLPPLVALTANVL-KDKKEYLDAGMDDVLSKPLSVPALTAMIKKFWDTQ  646 (779)
T ss_pred             hccccCCCCcEEEEECCch-HhHHHHHHCCCCEEEECCCCHHHHHHHHHHHhccc
Confidence            8764235 48888888765 44678999999999999999999999999888654

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.66  E-value=3.5e-15  Score=124.39  Aligned_cols=114  Identities=17%  Similarity=0.305  Sum_probs=103.0

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----CCHHHHHHHH
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----MTGYDLLRKI   85 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~~g~~~~~~l   85 (187)
                      |||+||++..+..+...+  .||.+..+.++.++++.+..           ..||+|++|+.+|+     ++|+++++.+
T Consensus         1 ILivddd~~~~~~l~~~l--~~~~v~~a~~~~~al~~l~~-----------~~~dlvllD~~mp~~~~~~~~g~~~l~~i   67 (445)
T TIGR02915         1 LLIVEDDLGLQKQLKWSF--ADYELAVAADRESAIALVRR-----------HEPAVVTLDLGLPPDADGASEGLAALQQI   67 (445)
T ss_pred             CEEEECCHHHHHHHHHHh--CCCeEEEeCCHHHHHHHHhh-----------CCCCEEEEeCCCCCCcCCCCCHHHHHHHH
Confidence            589999999999999888  68999999999999999943           45679999999996     7999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++..+  .+|||++|+..+.+....+++.|+++|+.||++.++|..+++.+...
T Consensus        68 ~~~~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~  119 (445)
T TIGR02915        68 LAIAP--DTKVIVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFHL  119 (445)
T ss_pred             HhhCC--CCCEEEEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhhhh
Confidence            98876  89999999999999999999999999999999999999888777653

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).

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

Probab=99.65  E-value=5.8e-15  Score=112.91  Aligned_cols=115  Identities=21%  Similarity=0.350  Sum_probs=96.5

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-ceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-YQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||++..+..+...|+..+ +.+ ..+.++.+++..+.           ...||++++|+.+|+++|+++++.++
T Consensus         2 ~~IlIvdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~-----------~~~~dlv~lDi~~~~~~G~~~~~~l~   70 (238)
T PRK11697          2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIH-----------RLKPDVVFLDIQMPRISGLELVGMLD   70 (238)
T ss_pred             cEEEEECCCHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHhc
Confidence            699999999999999999998877 443 35789999998883           33577999999999999999999986


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .. +  ..++|++|+.  .+....+++.|+.+|+.||++.++|..++.++...
T Consensus        71 ~~-~--~~~ii~vt~~--~~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~~~  118 (238)
T PRK11697         71 PE-H--MPYIVFVTAF--DEYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQE  118 (238)
T ss_pred             cc-C--CCEEEEEecc--HHHHHHHHhcCCcEEEECCCCHHHHHHHHHHHHHh
Confidence            42 2  4567778775  35778999999999999999999999999888754

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

Probab=99.65  E-value=4.4e-15  Score=136.71  Aligned_cols=118  Identities=27%  Similarity=0.468  Sum_probs=108.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+||||||++..+..+...|+..|+.+..+.++.++++.+           ....||+|++|+.||+++|+++++.+++
T Consensus       958 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlil~D~~mp~~~g~~~~~~i~~ 1026 (1197)
T PRK09959        958 KLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKV-----------SMQHYDLLITDVNMPNMDGFELTRKLRE 1026 (1197)
T ss_pred             CceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHh-----------hcCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            46899999999999999999999999999999999999998           4445779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ..+  .+|+|++|+..+......+++.|+++|+.||++.++|...++++..
T Consensus      1027 ~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~ 1075 (1197)
T PRK09959       1027 QNS--SLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQLHQ 1075 (1197)
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhh
Confidence            765  8999999999999999999999999999999999999998887654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.65  E-value=5e-15  Score=123.97  Aligned_cols=116  Identities=30%  Similarity=0.448  Sum_probs=106.1

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcC
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESAS   90 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~   90 (187)
                      |||+||++..+..+...|...|+.+..+.++.+++..+.           ...||+|++|..+|+++|+++++.+++..+
T Consensus         1 ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~DlVllD~~~p~~~g~~ll~~l~~~~~   69 (463)
T TIGR01818         1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALA-----------RGQPDLLITDVRMPGEDGLDLLPQIKKRHP   69 (463)
T ss_pred             CEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHh-----------cCCCCEEEEcCCCCCCCHHHHHHHHHHhCC
Confidence            589999999999999999989999999999999999883           345779999999999999999999998765


Q ss_pred             CCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           91 LKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        91 ~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                        .+|+|++++..+......+++.|+++|+.||++.++|...+.++...
T Consensus        70 --~~~vIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  116 (463)
T TIGR01818        70 --QLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALAH  116 (463)
T ss_pred             --CCeEEEEeCCCCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHHHH
Confidence              89999999999999999999999999999999999999999887654

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.

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.64  E-value=4.7e-14  Score=95.86  Aligned_cols=124  Identities=26%  Similarity=0.494  Sum_probs=106.2

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ..+.++++++++++.....+...|...|+. +..+.++.+++..+.           ...+|++++|..+++.+|+++++
T Consensus         2 ~~~~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~di~l~d~~~~~~~~~~~~~   70 (129)
T PRK10610          2 ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQ-----------AGGFGFVISDWNMPNMDGLELLK   70 (129)
T ss_pred             CcccceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHhh-----------ccCCCEEEEcCCCCCCCHHHHHH
Confidence            345579999999999999999999888874 667889999988873           34577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+++....+.+|+++++...+......+++.|+++|+.||++.+++...++++...
T Consensus        71 ~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~~~  126 (129)
T PRK10610         71 TIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  126 (129)
T ss_pred             HHHhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHHHH
Confidence            99986533478999999888888999999999999999999999999888877643

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.63  E-value=1.7e-14  Score=119.69  Aligned_cols=120  Identities=31%  Similarity=0.481  Sum_probs=108.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+++++++..+..+...|...|+.+..+.++.+++..+.           ...||+|++|+.+|+.+|.++++.+++.
T Consensus         3 ~~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~d~~~~~~~g~~l~~~i~~~   71 (457)
T PRK09581          3 ARILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICE-----------REQPDIILLDVMMPGMDGFEVCRRLKSD   71 (457)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHh-----------hcCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            48999999999999999999888999999999999999984           3456799999999999999999999985


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+...+|+|++++..+......+++.|+++|+.||++.++|..+++.+...
T Consensus        72 ~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  122 (457)
T PRK09581         72 PATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTRL  122 (457)
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            433478999999999999999999999999999999999999988887654

>PRK13435 response regulator; Provisional

Probab=99.62  E-value=2.8e-14  Score=101.16  Aligned_cols=117  Identities=21%  Similarity=0.241  Sum_probs=99.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-CCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-GMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-~~~g~~~~~~l   85 (187)
                      +++|+++++++.....+...|+..|+.+. .++++.++++.+.           ...||++++|..++ +.+|.++++.+
T Consensus         5 ~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-----------~~~~dliivd~~~~~~~~~~~~~~~l   73 (145)
T PRK13435          5 QLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALGR-----------RRQPDVALVDVHLADGPTGVEVARRL   73 (145)
T ss_pred             cceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHhh-----------hcCCCEEEEeeecCCCCcHHHHHHHH
Confidence            58999999999999999999998888877 5889999988873           33577999999998 48999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +.. +  .+|+|++++..+   ...++..|+++|+.||++.++|...++++..+..
T Consensus        74 ~~~-~--~~pii~ls~~~~---~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~~~  123 (145)
T PRK13435         74 SAD-G--GVEVVFMTGNPE---RVPHDFAGALGVIAKPYSPRGVARALSYLSARRV  123 (145)
T ss_pred             HhC-C--CCCEEEEeCCHH---HHHHHhcCcceeEeCCCCHHHHHHHHHHHHhcCc
Confidence            764 3  789999987643   2467789999999999999999999998876643

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

Probab=99.61  E-value=1.9e-15  Score=109.76  Aligned_cols=125  Identities=22%  Similarity=0.294  Sum_probs=101.4

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      +....+||+++|++..+..+..-|...||.++. +.++-++.+.....           .||+|++|+.+|..+-.+-.-
T Consensus         2 ~~~~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~~-----------~pDvVildie~p~rd~~e~~~   70 (194)
T COG3707           2 AAMLLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCERL-----------QPDVVILDIEMPRRDIIEALL   70 (194)
T ss_pred             CccccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHHHhc-----------CCCEEEEecCCCCccHHHHHH
Confidence            345689999999999999999999999997775 67888888887544           456999999999998333222


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      .. ..++  ..|||++++++++..+..+++.|+.+|+.||+++..|.-.+.-..+.....
T Consensus        71 ~~-~~~~--~~piv~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA~srf~~~  127 (194)
T COG3707          71 LA-SENV--ARPIVALTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVAVSRFEER  127 (194)
T ss_pred             Hh-hcCC--CCCEEEEEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHHHHHHHHHHH
Confidence            22 2233  789999999999999999999999999999999999988887777665443

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.61  E-value=1.5e-14  Score=126.07  Aligned_cols=121  Identities=16%  Similarity=0.161  Sum_probs=104.8

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .+.++||++||++..+..+...|...||.+..+.++.+++..+.           ...||+|++|+.+|+++|+++++.+
T Consensus         5 ~~~~~ILivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~al~~~~-----------~~~~Dlvl~d~~lp~~~g~~~l~~l   73 (665)
T PRK13558          5 APTRGVLFVGDDPEAGPVDCDLDEDGRLDVTQIRDFVAARDRVE-----------AGEIDCVVADHEPDGFDGLALLEAV   73 (665)
T ss_pred             CcceeEEEEccCcchHHHHHHHhhccCcceEeeCCHHHHHHHhh-----------ccCCCEEEEeccCCCCcHHHHHHHH
Confidence            44589999999999999999999888999989999999999883           3457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChH--HHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA--DVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~--~l~~~i~~~~~~  139 (187)
                      +...+  .+|||++++..+......++..|+.+|+.||.+..  .+...++....+
T Consensus        74 ~~~~~--~~piI~lt~~~~~~~~~~al~~Ga~dyl~k~~~~~~~~l~~~i~~~~~~  127 (665)
T PRK13558         74 RQTTA--VPPVVVVPTAGDEAVARRAVDADAAAYVPAVSDDATAAIAERIESAVPE  127 (665)
T ss_pred             HhcCC--CCCEEEEECCCCHHHHHHHHhcCcceEEeccchhHHHHHHHHHHHhhhc
Confidence            98766  89999999999999999999999999999997643  555555555544

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.59  E-value=5.9e-14  Score=113.15  Aligned_cols=116  Identities=22%  Similarity=0.317  Sum_probs=95.5

Q ss_pred             eEEEEEeCCHHHHHHHHHHHH-hCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLK-TSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~-~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++||++||++..+..+...|. ..++.+. .+.++.++++.+.           ...||+|++|+.+|+++|+++++.++
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l~-----------~~~pDlVllD~~mp~~~G~e~l~~l~   69 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCA-----------AQPPDVILMDLEMPRMDGVEATRRIM   69 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHh-----------ccCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            379999999999999999995 5578776 5899999999984           34567999999999999999999998


Q ss_pred             hhcCCCCCcEEEEeCCCC--hhHHHHHHHhCCCceeeCCC---------ChHHHHHHHHHHhh
Q 046192           87 ESASLKDIPVVIMSSENI--PSRINRCLEEGAEEFFLKPV---------QLADVNKLKPHLMK  138 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~--~~~~~~a~~~ga~~yl~kP~---------~~~~l~~~i~~~~~  138 (187)
                      ...   .+|++++++...  .....++++.|+++|+.||+         ..+++...++.+..
T Consensus        70 ~~~---~~pvivvs~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~~~~~~~~l~~~i~~~~~  129 (337)
T PRK12555         70 AER---PCPILIVTSLTERNASRVFEAMGAGALDAVDTPTLGIGAGLEEYAAELLAKIDQIGR  129 (337)
T ss_pred             HHC---CCcEEEEeCCCCcCHHHHHHHHhcCceEEEECCCCCcchhHHHHHHHHHHHHHHHhh
Confidence            854   589999987643  55677899999999999999         44556666655553

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.56  E-value=1.9e-13  Score=110.92  Aligned_cols=104  Identities=36%  Similarity=0.458  Sum_probs=89.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +++||++||++..+..+...|... ++.+. .+.++.+++..+.           ...||+|++|+.+|+++|+++++.+
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~~~~~vv~~a~~~~~al~~~~-----------~~~~DlVllD~~mp~~dgle~l~~i   71 (354)
T PRK00742          3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIK-----------KLNPDVITLDVEMPVMDGLDALEKI   71 (354)
T ss_pred             ccEEEEECCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHh-----------hhCCCEEEEeCCCCCCChHHHHHHH
Confidence            379999999999999999999876 77777 6899999999883           4457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCC--ChhHHHHHHHhCCCceeeCCCC
Q 046192           86 KESASLKDIPVVIMSSEN--IPSRINRCLEEGAEEFFLKPVQ  125 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~--~~~~~~~a~~~ga~~yl~kP~~  125 (187)
                      ++..   .+|+|++++..  .......+++.|+++|+.||++
T Consensus        72 ~~~~---~~piIvls~~~~~~~~~~~~al~~Ga~d~l~kP~~  110 (354)
T PRK00742         72 MRLR---PTPVVMVSSLTERGAEITLRALELGAVDFVTKPFL  110 (354)
T ss_pred             HHhC---CCCEEEEecCCCCCHHHHHHHHhCCCcEEEeCCcc
Confidence            9875   38999998753  3466778999999999999995

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

Probab=99.47  E-value=9.9e-13  Score=104.63  Aligned_cols=103  Identities=35%  Similarity=0.505  Sum_probs=90.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +|||+|||.+..|..++++|...+ ++++ .+.++.++++.+...+||           +|.+|+.||.+||+++++.+.
T Consensus         2 irVlvVddsal~R~~i~~~l~~~~~i~vv~~a~ng~~a~~~~~~~~PD-----------Vi~ld~emp~mdgl~~l~~im   70 (350)
T COG2201           2 IRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKKLKPD-----------VITLDVEMPVMDGLEALRKIM   70 (350)
T ss_pred             cEEEEEcCcHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHHHhcCCC-----------EEEEecccccccHHHHHHHHh
Confidence            699999999999999999999887 5555 589999999999776665           999999999999999999998


Q ss_pred             hhcCCCCCcEEEEeCCC--ChhHHHHHHHhCCCceeeCCCC
Q 046192           87 ESASLKDIPVVIMSSEN--IPSRINRCLEEGAEEFFLKPVQ  125 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~--~~~~~~~a~~~ga~~yl~kP~~  125 (187)
                      +..   .+|||++++-.  ..+...++++.||-||+.||..
T Consensus        71 ~~~---p~pVimvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          71 RLR---PLPVIMVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             cCC---CCcEEEEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            874   78999998753  3677888999999999999984

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

Probab=99.47  E-value=1.6e-12  Score=116.06  Aligned_cols=118  Identities=12%  Similarity=0.108  Sum_probs=105.9

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+++||++..+..+...|...||.+..+.++.+++..+...         ..+||+|++  .+|+++|.++++.++.
T Consensus       697 ~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~~---------~~~~DlVll--~~~~~~g~~l~~~l~~  765 (828)
T PRK13837        697 GETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISKG---------PERFDLVLV--DDRLLDEEQAAAALHA  765 (828)
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhC---------CCCceEEEE--CCCCCCHHHHHHHHHh
Confidence            35899999999999999999999999999999999999988431         124789999  7899999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|||++++..+......++..| ++|+.||++..+|..+++...+.
T Consensus       766 ~~~--~ipIIvls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l~~  814 (828)
T PRK13837        766 AAP--TLPIILGGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTALAT  814 (828)
T ss_pred             hCC--CCCEEEEeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHHcc
Confidence            776  89999999999999999999999 99999999999999999888764

>PRK09191 two-component response regulator; Provisional

Probab=99.46  E-value=3.9e-12  Score=98.56  Aligned_cols=116  Identities=19%  Similarity=0.213  Sum_probs=97.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~g~~~~~~l   85 (187)
                      ..+|+++||++..+..+...|+..|+.+. .+.++.++++.+.           ...||+|++|..+|+ .+|+++++.+
T Consensus       137 ~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l~-----------~~~~dlvi~d~~~~~~~~g~e~l~~l  205 (261)
T PRK09191        137 ATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALAK-----------KTRPGLILADIQLADGSSGIDAVNDI  205 (261)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHHh-----------ccCCCEEEEecCCCCCCCHHHHHHHH
Confidence            46899999999999999999988888887 5789999998883           345779999999995 7999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++..   ++|+|++++..+...  .+...|+.+|+.||++.++|...++++...
T Consensus       206 ~~~~---~~pii~ls~~~~~~~--~~~~~~~~~~l~kP~~~~~l~~~i~~~~~~  254 (261)
T PRK09191        206 LKTF---DVPVIFITAFPERLL--TGERPEPAFLITKPFQPDTVKAAISQALFF  254 (261)
T ss_pred             HHhC---CCCEEEEeCCCcHHH--HHHhcccCceEECCCCHHHHHHHHHHHHhc
Confidence            8764   789999998765443  344567889999999999999999887654

>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=99.45  E-value=5e-12  Score=82.48  Aligned_cols=112  Identities=32%  Similarity=0.598  Sum_probs=97.8

Q ss_pred             EEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCC
Q 046192           12 LAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASL   91 (187)
Q Consensus        12 livd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~   91 (187)
                      +++++++..+..+...+...|+.+..+.+..+++..+.           ...+|++++|..+++.+|.++++.++...+ 
T Consensus         1 l~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~ii~~~~~~~~~~~~~~~~l~~~~~-   68 (113)
T cd00156           1 LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLA-----------EEKPDLILLDIMMPGMDGLELLRRIRKRGP-   68 (113)
T ss_pred             CeecCcHHHHHHHHHHHhhcCceEEEecCHHHHHHHHH-----------hCCCCEEEEecCCCCCchHHHHHHHHHhCC-
Confidence            47899999999999999888988888889999988873           335779999999999999999999998754 


Q ss_pred             CCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHH
Q 046192           92 KDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHL  136 (187)
Q Consensus        92 ~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~  136 (187)
                       ..|+++++...+......+++.|+.+|+.||++..++...++.+
T Consensus        69 -~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~~~  112 (113)
T cd00156          69 -DIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIRAL  112 (113)
T ss_pred             -CCCEEEEEecccHHHHHHHHHcChhhHccCCCCHHHHHHHHHhh
Confidence             78999999887788888999999999999999999988877643

>PRK13557 histidine kinase; Provisional

Probab=99.42  E-value=6e-12  Score=106.51  Aligned_cols=120  Identities=25%  Similarity=0.334  Sum_probs=107.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~g~~~~~~l~   86 (187)
                      ..+|+++++++..+..+...|+..||.+..+.++.+++..+..          ...||++++|..+++ .+|+++++.++
T Consensus       415 ~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~----------~~~~d~vi~d~~~~~~~~~~~~~~~l~  484 (540)
T PRK13557        415 TETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDS----------HPEVDLLFTDLIMPGGMNGVMLAREAR  484 (540)
T ss_pred             CceEEEEcCcHHHHHHHHHHHHhcCCeEEEeCCHHHHHHHHhc----------CCCceEEEEeccCCCCCCHHHHHHHHH
Confidence            4589999999999999999999889999999999999998732          224779999999997 89999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..+  ..|+|++++..+......++..|+.+|+.||++.++|...++.+..+
T Consensus       485 ~~~~--~~~ii~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~  535 (540)
T PRK13557        485 RRQP--KIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVLDG  535 (540)
T ss_pred             HhCC--CCcEEEEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHhcC
Confidence            8766  78999999998888888899999999999999999999999887764

>PRK10693 response regulator of RpoS; Provisional

Probab=99.37  E-value=8.7e-12  Score=99.19  Aligned_cols=89  Identities=28%  Similarity=0.520  Sum_probs=77.6

Q ss_pred             EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCC
Q 046192           37 AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGA  116 (187)
Q Consensus        37 ~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga  116 (187)
                      .+.++.++++.+..           ..||+|++|..+|+++|+++++.+++..+  .+|+|++++..+.....++++.|+
T Consensus         2 ~a~~g~~al~~l~~-----------~~pDlVL~D~~mp~~~Gle~~~~ir~~~~--~ipiI~lt~~~~~~~~~~al~~Ga   68 (303)
T PRK10693          2 LAANGVDALELLGG-----------FTPDLIICDLAMPRMNGIEFVEHLRNRGD--QTPVLVISATENMADIAKALRLGV   68 (303)
T ss_pred             EeCCHHHHHHHHhc-----------CCCCEEEEeCCCCCCCHHHHHHHHHhcCC--CCcEEEEECCCCHHHHHHHHHCCC
Confidence            36788899988843           45679999999999999999999998765  799999999999999999999999


Q ss_pred             CceeeCCC-ChHHHHHHHHHHhh
Q 046192          117 EEFFLKPV-QLADVNKLKPHLMK  138 (187)
Q Consensus       117 ~~yl~kP~-~~~~l~~~i~~~~~  138 (187)
                      ++|+.||+ +.+++...+.....
T Consensus        69 ~dyl~KP~~~~~~L~~~i~~~l~   91 (303)
T PRK10693         69 QDVLLKPVKDLNRLREMVFACLY   91 (303)
T ss_pred             cEEEECCCCcHHHHHHHHHHHhh
Confidence            99999999 48888888776654

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

Probab=99.27  E-value=6.2e-11  Score=91.42  Aligned_cols=115  Identities=24%  Similarity=0.454  Sum_probs=97.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+++||++..++.+..++.... +.+. .+.++.++++.+...           .+|++++|+.+|+++|+++...++
T Consensus         2 ~~i~i~dd~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~fldI~~~~~~G~ela~~i~   70 (244)
T COG3279           2 LKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQGL-----------RPDLVFLDIAMPDINGIELAARIR   70 (244)
T ss_pred             CcEEEecCCHHHHHHHHHHHHhhhhcCeeeeeccchhhHHHHhcc-----------CCCeEEEeeccCccchHHHHHHhc
Confidence            689999999999999999998432 3333 578888999988544           566999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ...+  ..+|++++++  .+++..+++..|.||+.||++.++|...+.....
T Consensus        71 ~~~~--~~~Ivfvt~~--~~~a~~afev~a~d~i~kp~~~~~l~~~l~~~~~  118 (244)
T COG3279          71 KGDP--RPAIVFVTAH--DEYAVAAFEVEALDYLLKPISEERLAKTLERLRR  118 (244)
T ss_pred             ccCC--CCeEEEEEeh--HHHHHHHHhHHHHhhhcCcchHHHHHHHHHHHHH
Confidence            9755  7788888886  7888889999999999999999999988886554

>PRK15029 arginine decarboxylase; Provisional

Probab=99.26  E-value=1e-10  Score=102.18  Aligned_cols=115  Identities=18%  Similarity=0.220  Sum_probs=90.4

Q ss_pred             EEEEEeCCHH--------HHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHH--
Q 046192           10 HVLAVDDSII--------DRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY--   79 (187)
Q Consensus        10 ~ilivd~~~~--------~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~--   79 (187)
                      +||||||+..        .+..+...|+..||+|..+.++.+++..+..          ...||+||+|+.+|+++|+  
T Consensus         2 kILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l~~----------~~~~DlVLLD~~LPd~dG~~~   71 (755)
T PRK15029          2 KVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSS----------NEAIDCLMFSYQMEHPDEHQN   71 (755)
T ss_pred             eEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh----------cCCCcEEEEECCCCCCccchh
Confidence            7999999996        6999999999999999999999999999942          1357799999999999997  


Q ss_pred             --HHHHHHHhhcCCCCCcEEEEeCCCC--hhHHHHHHHhCCCceeeCCCChHHH-HHHHHHHh
Q 046192           80 --DLLRKIKESASLKDIPVVIMSSENI--PSRINRCLEEGAEEFFLKPVQLADV-NKLKPHLM  137 (187)
Q Consensus        80 --~~~~~l~~~~~~~~~~iI~ls~~~~--~~~~~~a~~~ga~~yl~kP~~~~~l-~~~i~~~~  137 (187)
                        +++++||+..+  ++|||++|+..+  ...-...+ --+++|+.+.-+..++ ...+....
T Consensus        72 ~~ell~~IR~~~~--~iPIIlLTar~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  131 (755)
T PRK15029         72 VRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLL-ELVDEFAWILEDTADFIAGRAVAAM  131 (755)
T ss_pred             HHHHHHHHHhhCC--CCCEEEEEcCCcccccCCHHHH-HhhheEEEecCCCHHHHHHHHHHHH
Confidence              89999998665  899999999875  33333322 3467888887666665 33344443

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.71  E-value=3.6e-07  Score=82.49  Aligned_cols=115  Identities=10%  Similarity=0.057  Sum_probs=92.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+++|+++..+..+...|...|+.+..+.++.+    +           ....||++++|..+|+..+...+.....
T Consensus       536 g~~ili~d~~~~~~~~l~~~L~~~g~~v~~~~~~~~----l-----------~~~~~d~il~~~~~~~~~~~~~~~~~~~  600 (919)
T PRK11107        536 GKRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQ----L-----------PEAHYDILLLGLPVTFREPLTMLHERLA  600 (919)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEEcCCHHH----h-----------ccCCCCEEEecccCCCCCCHHHHHHHHH
Confidence            468999999999999999999999999998888777    3           2345789999999998776654444333


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .......++++++...+......+.+.|+++|+.||++..++...+....
T Consensus       601 ~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~  650 (919)
T PRK11107        601 KAKSMTDFLILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPALLEPC  650 (919)
T ss_pred             hhhhcCCcEEEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHHHHhh
Confidence            33333567888888888888999999999999999999999988876544

>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=98.43  E-value=4.3e-06  Score=56.55  Aligned_cols=107  Identities=16%  Similarity=0.185  Sum_probs=76.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCccccccccccccc-EEEEeccCCCCCHHHHHHHHHhh
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVN-LIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~d-lvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ||||||||...+..+..+|+-.|..+..+++.+. ....           ....++ ++++....+  ...+.++.+.+.
T Consensus         1 kILvIddd~~R~~~L~~ILeFlGe~~~~~~~~~~-~~~~-----------~~~~~~~~~v~~g~~~--~~~~~l~~l~~~   66 (109)
T PF06490_consen    1 KILVIDDDAERRQRLSTILEFLGEQCEAVSSSDW-SQAD-----------WSSPWEACAVILGSCS--KLAELLKELLKW   66 (109)
T ss_pred             CEEEECCcHHHHHhhhhhhhhcCCCeEEecHHHH-HHhh-----------hhcCCcEEEEEecCch--hHHHHHHHHHhh
Confidence            6899999999999999999999988888765443 2222           122333 334433333  556788888888


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+  .+||+++...........     +-+-+..|++..+|.+++++..
T Consensus        67 ~~--~~Pvlllg~~~~~~~~~n-----vvg~Le~Pl~Y~qLt~~L~~cQ  108 (109)
T PF06490_consen   67 AP--HIPVLLLGEHDSPEELPN-----VVGELEEPLNYPQLTDALHRCQ  108 (109)
T ss_pred             CC--CCCEEEECCCCccccccC-----eeEecCCCCCHHHHHHHHHHhc
Confidence            87  999999998765511211     4556888999999999988753

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).

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

Probab=98.20  E-value=3.1e-06  Score=69.85  Aligned_cols=93  Identities=27%  Similarity=0.406  Sum_probs=79.7

Q ss_pred             ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHH
Q 046192           33 YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL  112 (187)
Q Consensus        33 ~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~  112 (187)
                      ++|..+..+.+++..+           .+..+|.+++|..||+++|+++++.+++...    ++++++...+........
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            4566688899999988           5556779999999999999999999998643    388888888888899999


Q ss_pred             HhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192          113 EEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus       113 ~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+|+++++.||.+...+......+.+..
T Consensus        78 ~~~~~~~l~~~~~~~~~~~r~~~l~~~k  105 (435)
T COG3706          78 KAGADDFLTKPVNDSQLFLRAKSLVRLK  105 (435)
T ss_pred             hhhhhhhccCCCChHHHHHhhhhhccch
Confidence            9999999999999999888877777664

>smart00448 REC cheY-homologous receiver domain

Probab=97.87  E-value=0.00017  Score=39.71  Aligned_cols=53  Identities=36%  Similarity=0.576  Sum_probs=45.2

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccC
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCM   73 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~   73 (187)
                      +++++++++.....+...+...|+.+..+.+..++...+.           ...+|++++|..+
T Consensus         2 ~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~vi~~~~~   54 (55)
T smart00448        2 RILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLK-----------EEKPDLILLDIMM   54 (55)
T ss_pred             eEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHHH-----------hcCCCEEEEeccC
Confidence            6899999999999999999888999888899999888873           3356799998754

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

>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain

Probab=97.86  E-value=0.0012  Score=45.51  Aligned_cols=107  Identities=16%  Similarity=0.125  Sum_probs=76.6

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CHHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TGYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g~~~~~~l~~~~   89 (187)
                      |.|..-...+..+|+..||+|...   .+.++..+.+...           .+|+|.+...++..  ...++++.+++..
T Consensus        10 d~H~lG~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~~-----------~~d~V~iS~~~~~~~~~~~~~~~~L~~~~   78 (122)
T cd02071          10 DGHDRGAKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQE-----------DVDVIGLSSLSGGHMTLFPEVIELLRELG   78 (122)
T ss_pred             ChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEcccchhhHHHHHHHHHHHHhcC
Confidence            566666677777888899999873   4567777887444           45599998877642  3456788888875


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHH
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKP  134 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~  134 (187)
                      +  ....+++......+...++.+.|+++|+-.-.+.++....++
T Consensus        79 ~--~~i~i~~GG~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~~~~  121 (122)
T cd02071          79 A--GDILVVGGGIIPPEDYELLKEMGVAEIFGPGTSIEEIIDKIR  121 (122)
T ss_pred             C--CCCEEEEECCCCHHHHHHHHHCCCCEEECCCCCHHHHHHHHh
Confidence            5  334455665556677888899999999998888877766553

This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.

>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure

Probab=97.71  E-value=0.00041  Score=47.34  Aligned_cols=104  Identities=15%  Similarity=0.226  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHHHHHhhcCCCCCcEEE
Q 046192           21 RKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLRKIKESASLKDIPVVI   98 (187)
Q Consensus        21 ~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~~l~~~~~~~~~~iI~   98 (187)
                      ...+...|+..|+.|+.+.+.++++..+..          ...+++|++++. ++  ....++++.++..+.  ++||.+
T Consensus         6 ~~~l~~~L~~~~~~vv~~~~~dd~~~~i~~----------~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~--~iPVFl   72 (115)
T PF03709_consen    6 SRELAEALEQRGREVVDADSTDDALAIIES----------FTDIAAVVISWD-GEEEDEAQELLDKIRERNF--GIPVFL   72 (115)
T ss_dssp             HHHHHHHHHHTTTEEEEESSHHHHHHHHHC----------TTTEEEEEEECH-HHHHHHHHHHHHHHHHHST--T-EEEE
T ss_pred             HHHHHHHHHHCCCEEEEeCChHHHHHHHHh----------CCCeeEEEEEcc-cccchhHHHHHHHHHHhCC--CCCEEE
Confidence            456788888889999999999999999852          345789999987 22  245679999999987  999999


Q ss_pred             EeCCCChhHHHHHHHhCCCceeeCCCChHHH-HHHHHHHh
Q 046192           99 MSSENIPSRINRCLEEGAEEFFLKPVQLADV-NKLKPHLM  137 (187)
Q Consensus        99 ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l-~~~i~~~~  137 (187)
                      ++.....+.+....-..+++|+...-+..++ ...+....
T Consensus        73 ~~~~~~~~~l~~~~l~~v~~~i~l~~~t~~fia~rI~~Aa  112 (115)
T PF03709_consen   73 LAERDTTEDLPAEVLGEVDGFIWLFEDTAEFIARRIEAAA  112 (115)
T ss_dssp             EESCCHHHCCCHHHHCCESEEEETTTTTHHHHHHHHHHHH
T ss_pred             EecCCCcccCCHHHHhhccEEEEecCCCHHHHHHHHHHHH
Confidence            9997766666666667788998887666665 45555444

Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.

>PRK02261 methylaspartate mutase subunit S; Provisional

Probab=97.67  E-value=0.0059  Score=42.97  Aligned_cols=119  Identities=13%  Similarity=0.104  Sum_probs=85.8

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g   78 (187)
                      ..+|++.    |.|..=...+..+|+..||+|+..   -+.++..+.+...           .+|+|.+...+...  ..
T Consensus         3 ~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~-----------~~d~V~lS~~~~~~~~~~   71 (137)
T PRK02261          3 KKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIET-----------DADAILVSSLYGHGEIDC   71 (137)
T ss_pred             CCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEcCccccCHHHH
Confidence            4677777    777777788888889999999873   4567888888544           45599999877653  35


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCC-----CChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSE-----NIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~-----~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .++++.+++..+ .+++|++-..-     ...+....+.+.|++.++....+.+++...++...+
T Consensus        72 ~~~~~~L~~~~~-~~~~i~vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~~~~~  135 (137)
T PRK02261         72 RGLREKCIEAGL-GDILLYVGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLKKDLN  135 (137)
T ss_pred             HHHHHHHHhcCC-CCCeEEEECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHhc
Confidence            568888888754 25555443322     134556788899999999888889888888776654

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=97.45  E-value=0.0096  Score=41.60  Aligned_cols=110  Identities=12%  Similarity=0.099  Sum_probs=77.6

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CHHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TGYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g~~~~~~l~~~~   89 (187)
                      |-|..-...+...|+..||+|..   ..+.++..+.....           .+|+|.+...+.. + .-.++++.|++.+
T Consensus        13 D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~aa~e~-----------~adii~iSsl~~~~~~~~~~~~~~L~~~g   81 (132)
T TIGR00640        13 DGHDRGAKVIATAYADLGFDVDVGPLFQTPEEIARQAVEA-----------DVHVVGVSSLAGGHLTLVPALRKELDKLG   81 (132)
T ss_pred             CccHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEcCchhhhHHHHHHHHHHHHhcC
Confidence            55566667788888989999986   45778888888544           4558888776643 2 2345777888765


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .  ....|++......+......++|+++|+..-.+..+....+....
T Consensus        82 ~--~~i~vivGG~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l~~~~  127 (132)
T TIGR00640        82 R--PDILVVVGGVIPPQDFDELKEMGVAEIFGPGTPIPESAIFLLKKL  127 (132)
T ss_pred             C--CCCEEEEeCCCChHhHHHHHHCCCCEEECCCCCHHHHHHHHHHHH
Confidence            4  233455555445666788999999999998888888777665533

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=97.22  E-value=0.012  Score=40.03  Aligned_cols=95  Identities=17%  Similarity=0.265  Sum_probs=64.7

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~~l~~~~   89 (187)
                      |.|..=...+..+|+..||+|...   .+.++..+.+...+           ||+|.+...+..  ....++++.+++..
T Consensus        10 e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~-----------pdvV~iS~~~~~~~~~~~~~i~~l~~~~   78 (119)
T cd02067          10 DGHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEED-----------ADAIGLSGLLTTHMTLMKEVIEELKEAG   78 (119)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEeccccccHHHHHHHHHHHHHcC
Confidence            556666678888899999999762   35667778885544           559999887554  34667888898875


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      + ++++|+ +...........+...|+|.|+..
T Consensus        79 ~-~~~~i~-vGG~~~~~~~~~~~~~G~D~~~~~  109 (119)
T cd02067          79 L-DDIPVL-VGGAIVTRDFKFLKEIGVDAYFGP  109 (119)
T ss_pred             C-CCCeEE-EECCCCChhHHHHHHcCCeEEECC
Confidence            4 245544 554444444457888999777654

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.

>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit

Probab=96.57  E-value=0.15  Score=35.76  Aligned_cols=106  Identities=10%  Similarity=0.076  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC--HHHHHHHHHhhcCCCC
Q 046192           19 IDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT--GYDLLRKIKESASLKD   93 (187)
Q Consensus        19 ~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~--g~~~~~~l~~~~~~~~   93 (187)
                      .=...+...|+..||+|..   ..+.++.++.+...+           +|+|-+...+...-  .-++.+.+++.+.  .
T Consensus        16 iGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~~~-----------adiVglS~l~~~~~~~~~~~~~~l~~~gl--~   82 (134)
T TIGR01501        16 VGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAAIETK-----------ADAILVSSLYGHGEIDCKGLRQKCDEAGL--E   82 (134)
T ss_pred             HhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEecccccCHHHHHHHHHHHHHCCC--C
Confidence            3346678888889999986   467888888885444           55999888775432  4457788888764  2


Q ss_pred             CcEEEEeCC---CChh---HHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           94 IPVVIMSSE---NIPS---RINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        94 ~~iI~ls~~---~~~~---~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      -+.+++...   ...+   ...++.+.|++..+.....++++...+++.+
T Consensus        83 ~~~vivGG~~vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~~~  132 (134)
T TIGR01501        83 GILLYVGGNLVVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKKDL  132 (134)
T ss_pred             CCEEEecCCcCcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHHh
Confidence            344556553   1122   2446889999999988888888888777654

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.

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=96.48  E-value=0.024  Score=45.53  Aligned_cols=66  Identities=18%  Similarity=0.078  Sum_probs=46.6

Q ss_pred             ccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEE-EeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVI-MSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        64 ~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~-ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ..+|++|..+-       -..+....| ....+++ ..+..+.+.+..+++.|+.+|+.+|++..+|.+.+.++.
T Consensus        20 ~~~v~~~~~~~-------~~~~~~~~p-~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~P~~~~~l~~~l~~~~   86 (322)
T TIGR03815        20 APLVLVDADMA-------EACAAAGLP-RRRRVVLVGGGEPGGALWRAAAAVGAEHVAVLPEAEGWLVELLADLD   86 (322)
T ss_pred             CCeEEECchhh-------hHHHhccCC-CCCCEEEEeCCCCCHHHHHHHHHhChhheeeCCCCHHHHHHHHHhhc
Confidence            34899986431       111222222 2444554 445667999999999999999999999999999998874

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.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=96.48  E-value=0.062  Score=47.66  Aligned_cols=114  Identities=15%  Similarity=0.139  Sum_probs=74.2

Q ss_pred             EEEEEeCCH-H-----HHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192           10 HVLAVDDSI-I-----DRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus        10 ~ilivd~~~-~-----~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      +|++|+++. .     ....|.+.|++.||.|..+.+..++...+. .         ....++|+++.+..   ...+++
T Consensus         2 ~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-~---------~~~~~~~~~~~~~~---~~~~~~   68 (713)
T PRK15399          2 NIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIE-H---------NPRICGVIFDWDEY---SLDLCS   68 (713)
T ss_pred             cEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHh-c---------ccceeEEEEecccc---hHHHHH
Confidence            677787764 1     145677777888999999999999999885 2         23477999996433   355899


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCC-hHHHHHHHHHHhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ-LADVNKLKPHLMK  138 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~-~~~l~~~i~~~~~  138 (187)
                      .+++.+.  .+||.++........+....-.-+++|+-...+ .+.+...+.+..+
T Consensus        69 ~~~~~~~--~~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~~~~  122 (713)
T PRK15399         69 DINQLNE--YLPLYAFINTHSTMDVSVQDMRMALWFFEYALGAAEDIAIRIRQYTN  122 (713)
T ss_pred             HHHHhCC--CCCEEEEcCccccccCChhHhhhcceeeeeccCCHHHHHHHHHHHHH
Confidence            9999886  999999987543333333333345566554333 2333333444443

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=96.44  E-value=0.099  Score=39.15  Aligned_cols=102  Identities=14%  Similarity=0.146  Sum_probs=72.0

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g   78 (187)
                      ..+|++.    |-|..=...+..+|+..||+|...   .+.++..+.+...           .||+|.+...+...  ..
T Consensus        82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~~-----------~~d~v~lS~~~~~~~~~~  150 (201)
T cd02070          82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAVKEH-----------KPDILGLSALMTTTMGGM  150 (201)
T ss_pred             CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEeccccccHHHH
Confidence            4577777    777777788889999999999853   3567888888544           45599999877652  45


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCC
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP  123 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP  123 (187)
                      .++++.+++..+..+++|++=...-+.+   -+-..|||.|-.-.
T Consensus       151 ~~~i~~lr~~~~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~da  192 (201)
T cd02070         151 KEVIEALKEAGLRDKVKVMVGGAPVNQE---FADEIGADGYAEDA  192 (201)
T ss_pred             HHHHHHHHHCCCCcCCeEEEECCcCCHH---HHHHcCCcEEECCH
Confidence            5688899987654466666555544443   45667999887643

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.

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

Probab=96.33  E-value=0.18  Score=35.54  Aligned_cols=117  Identities=18%  Similarity=0.179  Sum_probs=81.0

Q ss_pred             CceEEEE----EeCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CC
Q 046192            7 SQFHVLA----VDDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MT   77 (187)
Q Consensus         7 ~~~~ili----vd~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~   77 (187)
                      .++||++    .|.|..-...+.+.|+..||+|..   ..+.+|+....-           ....|+|.+...-.+  ..
T Consensus        11 ~rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~-----------~~dv~vIgvSsl~g~h~~l   79 (143)
T COG2185          11 ARPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAV-----------EEDVDVIGVSSLDGGHLTL   79 (143)
T ss_pred             CCceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHH-----------hcCCCEEEEEeccchHHHH
Confidence            3566665    477777889999999999999986   678889888873           334567777654433  23


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHH
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHL  136 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~  136 (187)
                      ..++.+.+|+.+. .++. ++....-..+......+.|++.++.--.+..+...-+...
T Consensus        80 ~~~lve~lre~G~-~~i~-v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~~~~v~~~  136 (143)
T COG2185          80 VPGLVEALREAGV-EDIL-VVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEALSDLLTR  136 (143)
T ss_pred             HHHHHHHHHHhCC-cceE-EeecCccCchhHHHHHHhCcceeeCCCCCHHHHHHHHHHH
Confidence            5567788888774 2232 3555555666677788899999998877777655444433

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=96.25  E-value=0.084  Score=46.86  Aligned_cols=98  Identities=13%  Similarity=0.184  Sum_probs=66.8

Q ss_pred             EEEEEeCCH------HHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192           10 HVLAVDDSI------IDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus        10 ~ilivd~~~------~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      +|++|+++.      .....|...|++.||.|..+.+..++...+. .         ....++|+++.+.   ....+++
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-~---------~~~~~~~~~~~~~---~~~~~~~   68 (714)
T PRK15400          2 NVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIE-N---------NARLCGVIFDWDK---YNLELCE   68 (714)
T ss_pred             cEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHh-c---------ccceeEEEEecch---hhHHHHH
Confidence            567776662      1245677778888999999999999999875 2         2347799999543   2255899


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      .+++.+.  .+||.++........+....-.-+++|+-.
T Consensus        69 ~~~~~~~--~~Pv~~~~~~~~~~~~~~~~l~~~~~~~~~  105 (714)
T PRK15400         69 EISKMNE--NLPLYAFANTYSTLDVSLNDLRLQVSFFEY  105 (714)
T ss_pred             HHHHhCC--CCCEEEEccccccccCChHHhhhccceeee
Confidence            9998876  999999987543333333333334555543

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=96.14  E-value=0.12  Score=39.18  Aligned_cols=104  Identities=14%  Similarity=0.142  Sum_probs=72.4

Q ss_pred             CceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--C
Q 046192            7 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--T   77 (187)
Q Consensus         7 ~~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~   77 (187)
                      +..+|++.    |.|..=...+..+|+..||+|...   -..++..+.+...+           ||+|.+...++..  .
T Consensus        87 ~~~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~~~~~-----------~~~V~lS~~~~~~~~~  155 (213)
T cd02069          87 SKGKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGVMVPIEKILEAAKEHK-----------ADIIGLSGLLVPSLDE  155 (213)
T ss_pred             CCCeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEccchhccHHH
Confidence            34677777    777777788888889999999873   35777888885444           5599999887652  3


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHH---HHHhCCCceeeCC
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINR---CLEEGAEEFFLKP  123 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~---a~~~ga~~yl~kP  123 (187)
                      ..++++.+++.++  +++|++=...-+.+....   +-..|||.|-.-.
T Consensus       156 ~~~~i~~L~~~~~--~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~da  202 (213)
T cd02069         156 MVEVAEEMNRRGI--KIPLLIGGAATSRKHTAVKIAPEYDGPVVYVKDA  202 (213)
T ss_pred             HHHHHHHHHhcCC--CCeEEEEChhcCHHHHhhhhccccCCCceEecCH
Confidence            4568888988754  777776555544444432   2346998886644

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

>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

Probab=95.94  E-value=0.011  Score=53.85  Aligned_cols=48  Identities=23%  Similarity=0.162  Sum_probs=40.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEecc
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC   72 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~   72 (187)
                      ..+||++||++..+..+...|+..|+.|..+.++      .           ....||+|++|.+
T Consensus       689 g~~vLlvdD~~~~r~~l~~~L~~~G~~v~~a~~~------~-----------~~~~~Dlvl~D~~  736 (894)
T PRK10618        689 GVTVLLDITSEEVRKIVTRQLENWGATCITPDER------L-----------ISQEYDIFLTDNP  736 (894)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEcCcc------c-----------cCCCCCEEEECCC
Confidence            4689999999999999999999999999887642      1           2335889999988

>PRK15320 transcriptional activator SprB; Provisional

Probab=95.87  E-value=0.028  Score=41.74  Aligned_cols=156  Identities=12%  Similarity=0.082  Sum_probs=85.6

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhC--CceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192           10 HVLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~--~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .|.|-++.=..--.+..++++.  +..|..|.+....+..+.. .||          ..+|+.++ | ..-+=+...+++
T Consensus         3 ~viiyg~~w~~~~a~~~~~~~~~p~~~~~t~~~l~~ll~~l~~-~p~----------a~lil~l~-p-~eh~~lf~~l~~   69 (251)
T PRK15320          3 NVIIYGINWTNCYALQSIFKQKYPEKCVKTCNSLTALLHSLSD-MPD----------AGLILALN-P-HEHVYLFHALLT   69 (251)
T ss_pred             cEEEEeccchHHHHHHHHHHHHCCccchhhhhhHHHHHHHHhh-CCC----------ceEEEeeC-c-hhHHHHHHHHHH
Confidence            4566666666666788888763  4566678888888877732 222          24444443 2 233345666777


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh--------------hhhhcc-----CCC
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG--------------ISKEIK-----EPN  148 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~--------------~~~~~~-----~~~  148 (187)
                      ..+  +-||+++++.---....-.--.|+-+|++|.    ||...++.-...              .++-..     ...
T Consensus        70 ~l~--~~~v~vv~d~l~~~dr~vl~~~g~~~~~l~~----el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (251)
T PRK15320         70 RLQ--NRKVLVVADRLYYIDRCVLQYFGVMDYVLKD----ELSCAIRSEREKLRLPEAWLRFCHRPQKKTVAATYAFNAG  143 (251)
T ss_pred             HcC--CCceEEEecceeehhhhhhhhhcchhHHHHH----HHHHHhcccccccCCcHHHHHHhcCccccccceeeeccCC
Confidence            665  8899999986322222222234666677653    222222211110              000000     000


Q ss_pred             c------cccccccccccccchhhhhhcccccccCCCCCCCccC
Q 046192          149 N------INNKRKGLEEIDSADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       149 ~------~~~~~~~~~~~~~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      +      .+.....+..++  ..++.+|.+|+.++++|.|++||
T Consensus       144 ~~~~~~~~~~~~~~~~~~~--~~LSdREIEVL~LLAkG~SNKEI  185 (251)
T PRK15320        144 ETPEEVLFNINQYAWWNLP--PGVTQAKYALLILLSSGHPAIEL  185 (251)
T ss_pred             CChHHHhhhccceeeecCC--CCCCHHHHHHHHHHHcCCCHHHH
Confidence            0      001111222233  35899999999999999999997

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

Probab=95.48  E-value=0.52  Score=32.69  Aligned_cols=104  Identities=13%  Similarity=0.103  Sum_probs=70.9

Q ss_pred             CHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CHHHHHHHHHhhcCC
Q 046192           17 SIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TGYDLLRKIKESASL   91 (187)
Q Consensus        17 ~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g~~~~~~l~~~~~~   91 (187)
                      |..=...+...|+..||+|.-   ..+.++.++.....           .+|+|.+..-+...  ..-++.+.+++... 
T Consensus        12 HdiGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa~~~-----------~adiVglS~L~t~~~~~~~~~~~~l~~~gl-   79 (128)
T cd02072          12 HAVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAAIET-----------DADAILVSSLYGHGEIDCKGLREKCDEAGL-   79 (128)
T ss_pred             hHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEeccccCCHHHHHHHHHHHHHCCC-
Confidence            334446778888989999986   45778888888544           45599888877653  34568888888754 


Q ss_pred             CCCcEEEEeCCC--C----hhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           92 KDIPVVIMSSEN--I----PSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        92 ~~~~iI~ls~~~--~----~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      .++||+ +....  .    .+...++.+.|++..+....+++++...+
T Consensus        80 ~~v~vi-vGG~~~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~~l  126 (128)
T cd02072          80 KDILLY-VGGNLVVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIADL  126 (128)
T ss_pred             CCCeEE-EECCCCCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHH
Confidence            344444 44431  1    33456688999999998877787776554

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.

>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=95.35  E-value=0.41  Score=32.31  Aligned_cols=94  Identities=16%  Similarity=0.201  Sum_probs=60.6

Q ss_pred             CCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEec-cCCCC-CHHHHHHHHHhhcC
Q 046192           16 DSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDY-CMPGM-TGYDLLRKIKESAS   90 (187)
Q Consensus        16 ~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~-~~~~~-~g~~~~~~l~~~~~   90 (187)
                      -++.-...+..+|++.|+++...   .+.++..+.+...+           ||+|.+.. ..+.. ...++++.+++..|
T Consensus        12 ~~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~-----------pd~V~iS~~~~~~~~~~~~l~~~~k~~~p   80 (121)
T PF02310_consen   12 VHPLGLLYLAAYLRKAGHEVDILDANVPPEELVEALRAER-----------PDVVGISVSMTPNLPEAKRLARAIKERNP   80 (121)
T ss_dssp             STSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTT-----------CSEEEEEESSSTHHHHHHHHHHHHHTTCT
T ss_pred             chhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCC-----------CcEEEEEccCcCcHHHHHHHHHHHHhcCC
Confidence            45677889999999999988764   34567777775444           55999988 44443 45678888888765


Q ss_pred             CCCCcEEEEeCCCChhHHHHHHH--hCCCceeeCC
Q 046192           91 LKDIPVVIMSSENIPSRINRCLE--EGAEEFFLKP  123 (187)
Q Consensus        91 ~~~~~iI~ls~~~~~~~~~~a~~--~ga~~yl~kP  123 (187)
                        ++++++=... -...-...++  .|+|..+.-+
T Consensus        81 --~~~iv~GG~~-~t~~~~~~l~~~~~~D~vv~Ge  112 (121)
T PF02310_consen   81 --NIPIVVGGPH-ATADPEEILREYPGIDYVVRGE  112 (121)
T ss_dssp             --TSEEEEEESS-SGHHHHHHHHHHHTSEEEEEET
T ss_pred             --CCEEEEECCc-hhcChHHHhccCcCcceecCCC
Confidence              6666544433 3333344454  5766555443

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 ....

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=95.20  E-value=0.35  Score=36.08  Aligned_cols=94  Identities=13%  Similarity=0.135  Sum_probs=62.4

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CHHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TGYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g~~~~~~l~~~~   89 (187)
                      |.|..=...+..+|+..||+|...   ...++..+.+...+           ||+|.+...++..  .-.++++.+++.+
T Consensus        95 d~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~~~-----------pd~v~lS~~~~~~~~~~~~~i~~l~~~~  163 (197)
T TIGR02370        95 DVHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKKEK-----------PLMLTGSALMTTTMYGQKDINDKLKEEG  163 (197)
T ss_pred             chhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEccccccCHHHHHHHHHHHHHcC
Confidence            344555567777788899999863   45677888885554           5599999877652  3446888888875


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      ..++++|++=...-+.+   -+-..|||.|-.-
T Consensus       164 ~~~~v~i~vGG~~~~~~---~~~~~gad~~~~d  193 (197)
T TIGR02370       164 YRDSVKFMVGGAPVTQD---WADKIGADVYGEN  193 (197)
T ss_pred             CCCCCEEEEEChhcCHH---HHHHhCCcEEeCC
Confidence            43356666544444333   3457799988653

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.

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

Probab=95.11  E-value=0.18  Score=34.39  Aligned_cols=108  Identities=10%  Similarity=0.123  Sum_probs=72.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH-HHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR-KIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~-~l~   86 (187)
                      .-+.+.|+.+-.......++|.+.+.+|+.-.+..+.               -...+|++++.+-.+--+...+.+ ++.
T Consensus        11 gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~~l---------------p~~hYD~~Ll~vavtfr~n~tm~~~~l~   75 (140)
T COG4999          11 GKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFSAL---------------PPAHYDMMLLGVAVTFRENLTMQHERLA   75 (140)
T ss_pred             cceeEEecCccHHHHHHHHHHhcCCceEEeccccccc---------------ChhhhceeeecccccccCCchHHHHHHH
Confidence            3578899999999999999999999888765443332               223578999999777644433222 222


Q ss_pred             hhcCCCCCcEEEEeCCC-ChhHHHHHHHhCCCceeeCCCChHHHHHH
Q 046192           87 ESASLKDIPVVIMSSEN-IPSRINRCLEEGAEEFFLKPVQLADVNKL  132 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~-~~~~~~~a~~~ga~~yl~kP~~~~~l~~~  132 (187)
                      +...  -+-.+++.-.+ ....+....+.|+-++++||++..+|.-.
T Consensus        76 ~Al~--mtd~vilalPs~~qv~AeqLkQ~g~~~CllKPls~~rLlpt  120 (140)
T COG4999          76 KALS--MTDFVILALPSHAQVNAEQLKQDGAGACLLKPLSSTRLLPT  120 (140)
T ss_pred             HHHh--hhcceEEecCcHHHHhHHHHhhcchHhHhhCcchhhhhHHH
Confidence            2221  33344444333 34456667888999999999999877653

>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=95.01  E-value=0.33  Score=37.52  Aligned_cols=115  Identities=20%  Similarity=0.228  Sum_probs=70.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|.+.-.++.....+.+.|...-|.+..+.++++.++.+..         .+..+||+|+...   ..-..+...+.+.
T Consensus         1 LsI~~~v~s~~Laqsl~~~L~~dRY~l~~~~s~~ef~~~le~---------~~e~iDCLvle~~---~~~~~~~~~L~e~   68 (283)
T PF07688_consen    1 LSICLLVSSPALAQSLRQWLPGDRYELVQVDSPEEFLEFLEQ---------HREQIDCLVLEQS---PLLPPLFNQLYEQ   68 (283)
T ss_dssp             EEEEEE-S-HHHHHHHHHHT-STTEEEEEESSCHHHHHHHCC---------TTTT-SEEEEETT---STTHHHHHHHHHC
T ss_pred             CeEEEEeCCHHHHHHHHHHcccCceEEEEcCcHHHHHHHHHh---------chhccCEEEEecC---CCcHHHHHHHHHc
Confidence            357788888999999999998877999999999999999965         3346999999974   3455688889888


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCcee-----eCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFF-----LKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl-----~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +-  -+|+|++.+.....   ..-..|...|-     ...-..+++-..+.+++.+.
T Consensus        69 g~--LLPaVil~~~~s~~---~~~~~~~~~YH~aEV~L~~~qL~ql~~~ID~AIsrF  120 (283)
T PF07688_consen   69 GI--LLPAVILGSSESAS---TTSESGTVLYHSAEVHLPIDQLEQLSYNIDQAISRF  120 (283)
T ss_dssp             T------EEEES---S-----TTS--SSGSSBTT-EEE-CCGTTCHHHHHHHHHHHH
T ss_pred             Cc--cccEEEEecCcccc---cCCCCCceeeehHheEccHHHHHHHHHHHHHHHHHH
Confidence            76  78999987732211   11123333342     22334566666666666554

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.

>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional

Probab=94.94  E-value=0.52  Score=36.74  Aligned_cols=100  Identities=15%  Similarity=0.153  Sum_probs=66.9

Q ss_pred             HHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEE
Q 046192           22 KLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM   99 (187)
Q Consensus        22 ~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~l   99 (187)
                      ..+++.|....  +-++.........+.+           ....||.|++|......+--++...++......-.|++-+
T Consensus         8 n~lk~~l~~g~~~~g~~~~~~sp~~~e~~-----------a~~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~lVRv   76 (256)
T PRK10558          8 NKFKAALAAKQVQIGCWSALANPITTEVL-----------GLAGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAPVVRV   76 (256)
T ss_pred             HHHHHHHHcCCceEEEEEcCCCcHHHHHH-----------HhcCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCcEEEC
Confidence            34666676533  2233333344666666           4456899999999998888888887777654334556656


Q ss_pred             eCCCChhHHHHHHHhCCCceeeCCCCh-HHHHHHH
Q 046192          100 SSENIPSRINRCLEEGAEEFFLKPVQL-ADVNKLK  133 (187)
Q Consensus       100 s~~~~~~~~~~a~~~ga~~yl~kP~~~-~~l~~~i  133 (187)
                      .+ .+...+.++++.|+++.+.--++. ++...++
T Consensus        77 p~-~~~~~i~r~LD~Ga~giivP~v~tae~a~~~v  110 (256)
T PRK10558         77 PT-NEPVIIKRLLDIGFYNFLIPFVETAEEARRAV  110 (256)
T ss_pred             CC-CCHHHHHHHhCCCCCeeeecCcCCHHHHHHHH
Confidence            55 478899999999999998765554 3333333

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=94.72  E-value=0.88  Score=31.17  Aligned_cols=109  Identities=17%  Similarity=0.192  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC-CHHHHHHHHHhhcCCCCC
Q 046192           18 IIDRKLIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM-TGYDLLRKIKESASLKDI   94 (187)
Q Consensus        18 ~~~~~~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~-~g~~~~~~l~~~~~~~~~   94 (187)
                      |.....+...+.+.|+.+..  ....++.++.+..          ...||+|.+....+.. ...++++.+|+..|  +.
T Consensus         2 plgl~~~aa~l~~~g~~v~~~~~~~~~~~~~~~~~----------~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p--~~   69 (127)
T cd02068           2 PLGLAYLAAVLEDAGFIVAEHDVLSADDIVEDIKE----------LLKPDVVGISLMTSAIYEALELAKIAKEVLP--NV   69 (127)
T ss_pred             cchHHHHHHHHHHCCCeeeecCCCCHHHHHHHHHH----------hcCCCEEEEeeccccHHHHHHHHHHHHHHCC--CC
Confidence            34556788888888877655  3455566666632          1356799999866653 46679999999876  66


Q ss_pred             cEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           95 PVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        95 ~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +|++=..... ......+.....||+.+---...+.+.++.+..+
T Consensus        70 ~iv~GG~~~t-~~p~~~~~~~~~D~vv~GEgE~~~~~l~~~l~~g  113 (127)
T cd02068          70 IVVVGGPHAT-FFPEEILEEPGVDFVVIGEGEETFLKLLEELEEG  113 (127)
T ss_pred             EEEECCcchh-hCHHHHhcCCCCCEEEECCcHHHHHHHHHHHHcC
Confidence            6665443322 1112213334456877754445566666665544

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.

>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=94.64  E-value=1  Score=34.82  Aligned_cols=112  Identities=19%  Similarity=0.193  Sum_probs=70.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHH------HhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-------
Q 046192            9 FHVLAVDDSIIDRKLIERLL------KTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-------   74 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l------~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-------   74 (187)
                      +++=|+.|+......+...+      -+.||.+. .|.+.....+.+....|+           +|     +|       
T Consensus        94 iKlEVi~d~~~Llpd~~~tv~aa~~L~~~Gf~vlpyc~dd~~~ar~l~~~G~~-----------~v-----mPlg~pIGs  157 (248)
T cd04728          94 IKLEVIGDDKTLLPDPIETLKAAEILVKEGFTVLPYCTDDPVLAKRLEDAGCA-----------AV-----MPLGSPIGS  157 (248)
T ss_pred             EEEEEecCccccccCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHcCCC-----------Ee-----CCCCcCCCC
Confidence            45556665543333333333      23599888 565555555555444443           55     33       


Q ss_pred             --CCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee-----CCCChHHHHHHHHHHhhh
Q 046192           75 --GMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL-----KPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        75 --~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~-----kP~~~~~l~~~i~~~~~~  139 (187)
                        +..-.++++.+++. .  ++|||+=..-...+.+..+++.|+++.+.     |.-++.....+.......
T Consensus       158 g~Gi~~~~~I~~I~e~-~--~vpVI~egGI~tpeda~~AmelGAdgVlV~SAIt~a~dP~~ma~af~~Av~a  226 (248)
T cd04728         158 GQGLLNPYNLRIIIER-A--DVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAVEA  226 (248)
T ss_pred             CCCCCCHHHHHHHHHh-C--CCcEEEeCCCCCHHHHHHHHHcCCCEEEEChHhcCCCCHHHHHHHHHHHHHH
Confidence              12226788888886 3  78999888888999999999999999864     444566665555554433

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=94.52  E-value=1.1  Score=34.66  Aligned_cols=112  Identities=18%  Similarity=0.174  Sum_probs=70.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHH------HhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-------
Q 046192            9 FHVLAVDDSIIDRKLIERLL------KTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-------   74 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l------~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-------   74 (187)
                      +++=|+.|+......+...+      -+.||.+. .|.+.-...+.+....|+           +|     +|       
T Consensus        94 iKlEVi~d~~~llpd~~~tv~aa~~L~~~Gf~vlpyc~~d~~~ak~l~~~G~~-----------~v-----mPlg~pIGs  157 (250)
T PRK00208         94 IKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPYCTDDPVLAKRLEEAGCA-----------AV-----MPLGAPIGS  157 (250)
T ss_pred             EEEEEecCCCCCCcCHHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHcCCC-----------Ee-----CCCCcCCCC
Confidence            55556665543332222222      23599888 565555555555444443           55     33       


Q ss_pred             --CCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee-----CCCChHHHHHHHHHHhhh
Q 046192           75 --GMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL-----KPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        75 --~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~-----kP~~~~~l~~~i~~~~~~  139 (187)
                        +..-.++++.+++. .  ++|||+=..-...+.+..+++.|+++.+.     |.-++..+..........
T Consensus       158 g~gi~~~~~i~~i~e~-~--~vpVIveaGI~tpeda~~AmelGAdgVlV~SAItka~dP~~ma~af~~Av~a  226 (250)
T PRK00208        158 GLGLLNPYNLRIIIEQ-A--DVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAVAGDPVAMARAFKLAVEA  226 (250)
T ss_pred             CCCCCCHHHHHHHHHh-c--CCeEEEeCCCCCHHHHHHHHHcCCCEEEEChHhhCCCCHHHHHHHHHHHHHH
Confidence              12225788888886 3  78999988889999999999999999764     444566665555554433

>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional

Probab=94.45  E-value=0.83  Score=35.87  Aligned_cols=94  Identities=17%  Similarity=0.164  Sum_probs=64.4

Q ss_pred             HHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEe
Q 046192           23 LIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS  100 (187)
Q Consensus        23 ~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls  100 (187)
                      .+++.|....  +-.+.........+.+           ....||.|++|..-...+--++...++........|++-+.
T Consensus         8 ~lk~~L~~G~~~~G~~~~~~sp~~~E~~-----------a~~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~lVRvp   76 (267)
T PRK10128          8 PFKEGLRKGEVQIGLWLSSTTSYMAEIA-----------ATSGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQPVIRPV   76 (267)
T ss_pred             HHHHHHHcCCceEEEEecCCCcHHHHHH-----------HHcCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCeEEECC
Confidence            4666665432  2233333445666666           34458999999999988877777777776543345555554


Q ss_pred             CCCChhHHHHHHHhCCCceeeCCCChHH
Q 046192          101 SENIPSRINRCLEEGAEEFFLKPVQLAD  128 (187)
Q Consensus       101 ~~~~~~~~~~a~~~ga~~yl~kP~~~~~  128 (187)
                       ..+...+.++++.||++.+.--++..+
T Consensus        77 -~~~~~~i~r~LD~GA~GIivP~V~sae  103 (267)
T PRK10128         77 -EGSKPLIKQVLDIGAQTLLIPMVDTAE  103 (267)
T ss_pred             -CCCHHHHHHHhCCCCCeeEecCcCCHH
Confidence             457889999999999999987766544

>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=94.34  E-value=0.9  Score=29.69  Aligned_cols=90  Identities=20%  Similarity=0.224  Sum_probs=55.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEe--CCHH-HHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAV--DSGN-KALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~--~~~~-~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +||||+.++.....++..+++.|+.....  ..+. .....+..         .-...|+||+=++.-.-+....++..-
T Consensus         1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~---------~i~~aD~VIv~t~~vsH~~~~~vk~~a   71 (97)
T PF10087_consen    1 SVLIVGGREDRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPS---------KIKKADLVIVFTDYVSHNAMWKVKKAA   71 (97)
T ss_pred             CEEEEcCCcccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHH---------hcCCCCEEEEEeCCcChHHHHHHHHHH
Confidence            58999998888899999999999877776  2111 11111211         123467888877666655555555554


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHH
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCL  112 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~  112 (187)
                      +..   +.|+++..+.+ ...+.+++
T Consensus        72 kk~---~ip~~~~~~~~-~~~l~~~l   93 (97)
T PF10087_consen   72 KKY---GIPIIYSRSRG-VSSLERAL   93 (97)
T ss_pred             HHc---CCcEEEECCCC-HHHHHHHH
Confidence            433   78998776443 33444443

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=94.28  E-value=1.1  Score=40.06  Aligned_cols=118  Identities=17%  Similarity=0.153  Sum_probs=77.4

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |.|..-...+...|+..||+|..   ..+.++..+.....           .+|+|++...+.. . ..
T Consensus       582 rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~~-----------~a~ivvlcs~d~~~~e~~  650 (714)
T PRK09426        582 RPRILVAKMGQDGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVEN-----------DVHVVGVSSLAAGHKTLV  650 (714)
T ss_pred             CceEEEEecCCcchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHHc-----------CCCEEEEeccchhhHHHH
Confidence            3455533    33455556777888888999964   34677888887443           4558887765544 2 35


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      -.+++.|++.+. .+++ |++......+....+.+.|+++|+..-.+..++...+.+.+.
T Consensus       651 ~~l~~~Lk~~G~-~~v~-vl~GG~~~~~~~~~l~~aGvD~~i~~g~d~~~~L~~l~~~l~  708 (714)
T PRK09426        651 PALIEALKKLGR-EDIM-VVVGGVIPPQDYDFLYEAGVAAIFGPGTVIADAAIDLLELLS  708 (714)
T ss_pred             HHHHHHHHhcCC-CCcE-EEEeCCCChhhHHHHHhCCCCEEECCCCCHHHHHHHHHHHHH
Confidence            578888888753 1233 345544234445677889999999988888887766666553

>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=94.20  E-value=1.7  Score=32.91  Aligned_cols=97  Identities=14%  Similarity=0.228  Sum_probs=63.4

Q ss_pred             HHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCC
Q 046192           24 IERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE  102 (187)
Q Consensus        24 l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~  102 (187)
                      +...|.+.+. -|....+.++++...+.....        -++  ++++.+...++.+.++.+++..|  + -+|....-
T Consensus         8 ~~~~l~~~~~iaV~r~~~~~~a~~i~~al~~~--------Gi~--~iEitl~~~~~~~~I~~l~~~~p--~-~~IGAGTV   74 (212)
T PRK05718          8 IEEILRAGPVVPVIVINKLEDAVPLAKALVAG--------GLP--VLEVTLRTPAALEAIRLIAKEVP--E-ALIGAGTV   74 (212)
T ss_pred             HHHHHHHCCEEEEEEcCCHHHHHHHHHHHHHc--------CCC--EEEEecCCccHHHHHHHHHHHCC--C-CEEEEeec
Confidence            4455566663 444567888888877654331        233  44555666689999999998775  4 34555666


Q ss_pred             CChhHHHHHHHhCCCceeeCCCChHHHHHHHH
Q 046192          103 NIPSRINRCLEEGAEEFFLKPVQLADVNKLKP  134 (187)
Q Consensus       103 ~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~  134 (187)
                      .+.+....++++||+-.++ |.-..++.+..+
T Consensus        75 l~~~~a~~a~~aGA~Fivs-P~~~~~vi~~a~  105 (212)
T PRK05718         75 LNPEQLAQAIEAGAQFIVS-PGLTPPLLKAAQ  105 (212)
T ss_pred             cCHHHHHHHHHcCCCEEEC-CCCCHHHHHHHH
Confidence            7789999999999984444 544445554433

>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase

Probab=94.19  E-value=1.2  Score=34.59  Aligned_cols=93  Identities=17%  Similarity=0.133  Sum_probs=63.4

Q ss_pred             HHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeC
Q 046192           24 IERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS  101 (187)
Q Consensus        24 l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~  101 (187)
                      +++.|....  +-++.........+.+           ....||.|++|..-...+--++...++......-.|++-+.+
T Consensus         3 lk~~l~~g~~~~G~~~~~~sp~~~e~~-----------a~~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~VRvp~   71 (249)
T TIGR03239         3 FRQDLLARETLIGCWSALGNPITTEVL-----------GLAGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVVRPPW   71 (249)
T ss_pred             HHHHHHcCCceEEEEEcCCCcHHHHHH-----------HhcCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEEECCC
Confidence            445554432  3333333445666666           445689999999999888888888887765433456666655


Q ss_pred             CCChhHHHHHHHhCCCceeeCCCChHH
Q 046192          102 ENIPSRINRCLEEGAEEFFLKPVQLAD  128 (187)
Q Consensus       102 ~~~~~~~~~a~~~ga~~yl~kP~~~~~  128 (187)
                       .+...+.++++.|+++.+.--++..+
T Consensus        72 -~~~~~i~r~LD~Ga~gIivP~v~tae   97 (249)
T TIGR03239        72 -NEPVIIKRLLDIGFYNFLIPFVESAE   97 (249)
T ss_pred             -CCHHHHHHHhcCCCCEEEecCcCCHH
Confidence             57889999999999999886555443

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

>TIGR02311 HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase

Probab=93.19  E-value=1.9  Score=33.47  Aligned_cols=102  Identities=15%  Similarity=0.084  Sum_probs=65.4

Q ss_pred             HHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeC
Q 046192           24 IERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS  101 (187)
Q Consensus        24 l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~  101 (187)
                      +++.|..-.  +-++.........+.+           ....+|.|++|..-...+.-++...++........+++-+.+
T Consensus         3 lk~~l~~g~~~~g~~~~~~~p~~~e~~-----------~~~g~D~v~iDlEH~~~~~~~~~~~~~a~~~~g~~~~VRv~~   71 (249)
T TIGR02311         3 FKQALKEGQPQIGLWLGLADPYAAEIC-----------AGAGFDWLLIDGEHAPNDVRTILSQLQALAPYPSSPVVRPAI   71 (249)
T ss_pred             HHHHHHCCCceEEEEEeCCCcHHHHHH-----------HhcCCCEEEEeccCCCCCHHHHHHHHHHHHhcCCCcEEECCC
Confidence            445554422  2333333445566666           344588999999988888888888777753322455555544


Q ss_pred             CCChhHHHHHHHhCCCceeeC-CCChHHHHHHHHHHh
Q 046192          102 ENIPSRINRCLEEGAEEFFLK-PVQLADVNKLKPHLM  137 (187)
Q Consensus       102 ~~~~~~~~~a~~~ga~~yl~k-P~~~~~l~~~i~~~~  137 (187)
                       .+...+..+++.|+++.+.- --+.++...+++.+.
T Consensus        72 -~~~~~i~~~Ld~Ga~gIivP~v~s~e~a~~~v~~~~  107 (249)
T TIGR02311        72 -GDPVLIKQLLDIGAQTLLVPMIETAEQAEAAVAATR  107 (249)
T ss_pred             -CCHHHHHHHhCCCCCEEEecCcCCHHHHHHHHHHcC
Confidence             46678999999999998654 445666555554443

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.

>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed

Probab=93.17  E-value=2.3  Score=35.27  Aligned_cols=112  Identities=14%  Similarity=0.062  Sum_probs=66.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEE---------------EeCCHHHHHHHHhccCcccccccccccccEEEEecc
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVT---------------AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC   72 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~---------------~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~   72 (187)
                      ..+++|+.+++.....+.+.+++.|+...               ...+..+....+.             ..|++++--.
T Consensus       262 ~~~liivG~g~~r~~~l~~~~~~~gl~~~~~~~~~~~~~~~~v~l~~~~~el~~~y~-------------~aDi~~v~~S  328 (425)
T PRK05749        262 NLLLILVPRHPERFKEVEELLKKAGLSYVRRSQGEPPSADTDVLLGDTMGELGLLYA-------------IADIAFVGGS  328 (425)
T ss_pred             CcEEEEcCCChhhHHHHHHHHHhCCCcEEEccCCCCCCCCCcEEEEecHHHHHHHHH-------------hCCEEEECCC
Confidence            46778888888765677777777665322               2222334444442             2457666433


Q ss_pred             CCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           73 MPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        73 ~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .....|..+++.+..     .+|||.-....+.....+.+.  ..+++..|-+.++|.+.+..++..
T Consensus       329 ~~e~~g~~~lEAma~-----G~PVI~g~~~~~~~e~~~~~~--~~g~~~~~~d~~~La~~l~~ll~~  388 (425)
T PRK05749        329 LVKRGGHNPLEPAAF-----GVPVISGPHTFNFKEIFERLL--QAGAAIQVEDAEDLAKAVTYLLTD  388 (425)
T ss_pred             cCCCCCCCHHHHHHh-----CCCEEECCCccCHHHHHHHHH--HCCCeEEECCHHHHHHHHHHHhcC
Confidence            323345556666654     778986433233333333332  235777788999999999888764

>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=92.77  E-value=3.3  Score=31.33  Aligned_cols=95  Identities=14%  Similarity=0.123  Sum_probs=63.0

Q ss_pred             HHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCC--cEEEEeCC
Q 046192           26 RLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDI--PVVIMSSE  102 (187)
Q Consensus        26 ~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~--~iI~ls~~  102 (187)
                      +.|.+.+. -|....+.+++....+.....          .+=++.+.+..-++++.++.+++..+  +-  -+|-...-
T Consensus         8 ~~l~~~~vi~vir~~~~~~a~~~~~al~~~----------Gi~~iEit~~~~~a~~~i~~l~~~~~--~~p~~~vGaGTV   75 (213)
T PRK06552          8 TKLKANGVVAVVRGESKEEALKISLAVIKG----------GIKAIEVTYTNPFASEVIKELVELYK--DDPEVLIGAGTV   75 (213)
T ss_pred             HHHHHCCEEEEEECCCHHHHHHHHHHHHHC----------CCCEEEEECCCccHHHHHHHHHHHcC--CCCCeEEeeeeC
Confidence            45555553 344466777777766544321          15566777777778999999988763  22  24456666


Q ss_pred             CChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192          103 NIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus       103 ~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      .+.+.+..+.++||+ |+.-|.-..++.+..
T Consensus        76 ~~~~~~~~a~~aGA~-FivsP~~~~~v~~~~  105 (213)
T PRK06552         76 LDAVTARLAILAGAQ-FIVSPSFNRETAKIC  105 (213)
T ss_pred             CCHHHHHHHHHcCCC-EEECCCCCHHHHHHH
Confidence            789999999999998 666676666665553

>TIGR01182 eda Entner-Doudoroff aldolase

Probab=92.34  E-value=3.1  Score=31.34  Aligned_cols=61  Identities=15%  Similarity=0.324  Sum_probs=41.5

Q ss_pred             EeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           69 TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        69 ~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      +.+.+...+..+.++.+++..+  ++ +|-...-.+.+.+..+.++||+ |+.-|....++.+..
T Consensus        37 iEit~~t~~a~~~i~~l~~~~~--~~-~vGAGTVl~~~~a~~a~~aGA~-FivsP~~~~~v~~~~   97 (204)
T TIGR01182        37 LEVTLRTPVALDAIRLLRKEVP--DA-LIGAGTVLNPEQLRQAVDAGAQ-FIVSPGLTPELAKHA   97 (204)
T ss_pred             EEEeCCCccHHHHHHHHHHHCC--CC-EEEEEeCCCHHHHHHHHHcCCC-EEECCCCCHHHHHHH
Confidence            3344444567788889988765  43 4445666789999999999998 556666665655543

2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida

>PRK15201 fimbriae regulatory protein FimW; Provisional

Probab=92.25  E-value=0.078  Score=38.76  Aligned_cols=86  Identities=8%  Similarity=0.033  Sum_probs=50.4

Q ss_pred             CCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhhhhccc
Q 046192           93 DIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLND  172 (187)
Q Consensus        93 ~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~  172 (187)
                      +..||++...+......+. -.-..-|+.+.-+.+++.....-++....-...-+...-.       -.....+++||.+
T Consensus        69 ~~~~~~~~~~~~~~~~~~~-~~~~~~~iyr~d~v~~i~~k~~~il~~~al~~~~~~~~~~-------~~~~~~LSpRErE  140 (198)
T PRK15201         69 QLRVIICNKCDKEKLMFRP-CLYMLPHIYREDDVEEITRKMILILHKRALRHSVPSGICH-------YCTTRHFSVTERH  140 (198)
T ss_pred             eeEEEEeccccchhhhhch-hHhhcchhhccccHHHHHHHHHHHHHHHHHHhhCCchhcc-------ccCCCCCCHHHHH
Confidence            5567766665544443222 1234567777778888776665555332211111110101       1122348999999


Q ss_pred             ccccCCCCCCCccC
Q 046192          173 TIDINNDGLPDLEI  186 (187)
Q Consensus       173 ~l~l~~~g~~~~ei  186 (187)
                      |+.++++|+|++||
T Consensus       141 VLrLLAqGkTnKEI  154 (198)
T PRK15201        141 LLKLIASGYHLSET  154 (198)
T ss_pred             HHHHHHCCCCHHHH
Confidence            99999999999997

>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]

Probab=91.57  E-value=1.2  Score=32.94  Aligned_cols=89  Identities=18%  Similarity=0.151  Sum_probs=55.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC-CHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM-TGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~-~g~~~~~~l~~   87 (187)
                      .+||+||+...+-.-|.++|.+.|.++....+.......+...+           ||.|++.---..- +.-...+.|++
T Consensus         2 ~~IL~IDNyDSFtyNLv~yl~~lg~~v~V~rnd~~~~~~~~~~~-----------pd~iviSPGPG~P~d~G~~~~~i~~   70 (191)
T COG0512           2 MMILLIDNYDSFTYNLVQYLRELGAEVTVVRNDDISLELIEALK-----------PDAIVISPGPGTPKDAGISLELIRR   70 (191)
T ss_pred             ceEEEEECccchHHHHHHHHHHcCCceEEEECCccCHHHHhhcC-----------CCEEEEcCCCCChHHcchHHHHHHH
Confidence            57999999999999999999999988877655433333443333           4588887532211 11123333443


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHH
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCL  112 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~  112 (187)
                      ..  .++||+-+.-.  ...+..++
T Consensus        71 ~~--~~~PiLGVCLG--HQai~~~f   91 (191)
T COG0512          71 FA--GRIPILGVCLG--HQAIAEAF   91 (191)
T ss_pred             hc--CCCCEEEECcc--HHHHHHHh
Confidence            32  27899887753  33444444

>PRK09140 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed

Probab=91.29  E-value=5  Score=30.18  Aligned_cols=96  Identities=13%  Similarity=0.189  Sum_probs=58.2

Q ss_pred             HHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCC
Q 046192           26 RLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENI  104 (187)
Q Consensus        26 ~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~  104 (187)
                      +.|.+.+. -|....+.+++.+.++.....        -  +=++.+.+...++.+.++.+++..+  ..-+|-...--+
T Consensus         5 ~~l~~~~~~~v~r~~~~~~~~~~~~a~~~g--------G--i~~iEvt~~~~~~~~~i~~l~~~~~--~~~~iGaGTV~~   72 (206)
T PRK09140          5 QPFTKLPLIAILRGITPDEALAHVGALIEA--------G--FRAIEIPLNSPDPFDSIAALVKALG--DRALIGAGTVLS   72 (206)
T ss_pred             hHHHhCCEEEEEeCCCHHHHHHHHHHHHHC--------C--CCEEEEeCCCccHHHHHHHHHHHcC--CCcEEeEEecCC
Confidence            44444442 333345666666655433221        1  3355565666678888888888764  323444555667


Q ss_pred             hhHHHHHHHhCCCceeeCCCChHHHHHHHH
Q 046192          105 PSRINRCLEEGAEEFFLKPVQLADVNKLKP  134 (187)
Q Consensus       105 ~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~  134 (187)
                      .+.+..+.++||+ |+.-|....++.+..+
T Consensus        73 ~~~~~~a~~aGA~-fivsp~~~~~v~~~~~  101 (206)
T PRK09140         73 PEQVDRLADAGGR-LIVTPNTDPEVIRRAV  101 (206)
T ss_pred             HHHHHHHHHcCCC-EEECCCCCHHHHHHHH
Confidence            8899999999996 5555766666655544

>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences

Probab=91.18  E-value=5.1  Score=30.84  Aligned_cols=100  Identities=18%  Similarity=0.195  Sum_probs=61.4

Q ss_pred             HHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH-----HHHHHHHHhhcCCCCCcEEE
Q 046192           25 ERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG-----YDLLRKIKESASLKDIPVVI   98 (187)
Q Consensus        25 ~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g-----~~~~~~l~~~~~~~~~~iI~   98 (187)
                      .+.|-+.||.|.. +++..-..+.+...-.            -.++-+-.|=++|     ...++.|++..   ++|||+
T Consensus       116 ae~Lv~eGF~VlPY~~~D~v~akrL~d~Gc------------aavMPlgsPIGSg~Gi~n~~~l~~i~~~~---~vPvIv  180 (247)
T PF05690_consen  116 AEILVKEGFVVLPYCTDDPVLAKRLEDAGC------------AAVMPLGSPIGSGRGIQNPYNLRIIIERA---DVPVIV  180 (247)
T ss_dssp             HHHHHHTT-EEEEEE-S-HHHHHHHHHTT-------------SEBEEBSSSTTT---SSTHHHHHHHHHHG---SSSBEE
T ss_pred             HHHHHHCCCEEeecCCCCHHHHHHHHHCCC------------CEEEecccccccCcCCCCHHHHHHHHHhc---CCcEEE
Confidence            4455678999987 4444444445433222            3445555553333     35778888765   899999


Q ss_pred             EeCCCChhHHHHHHHhCCCceeeC-----CCChHHHHHHHHHHhhh
Q 046192           99 MSSENIPSRINRCLEEGAEEFFLK-----PVQLADVNKLKPHLMKG  139 (187)
Q Consensus        99 ls~~~~~~~~~~a~~~ga~~yl~k-----P~~~~~l~~~i~~~~~~  139 (187)
                      =..-..+..+..|++.|+++.|.-     --++....++.+.....
T Consensus       181 DAGiG~pSdaa~AMElG~daVLvNTAiA~A~dPv~MA~Af~~AV~A  226 (247)
T PF05690_consen  181 DAGIGTPSDAAQAMELGADAVLVNTAIAKAKDPVAMARAFKLAVEA  226 (247)
T ss_dssp             ES---SHHHHHHHHHTT-SEEEESHHHHTSSSHHHHHHHHHHHHHH
T ss_pred             eCCCCCHHHHHHHHHcCCceeehhhHHhccCCHHHHHHHHHHHHHH
Confidence            888899999999999999998764     44677776666666544

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.

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=91.09  E-value=5.1  Score=34.35  Aligned_cols=110  Identities=17%  Similarity=0.147  Sum_probs=70.2

Q ss_pred             CHHHHHHHHHHHHhCC-ceEEEeC------CHHHHHHHHhccCcccccccccccccEEEEeccCCCC-CHHHHHHHHHhh
Q 046192           17 SIIDRKLIERLLKTSS-YQVTAVD------SGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM-TGYDLLRKIKES   88 (187)
Q Consensus        17 ~~~~~~~l~~~l~~~~-~~v~~~~------~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~-~g~~~~~~l~~~   88 (187)
                      .|.....+...|++.| ++|....      +.++..+.+...           .||+|.+....+.. ...++++.+|+.
T Consensus        21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~~~-----------~pdvVgis~~t~~~~~a~~~~~~~k~~   89 (497)
T TIGR02026        21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERLRAH-----------CPDLVLITAITPAIYIACETLKFARER   89 (497)
T ss_pred             CCHHHHHHHHHHHhcCCcceEEecccccCCCHHHHHHHHHhc-----------CcCEEEEecCcccHHHHHHHHHHHHHH
Confidence            5777889999998889 5776642      233444555333           45699998766654 356788889988


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHH-hCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLE-EGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~-~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .|  +.+||+ .+..-.....+++. ...-||+..--....+.+.++.+..+.
T Consensus        90 ~P--~~~iV~-GG~h~t~~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll~~l~~g~  139 (497)
T TIGR02026        90 LP--NAIIVL-GGIHPTFMFHQVLTEAPWIDFIVRGEGEETVVKLIAALENHN  139 (497)
T ss_pred             CC--CCEEEE-cCCCcCcCHHHHHhcCCCccEEEeCCcHHHHHHHHHHHHcCC
Confidence            76  666664 33322222334443 344578888766666777777776553

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.

>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=91.09  E-value=3.2  Score=27.57  Aligned_cols=93  Identities=13%  Similarity=0.125  Sum_probs=58.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .+|+++|.++...+.+    ...|+.+... .+..+.++.+..           ...+.+++...-. .....++..+++
T Consensus        22 ~~vvvid~d~~~~~~~----~~~~~~~i~gd~~~~~~l~~a~i-----------~~a~~vv~~~~~d-~~n~~~~~~~r~   85 (116)
T PF02254_consen   22 IDVVVIDRDPERVEEL----REEGVEVIYGDATDPEVLERAGI-----------EKADAVVILTDDD-EENLLIALLARE   85 (116)
T ss_dssp             SEEEEEESSHHHHHHH----HHTTSEEEES-TTSHHHHHHTTG-----------GCESEEEEESSSH-HHHHHHHHHHHH
T ss_pred             CEEEEEECCcHHHHHH----HhcccccccccchhhhHHhhcCc-----------cccCEEEEccCCH-HHHHHHHHHHHH
Confidence            5788888888764433    3345655553 344555666533           3455888877522 445567778888


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      ..+  ..++++...  +........+.|++..+.
T Consensus        86 ~~~--~~~ii~~~~--~~~~~~~l~~~g~d~vi~  115 (116)
T PF02254_consen   86 LNP--DIRIIARVN--DPENAELLRQAGADHVIS  115 (116)
T ss_dssp             HTT--TSEEEEEES--SHHHHHHHHHTT-SEEEE
T ss_pred             HCC--CCeEEEEEC--CHHHHHHHHHCCcCEEEC
Confidence            776  677776665  467777778889986653

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 ....

>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase

Probab=91.06  E-value=4  Score=34.45  Aligned_cols=108  Identities=16%  Similarity=0.255  Sum_probs=68.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+++|+++.+. ++.+.+..+.........-+.++....+.             ..|++++-.. ...-|..+++.+..
T Consensus       290 ~~~l~ivG~G~~-~~~l~~~~~~~~V~f~G~v~~~ev~~~~~-------------~aDv~V~pS~-~E~~g~~vlEAmA~  354 (465)
T PLN02871        290 GARLAFVGDGPY-REELEKMFAGTPTVFTGMLQGDELSQAYA-------------SGDVFVMPSE-SETLGFVVLEAMAS  354 (465)
T ss_pred             CcEEEEEeCChH-HHHHHHHhccCCeEEeccCCHHHHHHHHH-------------HCCEEEECCc-ccccCcHHHHHHHc
Confidence            467788887664 34555555443333333444566666663             2457775432 34446667777654


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHh---CCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEE---GAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~---ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                           .+|||......    ..+....   |-.+++..|-+.+++.+++..++..
T Consensus       355 -----G~PVI~s~~gg----~~eiv~~~~~~~~G~lv~~~d~~~la~~i~~ll~~  400 (465)
T PLN02871        355 -----GVPVVAARAGG----IPDIIPPDQEGKTGFLYTPGDVDDCVEKLETLLAD  400 (465)
T ss_pred             -----CCCEEEcCCCC----cHhhhhcCCCCCceEEeCCCCHHHHHHHHHHHHhC
Confidence                 78898544332    2334455   8889999999999999999888754

>COG3967 DltE Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]

Probab=90.27  E-value=3.5  Score=31.28  Aligned_cols=81  Identities=11%  Similarity=0.086  Sum_probs=62.9

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHH-HHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY-DLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~-~~~~~l~   86 (187)
                      .-+|||=+.-.=....+.+.|.+.|-+|..|.-.++.++.....+|+         +--.++|.  .+.++. ++.++++
T Consensus         5 gnTiLITGG~sGIGl~lak~f~elgN~VIi~gR~e~~L~e~~~~~p~---------~~t~v~Dv--~d~~~~~~lvewLk   73 (245)
T COG3967           5 GNTILITGGASGIGLALAKRFLELGNTVIICGRNEERLAEAKAENPE---------IHTEVCDV--ADRDSRRELVEWLK   73 (245)
T ss_pred             CcEEEEeCCcchhhHHHHHHHHHhCCEEEEecCcHHHHHHHHhcCcc---------hheeeecc--cchhhHHHHHHHHH
Confidence            45788888888888889999999999999999889999988877775         33555665  344444 5999999


Q ss_pred             hhcCCCCCcEEEEeC
Q 046192           87 ESASLKDIPVVIMSS  101 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~  101 (187)
                      +.+|  ++-|++=-+
T Consensus        74 k~~P--~lNvliNNA   86 (245)
T COG3967          74 KEYP--NLNVLINNA   86 (245)
T ss_pred             hhCC--chheeeecc
Confidence            9998  887776433

>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=89.70  E-value=6.2  Score=29.65  Aligned_cols=61  Identities=10%  Similarity=0.200  Sum_probs=40.8

Q ss_pred             EeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           69 TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        69 ~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      +++.+..-++++.++.+++..+  + -+|-...-.+.+...++.++||+ |+.-|.-..++.+..
T Consensus        33 iEit~~tp~a~~~I~~l~~~~~--~-~~vGAGTVl~~e~a~~ai~aGA~-FivSP~~~~~vi~~a   93 (201)
T PRK06015         33 IEITLRTPAALDAIRAVAAEVE--E-AIVGAGTILNAKQFEDAAKAGSR-FIVSPGTTQELLAAA   93 (201)
T ss_pred             EEEeCCCccHHHHHHHHHHHCC--C-CEEeeEeCcCHHHHHHHHHcCCC-EEECCCCCHHHHHHH
Confidence            3444444557777888887664  3 34556666788999999999998 666666666655543

>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional

Probab=89.38  E-value=5.7  Score=34.93  Aligned_cols=55  Identities=9%  Similarity=0.166  Sum_probs=38.7

Q ss_pred             cccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           63 QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      +.+++++-..-+ .+...++...|+..|  +.+|++-+.  +.+......+.|++..+.-
T Consensus       464 ~A~~vv~~~~d~-~~n~~i~~~~r~~~p--~~~IiaRa~--~~~~~~~L~~~Ga~~vv~e  518 (601)
T PRK03659        464 KAEAIVITCNEP-EDTMKIVELCQQHFP--HLHILARAR--GRVEAHELLQAGVTQFSRE  518 (601)
T ss_pred             cCCEEEEEeCCH-HHHHHHHHHHHHHCC--CCeEEEEeC--CHHHHHHHHhCCCCEEEcc
Confidence            456777776543 334567788888876  888876554  5788888899999866543

>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4

Probab=88.95  E-value=4.4  Score=30.27  Aligned_cols=64  Identities=11%  Similarity=0.213  Sum_probs=40.9

Q ss_pred             EEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           66 LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        66 lvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      +=++++.+...++.+.++.+++..|  ++ +|-...-.+.+.+..|.++||+ |+.-|.-.+++.+..
T Consensus        34 i~~iEiT~~t~~a~~~I~~l~~~~p--~~-~vGAGTV~~~e~a~~a~~aGA~-FivSP~~~~~v~~~~   97 (196)
T PF01081_consen   34 IRAIEITLRTPNALEAIEALRKEFP--DL-LVGAGTVLTAEQAEAAIAAGAQ-FIVSPGFDPEVIEYA   97 (196)
T ss_dssp             --EEEEETTSTTHHHHHHHHHHHHT--TS-EEEEES--SHHHHHHHHHHT-S-EEEESS--HHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHCC--CC-eeEEEeccCHHHHHHHHHcCCC-EEECCCCCHHHHHHH
Confidence            4455666666678889999988875  53 5556777889999999999998 555555555554443

1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....

>COG2022 ThiG Uncharacterized enzyme of thiazole biosynthesis [Nucleotide transport and metabolism]

Probab=88.82  E-value=8.9  Score=29.50  Aligned_cols=100  Identities=18%  Similarity=0.177  Sum_probs=65.1

Q ss_pred             HHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH-----HHHHHHHHhhcCCCCCcEEE
Q 046192           25 ERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG-----YDLLRKIKESASLKDIPVVI   98 (187)
Q Consensus        25 ~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g-----~~~~~~l~~~~~~~~~~iI~   98 (187)
                      .+.|-+.||.|..+ ++..-..+.+...-.            ..++-+.-|=++|     ...++.|++..   ++|||+
T Consensus       123 ae~Lv~eGF~VlPY~~dD~v~arrLee~Gc------------aavMPl~aPIGSg~G~~n~~~l~iiie~a---~VPviV  187 (262)
T COG2022         123 AEQLVKEGFVVLPYTTDDPVLARRLEEAGC------------AAVMPLGAPIGSGLGLQNPYNLEIIIEEA---DVPVIV  187 (262)
T ss_pred             HHHHHhCCCEEeeccCCCHHHHHHHHhcCc------------eEeccccccccCCcCcCCHHHHHHHHHhC---CCCEEE
Confidence            44555679988874 333334444433222            4555555554443     35677787765   899999


Q ss_pred             EeCCCChhHHHHHHHhCCCceeeC-----CCChHHHHHHHHHHhhh
Q 046192           99 MSSENIPSRINRCLEEGAEEFFLK-----PVQLADVNKLKPHLMKG  139 (187)
Q Consensus        99 ls~~~~~~~~~~a~~~ga~~yl~k-----P~~~~~l~~~i~~~~~~  139 (187)
                      =..-..+..+..+++.|+|+.+.-     --++....++.......
T Consensus       188 DAGiG~pSdAa~aMElG~DaVL~NTAiA~A~DPv~MA~Af~~Av~A  233 (262)
T COG2022         188 DAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFALAVEA  233 (262)
T ss_pred             eCCCCChhHHHHHHhcccceeehhhHhhccCChHHHHHHHHHHHHH
Confidence            998899999999999999998764     23455555555555433

>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=88.67  E-value=5.3  Score=26.57  Aligned_cols=106  Identities=19%  Similarity=0.309  Sum_probs=62.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHh-CCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKT-SSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~-~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +||.+|+--...+..+..+... .++.+.. +....+..+.....          ..+. +.-|           .+.+-
T Consensus         1 i~v~iiG~G~~g~~~~~~~~~~~~~~~v~~v~d~~~~~~~~~~~~----------~~~~-~~~~-----------~~~ll   58 (120)
T PF01408_consen    1 IRVGIIGAGSIGRRHLRALLRSSPDFEVVAVCDPDPERAEAFAEK----------YGIP-VYTD-----------LEELL   58 (120)
T ss_dssp             EEEEEESTSHHHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHHH----------TTSE-EESS-----------HHHHH
T ss_pred             CEEEEECCcHHHHHHHHHHHhcCCCcEEEEEEeCCHHHHHHHHHH----------hccc-chhH-----------HHHHH
Confidence            4788888877777777777766 4566664 44444333333211          1112 2222           23333


Q ss_pred             h-hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC--ChHHHHHHHHHHhh
Q 046192           87 E-SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV--QLADVNKLKPHLMK  138 (187)
Q Consensus        87 ~-~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~--~~~~l~~~i~~~~~  138 (187)
                      + ..+  +.-+|........+.+..+++.|.+=|+-||+  +.+++.+.++...+
T Consensus        59 ~~~~~--D~V~I~tp~~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~  111 (120)
T PF01408_consen   59 ADEDV--DAVIIATPPSSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKE  111 (120)
T ss_dssp             HHTTE--SEEEEESSGGGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHH
T ss_pred             HhhcC--CEEEEecCCcchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHH
Confidence            3 222  33333334445677889999999999999999  67777666655543

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 ....

>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional

Probab=88.63  E-value=8.7  Score=28.96  Aligned_cols=85  Identities=19%  Similarity=0.296  Sum_probs=55.0

Q ss_pred             HHHHHHHHh-CCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEecc-------CCCCCHHHHHHHHHhhcCCC
Q 046192           22 KLIERLLKT-SSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC-------MPGMTGYDLLRKIKESASLK   92 (187)
Q Consensus        22 ~~l~~~l~~-~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~-------~~~~~g~~~~~~l~~~~~~~   92 (187)
                      ..+.+..++ .+..+.. +.+.+++....            ...+|++.+...       .......++++.+++..   
T Consensus       108 ~~~i~~~~~~~~i~vi~~v~t~ee~~~a~------------~~G~d~i~~~~~g~t~~~~~~~~~~~~~i~~i~~~~---  172 (221)
T PRK01130        108 AELVKRIKEYPGQLLMADCSTLEEGLAAQ------------KLGFDFIGTTLSGYTEETKKPEEPDFALLKELLKAV---  172 (221)
T ss_pred             HHHHHHHHhCCCCeEEEeCCCHHHHHHHH------------HcCCCEEEcCCceeecCCCCCCCcCHHHHHHHHHhC---
Confidence            344445555 5554443 56666664433            223667755321       11233577888888754   


Q ss_pred             CCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           93 DIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        93 ~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      ++|++....-.+.+.+..++..||++.+.
T Consensus       173 ~iPvia~GGI~t~~~~~~~l~~GadgV~i  201 (221)
T PRK01130        173 GCPVIAEGRINTPEQAKKALELGAHAVVV  201 (221)
T ss_pred             CCCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence            68999888888899999999999998754

>TIGR03088 stp2 sugar transferase, PEP-CTERM/EpsH1 system associated

Probab=88.34  E-value=7.3  Score=31.42  Aligned_cols=108  Identities=10%  Similarity=0.210  Sum_probs=66.9

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+++++++.+. ...+...++..+.  .+.......+..+.+.             ..|++++-. ....-|..+++.+
T Consensus       229 ~~~l~i~G~g~~-~~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~-------------~adi~v~pS-~~Eg~~~~~lEAm  293 (374)
T TIGR03088       229 RLRLVIVGDGPA-RGACEQMVRAAGLAHLVWLPGERDDVPALMQ-------------ALDLFVLPS-LAEGISNTILEAM  293 (374)
T ss_pred             ceEEEEecCCch-HHHHHHHHHHcCCcceEEEcCCcCCHHHHHH-------------hcCEEEecc-ccccCchHHHHHH
Confidence            467788877654 3556666666553  2333233334444442             245666532 2344566777777


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..     .+|+|+.....    ..+.+..|..+++..|-+.+++.+.+..++..
T Consensus       294 a~-----G~Pvv~s~~~g----~~e~i~~~~~g~~~~~~d~~~la~~i~~l~~~  338 (374)
T TIGR03088       294 AS-----GLPVIATAVGG----NPELVQHGVTGALVPPGDAVALARALQPYVSD  338 (374)
T ss_pred             Hc-----CCCEEEcCCCC----cHHHhcCCCceEEeCCCCHHHHHHHHHHHHhC
Confidence            64     77897633322    34455677889999999999999999888753

Members of this family include a match to the pfam00534 Glycosyl transferases group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, which appears to travel with a conserved group of genes summarized by Genome Property GenProp0652. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species, but we hypothesize a conserved substrate.

>PRK10669 putative cation:proton antiport protein; Provisional

Probab=87.99  E-value=12  Score=32.50  Aligned_cols=55  Identities=11%  Similarity=0.136  Sum_probs=33.8

Q ss_pred             cccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCC
Q 046192           63 QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP  123 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP  123 (187)
                      ..|.+++-..-+.. -..++..+|+..+  +.+++.-+.  +.+......+.|+|. +..|
T Consensus       481 ~a~~viv~~~~~~~-~~~iv~~~~~~~~--~~~iiar~~--~~~~~~~l~~~Gad~-vv~p  535 (558)
T PRK10669        481 CARWLLLTIPNGYE-AGEIVASAREKRP--DIEIIARAH--YDDEVAYITERGANQ-VVMG  535 (558)
T ss_pred             ccCEEEEEcCChHH-HHHHHHHHHHHCC--CCeEEEEEC--CHHHHHHHHHcCCCE-EECh
Confidence            46677776543322 2245566777765  778887665  455666667889884 4444

>PRK15484 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional

Probab=87.89  E-value=14  Score=30.32  Aligned_cols=110  Identities=11%  Similarity=0.155  Sum_probs=64.5

Q ss_pred             ceEEEEEeCCHH--------HHHHHHHHHHhCCceEEEe--CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC
Q 046192            8 QFHVLAVDDSII--------DRKLIERLLKTSSYQVTAV--DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT   77 (187)
Q Consensus         8 ~~~ilivd~~~~--------~~~~l~~~l~~~~~~v~~~--~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~   77 (187)
                      .++.+|+++.+.        ....+.+.....+..+...  -+.++....+.             ..|++++-......-
T Consensus       224 ~~~lvivG~g~~~~~~~~~~~~~~l~~~~~~l~~~v~~~G~~~~~~l~~~~~-------------~aDv~v~pS~~~E~f  290 (380)
T PRK15484        224 NLKLVVVGDPTASSKGEKAAYQKKVLEAAKRIGDRCIMLGGQPPEKMHNYYP-------------LADLVVVPSQVEEAF  290 (380)
T ss_pred             CeEEEEEeCCccccccchhHHHHHHHHHHHhcCCcEEEeCCCCHHHHHHHHH-------------hCCEEEeCCCCcccc
Confidence            456677765331        2233444444444334332  23455555552             246877755444444


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCce-eeCCCChHHHHHHHHHHhhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF-FLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~y-l~kP~~~~~l~~~i~~~~~~  139 (187)
                      |..+++.+..     .+|||......    ..+.+..|.++| +..|.+.+++.+.+..++..
T Consensus       291 ~~~~lEAma~-----G~PVI~s~~gg----~~Eiv~~~~~G~~l~~~~d~~~la~~I~~ll~d  344 (380)
T PRK15484        291 CMVAVEAMAA-----GKPVLASTKGG----ITEFVLEGITGYHLAEPMTSDSIISDINRTLAD  344 (380)
T ss_pred             ccHHHHHHHc-----CCCEEEeCCCC----cHhhcccCCceEEEeCCCCHHHHHHHHHHHHcC
Confidence            5566666654     78888654432    334456678888 56788999999999888864

>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional

Probab=87.78  E-value=10  Score=28.89  Aligned_cols=98  Identities=13%  Similarity=0.179  Sum_probs=58.6

Q ss_pred             HHHHHHhCC-ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCc--EEEEe
Q 046192           24 IERLLKTSS-YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIP--VVIMS  100 (187)
Q Consensus        24 l~~~l~~~~-~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~--iI~ls  100 (187)
                      +.+.|.+.+ .-|....+.+++...++.....        -  +=++++.+..-++.+.++.+++.... ..|  +|-..
T Consensus         8 ~~~~l~~~~vi~Vvr~~~~~~a~~~~~al~~g--------G--i~~iEiT~~tp~a~~~i~~l~~~~~~-~~p~~~vGaG   76 (222)
T PRK07114          8 VLTAMKATGMVPVFYHADVEVAKKVIKACYDG--------G--ARVFEFTNRGDFAHEVFAELVKYAAK-ELPGMILGVG   76 (222)
T ss_pred             HHHHHHhCCEEEEEEcCCHHHHHHHHHHHHHC--------C--CCEEEEeCCCCcHHHHHHHHHHHHHh-hCCCeEEeeE
Confidence            334455555 3344466777777766543221        1  44556666666777888877643211 112  44456


Q ss_pred             CCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192          101 SENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus       101 ~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      .-.+.+.+..+.++||+ |+.-|.-..++.+..
T Consensus        77 TVl~~e~a~~a~~aGA~-FiVsP~~~~~v~~~~  108 (222)
T PRK07114         77 SIVDAATAALYIQLGAN-FIVTPLFNPDIAKVC  108 (222)
T ss_pred             eCcCHHHHHHHHHcCCC-EEECCCCCHHHHHHH
Confidence            66789999999999998 555566665655543

>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=87.27  E-value=2.5  Score=31.70  Aligned_cols=45  Identities=16%  Similarity=0.324  Sum_probs=35.5

Q ss_pred             CCcEEEEeC------CCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           93 DIPVVIMSS------ENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        93 ~~~iI~ls~------~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+|||+++=      +....++..+.++||++|+.-.+.++|-...-+.+.
T Consensus        95 t~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~~Rne~~  145 (268)
T KOG4175|consen   95 TCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAETLRNEAR  145 (268)
T ss_pred             ccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHHHHHHHH
Confidence            689999874      467889999999999999999888888555444333

>cd03823 GT1_ExpE7_like This family is most closely related to the GT1 family of glycosyltransferases

Probab=86.99  E-value=13  Score=29.07  Aligned_cols=67  Identities=10%  Similarity=0.266  Sum_probs=47.1

Q ss_pred             ccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        64 ~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .|++++-.......|..+++.+..     .+|+|.....    ...+.+..|..+++.+|.+.+++.+++..++..
T Consensus       263 ad~~i~ps~~~e~~~~~~~Ea~a~-----G~Pvi~~~~~----~~~e~i~~~~~g~~~~~~d~~~l~~~i~~l~~~  329 (359)
T cd03823         263 IDVLVVPSIWPENFPLVIREALAA-----GVPVIASDIG----GMAELVRDGVNGLLFPPGDAEDLAAALERLIDD  329 (359)
T ss_pred             CCEEEEcCcccCCCChHHHHHHHC-----CCCEEECCCC----CHHHHhcCCCcEEEECCCCHHHHHHHHHHHHhC
Confidence            457776544345567777777764     6788753322    244556667789999999999999999998874

ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II).

>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional

Probab=86.89  E-value=8.5  Score=34.05  Aligned_cols=92  Identities=13%  Similarity=0.121  Sum_probs=54.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      .+.+.++|.|+...+.+++    .|+.+.. -.+..+.++..           .-...+++++-.+-+.. -..++...|
T Consensus       423 g~~vvvID~d~~~v~~~~~----~g~~v~~GDat~~~~L~~a-----------gi~~A~~vvv~~~d~~~-n~~i~~~ar  486 (621)
T PRK03562        423 GVKMTVLDHDPDHIETLRK----FGMKVFYGDATRMDLLESA-----------GAAKAEVLINAIDDPQT-SLQLVELVK  486 (621)
T ss_pred             CCCEEEEECCHHHHHHHHh----cCCeEEEEeCCCHHHHHhc-----------CCCcCCEEEEEeCCHHH-HHHHHHHHH
Confidence            3456666666655443332    3554443 23333444444           22345688877754433 356777888


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCce
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEF  119 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~y  119 (187)
                      +.+|  +.++++-+.  +........+.||+..
T Consensus       487 ~~~p--~~~iiaRa~--d~~~~~~L~~~Gad~v  515 (621)
T PRK03562        487 EHFP--HLQIIARAR--DVDHYIRLRQAGVEKP  515 (621)
T ss_pred             HhCC--CCeEEEEEC--CHHHHHHHHHCCCCEE
Confidence            8877  888776554  5677778888999855

>PRK12704 phosphodiesterase; Provisional

Probab=86.87  E-value=1.4  Score=38.06  Aligned_cols=45  Identities=13%  Similarity=0.104  Sum_probs=37.5

Q ss_pred             CcEEEEeCCCChh--HHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           94 IPVVIMSSENIPS--RINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        94 ~~iI~ls~~~~~~--~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      +.+|++|+.++..  ....+++.++.|+..||+..+++...++.-+.
T Consensus       250 p~~v~ls~~~~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~~  296 (520)
T PRK12704        250 PEAVILSGFDPIRREIARLALEKLVQDGRIHPARIEEMVEKARKEVD  296 (520)
T ss_pred             CCeEEEecCChhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHHH
Confidence            3578888877666  88999999999999999999999877766553

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=86.73  E-value=13  Score=28.97  Aligned_cols=102  Identities=19%  Similarity=0.197  Sum_probs=69.1

Q ss_pred             HHHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC--H---HHHHHHHHhhcCCCCCcEE
Q 046192           24 IERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT--G---YDLLRKIKESASLKDIPVV   97 (187)
Q Consensus        24 l~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~--g---~~~~~~l~~~~~~~~~~iI   97 (187)
                      -.+.|-+.||.|..+ ++..-..+.+...-.            ..++-+-.|=.+  |   ...++.|++..   ++|||
T Consensus       129 Aae~Lv~eGF~VlPY~~~D~v~a~rLed~Gc------------~aVMPlgsPIGSg~Gl~n~~~l~~i~e~~---~vpVi  193 (267)
T CHL00162        129 AAEFLVKKGFTVLPYINADPMLAKHLEDIGC------------ATVMPLGSPIGSGQGLQNLLNLQIIIENA---KIPVI  193 (267)
T ss_pred             HHHHHHHCCCEEeecCCCCHHHHHHHHHcCC------------eEEeeccCcccCCCCCCCHHHHHHHHHcC---CCcEE
Confidence            345556789999873 443444445433222            445555445333  2   35677787753   79999


Q ss_pred             EEeCCCChhHHHHHHHhCCCcee-----eCCCChHHHHHHHHHHhhhh
Q 046192           98 IMSSENIPSRINRCLEEGAEEFF-----LKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        98 ~ls~~~~~~~~~~a~~~ga~~yl-----~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +=+.-...+.+..+++.|+++.+     .|--++.++..+++......
T Consensus       194 vdAGIgt~sDa~~AmElGaDgVL~nSaIakA~dP~~mA~a~~~AV~AG  241 (267)
T CHL00162        194 IDAGIGTPSEASQAMELGASGVLLNTAVAQAKNPEQMAKAMKLAVQAG  241 (267)
T ss_pred             EeCCcCCHHHHHHHHHcCCCEEeecceeecCCCHHHHHHHHHHHHHHH
Confidence            99988999999999999999875     45567888888887777554

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=86.66  E-value=3.2  Score=32.41  Aligned_cols=59  Identities=20%  Similarity=0.419  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCC------CChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSE------NIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~------~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .+++++.+|+..+  ++|+++++=.      ........+.++|+++.+.-...+++.......+.+
T Consensus        76 ~~~~~~~~r~~~~--~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~~~  140 (258)
T PRK13111         76 VFELVREIREKDP--TIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAAKK  140 (258)
T ss_pred             HHHHHHHHHhcCC--CCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHH
Confidence            4667777775544  7898887733      445678899999999999987777777666655543

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=86.43  E-value=3.9  Score=31.89  Aligned_cols=60  Identities=20%  Similarity=0.447  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHhhcCCCCCcEEEEeCCCC------hhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           77 TGYDLLRKIKESASLKDIPVVIMSSENI------PSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        77 ~g~~~~~~l~~~~~~~~~~iI~ls~~~~------~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      +.+++++.+|+..+  ++|++.++-...      ......+.++|+++.+.-....++....+..+.+
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            34566777776533  778776665544      6778889999999999887777776666555543

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.

>smart00052 EAL Putative diguanylate phosphodiesterase

Probab=86.09  E-value=6.4  Score=29.49  Aligned_cols=92  Identities=18%  Similarity=0.303  Sum_probs=57.2

Q ss_pred             HHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----CCHHHHHHHHHhhcCCCCCc
Q 046192           23 LIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----MTGYDLLRKIKESASLKDIP   95 (187)
Q Consensus        23 ~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~~g~~~~~~l~~~~~~~~~~   95 (187)
                      ..-..|+..|+.+..  +..+...+..+...           +||.|-+|..+..     .....+++.+.......+++
T Consensus       137 ~~i~~l~~~G~~ialddfg~~~~~~~~l~~l-----------~~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~  205 (241)
T smart00052      137 ATLQRLRELGVRIALDDFGTGYSSLSYLKRL-----------PVDLLKIDKSFVRDLQTDPEDEAIVQSIIELAQKLGLQ  205 (241)
T ss_pred             HHHHHHHHCCCEEEEeCCCCcHHHHHHHHhC-----------CCCeEEECHHHHhhhccChhHHHHHHHHHHHHHHCCCe
Confidence            344556678887775  56666667777433           4669999975432     12334555554443212444


Q ss_pred             EEEEeCCCChhHHHHHHHhCCC---c-eeeCCCCh
Q 046192           96 VVIMSSENIPSRINRCLEEGAE---E-FFLKPVQL  126 (187)
Q Consensus        96 iI~ls~~~~~~~~~~a~~~ga~---~-yl~kP~~~  126 (187)
                      + +...-.+.+....+.+.|++   + |+.||...
T Consensus       206 v-ia~gVe~~~~~~~l~~~Gi~~~QG~~~~~p~~~  239 (241)
T smart00052      206 V-VAEGVETPEQLDLLRSLGCDYGQGYLFSRPLPL  239 (241)
T ss_pred             E-EEecCCCHHHHHHHHHcCCCEEeeceeccCCCC
Confidence            4 46666788888899999986   3 46788654

Putative diguanylate phosphodiesterase, present in a variety of bacteria.

>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II

Probab=85.94  E-value=15  Score=29.40  Aligned_cols=83  Identities=19%  Similarity=0.207  Sum_probs=57.5

Q ss_pred             HHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----CCHHHHHHHHHhhcCCCCCcEE
Q 046192           24 IERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----MTGYDLLRKIKESASLKDIPVV   97 (187)
Q Consensus        24 l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~~g~~~~~~l~~~~~~~~~~iI   97 (187)
                      +...++..|..+.. +.+.+++.....            ..+|.|++.-.-.+     ..-+.+++.+++..   ++|||
T Consensus       101 ~i~~lk~~g~~v~~~v~s~~~a~~a~~------------~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~---~iPvi  165 (307)
T TIGR03151       101 YIPRLKENGVKVIPVVASVALAKRMEK------------AGADAVIAEGMESGGHIGELTTMALVPQVVDAV---SIPVI  165 (307)
T ss_pred             HHHHHHHcCCEEEEEcCCHHHHHHHHH------------cCCCEEEEECcccCCCCCCCcHHHHHHHHHHHh---CCCEE
Confidence            55556666765554 677776655442            23678887543222     23578888888754   68999


Q ss_pred             EEeCCCChhHHHHHHHhCCCceee
Q 046192           98 IMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        98 ~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .-..-.+...+..++..||++...
T Consensus       166 aaGGI~~~~~~~~al~~GA~gV~i  189 (307)
T TIGR03151       166 AAGGIADGRGMAAAFALGAEAVQM  189 (307)
T ss_pred             EECCCCCHHHHHHHHHcCCCEeec
Confidence            988888999999999999998543

This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.

>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]

Probab=85.88  E-value=14  Score=28.49  Aligned_cols=94  Identities=19%  Similarity=0.172  Sum_probs=67.7

Q ss_pred             HHHHHHHhCCceE--EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEe
Q 046192           23 LIERLLKTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS  100 (187)
Q Consensus        23 ~l~~~l~~~~~~v--~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls  100 (187)
                      .+++.|......+  +..-...-..+.+           ...-||-+++|..-...+.-.++..|+...+-...|||-..
T Consensus         7 ~fK~~L~~g~~qiGlw~~l~~p~~~Ei~-----------A~aGfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR~p   75 (255)
T COG3836           7 SFKAALAAGRPQIGLWLSLPDPYMAEIL-----------ATAGFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVRPP   75 (255)
T ss_pred             hHHHHHhCCCceEEeeecCCcHHHHHHH-----------HhcCCCEEEecccccCccHHHHHHHHHHhhccCCCCeeeCC
Confidence            4566665433333  3333333455555           45569999999999999999999999887765577887766


Q ss_pred             CCCChhHHHHHHHhCCCceeeCCCChHH
Q 046192          101 SENIPSRINRCLEEGAEEFFLKPVQLAD  128 (187)
Q Consensus       101 ~~~~~~~~~~a~~~ga~~yl~kP~~~~~  128 (187)
                      . .+...+.++++.||...|..=++..+
T Consensus        76 ~-g~~~~Ikq~LD~GAqtlliPmV~s~e  102 (255)
T COG3836          76 V-GDPVMIKQLLDIGAQTLLIPMVDTAE  102 (255)
T ss_pred             C-CCHHHHHHHHccccceeeeeccCCHH
Confidence            5 46889999999999999987666544

>PRK15427 colanic acid biosynthesis glycosyltransferase WcaL; Provisional

Probab=85.83  E-value=19  Score=29.88  Aligned_cols=108  Identities=10%  Similarity=0.129  Sum_probs=69.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTG   78 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g   78 (187)
                      ..+..|+++.+. +..+.+..++.|.  .|..  .-+.++..+.+.             ..|++++-....     ..-+
T Consensus       253 ~~~l~ivG~G~~-~~~l~~~~~~~~l~~~V~~~G~~~~~el~~~l~-------------~aDv~v~pS~~~~~g~~Eg~p  318 (406)
T PRK15427        253 AFRYRILGIGPW-ERRLRTLIEQYQLEDVVEMPGFKPSHEVKAMLD-------------DADVFLLPSVTGADGDMEGIP  318 (406)
T ss_pred             CEEEEEEECchh-HHHHHHHHHHcCCCCeEEEeCCCCHHHHHHHHH-------------hCCEEEECCccCCCCCccCcc
Confidence            467778887664 4567777766553  2333  234456656653             245777644321     2234


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ..+++.+..     .+|||.....    -..+.+..|.++++..|-+.+++.+++..++.
T Consensus       319 ~~llEAma~-----G~PVI~t~~~----g~~E~v~~~~~G~lv~~~d~~~la~ai~~l~~  369 (406)
T PRK15427        319 VALMEAMAV-----GIPVVSTLHS----GIPELVEADKSGWLVPENDAQALAQRLAAFSQ  369 (406)
T ss_pred             HHHHHHHhC-----CCCEEEeCCC----CchhhhcCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            556777654     7789754332    24456677889999999999999999999886

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=85.76  E-value=4.8  Score=31.02  Aligned_cols=59  Identities=15%  Similarity=0.336  Sum_probs=41.3

Q ss_pred             CHHHHHHHHHhhcCCCCCcEEEEeCCCC------hhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           77 TGYDLLRKIKESASLKDIPVVIMSSENI------PSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        77 ~g~~~~~~l~~~~~~~~~~iI~ls~~~~------~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .++++++.+|+..   ++|+++++-...      ...+..+.++|+++.+.-....+++...++.+.+
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            3566777777653   678877766443      6678888999999999866666666666555554

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.

>cd01948 EAL EAL domain

Probab=85.52  E-value=5.8  Score=29.74  Aligned_cols=91  Identities=19%  Similarity=0.266  Sum_probs=57.1

Q ss_pred             HHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----CCHHHHHHHHHhhcCCCCCcE
Q 046192           24 IERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----MTGYDLLRKIKESASLKDIPV   96 (187)
Q Consensus        24 l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~~g~~~~~~l~~~~~~~~~~i   96 (187)
                      .-..++..|+.+..  +..+...++.+....           ||.|-+|.....     .....+++.+.......++++
T Consensus       137 ~~~~l~~~G~~l~ld~~g~~~~~~~~l~~~~-----------~d~iKld~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v  205 (240)
T cd01948         137 TLRRLRALGVRIALDDFGTGYSSLSYLKRLP-----------VDYLKIDRSFVRDIETDPEDRAIVRAIIALAHSLGLKV  205 (240)
T ss_pred             HHHHHHHCCCeEEEeCCCCcHhhHHHHHhCC-----------CCEEEECHHHHHhHhcChhhHHHHHHHHHHHHHCCCeE
Confidence            44445667988876  566777777775444           559999975432     123445555544332124444


Q ss_pred             EEEeCCCChhHHHHHHHhCCC---c-eeeCCCCh
Q 046192           97 VIMSSENIPSRINRCLEEGAE---E-FFLKPVQL  126 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~---~-yl~kP~~~  126 (187)
                      | .+.-.+......+.+.|++   + |+.+|.+.
T Consensus       206 i-a~gVe~~~~~~~~~~~gi~~~QG~~~~~p~~~  238 (240)
T cd01948         206 V-AEGVETEEQLELLRELGCDYVQGYLFSRPLPA  238 (240)
T ss_pred             E-EEecCCHHHHHHHHHcCCCeeeeceeccCCCC
Confidence            4 6666788889999999985   3 46677654

This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.

>PRK14098 glycogen synthase; Provisional

Probab=85.51  E-value=17  Score=31.06  Aligned_cols=112  Identities=8%  Similarity=0.014  Sum_probs=63.7

Q ss_pred             ceEEEEEeCCH-HHHHHHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            8 QFHVLAVDDSI-IDRKLIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         8 ~~~ilivd~~~-~~~~~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+++|+++-+ .....++++.++.+-.|..  .-+..++...+.             ..|++++-. ....-|+..++.
T Consensus       336 ~~~lvivG~G~~~~~~~l~~l~~~~~~~V~~~g~~~~~~~~~~~a-------------~aDi~l~PS-~~E~~Gl~~lEA  401 (489)
T PRK14098        336 DIQLVICGSGDKEYEKRFQDFAEEHPEQVSVQTEFTDAFFHLAIA-------------GLDMLLMPG-KIESCGMLQMFA  401 (489)
T ss_pred             CcEEEEEeCCCHHHHHHHHHHHHHCCCCEEEEEecCHHHHHHHHH-------------hCCEEEeCC-CCCCchHHHHHH
Confidence            45667777543 3455666666554422322  233344444442             256777543 234567767777


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ++.     .+|+|+.......+.+......+.++|+..|.+.+.|..++.+++.
T Consensus       402 ma~-----G~ppVv~~~GGl~d~v~~~~~~~~~G~l~~~~d~~~la~ai~~~l~  450 (489)
T PRK14098        402 MSY-----GTIPVAYAGGGIVETIEEVSEDKGSGFIFHDYTPEALVAKLGEALA  450 (489)
T ss_pred             HhC-----CCCeEEecCCCCceeeecCCCCCCceeEeCCCCHHHHHHHHHHHHH
Confidence            664     5556654433333333222223678999999999999999887653

>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional

Probab=84.72  E-value=14  Score=33.15  Aligned_cols=101  Identities=16%  Similarity=0.175  Sum_probs=67.6

Q ss_pred             HHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----CCHHHHHHHHHhhcCCCCCcE
Q 046192           24 IERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----MTGYDLLRKIKESASLKDIPV   96 (187)
Q Consensus        24 l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~~g~~~~~~l~~~~~~~~~~i   96 (187)
                      .-..|+..|+.+..  +.++...+..+...           +||.|=+|-..-.     .....+++.+.......++.+
T Consensus       683 ~l~~l~~~G~~i~ld~fg~~~~~~~~l~~l-----------~~d~iKid~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v  751 (799)
T PRK11359        683 RIQILRDMGVGLSVDDFGTGFSGLSRLVSL-----------PVTEIKIDKSFVDRCLTEKRILALLEAITSIGQSLNLTV  751 (799)
T ss_pred             HHHHHHHCCCEEEEECCCCchhhHHHHhhC-----------CCCEEEECHHHHhhcccChhHHHHHHHHHHHHHHCCCeE
Confidence            34456778988876  67888888888444           4669998875421     223445666544332124444


Q ss_pred             EEEeCCCChhHHHHHHHhCCC---c-eeeCCCChHHHHHHHHHH
Q 046192           97 VIMSSENIPSRINRCLEEGAE---E-FFLKPVQLADVNKLKPHL  136 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~---~-yl~kP~~~~~l~~~i~~~  136 (187)
                      | ...-.+.+....+.+.|++   + |+.||...++|...++..
T Consensus       752 i-a~gVe~~~~~~~l~~~g~~~~QG~~~~~p~~~~~~~~~~~~~  794 (799)
T PRK11359        752 V-AEGVETKEQFEMLRKIHCRVIQGYFFSRPLPAEEIPGWMSSV  794 (799)
T ss_pred             E-EEcCCCHHHHHHHHhcCCCEEeeCeecCCCCHHHHHHHHHhc
Confidence            4 5566788888888999987   3 588999999988866543

>PRK03958 tRNA 2'-O-methylase; Reviewed

Probab=84.65  E-value=14  Score=27.19  Aligned_cols=78  Identities=14%  Similarity=0.171  Sum_probs=55.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      -++.|+.+++..++.++++++.+|  |.|....+.+++++..+.         ....+.++..+....+     ....||
T Consensus        32 ~~~yiv~~~~~q~~~v~~I~~~WGg~fnv~~~~s~~~~i~~~k~---------~G~vvhLtmyga~~~~-----~~~~ir   97 (176)
T PRK03958         32 DKIILASNDEHVKESVEDIVERWGGPFEVEVTKSWKKEIREWKD---------GGIVVHLTMYGENIQD-----VEPEIR   97 (176)
T ss_pred             ceEEEecCcHHHHHHHHHHHHhcCCceEEEEcCCHHHHHHHHHh---------CCcEEEEEEecCCccc-----hHHHHH
Confidence            367899999999999999999886  788889999999998851         2245667777777755     344554


Q ss_pred             hhcCCCCCcEEEEeC
Q 046192           87 ESASLKDIPVVIMSS  101 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~  101 (187)
                      +.... .-|++++-.
T Consensus        98 ~~~~~-~~p~LIvvG  111 (176)
T PRK03958         98 EAHRK-GEPLLIVVG  111 (176)
T ss_pred             Hhhcc-CCcEEEEEc
Confidence            42211 335555544

>cd04962 GT1_like_5 This family is most closely related to the GT1 family of glycosyltransferases

Probab=84.49  E-value=15  Score=29.29  Aligned_cols=107  Identities=19%  Similarity=0.253  Sum_probs=64.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      .+++++++.+. ...+.+.....+.  .+......++..+.+.             ..|++++-.. .+.-|..+++.+.
T Consensus       228 ~~l~i~G~g~~-~~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~-------------~~d~~v~ps~-~E~~~~~~~EAma  292 (371)
T cd04962         228 ARLLLVGDGPE-RSPAERLARELGLQDDVLFLGKQDHVEELLS-------------IADLFLLPSE-KESFGLAALEAMA  292 (371)
T ss_pred             ceEEEEcCCcC-HHHHHHHHHHcCCCceEEEecCcccHHHHHH-------------hcCEEEeCCC-cCCCccHHHHHHH
Confidence            55666665543 2345555544432  2433333333333331             2457666543 3455677777776


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .     .+|+|.....    ...+.+..|..+|+.+|-+.+++...+..++..
T Consensus       293 ~-----g~PvI~s~~~----~~~e~i~~~~~G~~~~~~~~~~l~~~i~~l~~~  336 (371)
T cd04962         293 C-----GVPVVASNAG----GIPEVVKHGETGFLVDVGDVEAMAEYALSLLED  336 (371)
T ss_pred             c-----CCCEEEeCCC----CchhhhcCCCceEEcCCCCHHHHHHHHHHHHhC
Confidence            4     7788864332    245566778889999999999999988887753

Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog

>PRK10060 RNase II stability modulator; Provisional

Probab=84.25  E-value=16  Score=32.48  Aligned_cols=102  Identities=16%  Similarity=0.180  Sum_probs=67.2

Q ss_pred             HHHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCHHHHHHHHHhhcCCCCC
Q 046192           22 KLIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTGYDLLRKIKESASLKDI   94 (187)
Q Consensus        22 ~~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g~~~~~~l~~~~~~~~~   94 (187)
                      ...-..|++.|+.+..  +.++...+..+..           -++|.|=+|-..-     +.....+++.+-.....-++
T Consensus       544 ~~~l~~L~~~G~~ialDdfGtg~ssl~~L~~-----------l~~d~iKiD~sfv~~i~~~~~~~~~v~~ii~~a~~lg~  612 (663)
T PRK10060        544 LSVIQQFSQLGAQVHLDDFGTGYSSLSQLAR-----------FPIDAIKLDQSFVRDIHKQPVSQSLVRAIVAVAQALNL  612 (663)
T ss_pred             HHHHHHHHHCCCEEEEECCCCchhhHHHHHh-----------CCCCEEEECHHHHhccccCcchHHHHHHHHHHHHHCCC
Confidence            3445666778988876  7888888898844           4566888886332     23344566655443321245


Q ss_pred             cEEEEeCCCChhHHHHHHHhCCC---c-eeeCCCChHHHHHHHHH
Q 046192           95 PVVIMSSENIPSRINRCLEEGAE---E-FFLKPVQLADVNKLKPH  135 (187)
Q Consensus        95 ~iI~ls~~~~~~~~~~a~~~ga~---~-yl~kP~~~~~l~~~i~~  135 (187)
                      .+| ...-.+.+....+...|++   + |+.||...+++...++.
T Consensus       613 ~vi-AeGVEt~~q~~~l~~~G~d~~QGy~~~~P~~~~~~~~~l~~  656 (663)
T PRK10060        613 QVI-AEGVETAKEDAFLTKNGVNERQGFLFAKPMPAVAFERWYKR  656 (663)
T ss_pred             cEE-EecCCCHHHHHHHHHcCCCEEecCccCCCCCHHHHHHHHHh
Confidence            554 4455677778888889986   3 47899999888776543

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=84.22  E-value=15  Score=27.25  Aligned_cols=56  Identities=25%  Similarity=0.427  Sum_probs=42.0

Q ss_pred             cccEEEEeccCCCC--------CHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           63 QVNLIITDYCMPGM--------TGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        63 ~~dlvi~d~~~~~~--------~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .+|.|.+..-.|..        .|++.++.+++..+  .+||++...- +.+.+..++..|++++..
T Consensus       124 gaD~v~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~v~a~GGI-~~~~i~~~~~~Ga~gv~~  187 (212)
T PRK00043        124 GADYVGVGPIFPTPTKKDAKAPQGLEGLREIRAAVG--DIPIVAIGGI-TPENAPEVLEAGADGVAV  187 (212)
T ss_pred             CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcC--CCCEEEECCc-CHHHHHHHHHcCCCEEEE
Confidence            46788876544432        35888999988653  5899877766 678899999999998864

>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase

Probab=84.11  E-value=5.1  Score=29.52  Aligned_cols=77  Identities=18%  Similarity=0.159  Sum_probs=45.9

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEe-cc-CCCCCHHHHHHHHHhh
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD-YC-MPGMTGYDLLRKIKES   88 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d-~~-~~~~~g~~~~~~l~~~   88 (187)
                      ||+||..-.+-..+.+.|...|+.+....+....++.+....           ||.||+- -. .|..++.+ ...++..
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~v~v~~~~~~~~~~~~~~~-----------~d~iilsgGpg~p~~~~~~-~~~i~~~   69 (188)
T TIGR00566         2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRNDSLTLQEIEALL-----------PLLIVISPGPCTPNEAGIS-LEAIRHF   69 (188)
T ss_pred             EEEEECCcCHHHHHHHHHHHcCCceEEEECCCCCHHHHHhcC-----------CCEEEEcCCCCChhhcchh-HHHHHHh
Confidence            799999999999999999988988877553322233332223           4555552 11 11112221 3444443


Q ss_pred             cCCCCCcEEEEeC
Q 046192           89 ASLKDIPVVIMSS  101 (187)
Q Consensus        89 ~~~~~~~iI~ls~  101 (187)
                      .  .+.||+-+.-
T Consensus        70 ~--~~~PvLGIC~   80 (188)
T TIGR00566        70 A--GKLPILGVCL   80 (188)
T ss_pred             c--cCCCEEEECH
Confidence            2  2789988775

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.

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=83.93  E-value=4.4  Score=32.81  Aligned_cols=54  Identities=15%  Similarity=0.193  Sum_probs=41.9

Q ss_pred             ccEEEEeccCCCCC-HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCcee
Q 046192           64 VNLIITDYCMPGMT-GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF  120 (187)
Q Consensus        64 ~dlvi~d~~~~~~~-g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl  120 (187)
                      +|++.+|...++.+ ..+++++|++..|  ++|||. .+-.+.+.+..+.++|++...
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--ETFVIA-GNVGTPEAVRELENAGADATK  166 (326)
T ss_pred             CCEEEEECCCCchHHHHHHHHHHHhhCC--CCeEEE-EecCCHHHHHHHHHcCcCEEE
Confidence            48999999997654 5568999998765  677665 233478899999999999854

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=83.53  E-value=14  Score=31.49  Aligned_cols=98  Identities=16%  Similarity=0.303  Sum_probs=57.1

Q ss_pred             CHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC----HHHHH---HHHHhhc
Q 046192           17 SIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT----GYDLL---RKIKESA   89 (187)
Q Consensus        17 ~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~----g~~~~---~~l~~~~   89 (187)
                      +....+.+...|.+.||.+..                      .....|+|+++....-.+    ....+   +.+++.+
T Consensus        36 N~~dse~~~~~l~~~G~~~~~----------------------~~~~ADiviiNTC~v~~~a~~k~~~~i~~~~~~k~~~   93 (467)
T PRK14329         36 NFADSEIVASILQMAGYNTTE----------------------NLEEADLVLVNTCSIRDNAEQKVRKRLEKFNALKKKN   93 (467)
T ss_pred             cHHHHHHHHHHHHHCcCEECC----------------------CcccCCEEEEeCcceechHHHHHHHHHHHHHHHHhhC
Confidence            444556667777667765532                      112367999999776533    22233   4445555


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHh-CCCceeeCCCChHHHHHHHHHHhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEE-GAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~-ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      |  +.+|++........ -.+.++. +.-|++..+-....+.+.+..+..+
T Consensus        94 p--~~~ivvgGc~a~~~-~~~~l~~~~~vD~vv~~e~~~~i~~ll~~~~~~  141 (467)
T PRK14329         94 P--KLIVGVLGCMAERL-KDKLLEEEKIVDLVVGPDAYLDLPNLIAEVEEG  141 (467)
T ss_pred             C--CcEEEEECChhcCc-HHHHHhcCCCceEEECCCCHHHHHHHHHHHhcC
Confidence            4  66666554443322 2233343 4368888888888888887776543

>TIGR01305 GMP_reduct_1 guanosine monophosphate reductase, eukaryotic

Probab=82.82  E-value=20  Score=29.16  Aligned_cols=56  Identities=11%  Similarity=0.143  Sum_probs=43.5

Q ss_pred             cccEEEEeccCCCC-CHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           63 QVNLIITDYCMPGM-TGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        63 ~~dlvi~d~~~~~~-~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .+|+|++|..-... .-++.+++||+..|  + +.|+-..-.+.+.+..++.+|||....
T Consensus       121 ~~d~iviD~AhGhs~~~i~~ik~ir~~~p--~-~~viaGNV~T~e~a~~Li~aGAD~ikV  177 (343)
T TIGR01305       121 QLKFICLDVANGYSEHFVEFVKLVREAFP--E-HTIMAGNVVTGEMVEELILSGADIVKV  177 (343)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHhhCC--C-CeEEEecccCHHHHHHHHHcCCCEEEE
Confidence            48899999977654 35678999998764  4 455566677899999999999998753

A deep split separates two families of GMP reductase. This family includes both eukaryotic and some proteobacterial sequences, while the other family contains other bacterial sequences.

>PRK06774 para-aminobenzoate synthase component II; Provisional

Probab=82.48  E-value=3.7  Score=30.30  Aligned_cols=85  Identities=13%  Similarity=0.121  Sum_probs=49.3

Q ss_pred             EEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEecc-C-CCCCHHHHHHHHHhh
Q 046192           11 VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC-M-PGMTGYDLLRKIKES   88 (187)
Q Consensus        11 ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~-~-~~~~g~~~~~~l~~~   88 (187)
                      ||+||..-.+-..|.++|...|+.+..+.+..-.++.+....           ||.||+.-- + |..++. ....++..
T Consensus         2 il~id~~dsf~~nl~~~l~~~~~~~~v~~~~~~~~~~~~~~~-----------~~~iilsgGP~~~~~~~~-~~~~i~~~   69 (191)
T PRK06774          2 LLLIDNYDSFTYNLYQYFCELGTEVMVKRNDELQLTDIEQLA-----------PSHLVISPGPCTPNEAGI-SLAVIRHF   69 (191)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEeCCCCCHHHHHhcC-----------CCeEEEcCCCCChHhCCC-chHHHHHh
Confidence            799999999999999999998988877654322223333233           445555432 1 112222 22233322


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHH
Q 046192           89 ASLKDIPVVIMSSENIPSRINRC  111 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a  111 (187)
                      .  ...||+-+.-.  ...+..+
T Consensus        70 ~--~~~PiLGIC~G--~Qlla~~   88 (191)
T PRK06774         70 A--DKLPILGVCLG--HQALGQA   88 (191)
T ss_pred             c--CCCCEEEECHH--HHHHHHH
Confidence            2  27899888753  3444444

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=82.39  E-value=13  Score=27.00  Aligned_cols=95  Identities=18%  Similarity=0.168  Sum_probs=60.1

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----CC--ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192           10 HVLAVDDSIIDRKLIERLLKT----SS--YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~----~~--~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      .++|-|+|-.....+...+++    .+  ..+. .+.+.+++.+.+.            ..+|+|.+|-..| .+--+++
T Consensus        52 ~ili~~nHi~~~g~i~~av~~~~~~~~~~~~I~VEv~~~ee~~ea~~------------~g~d~I~lD~~~~-~~~~~~v  118 (169)
T PF01729_consen   52 MILIKDNHIAFFGGIEEAVKAARQAAPEKKKIEVEVENLEEAEEALE------------AGADIIMLDNMSP-EDLKEAV  118 (169)
T ss_dssp             SEEE-HHHHHHHSSHHHHHHHHHHHSTTTSEEEEEESSHHHHHHHHH------------TT-SEEEEES-CH-HHHHHHH
T ss_pred             cEEehHHHHHHhCCHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHH------------hCCCEEEecCcCH-HHHHHHH
Confidence            467777776665555555532    23  2243 4788889888874            2377999997655 2333455


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCcee
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF  120 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl  120 (187)
                      +.++...+  . ..|.++..-+.+.+.+....|+|.+-
T Consensus       119 ~~l~~~~~--~-v~ie~SGGI~~~ni~~ya~~gvD~is  153 (169)
T PF01729_consen  119 EELRELNP--R-VKIEASGGITLENIAEYAKTGVDVIS  153 (169)
T ss_dssp             HHHHHHTT--T-SEEEEESSSSTTTHHHHHHTT-SEEE
T ss_pred             HHHhhcCC--c-EEEEEECCCCHHHHHHHHhcCCCEEE
Confidence            55656654  3 67778888889999999999987653

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 ....

>cd03813 GT1_like_3 This family is most closely related to the GT1 family of glycosyltransferases

Probab=82.31  E-value=28  Score=29.47  Aligned_cols=108  Identities=13%  Similarity=0.164  Sum_probs=65.5

Q ss_pred             ceEEEEEeCC---HHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            8 QFHVLAVDDS---IIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         8 ~~~ilivd~~---~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      ..+.+|+++.   +...+.+.+..++.|.  .|.... ..+..+.+.             ..|++++-.. ...-|..++
T Consensus       324 ~~~l~IvG~g~~~~~~~~e~~~li~~l~l~~~V~f~G-~~~v~~~l~-------------~aDv~vlpS~-~Eg~p~~vl  388 (475)
T cd03813         324 DAEGWVIGPTDEDPEYAEECRELVESLGLEDNVKFTG-FQNVKEYLP-------------KLDVLVLTSI-SEGQPLVIL  388 (475)
T ss_pred             CeEEEEECCCCcChHHHHHHHHHHHHhCCCCeEEEcC-CccHHHHHH-------------hCCEEEeCch-hhcCChHHH
Confidence            4666777643   3445556666665553  233332 333333331             3557776543 345567777


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHh------CCCceeeCCCChHHHHHHHHHHhhh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEE------GAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~------ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +.+..     .+|+|. |...   ...+....      |..+++..|.+.+++.+++..++..
T Consensus       389 EAma~-----G~PVVa-td~g---~~~elv~~~~~~~~g~~G~lv~~~d~~~la~ai~~ll~~  442 (475)
T cd03813         389 EAMAA-----GIPVVA-TDVG---SCRELIEGADDEALGPAGEVVPPADPEALARAILRLLKD  442 (475)
T ss_pred             HHHHc-----CCCEEE-CCCC---ChHHHhcCCcccccCCceEEECCCCHHHHHHHHHHHhcC
Confidence            77765     778876 3322   23334444      6789999999999999999988764

Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog

>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=82.19  E-value=11  Score=30.68  Aligned_cols=54  Identities=15%  Similarity=0.117  Sum_probs=42.8

Q ss_pred             cccEEEEeccCCCCC-HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCce
Q 046192           63 QVNLIITDYCMPGMT-GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF  119 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~-g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~y  119 (187)
                      .+|+|++|....... -++.+++||+..|  +++ |+..+-.+.+-+...+.+|||..
T Consensus       122 g~D~iviD~AhGhs~~~i~~ik~ik~~~P--~~~-vIaGNV~T~e~a~~Li~aGAD~v  176 (346)
T PRK05096        122 ALNFICIDVANGYSEHFVQFVAKAREAWP--DKT-ICAGNVVTGEMVEELILSGADIV  176 (346)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHHHHhCC--CCc-EEEecccCHHHHHHHHHcCCCEE
Confidence            588999999776543 5678999999876  666 44677778888999999999964

>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1

Probab=82.18  E-value=3.9  Score=31.49  Aligned_cols=60  Identities=15%  Similarity=0.226  Sum_probs=41.8

Q ss_pred             ccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCC
Q 046192           62 IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ  125 (187)
Q Consensus        62 ~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~  125 (187)
                      ..||++|+=.-.+...|..-.+.+....   +.|.|++++..... ..++++..-.+|++-+.+
T Consensus        58 ~~pdf~I~isPN~~~PGP~~ARE~l~~~---~iP~IvI~D~p~~k-~kd~l~~~g~GYIivk~D  117 (276)
T PF01993_consen   58 WDPDFVIVISPNAAAPGPTKAREMLSAK---GIPCIVISDAPTKK-AKDALEEEGFGYIIVKAD  117 (276)
T ss_dssp             H--SEEEEE-S-TTSHHHHHHHHHHHHS---SS-EEEEEEGGGGG-GHHHHHHTT-EEEEETTS
T ss_pred             hCCCEEEEECCCCCCCCcHHHHHHHHhC---CCCEEEEcCCCchh-hHHHHHhcCCcEEEEecC
Confidence            3466988888778888998888877654   89999999976555 467888888889766554

5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.

>PRK09490 metH B12-dependent methionine synthase; Provisional

Probab=82.16  E-value=18  Score=34.68  Aligned_cols=102  Identities=15%  Similarity=0.208  Sum_probs=67.7

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |-|..=...+.-+|+..||+|+-.   -..++.++.+...           .+|+|.+..-+.. + .-
T Consensus       751 ~gkvvlaTv~GDvHDIGkniV~~~L~~~GfeVIdLG~~vp~e~iv~aa~e~-----------~~diVgLS~L~t~s~~~m  819 (1229)
T PRK09490        751 NGKILMATVKGDVHDIGKNIVGVVLQCNNYEVIDLGVMVPAEKILETAKEE-----------NADIIGLSGLITPSLDEM  819 (1229)
T ss_pred             CCeEEEEeCCCCcchHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHh-----------CCCEEEEcCcchhhHHHH
Confidence            4677776    666666677777778889999873   3567777777444           4559999887754 3 34


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhH----HHHHHHhCCCceeeCC
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSR----INRCLEEGAEEFFLKP  123 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~----~~~a~~~ga~~yl~kP  123 (187)
                      .++++.+++.+.  ++||++=.+..+...    +...+ .|++.|..-.
T Consensus       820 ~~~i~~L~~~g~--~v~v~vGGa~~s~~~ta~~i~~~y-~gad~y~~DA  865 (1229)
T PRK09490        820 VHVAKEMERQGF--TIPLLIGGATTSKAHTAVKIAPNY-SGPVVYVTDA  865 (1229)
T ss_pred             HHHHHHHHhcCC--CCeEEEEeeccchhhhhhhhhhcc-cCCcEEecCH
Confidence            568899998865  788887666544333    11112 2777776543

>PLN02335 anthranilate synthase

Probab=82.09  E-value=5.8  Score=30.15  Aligned_cols=82  Identities=10%  Similarity=0.023  Sum_probs=47.6

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEec-cC-CCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDY-CM-PGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~-~~-~~~~g~~~~~   83 (187)
                      .++.+||+||..--+-..+.+.|++.|+.+..+......++.+...           .||.||+-- -+ |...+ ...+
T Consensus        16 ~~~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~~~~~~~~~-----------~~d~iVisgGPg~p~d~~-~~~~   83 (222)
T PLN02335         16 KQNGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDELTVEELKRK-----------NPRGVLISPGPGTPQDSG-ISLQ   83 (222)
T ss_pred             CccCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCCCHHHHHhc-----------CCCEEEEcCCCCChhhcc-chHH
Confidence            4467899999877778889999999998777754321112222222           244555543 22 21122 2344


Q ss_pred             HHHhhcCCCCCcEEEEeC
Q 046192           84 KIKESASLKDIPVVIMSS  101 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~  101 (187)
                      .+++...  ..|++-+.-
T Consensus        84 ~~~~~~~--~~PiLGICl   99 (222)
T PLN02335         84 TVLELGP--LVPLFGVCM   99 (222)
T ss_pred             HHHHhCC--CCCEEEecH
Confidence            4554433  789987764

>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF)

Probab=81.79  E-value=15  Score=28.14  Aligned_cols=53  Identities=25%  Similarity=0.340  Sum_probs=42.8

Q ss_pred             EEEEeccCCCC---CHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           66 LIITDYCMPGM---TGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        66 lvi~d~~~~~~---~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      ++++|+...+.   .-.++++.+.+..   .+|+++-..-.+.+.+.+++..|++..+.
T Consensus       162 li~~di~~~G~~~g~~~~~~~~i~~~~---~ipvi~~GGi~s~edi~~l~~~G~~~viv  217 (233)
T cd04723         162 LIVLDIDRVGSGQGPDLELLERLAARA---DIPVIAAGGVRSVEDLELLKKLGASGALV  217 (233)
T ss_pred             EEEEEcCccccCCCcCHHHHHHHHHhc---CCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            99999976552   2356778887753   78999999899999999999999998765

The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl

>PRK06843 inosine 5-monophosphate dehydrogenase; Validated

Probab=81.72  E-value=6.4  Score=32.86  Aligned_cols=55  Identities=15%  Similarity=0.207  Sum_probs=43.0

Q ss_pred             cccEEEEeccCCC-CCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCcee
Q 046192           63 QVNLIITDYCMPG-MTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF  120 (187)
Q Consensus        63 ~~dlvi~d~~~~~-~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl  120 (187)
                      .+|+|++|...+. ..-.++++++++..|  ++++| +..-.+.+....+.++||+...
T Consensus       165 GvDvI~iD~a~g~~~~~~~~v~~ik~~~p--~~~vi-~g~V~T~e~a~~l~~aGaD~I~  220 (404)
T PRK06843        165 HVDILVIDSAHGHSTRIIELVKKIKTKYP--NLDLI-AGNIVTKEAALDLISVGADCLK  220 (404)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHHhhCC--CCcEE-EEecCCHHHHHHHHHcCCCEEE
Confidence            4779999998875 456688999998776  66644 5555678899999999998754

>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional

Probab=81.51  E-value=23  Score=27.45  Aligned_cols=60  Identities=17%  Similarity=0.246  Sum_probs=45.0

Q ss_pred             ccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCC
Q 046192           62 IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ  125 (187)
Q Consensus        62 ~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~  125 (187)
                      ..||++|+=.-.|...|..-.+.+.+..   ++|.|++++....... ++++..-.+|++-+.+
T Consensus        59 ~~pDf~i~isPN~a~PGP~~ARE~l~~~---~iP~IvI~D~p~~K~~-d~l~~~g~GYIivk~D  118 (277)
T PRK00994         59 WKPDFVIVISPNPAAPGPKKAREILKAA---GIPCIVIGDAPGKKVK-DAMEEQGLGYIIVKAD  118 (277)
T ss_pred             hCCCEEEEECCCCCCCCchHHHHHHHhc---CCCEEEEcCCCccchH-HHHHhcCCcEEEEecC
Confidence            4567888877777788888778777654   7899999998766644 7888877888765543

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=81.48  E-value=19  Score=26.52  Aligned_cols=79  Identities=8%  Similarity=0.074  Sum_probs=54.5

Q ss_pred             HHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCC
Q 046192           26 RLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENI  104 (187)
Q Consensus        26 ~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~  104 (187)
                      +..+..+..+. .+.+.+++.+.+.            ..+|.+-++- .+. .|.++++.++...+  ++|++.+..- +
T Consensus        91 ~~~~~~~~~~i~gv~t~~e~~~A~~------------~Gad~i~~~p-~~~-~g~~~~~~l~~~~~--~~p~~a~GGI-~  153 (190)
T cd00452          91 KAANRAGIPLLPGVATPTEIMQALE------------LGADIVKLFP-AEA-VGPAYIKALKGPFP--QVRFMPTGGV-S  153 (190)
T ss_pred             HHHHHcCCcEECCcCCHHHHHHHHH------------CCCCEEEEcC-Ccc-cCHHHHHHHHhhCC--CCeEEEeCCC-C
Confidence            33333454333 4778888877763            2366887743 233 38999999987655  6888877776 7


Q ss_pred             hhHHHHHHHhCCCceee
Q 046192          105 PSRINRCLEEGAEEFFL  121 (187)
Q Consensus       105 ~~~~~~a~~~ga~~yl~  121 (187)
                      .+.+.+.+..|++....
T Consensus       154 ~~n~~~~~~~G~~~v~v  170 (190)
T cd00452         154 LDNAAEWLAAGVVAVGG  170 (190)
T ss_pred             HHHHHHHHHCCCEEEEE
Confidence            89999999999887644

This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best known for its role in the Entner-Doudoroff pathway of bacteria, where it catalyzes the reversible cleavage of KDPG to pyruvate and glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate (KHG) aldolase, which has enzymatic specificity toward glyoxylate, forming KHG in the presence of pyruvate, and is capable of regulating glyoxylate levels in the glyoxylate bypass, an alternate pathway when bacteria are grown on acetate carbon sources.

>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase

Probab=81.47  E-value=25  Score=33.75  Aligned_cols=104  Identities=13%  Similarity=0.169  Sum_probs=69.7

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |-|..=...+.-+|+..||+|+-.   -..++.++.+...           .+|+|-+..-+.. + .-
T Consensus       732 ~gkVvlaTV~GDvHDIGKnIV~~~L~~~GfeVIdLG~dVp~e~iv~aa~e~-----------~~diVgLS~Lmt~t~~~m  800 (1178)
T TIGR02082       732 KGKIVLATVKGDVHDIGKNIVGVVLSCNGYEVVDLGVMVPIEKILEAAKDH-----------NADVIGLSGLITPSLDEM  800 (1178)
T ss_pred             CCeEEEEecCCCccHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHh-----------CCCEEEEcCcccccHHHH
Confidence            4577766    556666666777778889999873   3567777887544           4559999887754 3 34


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHH---HHhCCCceeeCCC
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRC---LEEGAEEFFLKPV  124 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a---~~~ga~~yl~kP~  124 (187)
                      .++++.+++.+.  .+||++=.+..+..+...-   .-.|++.|..-.+
T Consensus       801 ~~vi~~L~~~g~--~v~v~vGGa~~s~~~~~~~i~~~~~gad~y~~dA~  847 (1178)
T TIGR02082       801 KEVAEEMNRRGI--TIPLLIGGAATSKTHTAVKIAPIYKGPVVYVLDAS  847 (1178)
T ss_pred             HHHHHHHHhcCC--CceEEEeccccchhHHHhhhhhhccCCeEEecCHH
Confidence            568899998865  7888877666555555331   2338877765433

S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=81.08  E-value=26  Score=29.16  Aligned_cols=95  Identities=12%  Similarity=0.165  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC----CHHHHHHHHHhhcCCCC
Q 046192           18 IIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM----TGYDLLRKIKESASLKD   93 (187)
Q Consensus        18 ~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~----~g~~~~~~l~~~~~~~~   93 (187)
                      ....+.+...|...||..+..                      ...+|+|+++....-.    ...+.++.+++.+|  +
T Consensus        10 ~~ds~~~~~~l~~~g~~~~~~----------------------~~~aD~v~intctv~~~a~~~~~~~i~~~k~~~p--~   65 (414)
T TIGR01579        10 QYESESLKNQLIQKGYEVVPD----------------------EDKADVYIINTCTVTAKADSKARRAIRRARRQNP--T   65 (414)
T ss_pred             HHHHHHHHHHHHHCcCEECCC----------------------cccCCEEEEeccccchHHHHHHHHHHHHHHhhCC--C
Confidence            344566777777778765321                      1236799999876553    36788888888765  6


Q ss_pred             CcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           94 IPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        94 ~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+||+-..... ..-.++......|++..+-....+.+.+....
T Consensus        66 ~~vvvgGc~a~-~~~ee~~~~~~vD~vv~~e~~~~~~~ll~~~~  108 (414)
T TIGR01579        66 AKIIVTGCYAQ-SNPKELADLKDVDLVLGNKEKDKINKLLSLGL  108 (414)
T ss_pred             cEEEEECCccc-cCHHHHhcCCCCcEEECCCCHHHHHHHHHHHh
Confidence            66665444332 22223344555678888877777777766543

This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.

>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]

Probab=80.70  E-value=24  Score=27.32  Aligned_cols=114  Identities=16%  Similarity=0.264  Sum_probs=70.8

Q ss_pred             ceEEEEEeCCHH----HHHHHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-----C
Q 046192            8 QFHVLAVDDSII----DRKLIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-----M   76 (187)
Q Consensus         8 ~~~ilivd~~~~----~~~~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-----~   76 (187)
                      ++.+-|-+....    ....+-+.|++.|+.+..  +.+|-..+..+...           +||.|=+|-..-.     .
T Consensus       121 ~l~lEitE~~~~~~~~~~~~~l~~L~~~G~~ialDDFGtG~ssl~~L~~l-----------~~d~iKID~~fi~~i~~~~  189 (256)
T COG2200         121 RLVLEITESALIDDLDTALALLRQLRELGVRIALDDFGTGYSSLSYLKRL-----------PPDILKIDRSFVRDLETDA  189 (256)
T ss_pred             eEEEEEeCchhhcCHHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHhhC-----------CCCeEEECHHHHhhcccCc
Confidence            344445554431    233345555678887776  89999999999544           5568888875432     2


Q ss_pred             CHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCC---c-eeeCCCChHHHHHHH
Q 046192           77 TGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAE---E-FFLKPVQLADVNKLK  133 (187)
Q Consensus        77 ~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~---~-yl~kP~~~~~l~~~i  133 (187)
                      ....+++.|-.....-++.+|+ -.-.+.+......+.|++   + |+.||...+++...+
T Consensus       190 ~~~~iv~~iv~la~~l~~~vva-EGVEt~~ql~~L~~~G~~~~QGylf~~P~~~~~~~~~~  249 (256)
T COG2200         190 RDQAIVRAIVALAHKLGLTVVA-EGVETEEQLDLLRELGCDYLQGYLFSRPLPADALDALL  249 (256)
T ss_pred             chHHHHHHHHHHHHHCCCEEEE-eecCCHHHHHHHHHcCCCeEeeccccCCCCHHHHHHHH
Confidence            3335666665544322444443 334567778888889987   3 578899887765554

>cd02065 B12-binding_like B12 binding domain (B12-BD)

Probab=80.65  E-value=14  Score=24.63  Aligned_cols=74  Identities=15%  Similarity=0.198  Sum_probs=50.4

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC-CHHHHHHHHHhhcC
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM-TGYDLLRKIKESAS   90 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~-~g~~~~~~l~~~~~   90 (187)
                      +.++.-...+...++..|+++...   ...++..+.+..           ..||+|.+....... .....+..+++..+
T Consensus        10 ~~h~lg~~~~~~~l~~~G~~v~~l~~~~~~~~~~~~i~~-----------~~pdiV~iS~~~~~~~~~~~~~~~~~~~~p   78 (125)
T cd02065          10 DVHDIGKNIVAIALRDNGFEVIDLGVDVPPEEIVEAAKE-----------EDADVVGLSALSTTHMEAMKLVIEALKELG   78 (125)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEEcCCCCCHHHHHHHHHH-----------cCCCEEEEecchHhHHHHHHHHHHHHHhcC
Confidence            667777788889999999988864   355666666643           356699999877653 45666777777654


Q ss_pred             CCCCcEEEEe
Q 046192           91 LKDIPVVIMS  100 (187)
Q Consensus        91 ~~~~~iI~ls  100 (187)
                      . ++++++=.
T Consensus        79 ~-~~~ivvGG   87 (125)
T cd02065          79 I-DIPVVVGG   87 (125)
T ss_pred             C-CCeEEEeC
Confidence            2 55555443

Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain 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. Not all members of this family contain the conserved binding motif.

>PRK09922 UDP-D-galactose:(glucosyl)lipopolysaccharide-1,6-D-galactosyltransferase; Provisional

Probab=80.62  E-value=28  Score=28.03  Aligned_cols=68  Identities=12%  Similarity=0.097  Sum_probs=46.7

Q ss_pred             ccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        64 ~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .|++++-.. ...-|..+++.+..     .+|||.......   ..+.+..|.++++..|.+.+++.+++..++...
T Consensus       258 ~d~~v~~s~-~Egf~~~~lEAma~-----G~Pvv~s~~~~g---~~eiv~~~~~G~lv~~~d~~~la~~i~~l~~~~  325 (359)
T PRK09922        258 VSALLLTSK-FEGFPMTLLEAMSY-----GIPCISSDCMSG---PRDIIKPGLNGELYTPGNIDEFVGKLNKVISGE  325 (359)
T ss_pred             CcEEEECCc-ccCcChHHHHHHHc-----CCCEEEeCCCCC---hHHHccCCCceEEECCCCHHHHHHHHHHHHhCc
Confidence            356665432 23447777777765     788975431222   334566788999999999999999999988664

>PRK15490 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=80.55  E-value=40  Score=29.67  Aligned_cols=102  Identities=16%  Similarity=0.187  Sum_probs=64.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+.+|+++.+. +..+....+..|.  .|......++....+.             ..|++++-. ....-|..+++.+
T Consensus       429 dirLvIVGdG~~-~eeLk~la~elgL~d~V~FlG~~~Dv~~~La-------------aADVfVlPS-~~EGfp~vlLEAM  493 (578)
T PRK15490        429 ATRFVLVGDGDL-RAEAQKRAEQLGILERILFVGASRDVGYWLQ-------------KMNVFILFS-RYEGLPNVLIEAQ  493 (578)
T ss_pred             CeEEEEEeCchh-HHHHHHHHHHcCCCCcEEECCChhhHHHHHH-------------hCCEEEEcc-cccCccHHHHHHH
Confidence            567888887664 4556666666553  3444444344444442             246777643 3455677788877


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      ..     .+|||.......    .+.+..|.++|+..|.+...+.+.+
T Consensus       494 A~-----GlPVVATdvGG~----~EiV~dG~nG~LVp~~D~~aLa~ai  532 (578)
T PRK15490        494 MV-----GVPVISTPAGGS----AECFIEGVSGFILDDAQTVNLDQAC  532 (578)
T ss_pred             Hh-----CCCEEEeCCCCc----HHHcccCCcEEEECCCChhhHHHHH
Confidence            65     788985544332    3455689999999998877766554

>PRK13125 trpA tryptophan synthase subunit alpha; Provisional

Probab=80.49  E-value=24  Score=27.14  Aligned_cols=89  Identities=12%  Similarity=0.132  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCCC------CHHHHHHHHHhhcC
Q 046192           20 DRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM------TGYDLLRKIKESAS   90 (187)
Q Consensus        20 ~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~------~g~~~~~~l~~~~~   90 (187)
                      ....+...+++.|..+..+   .+..+.++.+....+           .++++ ...|+.      +..+.++++|+..+
T Consensus       117 ~~~~~~~~~~~~Gl~~~~~v~p~T~~e~l~~~~~~~~-----------~~l~m-sv~~~~g~~~~~~~~~~i~~lr~~~~  184 (244)
T PRK13125        117 DLEKYVEIIKNKGLKPVFFTSPKFPDLLIHRLSKLSP-----------LFIYY-GLRPATGVPLPVSVERNIKRVRNLVG  184 (244)
T ss_pred             HHHHHHHHHHHcCCCEEEEECCCCCHHHHHHHHHhCC-----------CEEEE-EeCCCCCCCchHHHHHHHHHHHHhcC
Confidence            3445666677788766553   233455555533322           36666 444442      22346777777654


Q ss_pred             CCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           91 LKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        91 ~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                        ..|+++=..-.+.+.+..+.+.|||+++.=
T Consensus       185 --~~~i~v~gGI~~~e~i~~~~~~gaD~vvvG  214 (244)
T PRK13125        185 --NKYLVVGFGLDSPEDARDALSAGADGVVVG  214 (244)
T ss_pred             --CCCEEEeCCcCCHHHHHHHHHcCCCEEEEC
Confidence              466553333347888888899999999875

>PRK04302 triosephosphate isomerase; Provisional

Probab=80.33  E-value=23  Score=26.80  Aligned_cols=41  Identities=22%  Similarity=0.345  Sum_probs=32.0

Q ss_pred             HHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           80 DLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        80 ~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      ++++.+++...  ++||+.=.+-.+.+.+..+...|+++.+.=
T Consensus       162 ~~~~~ir~~~~--~~pvi~GggI~~~e~~~~~~~~gadGvlVG  202 (223)
T PRK04302        162 DAVEAVKKVNP--DVKVLCGAGISTGEDVKAALELGADGVLLA  202 (223)
T ss_pred             HHHHHHHhccC--CCEEEEECCCCCHHHHHHHHcCCCCEEEEe
Confidence            45666776433  689998888888999999999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	187
3gt7_A	154	Crystal Structure Of Signal Receiver Domain Of Sign		4e-12
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		3e-11
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		2e-09
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		2e-09
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		3e-09
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		1e-08
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		2e-08
3heb_A	152	Crystal Structure Of Response Regulator Receiver Do		2e-08
3gl9_A	122	The Structure Of A Histidine Kinase-Response Regula		2e-08
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		5e-08
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		5e-08
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		8e-08
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		1e-07
3olx_A	129	Structural And Functional Effects Of Substitution A		2e-07
2wb4_A	459	Activated Diguanylate Cyclase Pled In Complex With		2e-07
1w25_A	459	Response Regulator Pled In Complex With C-digmp Len		2e-07
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		2e-07
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		2e-07
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		3e-07
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		3e-07
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		3e-07
3olw_A	129	Structural And Functional Effects Of Substitution A		3e-07
1k66_A	149	Crystal Structure Of The Cyanobacterial Phytochrome		4e-07
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		4e-07
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		4e-07
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		4e-07
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		4e-07
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		5e-07
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		5e-07
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		5e-07
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		5e-07
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		6e-07
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		6e-07
3mm4_A	206	Crystal Structure Of The Receiver Domain Of The His		8e-07
3oly_A	129	Structural And Functional Effects Of Substitution A		8e-07
3olv_A	129	Structural And Functional Effects Of Substitution A		8e-07
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		1e-06
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		1e-06
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		1e-06
1jlk_A	147	Crystal Structure Of The Mn(2+)-Bound Form Of Respo		1e-06
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		1e-06
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		1e-06
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		1e-06
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		2e-06
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		2e-06
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		2e-06
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		2e-06
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		2e-06
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		2e-06
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		2e-06
1i3c_A	149	Response Regulator For Cyanobacterial Phytochrome,		3e-06
3eod_A	130	Crystal Structure Of N-Terminal Domain Of E. Coli R		3e-06
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		3e-06
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		3e-06
1krw_A	124	Solution Structure And Backbone Dynamics Of Beryllo		3e-06
1dc7_A	124	Structure Of A Transiently Phosphorylated "switch"		3e-06
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		3e-06
1j56_A	124	Minimized Average Structure Of Beryllofluoride-Acti		3e-06
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		5e-06
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		7e-06
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		8e-06
3i5a_A	334	Crystal Structure Of Full-Length Wpsr From Pseudomo		9e-06
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		9e-06
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		9e-06
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		1e-05
3t6k_A	136	Crystal Structure Of A Hypothetical Response Regula		2e-05
1hey_A	128	Investigating The Structural Determinants Of The P2		2e-05
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		2e-05
1dc8_A	124	Structure Of A Transiently Phosphorylated "switch"		2e-05
1yio_A	208	Crystallographic Structure Of Response Regulator St		3e-05
3cfy_A	137	Crystal Structure Of Signal Receiver Domain Of Puta		4e-05
2jb9_A	127	Phob Response Regulator Receiver Domain Constitutiv		4e-05
3bre_A	358	Crystal Structure Of P.Aeruginosa Pa3702 Length = 3		1e-04
3jte_A	143	Crystal Structure Of Response Regulator Receiver Do		1e-04
1m5t_A	124	Crystal Structure Of The Response Regulator Divk Le		1e-04
1l5y_A	155	Crystal Structure Of Mg2+ / Bef3-bound Receiver Dom		2e-04
1qkk_A	155	Crystal Structure Of The Receiver Domain And Linker		2e-04
1u8t_A	128	Crystal Structure Of Chey D13k Y106w Alone And In C		2e-04
3f6p_A	120	Crystal Structure Of Unphosphorelated Receiver Doma		2e-04
3cg4_A	142	Crystal Structure Of Response Regulator Receiver Do		2e-04
2zwm_A	130	Crystal Structure Of Yycf Receiver Domain From Baci		2e-04
2jba_B	127	Phob Response Regulator Receiver Domain Constitutiv		4e-04
2jba_A	127	Phob Response Regulator Receiver Domain Constitutiv		6e-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 = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 39/115 (33%), Positives = 62/115 (53%), Gaps = 11/115 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L V+DS    + ++ +L+ + YQ   V +G +A+ FL L   D           LII+D
Sbjct: 10  ILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTRPD-----------LIISD 58
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
             MP M GY L R +K    L+ IPV++++  + P  + R LE GA++F  KP +
Sbjct: 59  VLMPEMDGYALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCK 113

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 64/118 (54%), Gaps = 13/118 (11%)
Query: 9   FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
             +L  DD   +R +++RLL+ + ++V  V+   + L+ +    ED          + +I
Sbjct: 15  MRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMA--EED---------YDAVI 63
Query: 69  TDYCMPGMTGYDLLRKIK--ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
            D  MPGM G D+L++++  +++ ++  PVV++S++  P  I  C + GA  F  KPV
Sbjct: 64  VDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPV 121

>pdb|3GWG|A Chain A, Crystal Structure Of Chey Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 63/118 (53%), Gaps = 11/118 (9%)
Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVN 65
               +L VDDS   R++I+  L    Y+ V   + G +A E L     D   +++V+   
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKL-----DANADTKVL--- 55
Query: 66  LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             ITD+ MP M G DL++K++  +  K+IP++++++E   + +   L+ G   + +KP
Sbjct: 56  --ITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKP 111

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 63/118 (53%), Gaps = 11/118 (9%)
Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVN 65
               +L VDDS   R++I+  L    Y+ V   + G +A E L     D   +++V+   
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKL-----DANADTKVL--- 55
Query: 66  LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             ITD+ MP M G DL++K++  +  K+IP++++++E   + +   L+ G   + +KP
Sbjct: 56  --ITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKP 111

>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 = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 57/113 (50%), Gaps = 11/113 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL VDDS + RK++   LK   Y+V   ++G  ALE L     D           LI+ D
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTPD-----------LIVLD 53
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MP M G+ +L+K++E    K IPV++++++      +  L  GA +   KP
Sbjct: 54  IMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKP 106

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 33/118 (27%), Positives = 62/118 (52%), Gaps = 11/118 (9%)
Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVN 65
               +L VDDS   R++I+  L    Y+ V   + G +A E L     D   +++V+   
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKL-----DANADTKVL--- 55
Query: 66  LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             IT + MP M G DL++K++  +  K+IP++++++E   + +   L+ G   + +KP
Sbjct: 56  --ITAWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNNYIVKP 111

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/128 (28%), Positives = 61/128 (47%), Gaps = 12/128 (9%)
Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNS 59
           M  + +    +L VDD    R++++ LL+   +  T   D G  AL  L   + D     
Sbjct: 5   MEAILNKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKGDFD----- 59
Query: 60  QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF 119
                  ++TD+ MPGM G DLL+ I+    LK +PV+++++E    +I    + G   +
Sbjct: 60  ------FVVTDWNMPGMQGIDLLKNIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGY 113
Query: 120 FLKPVQLA 127
            +KP   A
Sbjct: 114 IVKPFTAA 121

>pdb|3HEB|A Chain A, Crystal Structure Of Response Regulator Receiver Domain From Rhodospirillum Rubrum Length = 152

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/116 (26%), Positives = 61/116 (52%), Gaps = 4/116 (3%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           ++ ++D +   +LIE+ ++ +    ++ A   G  AL +L    +D+       +  L++
Sbjct: 7   IVXIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYL--FGDDKSGRVSAGRAQLVL 64
Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
            D  +P  TG D+L+ +KE+   +  PVVI+++ +    I RC + GA  +  KPV
Sbjct: 65  LDLNLPDXTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPV 120

>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 = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/113 (31%), Positives = 56/113 (49%), Gaps = 11/113 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL VDDS + RK++   LK   Y+V   ++G  ALE L     D           LI+  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTPD-----------LIVLX 53
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MP M G+ +L+K++E    K IPV++++++      +  L  GA +   KP
Sbjct: 54  IMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKP 106

>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 = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 57/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           +D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 2   SDKELKFLVVDDGGTGRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 50
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 51  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 110
Query: 124 VQLA 127
              A
Sbjct: 111 FTAA 114

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 34/126 (26%), Positives = 58/126 (46%), Gaps = 12/126 (9%)
Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQV 61
           M +D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q 
Sbjct: 1   MRSDKELKFLVVDDFSTGRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QA 49
Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
                +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +
Sbjct: 50  GGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVV 109
Query: 122 KPVQLA 127
           KP   A
Sbjct: 110 KPFTAA 115

>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 = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 13/116 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD  I+R+L+   L +  YQ    + G  AL  L         N     ++++++D
Sbjct: 11  ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLS-------KN----HIDIVLSD 59
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
             MP M GY L ++I++      +PV+ +++  +     RCLE G +    KPV L
Sbjct: 60  VNMPNMDGYRLTQRIRQLGLT--LPVIGVTANALAEEKQRCLESGMDSCLSKPVTL 113

>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 = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 13/116 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD  I+R+L+   L +  YQ    + G  AL  L         N     ++++++D
Sbjct: 132 ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL-------SKN----HIDIVLSD 180
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
             MP M GY L ++I++      +PV+ +++  +     RCLE G +    KPV L
Sbjct: 181 VNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTL 234

>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 = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV++++SE     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTSEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>pdb|2WB4|A Chain A, Activated Diguanylate Cyclase Pled In Complex With C-Di-Gmp Length = 459

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/114 (29%), Positives = 56/114 (49%), Gaps = 11/114 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD   + +L+E  L    Y+V+    G  AL        D           +I+ D
Sbjct: 5   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD-----------IILLD 53
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             MPGM G+ + RK+K+  + + IPVV++++ +      + LE GA +F  KP+
Sbjct: 54  VMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPI 107

>pdb|1W25|A Chain A, Response Regulator Pled In Complex With C-digmp Length = 459

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 56/115 (48%), Gaps = 11/115 (9%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD   + +L+E  L    Y+V+    G  AL        D           +I+ 
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD-----------IILL 51
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           D  MPGM G+ + RK+K+  + + IPVV++++ +      + LE GA +F  KP+
Sbjct: 52  DVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPI 106

>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 = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 58/125 (46%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               II+D+ MP M G +LL+ I+  +++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GFGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>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 = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/124 (27%), Positives = 57/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              II+D+ MP M G +LL+ I+  +++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  FGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
           D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q    
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGY 51
Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP 
Sbjct: 52  GFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEADAENIKALAQAGASGYVVKPF 111
Query: 125 QLA 127
             A
Sbjct: 112 TAA 114

>pdb|1CYE|A Chain A, Three Dimensional Structure Of Chemotactic Che Y Protein In Aqueous Solution By Nuclear Magnetic Resonance Methods Length = 129

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 57/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           +D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 2   SDKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 50
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 51  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 110
Query: 124 VQLA 127
              A
Sbjct: 111 FTAA 114

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTTEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>pdb|1K66|A Chain A, Crystal Structure Of The Cyanobacterial Phytochrome Response Regulator, Rcpb Length = 149

Iteration: 1
 Score = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 37/122 (30%), Positives = 61/122 (50%), Gaps = 11/122 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFL----GLLNEDEQTNSQVIQV 64
           +L V+DS  D    +RLL+       +    +G++AL+FL       N D      VI  
Sbjct: 9   LLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIAPRPAVI-- 66
Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
              + D  +PG  G ++L++IK+   LK IPVVIM++ + P  I  C       + +KP+
Sbjct: 67  ---LLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPL 123
Query: 125 QL 126
           ++
Sbjct: 124 EI 125

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGWVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1EAY|A Chain A, Chey-Binding (P2) Domain Of Chea In Complex With Chey From Escherichia Coli Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GYGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>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 = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 12/123 (9%)
Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
           D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q    
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGY 50
Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP 
Sbjct: 51  GFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPF 110
Query: 125 QLA 127
             A
Sbjct: 111 TAA 113

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 34/124 (27%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              II D+ MP M G +LL+ I+  +++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  FGFIICDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 56/121 (46%), Gaps = 12/121 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 123 P 123
           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 = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     +    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENVIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 50.4 bits (119), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +KP
Sbjct: 50  YGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3MM4|A Chain A, Crystal Structure Of The Receiver Domain Of The Histidine Kinase Cki1 From Arabidopsis Thaliana Length = 206

Iteration: 1
 Score = 50.1 bits (118), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/137 (31%), Positives = 71/137 (51%), Gaps = 13/137 (9%)
Query: 5   TDSQF----HVLAVDDSIIDRKLIE-RLLKTSSYQVTAVDSGNKALEFL--GLLNEDEQT 57
           +D +F     VL VDD+ I RK+   +L K    +V   DSG +AL  +  GL   +EQ 
Sbjct: 54  SDDEFLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQG 113
Query: 58  NSQVIQVNLIITDYCMPGMTGYDL---LRKIKESASLKDIPVVIMSSENIPSRINR-CLE 113
           +   +  + I  D  MP M GY+    +RK+++S  ++  P++ +S  +  S   R  ++
Sbjct: 114 SVDKLPFDYIFMDCQMPEMDGYEATREIRKVEKSYGVR-TPIIAVSGHDPGSEEARETIQ 172
Query: 114 EGAEEFFLKPV-QLADV 129
            G + F  K + QLA+V
Sbjct: 173 AGMDAFLDKSLNQLANV 189

>pdb|3OLY|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88m-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 50.1 bits (118), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV++++ E     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTMEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>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 = 50.1 bits (118), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV++++ E     I    + GA  + +K
Sbjct: 50  GYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTVEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 4   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 52
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV++++++     I    + GA  + +K
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAQAKKENIIAAAQAGASGYVVK 112
Query: 123 PVQLA 127
           P   A
Sbjct: 113 PFTAA 117

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +KP
Sbjct: 50  YGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAHAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 57/126 (45%), Gaps = 12/126 (9%)
Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQV 61
           M +D +   L V D    R+++  LLK   +  V   + G  AL  L           Q 
Sbjct: 1   MRSDKELKFLVVADFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QA 49
Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
                +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +
Sbjct: 50  GGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVV 109
Query: 122 KPVQLA 127
           KP   A
Sbjct: 110 KPFTAA 115

>pdb|1JLK|A Chain A, Crystal Structure Of The Mn(2+)-Bound Form Of Response Regulator Rcp1 Length = 147

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/95 (33%), Positives = 58/95 (61%), Gaps = 6/95 (6%)
Query: 11  VLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           +L V+DS  D +L++ +LKTS+  +++  +  G  A+ FL    + E  NS   + NLI+
Sbjct: 11  ILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQ--QQGEYENSP--RPNLIL 66
Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSEN 103
            D  +P   G ++L +IK++  LK IPVV++++ +
Sbjct: 67  LDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSH 101

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 55/121 (45%), Gaps = 12/121 (9%)
Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           +   L VDD+   R+++  LLK   +  V   + G  AL  L           Q      
Sbjct: 1   ELKFLVVDDNSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGYGF 49
Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           +I+D+ MP M G +LL+ I+   ++  +PV++ ++E     I    + GA  + +KP   
Sbjct: 50  VISDWNMPNMDGLELLKTIRADGAMSALPVLMTTAEAKKENIIAAAQAGASGYVVKPFTA 109
Query: 127 A 127
           A
Sbjct: 110 A 110

>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 = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++ +E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++ +E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 57/125 (45%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 4   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 52
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV++++++     I    + GA  + +K
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAKAKKENIIAAAQAGASGYVVK 112
Query: 123 PVQLA 127
           P   A
Sbjct: 113 PFTAA 117

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +KP
Sbjct: 50  YGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTALAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDQSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +KP
Sbjct: 50  YGFVISDWKMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 4   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 52
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +K
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGASGYVVK 112
Query: 123 PVQLA 127
           P   A
Sbjct: 113 PFTAA 117

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 55/121 (45%), Gaps = 12/121 (9%)
Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           +   L VDD+   R++   LLK   +  V   + G  AL  L           Q      
Sbjct: 1   ELKFLVVDDNSTMRRITRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGYGF 49
Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP   
Sbjct: 50  VISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTA 109
Query: 127 A 127
           A
Sbjct: 110 A 110

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 49
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+ + MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +K
Sbjct: 50  GYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVK 109
Query: 123 PVQLA 127
           P   A
Sbjct: 110 PFTAA 114

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VD     R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           +D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   SDKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+ + MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISAWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1I3C|A Chain A, Response Regulator For Cyanobacterial Phytochrome, Rcp1 Length = 149

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/95 (33%), Positives = 57/95 (60%), Gaps = 6/95 (6%)
Query: 11  VLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           +L V+DS  D +L++ +LKTS+  +++  +  G  A  FL    + E  NS   + NLI+
Sbjct: 11  ILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAXAFLQ--QQGEYENSP--RPNLIL 66
Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSEN 103
            D  +P   G ++L +IK++  LK IPVV++++ +
Sbjct: 67  LDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSH 101

>pdb|3EOD|A Chain A, Crystal Structure Of N-Terminal Domain Of E. Coli Rssb Length = 130

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 55/124 (44%), Gaps = 15/124 (12%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D  + R L++    +          G  ALE LG    D           L+I 
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPD-----------LMIC 57
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MP M G  LL  I+        PV+++S+    + I + L  G E+  LKPV+  D+
Sbjct: 58  DIAMPRMNGLKLLEHIRNRGD--QTPVLVISATENMADIAKALRLGVEDVLLKPVK--DL 113
Query: 130 NKLK 133
           N+L+
Sbjct: 114 NRLR 117

>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 = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           + D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q  
Sbjct: 4   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAG 52
Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
               +I+D+ MP M G +LL+ I+   ++  +PV+++++      I    + GA  + +K
Sbjct: 53  GYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGASGYVVK 112
Query: 123 PVQLA 127
           P   A
Sbjct: 113 PFTAA 117

>pdb|1C4W|A Chain A, 1.9 A Structure Of A-Thiophosphonate Modified Chey D57c Length = 128

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+ + MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of Beryllofluoride- Activated Ntrc Receiver Domain Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 13/113 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R ++ER L  +    T  ++GN+ L  L     D           ++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD-----------VLLSD 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MPGM G  LL++IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 13/113 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R ++ER L  +    T  ++GN+ L  L     D           ++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD-----------VLLSD 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MPGM G  LL++IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/123 (26%), Positives = 55/123 (44%), Gaps = 12/123 (9%)
Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
           D +   L VD     R+++  LLK   +  V   + G  AL  L           Q    
Sbjct: 1   DKELKFLVVDAFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGGY 49
Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP 
Sbjct: 50  GFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPF 109
Query: 125 QLA 127
             A
Sbjct: 110 TAA 112

>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 = 47.8 bits (112), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 13/113 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R ++ER L  +    T  ++GN+ L  L     D           ++++D
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD-----------VLLSD 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MPGM G  LL++IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 30/115 (26%), Positives = 62/115 (53%), Gaps = 13/115 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L +DD  + R+ +   L+ S+++V    +G + L+      E EQ +       L+I D
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF----ESEQPD-------LVICD 56
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
              P + G +L+R+I+++AS  + P++++S   + S     L  GA ++ +KP++
Sbjct: 57  LRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVXSDAVEALRLGAADYLIKPLE 109

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 46.6 bits (109), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 30/115 (26%), Positives = 62/115 (53%), Gaps = 13/115 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L +DD  + R+ +   L+ S+++V    +G + L+      E EQ +       L+I D
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF----ESEQPD-------LVICD 56
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
              P + G +L+R+I+++AS  + P++++S   + S     L  GA ++ +KP++
Sbjct: 57  LRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVMSDAVEALRLGAADYLIKPLE 109

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 32/132 (24%), Positives = 65/132 (49%), Gaps = 11/132 (8%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D    R+++  +L+ + +Q    +  + A+     LNE           +LI+ 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV---NQLNEP--------WPDLILL 52
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D+ +PG +G   ++ +K  +  +DIPVV++++        R LE GA+++  KP    ++
Sbjct: 53  DWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKEL 112
Query: 130 NKLKPHLMKGIS 141
                 +M+ IS
Sbjct: 113 VARIKAVMRRIS 124

>pdb|3I5A|A Chain A, Crystal Structure Of Full-Length Wpsr From Pseudomonas Syringae Length = 334

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 66/128 (51%), Gaps = 15/128 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV--NLII 68
           VL VDD  +  + + R L           +G+++++F     +  Q  +Q +Q+   +I+
Sbjct: 19  VLLVDDQAMIGEAVRRGL-----------AGHESIDF-HFCADPHQAIAQAVQIKPTVIL 66
Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK-PVQLA 127
            D  MPG+ G  L+R+ + +   +DIP++++S++  P   +     GA ++ +K P  + 
Sbjct: 67  QDLVMPGLDGLTLVREYRSNPLTRDIPIIVLSTKEDPLIKSAAFAAGANDYLVKLPDNIE 126
Query: 128 DVNKLKPH 135
            V +++ H
Sbjct: 127 LVARIRYH 134

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 32/132 (24%), Positives = 65/132 (49%), Gaps = 11/132 (8%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D    R+++  +L+ + +Q    +  + A+     LNE           +LI+ 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV---NQLNEP--------WPDLILL 52
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D+ +PG +G   ++ +K  +  +DIPVV++++        R LE GA+++  KP    ++
Sbjct: 53  DWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKEL 112
Query: 130 NKLKPHLMKGIS 141
                 +M+ IS
Sbjct: 113 VARIKAVMRRIS 124

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 46.6 bits (109), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+ + MP M G +LL+ I+   ++  +PV+++ +E     I    + GA  + +KP
Sbjct: 50  YGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VDD    R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+ + MP M G +LL+ I+   ++  +PV+++ +E     I    + GA  + +KP
Sbjct: 50  YGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGASGWVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>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 = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 57/118 (48%), Gaps = 17/118 (14%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL---I 67
           +L VDD     + +E +L+ + Y+V    SG +AL              Q I  NL   +
Sbjct: 7   LLIVDDDDTVAEXLELVLRGAGYEVRRAASGEEAL--------------QQIYKNLPDAL 52
Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           I D  +PG+ GY L +++++    K +P++ ++++   S      E GA ++  KP +
Sbjct: 53  ICDVLLPGIDGYTLCKRVRQHPLTKTLPILXLTAQGDISAKIAGFEAGANDYLAKPFE 110

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L V +    +  +  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVGNGGTGKSTVRNLLKELGFNNVEDAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/116 (21%), Positives = 58/116 (50%), Gaps = 14/116 (12%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD     +++  +L+   +    +  G +AL           T  + ++ +L++ 
Sbjct: 7   RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQAL-----------TAVRELRPDLVLL 55
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           D  +PGM G D+ R ++  +    +P+V+++++     +   LE GA+++ +KP +
Sbjct: 56  DLMLPGMNGIDVCRVLRADSG---VPIVMLTAKTDTVDVVLGLESGADDYIMKPFK 108

>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 31/113 (27%), Positives = 54/113 (47%), Gaps = 13/113 (11%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R ++ER L  +    T  ++GN+ L  L     D           ++++ 
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD-----------VLLSX 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
             MPGM G  LL++IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 55  IRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1YIO|A Chain A, Crystallographic Structure Of Response Regulator Styr From Pseudomonas Fluorescens Length = 208

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 59/116 (50%), Gaps = 15/116 (12%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD +  R+ +  LL+++ ++V   D  +  LE           + +  Q   ++ D
Sbjct: 7   VFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLE-----------HRRPEQHGCLVLD 55
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQ 125
             MPGM+G +L  ++  +A    IP+V +++  +IP  + R ++ GA EF  KP +
Sbjct: 56  MRMPGMSGIELQEQL--TAISDGIPIVFITAHGDIPMTV-RAMKAGAIEFLPKPFE 108

>pdb|3CFY|A Chain A, Crystal Structure Of Signal Receiver Domain Of Putative Luxo Repressor Protein From Vibrio Parahaemolyticus Length = 137

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 35/116 (30%), Positives = 60/116 (51%), Gaps = 17/116 (14%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+DS     L ++ +K   Y +  V++G  A++F+      E++  Q     LII D
Sbjct: 7   VLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI------ERSKPQ-----LIILD 55
Query: 71  YCMPGMTGYDLLRKIKESASLKDIP--VVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +P M+G D+L  I ++    DIP  V+I ++          +++GAE+F  KP+
Sbjct: 56  LKLPDMSGEDVLDWINQN----DIPTSVIIATAHGSVDLAVNLIQKGAEDFLEKPI 107

>pdb|2JB9|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D10a And D53e. Length = 127

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 53  EDEQTNSQVIQVN-----LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSR 107
           E E  +S V Q+N     LI+ ++ +PG +G   ++ +K  +  +DIPVV++++      
Sbjct: 31  EAEDYDSAVNQLNEPWPDLILLEWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEED 90
Query: 108 INRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS 141
             R LE GA+++  KP    ++      +M+ IS
Sbjct: 91  RVRGLETGADDYITKPFSPKELVARIKAVMRRIS 124

>pdb|3BRE|A Chain A, Crystal Structure Of P.Aeruginosa Pa3702 Length = 358

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
           I+  +I+ D  MPG+ G  LL   + + + +DIP++++S++  P+  +     GA ++ +
Sbjct: 62  IKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLV 121
Query: 122 K-PVQLADVNKLKPH 135
           K P  +  V +++ H
Sbjct: 122 KLPDAIELVARIRYH 136

>pdb|3JTE|A Chain A, Crystal Structure Of Response Regulator Receiver Domain Protein From Clostridium Thermocellum Length = 143

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 11/120 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L +DD     + I+ LL+    +V    S  + L         E  NS    ++++ITD
Sbjct: 6   ILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIF-----TENCNS----IDVVITD 56
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVN 130
             MP ++G D+LR+IK+      + V+I++           ++EGA E+  KPV   D++
Sbjct: 57  MKMPKLSGMDILREIKKITP--HMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLS 114

>pdb|1M5T|A Chain A, Crystal Structure Of The Response Regulator Divk Length = 124

Iteration: 1
 Score = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/116 (25%), Positives = 55/116 (47%), Gaps = 11/116 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D+ ++ KL   LL+   Y+      G  AL             ++  + +LI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSI-----------ARENKPDLILMD 52
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
             +P ++G ++ + +KE   L  IPVV +++  +     R  E G E +  KP+ +
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISV 108

>pdb|1L5Y|A Chain A, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of Sinorhizobium Meliloti Dctd Length = 155

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 59/114 (51%), Gaps = 15/114 (13%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  +DD    RK +++ L+ + + V++  S  +AL   GL  +            ++I+D
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALA--GLSAD---------FAGIVISD 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKP 123
             MPGM G  L RKI   A   D+P+++++   +IP  +   +++GA +F  KP
Sbjct: 55  IRMPGMDGLALFRKIL--ALDPDLPMILVTGHGDIPMAVQ-AIQDGAYDFIAKP 105

>pdb|1QKK|A Chain A, Crystal Structure Of The Receiver Domain And Linker Region Of Dctd From Sinorhizobium Meliloti Length = 155

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 59/114 (51%), Gaps = 15/114 (13%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  +DD    RK +++ L+ + + V++  S  +AL   GL  +            ++I+D
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALA--GLSAD---------FAGIVISD 54
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKP 123
             MPGM G  L RKI   A   D+P+++++   +IP  +   +++GA +F  KP
Sbjct: 55  IRMPGMDGLALFRKIL--ALDPDLPMILVTGHGDIPMAVQ-AIQDGAYDFIAKP 105

>pdb|1U8T|A Chain A, Crystal Structure Of Chey D13k Y106w Alone And In Complex With A Flim Peptide Length = 128

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/124 (24%), Positives = 51/124 (41%), Gaps = 12/124 (9%)
Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
            D +   L VD     R+++  LLK   +  V   + G  AL  L           Q   
Sbjct: 1   ADKELKFLVVDKFSTXRRIVRNLLKELGFNNVEEAEDGVDALNKL-----------QAGG 49
Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+  P   G +LL+ I+   +   +PV+ +++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNXPNXDGLELLKTIRADGAXSALPVLXVTAEAKKENIIAAAQAGASGWVVKP 109
Query: 124 VQLA 127
              A
Sbjct: 110 FTAA 113

>pdb|3F6P|A Chain A, Crystal Structure Of Unphosphorelated Receiver Domain Of Yycf Length = 120

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 62/115 (53%), Gaps = 18/115 (15%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD      ++E  L+   Y+V     GN+A+E +           + +Q +LI+ D
Sbjct: 5   ILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMV-----------EELQPDLILLD 53
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC--LEEGAEEFFLKP 123
             +P   G ++ R++++     D+P++++++++  S I++   LE GA+++  KP
Sbjct: 54  IMLPNKDGVEVCREVRKKY---DMPIIMLTAKD--SEIDKVIGLEIGADDYVTKP 103

>pdb|3CG4|A Chain A, Crystal Structure Of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 Length = 142

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/113 (23%), Positives = 55/113 (48%), Gaps = 11/113 (9%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           V  VDD    R  ++ +L  + + + + DSG + ++ L      ++  S V+     + D
Sbjct: 10  VXIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLL------KKGFSGVV-----LLD 58
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              PG  G+D +R I +++  + I +V ++++N P      L+E   ++  KP
Sbjct: 59  IXXPGXDGWDTIRAILDNSLEQGIAIVXLTAKNAPDAKXIGLQEYVVDYITKP 111

>pdb|2ZWM|A Chain A, Crystal Structure Of Yycf Receiver Domain From Bacillus Subtilis Length = 130

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 62/115 (53%), Gaps = 18/115 (15%)
Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD      ++E  L+   Y+V     GN+A+E +           + +Q +LI+ D
Sbjct: 5   ILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMV-----------EELQPDLILLD 53
Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRC--LEEGAEEFFLKP 123
             +P   G ++ R++++     D+P++++++++  S I++   LE GA+++  KP
Sbjct: 54  IMLPNKDGVEVCREVRKKY---DMPIIMLTAKD--SEIDKVIGLEIGADDYVTKP 103

>pdb|2JBA|B Chain B, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/132 (23%), Positives = 63/132 (47%), Gaps = 11/132 (8%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D    R+++  +L+ + +Q    +  + A+     LNE           +LI+ 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV---NQLNEP--------WPDLILL 52
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
            + +PG +G   ++ +K  +  +DIPVV++++        R LE GA++   KP    ++
Sbjct: 53  AWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKEL 112
Query: 130 NKLKPHLMKGIS 141
                 +M+ IS
Sbjct: 113 VARIKAVMRRIS 124

>pdb|2JBA|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 40.4 bits (93), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 30/132 (22%), Positives = 63/132 (47%), Gaps = 11/132 (8%)
Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D    R+++  +L+ + +Q    +  + A+     LNE           +LI+ 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV---NQLNEP--------WPDLILL 52
Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
            + +PG +G   ++ ++  +  +DIPVV++++        R LE GA++   KP    ++
Sbjct: 53  AWMLPGGSGIQFIKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKEL 112
Query: 130 NKLKPHLMKGIS 141
                 +M+ IS
Sbjct: 113 VARIKAVMRRIS 124

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	187
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	8e-25
3bre_A	358	Probable two-component response regulator; protein	2e-24
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	8e-24
3heb_A	152	Response regulator receiver domain protein (CHEY);	1e-23
1w25_A	459	Stalked-cell differentiation controlling protein;	1e-23
1w25_A	459	Stalked-cell differentiation controlling protein;	3e-17
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	1e-23
3luf_A	259	Two-component system response regulator/ggdef doma	4e-23
3luf_A	259	Two-component system response regulator/ggdef doma	5e-18
3eq2_A	394	Probable two-component response regulator; adaptor	5e-23
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	8e-20
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	1e-19
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	3e-19
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	3e-19
3cnb_A	143	DNA-binding response regulator, MERR family; signa	3e-18
3i42_A	127	Response regulator receiver domain protein (CHEY-	5e-18
3jte_A	143	Response regulator receiver protein; structural ge	8e-18
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	1e-17
2rjn_A	154	Response regulator receiver:metal-dependent phosph	3e-17
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	3e-17
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	4e-17
1srr_A	124	SPO0F, sporulation response regulatory protein; as	4e-17
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	5e-17
3cfy_A	137	Putative LUXO repressor protein; structural genomi	5e-17
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	1e-16
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	1e-16
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	3e-16
3gt7_A	154	Sensor protein; structural genomics, signal receiv	4e-16
3grc_A	140	Sensor protein, kinase; protein structure initiati	6e-16
3hdg_A	137	Uncharacterized protein; two-component sensor acti	8e-16
2qxy_A	142	Response regulator; regulation of transcription, N	9e-16
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	1e-15
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	1e-15
2zay_A	147	Response regulator receiver protein; structural ge	2e-15
1mb3_A	124	Cell division response regulator DIVK; signal tran	3e-15
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	7e-15
1yio_A	208	Response regulatory protein; transcription regulat	8e-15
4dad_A	146	Putative pilus assembly-related protein; response	1e-14
3lua_A	140	Response regulator receiver protein; two-component	2e-14
3nhm_A	133	Response regulator; protein structure initiative I	2e-14
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	6e-14
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	2e-13
3kto_A	136	Response regulator receiver protein; PSI-II,struct	2e-13
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	2e-13
3eqz_A	135	Response regulator; structural genomics, unknown f	3e-13
3c3m_A	138	Response regulator receiver protein; structural ge	5e-13
3rqi_A	184	Response regulator protein; structural genomics, s	6e-13
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	7e-13
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	8e-13
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	8e-13
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	1e-12
2rdm_A	132	Response regulator receiver protein; structural ge	1e-12
3n53_A	140	Response regulator receiver modulated diguanylate;	2e-12
2qr3_A	140	Two-component system response regulator; structura	2e-12
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	3e-12
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	6e-12
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	1e-11
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	2e-11
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	3e-11
3crn_A	132	Response regulator receiver domain protein, CHEY-;	4e-11
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	5e-11
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	5e-11
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	6e-11
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	1e-10
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	2e-10
3r0j_A	250	Possible two component system response transcript	2e-10
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	6e-10
1xhf_A	123	DYE resistance, aerobic respiration control protei	6e-10
3cg0_A	140	Response regulator receiver modulated diguanylate	6e-10
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	7e-10
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	1e-09
2gkg_A	127	Response regulator homolog; social motility, recei	1e-09
3lte_A	132	Response regulator; structural genomics, PSI, prot	1e-09
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	2e-09
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	3e-09
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	5e-09
1zgz_A	122	Torcad operon transcriptional regulatory protein;	1e-08
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	2e-08
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	2e-08
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	3e-08
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	5e-08
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	5e-08
2gwr_A	238	DNA-binding response regulator MTRA; two-component	9e-08
2oqr_A	230	Sensory transduction protein REGX3; response regul	9e-08
3c97_A	140	Signal transduction histidine kinase; structural g	1e-07
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	2e-07
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	6e-07
2qv0_A	143	Protein MRKE; structural genomics, transcription,	7e-07
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	1e-06
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	1e-06
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	2e-06
3q9s_A	249	DNA-binding response regulator; DNA binding protei	5e-06
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	5e-06
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	5e-06
1ys7_A	233	Transcriptional regulatory protein PRRA; response	8e-06
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	9e-06
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	3e-05
3f6c_A	134	Positive transcription regulator EVGA; structural	2e-04

>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 = 93.1 bits (232), Expect = 8e-25
 Identities = 35/127 (27%), Positives = 63/127 (49%), Gaps = 3/127 (2%)

Query: 4   VTDSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQV 61
           V ++   +L V+DS  D    +RLL+       +    +G++AL+FL             
Sbjct: 2   VGNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFL-YQTGSYCNPDIA 60

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
            +  +I+ D  +PG  G ++L++IK+   LK IPVVIM++ + P  I  C       + +
Sbjct: 61  PRPAVILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIV 120

Query: 122 KPVQLAD 128
           KP+++  
Sbjct: 121 KPLEIDR 127

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score = 97.1 bits (242), Expect = 2e-24
 Identities = 27/130 (20%), Positives = 56/130 (43%), Gaps = 12/130 (9%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKT-SSYQVTAVDSGNKALEFLGLLNEDEQTNS 59
           +G   D    VL VDD  +  + + R L + +           +A+              
Sbjct: 11  LGAPLDGAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVA----------- 59

Query: 60  QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF 119
             I+  +I+ D  MPG+ G  LL   + + + +DIP++++S++  P+  +     GA ++
Sbjct: 60  NQIKPTVILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDY 119

Query: 120 FLKPVQLADV 129
            +K     ++
Sbjct: 120 LVKLPDAIEL 129

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 90.4 bits (225), Expect = 8e-24
 Identities = 28/128 (21%), Positives = 59/128 (46%), Gaps = 8/128 (6%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTN 58
           M +  D +  +L ++D  +D + +ER+        ++    SGN+AL+ L   N++ +  
Sbjct: 1   MSLAAD-KVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENK-- 57

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
              I   LI+ D  +P M G + L+++++ +S  DI V ++++                 
Sbjct: 58  ---IHPKLILLDINIPKMNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRG 114

Query: 119 FFLKPVQL 126
             +KP+  
Sbjct: 115 HLIKPLDY 122

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 90.5 bits (225), Expect = 1e-23
 Identities = 32/121 (26%), Positives = 63/121 (52%), Gaps = 4/121 (3%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            ++ ++D +   +LIE+ ++ +    ++ A   G  AL +L    +D+       +  L+
Sbjct: 6   TIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYL--FGDDKSGRVSAGRAQLV 63

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           + D  +P MTG D+L+ +KE+   +  PVVI+++ +    I RC + GA  +  KPV   
Sbjct: 64  LLDLNLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYE 123

Query: 128 D 128
           +
Sbjct: 124 N 124

>1w25_A Stalked-cell differentiation controlling protein; two-component system, ggdef domain, cyclic dinucleotide, cyclic-digmp; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP: c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A* 2wb4_A* Length = 459

 Score = 95.6 bits (238), Expect = 1e-23
 Identities = 33/119 (27%), Positives = 57/119 (47%), Gaps = 11/119 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD   + +L+E  L    Y+V+    G  AL                   ++I+ D
Sbjct: 4   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMA-----------ARDLPDIILLD 52

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             MPGM G+ + RK+K+  + + IPVV++++ +      + LE GA +F  KP+    +
Sbjct: 53  VMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVML 111

>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 = 77.5 bits (191), Expect = 3e-17
 Identities = 21/129 (16%), Positives = 42/129 (32%), Gaps = 13/129 (10%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
              +      VL VDD+    + +   L      V   D     +   G           
Sbjct: 145 AARLDGLGGRVLIVDDNERQAQRVAAELGVEHRPVIESDPEKAKISAGG----------- 193

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF 120
              V+L+I +       G      ++     + +PV+ M   +   R+ + LE G  +  
Sbjct: 194 --PVDLVIVNAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDIL 251

Query: 121 LKPVQLADV 129
            +P+   ++
Sbjct: 252 SRPIDPQEL 260

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 90.0 bits (224), Expect = 1e-23
 Identities = 34/130 (26%), Positives = 64/130 (49%), Gaps = 6/130 (4%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTN 58
           M   ++    +L V+DS  D +L++ +LKTS   +++  +  G  A+ FL    + +   
Sbjct: 1   MSDESNPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL----QQQGEY 56

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
               + NLI+ D  +P   G ++L +IK++  LK IPVV++++ +    +    E     
Sbjct: 57  ENSPRPNLILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNC 116

Query: 119 FFLKPVQLAD 128
           +  K   L D
Sbjct: 117 YLTKSRNLKD 126

>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 = 91.6 bits (228), Expect = 4e-23
 Identities = 32/118 (27%), Positives = 52/118 (44%), Gaps = 10/118 (8%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           Q  VL VDDS   R      L+    QV       +AL  L           Q   + L+
Sbjct: 124 QIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATL----------EQHPAIRLV 173

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           + DY MP + G  L+R ++E  S + + ++ +S  +      R L++GA +F  +P +
Sbjct: 174 LVDYYMPEIDGISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFE 231

>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 = 78.1 bits (193), Expect = 5e-18
 Identities = 17/115 (14%), Positives = 45/115 (39%), Gaps = 15/115 (13%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+DS+  R+++ + +   +          +                Q  +  + + 
Sbjct: 6   KILIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARHC-----------QGDEYVVALV 54

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           D  +P     + ++ + E    + +PVVI++++    +    LE G  ++ +K  
Sbjct: 55  DLTLPDAPSGEAVKVLLE----RGLPVVILTADISEDKREAWLEAGVLDYVMKDS 105

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score = 93.4 bits (232), Expect = 5e-23
 Identities = 29/125 (23%), Positives = 62/125 (49%), Gaps = 13/125 (10%)

Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
                 +L +DD  + R+ +   L+ S+++V    +G + L+             +  Q 
Sbjct: 2   HKVSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF-----------ESEQP 50

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
           +L+I D  MP + G +L+R+I+++A   + P++++S   + S     L  GA ++ +KP+
Sbjct: 51  DLVICDLRMPQIDGLELIRRIRQTA--SETPIIVLSGAGVMSDAVEALRLGAADYLIKPL 108

Query: 125 QLADV 129
           +   V
Sbjct: 109 EDLAV 113

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 80.1 bits (198), Expect = 8e-20
 Identities = 29/143 (20%), Positives = 56/143 (39%), Gaps = 13/143 (9%)

Query: 1   MGMVTDSQ-FHVLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQT 57
           M +    +   VL +DD  I   L   +++ +    ++ +V SGN A+  L       + 
Sbjct: 1   MSLADTRKIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKL------NEL 54

Query: 58  NSQVIQVNLIITDYCMPGMTGYDLLRKIKES--ASLKDIPVVIMSSENIPSRINRCLEE- 114
            +     ++I  D  MPG+ G++L+   K+          V ++SS   P    +     
Sbjct: 55  YAAGRWPSIICIDINMPGINGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASD 114

Query: 115 GAEEFFLKPVQLADV-NKLKPHL 136
             + +  KP+    + N     L
Sbjct: 115 WVDYYVSKPLTANALNNLYNKVL 137

>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 = 79.6 bits (197), Expect = 1e-19
 Identities = 33/120 (27%), Positives = 55/120 (45%), Gaps = 14/120 (11%)

Query: 6   DSQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTAVDSGNKALEFLGLLNEDEQTNSQVIQ 63
           D +   L VDD    R+++  LLK   +     A D G  AL  L           Q   
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAED-GVDALNKL-----------QAGG 49

Query: 64  VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +I+D+ MP M G +LL+ I+   ++  +PV+++++E     I    + GA  + +KP
Sbjct: 50  YGFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKP 109

>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 = 3e-19
 Identities = 32/130 (24%), Positives = 60/130 (46%), Gaps = 14/130 (10%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +V  ++  VL VDD+ ++R+ +   LK+        D   +A  +L            
Sbjct: 1   MSLVA-ARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYL----------HY 49

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEF 119
             ++ L+ITD  M   +G DL+R I+ S     + ++++S   ++   +   +  G  +F
Sbjct: 50  QKRIGLMITDLRMQPESGLDLIRTIRASERA-ALSIIVVSGDTDVEEAV-DVMHLGVVDF 107

Query: 120 FLKPVQLADV 129
            LKPV L  +
Sbjct: 108 LLKPVDLGKL 117

>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 = 77.9 bits (193), Expect = 3e-19
 Identities = 28/122 (22%), Positives = 55/122 (45%), Gaps = 12/122 (9%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQV 61
           M    +  VL VDD +  R L+   L+   + Q+TA   G + ++ +             
Sbjct: 1   MSLAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM-----------AQ 49

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
              +L+I+D+ MP M G  LL+ ++ + + K    +I++++   + + +    GA     
Sbjct: 50  NPHHLVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLA 109

Query: 122 KP 123
           KP
Sbjct: 110 KP 111

>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 = 76.0 bits (188), Expect = 3e-18
 Identities = 24/129 (18%), Positives = 55/129 (42%), Gaps = 13/129 (10%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKT--SSYQVTAVDSGNKALEFLGLLNEDEQTN 58
           M +   + F +L ++D      ++ + L+      ++    +   A + L          
Sbjct: 1   MSLNVKNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLL---------- 50

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
              ++ ++++ D  M GM G+ +  +IK + +  +I V+ M+       ++R +  GAE 
Sbjct: 51  -HTVKPDVVMLDLMMVGMDGFSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAET 109

Query: 119 FFLKPVQLA 127
            F KP+   
Sbjct: 110 CFGKPLNFT 118

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score = 74.9 bits (185), Expect = 5e-18
 Identities = 23/119 (19%), Positives = 43/119 (36%), Gaps = 12/119 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
             L V+D     +  + LL+   +Q   V SG  AL  +     D            +  
Sbjct: 5   QALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRGYD-----------AVFI 53

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  +P  +G  L+++++     K    V +S         +   E  + +  KP+ +A 
Sbjct: 54  DLNLPDTSGLALVKQLRALPMEKTSKFVAVSGFAKNDLG-KEACELFDFYLEKPIDIAS 111

>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 = 74.9 bits (185), Expect = 8e-18
 Identities = 32/124 (25%), Positives = 59/124 (47%), Gaps = 13/124 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S   +L +DD     + I+ LL+    +V    S  + L                  +++
Sbjct: 2   SLAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIF---------TENCNSIDV 52

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQ 125
           +ITD  MP ++G D+LR+IK+      + V+I++   ++ + I   ++EGA E+  KPV 
Sbjct: 53  VITDMKMPKLSGMDILREIKKITP--HMAVIILTGHGDLDNAIL-AMKEGAFEYLRKPVT 109

Query: 126 LADV 129
             D+
Sbjct: 110 AQDL 113

>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 = 73.7 bits (182), Expect = 1e-17
 Identities = 34/130 (26%), Positives = 65/130 (50%), Gaps = 22/130 (16%)

Query: 7   SQFHVLAVDD--SIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
            +  V  VDD  SI  R ++ER L  +    T  ++GN+ L     L             
Sbjct: 2   QRGIVWVVDDDSSI--RWVLERALAGAGLTCTTFENGNEVLA---ALASK--------TP 48

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKP 123
           +++++D  MPGM G  LL++IK+      +PV+IM++  ++ + ++   ++GA ++  KP
Sbjct: 49  DVLLSDIRMPGMDGLALLKQIKQRHP--MLPVIIMTAHSDLDAAVS-AYQQGAFDYLPKP 105

Query: 124 VQLADVNKLK 133
               D+++  
Sbjct: 106 F---DIDEAV 112

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score = 73.8 bits (182), Expect = 3e-17
 Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 14/100 (14%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +     + V+ VDD       ++RL+K     +    S   ALE    L         
Sbjct: 1   MSL-NYKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALE---ALKGTS----- 51

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
              V L+I+D  MP M G   L ++ +S    DI  V++S
Sbjct: 52  ---VQLVISDMRMPEMGGEVFLEQVAKSYP--DIERVVIS 86

>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 = 3e-17
 Identities = 30/120 (25%), Positives = 55/120 (45%), Gaps = 6/120 (5%)

Query: 11  VLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           +  V+D+  D +LI+  L  S   ++V  V  G +A+ +L      E   +   + +LI+
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYL----RQEGEYANASRPDLIL 60

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
               +P   G ++L +IK   +LK IPVV++S+      I    +     +  K   L+ 
Sbjct: 61  LXLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQ 120

>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 = 76.7 bits (190), Expect = 4e-17
 Identities = 26/146 (17%), Positives = 55/146 (37%), Gaps = 23/146 (15%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL VDD       +  +L+   Y      +  +A + +           + +   +I+ D
Sbjct: 3   VLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKI-----------KELFFPVIVLD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQLADV 129
             MP   G + +  IKE++   D  V++++   ++ + +   +++GA EF  KP     V
Sbjct: 52  VWMPDGDGVNFIDFIKENSP--DSVVIVITGHGSVDTAVK-AIKKGAYEFLEKPF---SV 105

Query: 130 NKLKPHLMKGI-----SKEIKEPNNI 150
            +    +             +E    
Sbjct: 106 ERFLLTIKHAFEEYSKKAPPQEEIEF 131

>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 = 72.5 bits (179), Expect = 4e-17
 Identities = 29/124 (23%), Positives = 57/124 (45%), Gaps = 15/124 (12%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
               +L VDD    R L+  +     YQ     +G +AL+   ++ ++        + +L
Sbjct: 2   MNEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALD---IVTKE--------RPDL 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQ 125
           ++ D  +PGM G ++L+++K      +I V+IM++   +        E GA   F KP  
Sbjct: 51  VLLDMKIPGMDGIEILKRMKVIDE--NIRVIIMTAYGELDMIQE-SKELGALTHFAKPFD 107

Query: 126 LADV 129
           + ++
Sbjct: 108 IDEI 111

>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 = 76.7 bits (190), Expect = 5e-17
 Identities = 28/135 (20%), Positives = 62/135 (45%), Gaps = 18/135 (13%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +VL ++D  + R L+E  L     +V + + G +A + L                N+++ 
Sbjct: 2   NVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL-----------SEKHFNVVLL 50

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  +P + G ++L+ IKE +   +  V++++    I + +   ++ GA +F  KP     
Sbjct: 51  DLLLPDVNGLEILKWIKERSP--ETEVIVITGHGTIKTAVE-AMKMGAYDFLTKPC---M 104

Query: 129 VNKLKPHLMKGISKE 143
           + +++  + K I   
Sbjct: 105 LEEIELTINKAIEHR 119

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score = 72.6 bits (179), Expect = 5e-17
 Identities = 32/127 (25%), Positives = 62/127 (48%), Gaps = 19/127 (14%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +    +  VL V+DS     L ++ +K   Y +  V++G  A++F+           +
Sbjct: 1   MSL----RPRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI-----------E 45

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEF 119
             +  LII D  +P M+G D+L  I ++       V+I ++  ++   +N  +++GAE+F
Sbjct: 46  RSKPQLIILDLKLPDMSGEDVLDWINQNDI--PTSVIIATAHGSVDLAVN-LIQKGAEDF 102

Query: 120 FLKPVQL 126
             KP+  
Sbjct: 103 LEKPINA 109

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score = 72.2 bits (178), Expect = 1e-16
 Identities = 21/101 (20%), Positives = 43/101 (42%), Gaps = 14/101 (13%)

Query: 1   MGMVT-DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNS 59
           + + T   +  +L VD   +  + +++LL    Y +       +AL+   LL   E    
Sbjct: 6   LNVATVTRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQ---LLASRE---- 58

Query: 60  QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
               V+L+I+   +P M G  LL +I +         ++++
Sbjct: 59  ----VDLVISAAHLPQMDGPTLLARIHQQYP--STTRILLT 93

>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 = 71.4 bits (176), Expect = 1e-16
 Identities = 32/119 (26%), Positives = 61/119 (51%), Gaps = 13/119 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
               +L VDDS   R++I+  L    Y+  + A   G +A E    L+ +          
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEH-GVEAWE---KLDANAD-------T 52

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
            ++ITD+ MP M G DL++K++  +  K+IP++++++E   + +   L+ G   + +KP
Sbjct: 53  KVLITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKP 111

>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 = 71.0 bits (175), Expect = 3e-16
 Identities = 32/121 (26%), Positives = 59/121 (48%), Gaps = 15/121 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            V  +DD    RK +++ L+ + + V++  S  +AL     L+ D           ++I+
Sbjct: 5   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALA---GLSAD--------FAGIVIS 53

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  MPGM G  L RKI       D+P+++++   +IP  +   +++GA +F  KP     
Sbjct: 54  DIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAVQ-AIQDGAYDFIAKPFAADR 110

Query: 129 V 129
           +
Sbjct: 111 L 111

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 70.8 bits (174), Expect = 4e-16
 Identities = 38/125 (30%), Positives = 67/125 (53%), Gaps = 12/125 (9%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M + ++    +L V+DS    + ++ +L+ + YQ   V +G +A+ FL            
Sbjct: 1   MSL-SNRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFL-----------S 48

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF 120
           + + +LII+D  MP M GY L R +K    L+ IPV++++  + P  + R LE GA++F 
Sbjct: 49  LTRPDLIISDVLMPEMDGYALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFI 108

Query: 121 LKPVQ 125
            KP +
Sbjct: 109 TKPCK 113

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 69.9 bits (172), Expect = 6e-16
 Identities = 20/123 (16%), Positives = 43/123 (34%), Gaps = 14/123 (11%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           M    +  +L  +D     +L+  +L+   +    V S  +ALE +              
Sbjct: 1   MSLAPRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQV-----------ARR 49

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS--SENIPSRINRCLEEGAEEFF 120
               +  D  +P   G  L+R ++  +  +D+ +V++S  +                 + 
Sbjct: 50  PYAAMTVDLNLPDQDGVSLIRALRRDSRTRDLAIVVVSANAREGELEF-NSQPLAVSTWL 108

Query: 121 LKP 123
            KP
Sbjct: 109 EKP 111

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} Length = 137

 Score = 69.5 bits (171), Expect = 8e-16
 Identities = 29/149 (19%), Positives = 59/149 (39%), Gaps = 17/149 (11%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +  +    +L V+D    R+ +  ++     +V +   G +     GL   D      
Sbjct: 1   MSL-REVALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHAPD------ 53

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF 120
                +IITD  MP + G ++L +IK         V+++S+ +      + +E G   F 
Sbjct: 54  -----VIITDIRMPKLGGLEMLDRIKAGG--AKPYVIVISAFSEMKYFIKAIELGVHLFL 106

Query: 121 LKPVQLADVNKLKPHLMKGISKEIKEPNN 149
            KP+   +  +L   L      ++ +  +
Sbjct: 107 PKPI---EPGRLMETLEDFRHIKLAKEGH 132

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score = 69.5 bits (171), Expect = 9e-16
 Identities = 28/127 (22%), Positives = 55/127 (43%), Gaps = 20/127 (15%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +       V+ VD+S I    ++  L+   + V    +  +A  FL           +
Sbjct: 1   MSL----TPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFL-----------R 45

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEF 119
             +++L+  D    G    +L+R+I+E     D  V ++S+  +    I   ++ GA ++
Sbjct: 46  REKIDLVFVDV-FEGEESLNLIRRIREEFP--DTKVAVLSAYVDKDLII-NSVKAGAVDY 101

Query: 120 FLKPVQL 126
            LKP +L
Sbjct: 102 ILKPFRL 108

>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 = 68.7 bits (169), Expect = 1e-15
 Identities = 29/119 (24%), Positives = 54/119 (45%), Gaps = 15/119 (12%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
             + V  VDD    RK +  +L  + + V    S   A  FL    +         +  +
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQS---AEAFLAFAPDV--------RNGV 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPV 124
           ++TD  MP M+G +LLR + +     +IP ++++   ++P  +   ++ GA +F  KP 
Sbjct: 51  LVTDLRMPDMSGVELLRNLGDLKI--NIPSIVITGHGDVPMAV-EAMKAGAVDFIEKPF 106

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 69.1 bits (170), Expect = 1e-15
 Identities = 34/121 (28%), Positives = 63/121 (52%), Gaps = 13/121 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L  DD   +R +++RLL+ + ++V  V+   + L+ +   + D            +I 
Sbjct: 16  RMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEEDYD-----------AVIV 64

Query: 70  DYCMPGMTGYDLLRKI--KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           D  MPGM G D+L+++   +++ ++  PVV++S++  P  I  C + GA  F  KPV  A
Sbjct: 65  DLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAA 124

Query: 128 D 128
            
Sbjct: 125 K 125

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 68.4 bits (168), Expect = 2e-15
 Identities = 25/126 (19%), Positives = 49/126 (38%), Gaps = 13/126 (10%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +     + ++ VD  +         L    + +    +  +A+    +  +       
Sbjct: 1   MSLAEGKWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVP---VAVKT------ 51

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSEN-IPSRINRCLEEGAEEF 119
               +LIIT+  MP ++G DL   +K++     IPV+ +S          + L+ G  +F
Sbjct: 52  --HPHLIITEANMPKISGMDLFNSLKKNPQTASIPVIALSGRATAKEEA-QLLDMGFIDF 108

Query: 120 FLKPVQ 125
             KPV 
Sbjct: 109 IAKPVN 114

>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 = 67.9 bits (167), Expect = 3e-15
 Identities = 30/118 (25%), Positives = 54/118 (45%), Gaps = 11/118 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D+ ++ KL   LL+   Y+      G  AL              +  + +LI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIA-----------RENKPDLILMD 52

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
             +P ++G ++ + +KE   L  IPVV +++  +     R  E G E +  KP+ +  
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVH 110

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score = 67.2 bits (165), Expect = 7e-15
 Identities = 29/123 (23%), Positives = 51/123 (41%), Gaps = 21/123 (17%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD       ++  L+   + V        A+    +L E+         V +II D
Sbjct: 4   ILLVDDEPHSLAAMKLALE-DDFDVLTAQGAEAAIA---ILEEEW--------VQVIICD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMS----SENIPSRINRCLEEGAEEFFLKPVQL 126
             MPG TG D L +++E     +   +I++    S ++ + IN   + G  +F  KP   
Sbjct: 52  QRMPGRTGVDFLTEVRERWP--ETVRIIITGYTDSASMMAAIN---DAGIHQFLTKPWHP 106

Query: 127 ADV 129
             +
Sbjct: 107 EQL 109

>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 = 68.5 bits (168), Expect = 8e-15
 Identities = 30/120 (25%), Positives = 56/120 (46%), Gaps = 15/120 (12%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           ++  V  VDD +  R+ +  LL+++ ++V   D  +  LE                    
Sbjct: 3   AKPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHG-----------C 51

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS-SENIPSRINRCLEEGAEEFFLKPVQ 125
           ++ D  MPGM+G +L  ++   +    IP+V ++   +IP  + R ++ GA EF  KP +
Sbjct: 52  LVLDMRMPGMSGIELQEQLTAISD--GIPIVFITAHGDIPMTV-RAMKAGAIEFLPKPFE 108

>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 = 66.7 bits (163), Expect = 1e-14
 Identities = 12/129 (9%), Positives = 38/129 (29%), Gaps = 17/129 (13%)

Query: 2   GMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQV 61
           GM+      +L   +       + RL+  +         G  A         D       
Sbjct: 19  GMIN-----ILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLD------- 66

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFF 120
              ++++ D           + K+        +  +++++  +  + +   +  G  +  
Sbjct: 67  -AFDILMIDGAALDTAELAAIEKLSRLHP--GLTCLLVTTDASSQTLL-DAMRAGVRDVL 122

Query: 121 LKPVQLADV 129
             P++   +
Sbjct: 123 RWPLEPRAL 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 = 66.1 bits (162), Expect = 2e-14
 Identities = 23/115 (20%), Positives = 45/115 (39%), Gaps = 12/115 (10%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           VL +D    +R+  + +      Y    V++  K                 +  + LII 
Sbjct: 7   VLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIF----------KDLDSITLIIM 56

Query: 70  DYCMP-GMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
           D   P    G ++L  I+ ++   + PV+I +  + P   +  L+    ++ LKP
Sbjct: 57  DIAFPVEKEGLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKP 111

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 65.7 bits (161), Expect = 2e-14
 Identities = 27/114 (23%), Positives = 46/114 (40%), Gaps = 13/114 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V++S   R+ +  LL    +  T    G   L+                  +++I+D
Sbjct: 7   VLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQA-----------LAHPPDVLISD 54

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             M GM GY L    +   +LK IPV+ +S     +      +   + + +KPV
Sbjct: 55  VNMDGMDGYALCGHFRSEPTLKHIPVIFVSGYAPRTEG-PADQPVPDAYLVKPV 107

>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 = 66.7 bits (163), Expect = 6e-14
 Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 13/119 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD  I+R+L+   L +  YQ    + G  AL  L   + D           ++++
Sbjct: 131 MILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHID-----------IVLS 179

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  MP M GY L ++I++      +PV+ +++  +     RCLE G +    KPV L  
Sbjct: 180 DVNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDV 236

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score = 63.4 bits (155), Expect = 2e-13
 Identities = 21/100 (21%), Positives = 46/100 (46%), Gaps = 17/100 (17%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +       +L VDD       ++R L    ++VT  +SG +AL     + + +     
Sbjct: 1   MSL----NERILLVDDDYSLLNTLKRNLS-FDFEVTTCESGPEALA---CIKKSDP---- 48

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
               ++I+ D  MPGM G ++++K +  +   +   ++++
Sbjct: 49  ---FSVIMVDMRMPGMEGTEVIQKARLISP--NSVYLMLT 83

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 63.0 bits (154), Expect = 2e-13
 Identities = 23/127 (18%), Positives = 45/127 (35%), Gaps = 21/127 (16%)

Query: 3   MVTDSQFHVLAVDD--SIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M  +    +  VD       R  + +LL      +    S      F+     D      
Sbjct: 1   MSLNHHPIIYLVDHQKDA--RAALSKLLSPLDVTIQCFASAE---SFMRQQISD------ 49

Query: 61  VIQVNLIITDYCMPGM--TGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAE 117
                 +I +  +     +G +LL  + +      +P ++M+S  +IP+ + R +   A 
Sbjct: 50  --DAIGMIIEAHLEDKKDSGIELLETLVKRGF--HLPTIVMASSSDIPTAV-RAMRASAA 104

Query: 118 EFFLKPV 124
           +F  KP 
Sbjct: 105 DFIEKPF 111

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus} Length = 119

 Score = 62.5 bits (153), Expect = 2e-13
 Identities = 22/114 (19%), Positives = 47/114 (41%), Gaps = 14/114 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           H+L +++      ++  +L  + ++V  +  G+ AL+ L LL              +I+ 
Sbjct: 3   HILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDLLQPI-----------VILM 51

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
            +  P  +   LL+ ++E  +    P+V+   E     ++  L   A     KP
Sbjct: 52  AWPPPDQSCLLLLQHLREHQADPHPPLVLFLGE---PPVDPLLTAQASAILSKP 102

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score = 62.6 bits (153), Expect = 3e-13
 Identities = 28/122 (22%), Positives = 46/122 (37%), Gaps = 19/122 (15%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S   V  VDD  +   L++ +++     V A     +A   L L  +D           +
Sbjct: 2   SLNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQ-HPRAFLTLSLNKQD-----------I 49

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS---SENIPSRINR--CLEEGAEEFFL 121
           II D  MP M G +++R + E  S     ++++S   S  + S               F 
Sbjct: 50  IILDLMMPDMDGIEVIRHLAEHKS--PASLILISGYDSGVLHSAETLALSCGLNVINTFT 107

Query: 122 KP 123
           KP
Sbjct: 108 KP 109

>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 = 62.2 bits (152), Expect = 5e-13
 Identities = 31/121 (25%), Positives = 53/121 (43%), Gaps = 15/121 (12%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S + +L VDDS +   +   +L+   Y+     SG + LE    LN            +L
Sbjct: 2   SLYTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLE---ALNAT--------PPDL 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS--SENIPSRINRCLEEGAEEFFLKPV 124
           ++ D  M  M G++ L +IK   + +DIPV++++      P           E++ LKP 
Sbjct: 51  VLLDIMMEPMDGWETLERIKTDPATRDIPVLMLTAKPL-TPEEA-NEYGSYIEDYILKPT 108

Query: 125 Q 125
            
Sbjct: 109 T 109

>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 = 63.1 bits (154), Expect = 6e-13
 Identities = 20/124 (16%), Positives = 52/124 (41%), Gaps = 15/124 (12%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S  + L +DD+ +    + R L+   Y V    + ++AL+  G    +            
Sbjct: 6   SDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAEKFE-----------F 54

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFFLKPVQ 125
           I     +   +G  L+  + +     D  +++++   +I + + + +++GA+ +  KP  
Sbjct: 55  ITVXLHLGNDSGLSLIAPLCDLQP--DARILVLTGYASIATAV-QAVKDGADNYLAKPAN 111

Query: 126 LADV 129
           +  +
Sbjct: 112 VESI 115

>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 = 61.4 bits (150), Expect = 7e-13
 Identities = 29/121 (23%), Positives = 59/121 (48%), Gaps = 16/121 (13%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           VL VDD+   R +++ ++  + Y+V   A + G +A+E    L  D           ++ 
Sbjct: 5   VLIVDDAAFMRMMLKDIITKAGYEVAGEATN-GREAVEKYKELKPD-----------IVT 52

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
            D  MP M G D +++I +     +  +++ S+    + +   ++ GA++F +KP Q + 
Sbjct: 53  MDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSR 110

Query: 129 V 129
           V
Sbjct: 111 V 111

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 61.8 bits (151), Expect = 8e-13
 Identities = 29/122 (23%), Positives = 51/122 (41%), Gaps = 15/122 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL +D++ + R + + LL     +VT V S  + L  +              +  ++  
Sbjct: 9   KVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH------------EHKVVFM 56

Query: 70  DYCMPGMTGYDLLRKIKE---SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           D CMPG+  Y +  +I E       +   +V +S     S   +C+  G +   LKPV L
Sbjct: 57  DVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSL 116

Query: 127 AD 128
            +
Sbjct: 117 DN 118

>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 = 64.5 bits (158), Expect = 8e-13
 Identities = 36/119 (30%), Positives = 57/119 (47%), Gaps = 22/119 (18%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           VL+VDDS + R+++  ++   S  ++  TA D    A + +   N D           ++
Sbjct: 6   VLSVDDSALMRQIMTEIINSHSDMEMVATAPD-PLVARDLIKKFNPD-----------VL 53

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS---ENIPSRINRCLEEGAEEFFLKP 123
             D  MP M G D L K+     L+ +PVV++SS   +     + R LE GA +F  KP
Sbjct: 54  TLDVEMPRMDGLDFLEKLMR---LRPMPVVMVSSLTGKGSEVTL-RALELGAIDFVTKP 108

>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 = 61.5 bits (150), Expect = 1e-12
 Identities = 31/142 (21%), Positives = 59/142 (41%), Gaps = 15/142 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            VL V+D+  D  LI R+L       Q+  VD+G KAL  +           Q  + +LI
Sbjct: 7   RVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQV-----------QQAKYDLI 55

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           I D  +P   G++++  +++  + +  P+VI++      R  +C+  GA     K     
Sbjct: 56  ILDIGLPIANGFEVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNV 115

Query: 128 D--VNKLKPHLMKGISKEIKEP 147
                ++       ++    + 
Sbjct: 116 TDFYGRIYAIFSYWLTVNHCQE 137

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae} Length = 132

 Score = 61.1 bits (149), Expect = 1e-12
 Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 13/92 (14%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L  DD  I     E  L  + + VTAV SG KA+E   +L            ++ ++T
Sbjct: 7   TILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIE---MLKSGA-------AIDGVVT 56

Query: 70  DYCMP-GMTGYDLLRKIKESASLKDIPVVIMS 100
           D        G+ + R  +E     ++P+V +S
Sbjct: 57  DIRFCQPPDGWQVARVAREIDP--NMPIVYIS 86

>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 = 60.7 bits (148), Expect = 2e-12
 Identities = 29/118 (24%), Positives = 54/118 (45%), Gaps = 14/118 (11%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S   +L +D     R  ++  L  S Y V    +  +ALE    ++            +L
Sbjct: 2   SLKKILIIDQQDFSRIELKNFLD-SEYLVIESKNEKEALE---QIDHH--------HPDL 49

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKP 123
           +I D  + G    +L  K+K S  LK++P++++ S E+  + +   L  GA+++  KP
Sbjct: 50  VILDMDIIGENSPNLCLKLKRSKGLKNVPLILLFSSEHKEAIV-NGLHSGADDYLTKP 106

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 60.7 bits (148), Expect = 2e-12
 Identities = 28/123 (22%), Positives = 52/123 (42%), Gaps = 20/123 (16%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S   ++ VDD+      ++ LLK    +V  + S         +L E+           +
Sbjct: 2   SLGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLST---VLREE--------NPEV 50

Query: 67  IITDYCMP-----GMTGYDLLRKIKESASLKDIPVVIMSSE-NIPSRINRCLEEGAEEFF 120
           ++ D         G  G   L +IK     +D+PVV+ ++  +I   +   ++EGA +F 
Sbjct: 51  VLLDMNFTSGINNGNEGLFWLHEIKRQY--RDLPVVLFTAYADIDLAVR-GIKEGASDFV 107

Query: 121 LKP 123
           +KP
Sbjct: 108 VKP 110

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score = 60.3 bits (147), Expect = 3e-12
 Identities = 26/126 (20%), Positives = 48/126 (38%), Gaps = 17/126 (13%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +       +L V+DS    K I  +L    Y V    +G  A+E +          S 
Sbjct: 1   MSL---KDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKV----------SG 47

Query: 61  VIQVNLIITDYCMPG-MTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF 119
               +LI+ D  +   M G      I++     ++PVV +++   P+ + +     A  +
Sbjct: 48  GWYPDLILMDIELGEGMDGVQTALAIQQI---SELPVVFLTAHTEPAVVEKIRSVTAYGY 104

Query: 120 FLKPVQ 125
            +K   
Sbjct: 105 VMKSAT 110

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 59.5 bits (145), Expect = 6e-12
 Identities = 27/125 (21%), Positives = 62/125 (49%), Gaps = 16/125 (12%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +  + +  V+ VDD    R  ++ +L  + + + + DSG + ++   LL +       
Sbjct: 1   MSL-AEHKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCID---LLKKG------ 50

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS--SENIPSRINRCLEEGAEE 118
                +++ D  MPGM G+D +R I +++  + I +V+++  +    +++   L+E   +
Sbjct: 51  --FSGVVLLDIMMPGMDGWDTIRAILDNSLEQGIAIVMLTAKNAPD-AKM-IGLQEYVVD 106

Query: 119 FFLKP 123
           +  KP
Sbjct: 107 YITKP 111

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 59.2 bits (144), Expect = 1e-11
 Identities = 33/119 (27%), Positives = 50/119 (42%), Gaps = 22/119 (18%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           VL VDDS   R +++ ++      +V   A D G +A+E    L  D           +I
Sbjct: 28  VLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKD-GLEAVEKAIELKPD-----------VI 75

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS---ENIPSRINRCLEEGAEEFFLKP 123
             D  MP + G + L+ I +        V+++SS   E     I   L  GA +F  KP
Sbjct: 76  TMDIEMPNLNGIEALKLIMK---KAPTRVIMVSSLTEEGAAITI-EALRNGAVDFITKP 130

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 57.9 bits (141), Expect = 2e-11
 Identities = 25/152 (16%), Positives = 54/152 (35%), Gaps = 20/152 (13%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           +L VDD  + R  +   +   +     +   D G  A++                  N++
Sbjct: 5   ILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIA-----------LKHPPNVL 53

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           +TD  MP M G +L+  I +     D  V+ MS  +    +   ++  A  +  KP+  +
Sbjct: 54  LTDVRMPRMDGIELVDNILK--LYPDCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPS 111

Query: 128 DVNKLKPHLMKGISKEIKEPNNINNKRKGLEE 159
           ++       +K   + + +     +       
Sbjct: 112 EIMD----ALKQSIQTVLQHQAQQDSEGHHHH 139

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 57.2 bits (139), Expect = 3e-11
 Identities = 33/115 (28%), Positives = 48/115 (41%), Gaps = 15/115 (13%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+D  + R L++    +          G  ALE LG    D           L+I 
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPD-----------LMIC 57

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKP 123
           D  MP M G  LL  I+        PV+++S+ EN+     + L  G E+  LKP
Sbjct: 58  DIAMPRMNGLKLLEHIRNRGD--QTPVLVISATENMADIA-KALRLGVEDVLLKP 109

>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 = 57.1 bits (138), Expect = 4e-11
 Identities = 24/123 (19%), Positives = 47/123 (38%), Gaps = 13/123 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
           S   +L VDD        +++L+   Y+V    +  + L  +           +    NL
Sbjct: 2   SLKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKI-----------ENEFFNL 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
            +    +P M G +LL K  +      +  ++++           L  GA+ + +KPV  
Sbjct: 51  ALFXIKLPDMEGTELLEKAHKLRP--GMKKIMVTGYASLENSVFSLNAGADAYIMKPVNP 108

Query: 127 ADV 129
            D+
Sbjct: 109 RDL 111

>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 = 56.7 bits (137), Expect = 5e-11
 Identities = 36/114 (31%), Positives = 58/114 (50%), Gaps = 11/114 (9%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDDS + RK++   LK   Y+V   ++G  ALE    L+E           +LI+ 
Sbjct: 4   KVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALE---KLSEF--------TPDLIVL 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              MP M G+ +L+K++E    K IPV++++++      +  L  GA +   KP
Sbjct: 53  XIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKP 106

>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 = 57.2 bits (138), Expect = 5e-11
 Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 14/121 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           VL VDDS+   K + ++  +  + +  TA D G +A+        +         ++++ 
Sbjct: 39  VLIVDDSVFTVKQLTQIFTSEGFNIIDTAAD-GEEAVIKYKNHYPN---------IDIVT 88

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
               MP M G   L  I E    K+  V+++S+      +  CL +GA+ F +KP+  A 
Sbjct: 89  LXITMPKMDGITCLSNIMEFD--KNARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAK 146

Query: 129 V 129
           V
Sbjct: 147 V 147

>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 = 56.8 bits (138), Expect = 6e-11
 Identities = 32/119 (26%), Positives = 49/119 (41%), Gaps = 21/119 (17%)

Query: 11  VLAVDDSIIDRKLIERLL-KTSSYQV--TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
           V+ VDD+ + R  I   +     ++V   A + G +AL+ L          +    V+LI
Sbjct: 16  VMIVDDAAMMRLYIASFIKTLPDFKVVAQAAN-GQEALDKL----------AAQPNVDLI 64

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS---ENIPSRINRCLEEGAEEFFLKP 123
           + D  MP M G + LR  K         + ++SS      P    R  E GA+    KP
Sbjct: 65  LLDIEMPVMDGMEFLRHAKL---KTRAKICMLSSVAVSGSPHAA-RARELGADGVVAKP 119

>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 = 57.0 bits (138), Expect = 1e-10
 Identities = 27/120 (22%), Positives = 52/120 (43%), Gaps = 15/120 (12%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           VL  +D  + R  +  +L+   Y++      G +A+E   L   D           L+I 
Sbjct: 16  VLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPD-----------LVIM 64

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MP   G D   +I      +  P+V++++ +    + R  + GA  + +KP  ++D+
Sbjct: 65  DVKMPRRDGIDAASEIASK---RIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDL 121

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 55.4 bits (134), Expect = 2e-10
 Identities = 13/122 (10%), Positives = 37/122 (30%), Gaps = 14/122 (11%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSS-YQVTAVDSGNKALEFLGLLNEDEQTNSQV 61
           +    +  V         ++ +   L   + Y V   ++ +                   
Sbjct: 9   VTPTKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADTRPG------- 61

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
               ++I D     + G   + + +   +   +P++ +S E    +    +   A ++  
Sbjct: 62  ----IVILDLGGGDLLGKPGIVEARALWA--TVPLIAVSDELTSEQTRVLVRMNASDWLH 115

Query: 122 KP 123
           KP
Sbjct: 116 KP 117

>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 = 57.0 bits (137), Expect = 2e-10
 Identities = 38/173 (21%), Positives = 71/173 (41%), Gaps = 14/173 (8%)

Query: 5   TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
           T  +  VL VDD     +L+   LK   ++V    +G +AL+       D          
Sbjct: 20  TTPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETRPD---------- 69

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
             +I D  MPGM G+ +LR+++      D P + +++ +        L  G +++  KP 
Sbjct: 70  -AVILDVXMPGMDGFGVLRRLRADGI--DAPALFLTARDSLQDKIAGLTLGGDDYVTKPF 126

Query: 125 QLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDIN 177
            L +V      +++   K  KEP N+      + E+D       +    + ++
Sbjct: 127 SLEEVVARLRVILRRAGKGNKEPRNVRLTFADI-ELDEETHEVWKAGQPVSLS 178

>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 = 55.9 bits (135), Expect = 6e-10
 Identities = 26/122 (21%), Positives = 48/122 (39%), Gaps = 18/122 (14%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
            VL ++D  +    IE L++   + VT +  +  +ALE +                 L++
Sbjct: 162 EVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRTPG-----------LVL 210

Query: 69  TDYCMP-GMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
            D  +  G +G D ++ I       D+PV+ +++   P R+             KP Q  
Sbjct: 211 ADIQLADGSSGIDAVKDILGR---MDVPVIFITAF--PERLLTGERPEPTFLITKPFQPE 265

Query: 128 DV 129
            V
Sbjct: 266 TV 267

>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 = 53.6 bits (130), Expect = 6e-10
 Identities = 19/93 (20%), Positives = 40/93 (43%), Gaps = 15/93 (16%)

Query: 7  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
             H+L V+D ++ R  ++ + +   Y V     G +  + L     +         +NL
Sbjct: 2  QTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL----SEY-------DINL 50

Query: 67 IITDYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          +I D  +PG  G  L R+++E     ++  ++ 
Sbjct: 51 VIMDINLPGKNGLLLARELREQ---ANVA-LMF 79

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score = 54.1 bits (131), Expect = 6e-10
 Identities = 24/132 (18%), Positives = 49/132 (37%), Gaps = 17/132 (12%)

Query: 1   MGMV-TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTN 58
           M +  +D    VL V+D  +    +   L++  Y V  V D+G +A+     L  D    
Sbjct: 1   MSLTASDDLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLRPD---- 56

Query: 59  SQVIQVNLIITDYCMPG-MTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAE 117
                  + + D  + G + G +   ++       ++P++ ++S        R       
Sbjct: 57  -------IALVDIMLCGALDGVETAARLAAG---CNLPIIFITSSQDVETFQRAKRVNPF 106

Query: 118 EFFLKPVQLADV 129
            +  KPV    +
Sbjct: 107 GYLAKPVAADTL 118

>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 = 53.7 bits (130), Expect = 7e-10
 Identities = 24/98 (24%), Positives = 49/98 (50%), Gaps = 15/98 (15%)

Query: 2  GMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQV 61
          GM       +L VDD     +++E +L+ + Y+V    SG +AL+    + ++       
Sbjct: 1  GM---KPHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQ---QIYKN------- 47

Query: 62 IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
             + +I D  +PG+ GY L +++++    K +P ++M
Sbjct: 48 -LPDALICDVLLPGIDGYTLCKRVRQHPLTKTLP-ILM 83

>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 = 52.9 bits (128), Expect = 1e-09
 Identities = 27/123 (21%), Positives = 56/123 (45%), Gaps = 8/123 (6%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVN 65
           +   +L V+D+ +++++I+R+L     + +     G +A + +      ++  S+    N
Sbjct: 1   TSVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKV------KELTSKGENYN 54

Query: 66  LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ 125
           +I  D  MP + G    + I+        P+V +++    S I  CLE G   F  KP++
Sbjct: 55  MIFMDVQMPKVDGLLSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIK 113

Query: 126 LAD 128
              
Sbjct: 114 RPK 116

>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 = 52.9 bits (128), Expect = 1e-09
 Identities = 24/115 (20%), Positives = 51/115 (44%), Gaps = 13/115 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L V+        +   L+   + V     G  ++E    +  D        + +L++ 
Sbjct: 7   KILIVESDTALSATLRSALEGRGFTVDETTDGKGSVE---QIRRD--------RPDLVVL 55

Query: 70  DYCM-PGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP 123
              +  G  GY +  K+K+   LK++P+VI+ + +  ++  R L+  A+E+  KP
Sbjct: 56  AVDLSAGQNGYLICGKLKKDDDLKNVPIVIIGNPDGFAQH-RKLKAHADEYVAKP 109

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 52.9 bits (128), Expect = 1e-09
 Identities = 28/122 (22%), Positives = 52/122 (42%), Gaps = 14/122 (11%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           M       +L VDD       IER+LK   +QV    +G  A   L              
Sbjct: 1   MSLKQSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTFEPA-------- 52

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFL 121
              ++  D  MP + G D++R ++++  + + P +++ S  +      + + EGA+++  
Sbjct: 53  ---IMTLDLSMPKLDGLDVIRSLRQN-KVANQPKILVVSGLDKAKLQ-QAVTEGADDYLE 107

Query: 122 KP 123
           KP
Sbjct: 108 KP 109

>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 = 54.0 bits (130), Expect = 2e-09
 Identities = 40/127 (31%), Positives = 61/127 (48%), Gaps = 7/127 (5%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFL--GLLNEDEQTNSQVIQVNL 66
            VL VDD+ I RK+    LK     +V   DSG +AL  +  GL   +EQ +   +  + 
Sbjct: 63  RVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDY 122

Query: 67  IITDYCMPGMTGYDLLRKI--KESASLKDIPVVIMSSENIPS-RINRCLEEGAEEFFLKP 123
           I  D  MP M GY+  R+I   E +     P++ +S  +  S      ++ G + F  K 
Sbjct: 123 IFMDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKS 182

Query: 124 V-QLADV 129
           + QLA+V
Sbjct: 183 LNQLANV 189

>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 = 52.2 bits (126), Expect = 3e-09
 Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 12/93 (12%)

Query: 8   QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            F V  V+D      LI+  L     +VT   SG+   +            SQ+   +L+
Sbjct: 15  PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHR----------SQLSTCDLL 64

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
           I    +  ++ + LL  +KE    K   V+I++
Sbjct: 65  IVSDQLVDLSIFSLLDIVKEQT--KQPSVLILT 95

>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 = 50.9 bits (123), Expect = 5e-09
 Identities = 20/90 (22%), Positives = 44/90 (48%), Gaps = 12/90 (13%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L V+D    R+++  +L+ + +Q    +  + A+     LNE           +LI+ 
Sbjct: 4  RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVN---QLNEP--------WPDLILL 52

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
           + +PG +G   ++ ++  +  +DIP V+M
Sbjct: 53 AWMLPGGSGIQFIKHLRRESMTRDIP-VVM 81

>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 = 50.1 bits (121), Expect = 1e-08
 Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 15/90 (16%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
          H++ V+D  + +  ++       Y V+   SG    E +           Q   V+LI+ 
Sbjct: 4  HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM-----------QNQSVDLILL 52

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          D  +P   G  L R ++E      +  +I+
Sbjct: 53 DINLPDENGLMLTRALRER---STVG-IIL 78

>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 = 49.3 bits (119), Expect = 2e-08
 Identities = 23/90 (25%), Positives = 44/90 (48%), Gaps = 15/90 (16%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L VDD      ++E  L+   Y+V     GN+A+E +           + +Q +LI+ 
Sbjct: 4  KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMV-----------EELQPDLILL 52

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          D  +P   G ++ R++++     D+P +IM
Sbjct: 53 DIMLPNKDGVEVCREVRKK---YDMP-IIM 78

>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 = 49.3 bits (119), Expect = 2e-08
 Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 15/90 (16%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L VDD      +I+  +    Y+V    +G +ALE             +  Q ++II 
Sbjct: 3  KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQF-----------EAEQPDIIIL 51

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          D  +P + G ++ + I+++     +P ++M
Sbjct: 52 DLMLPEIDGLEVAKTIRKT---SSVP-ILM 77

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 49.0 bits (118), Expect = 3e-08
 Identities = 23/90 (25%), Positives = 44/90 (48%), Gaps = 14/90 (15%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L VDD    R+L++  L+   Y++   ++G +AL+     N D           L+I 
Sbjct: 3  RILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSGNYD-----------LVIL 51

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          D  MPG++G ++  +I++     D   +I+
Sbjct: 52 DIEMPGISGLEVAGEIRKKKK--DAK-IIL 78

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 50.8 bits (122), Expect = 5e-08
 Identities = 23/96 (23%), Positives = 35/96 (36%), Gaps = 14/96 (14%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVN 65
           +  +VL ++D    R +    LK      +     G    E + +L            V+
Sbjct: 2   NDLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGK---EAVAILESCGH-------VD 51

Query: 66  LIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS 101
           + I D  M GM G   LR    S     +  VI+SS
Sbjct: 52  IAICDLQMSGMDGLAFLRHASLSGK---VHSVILSS 84

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 48.6 bits (117), Expect = 5e-08
 Identities = 15/100 (15%), Positives = 38/100 (38%), Gaps = 18/100 (18%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQ 60
           M +    Q  +L +D    + + ++  L+     +    +  +A+     +  +      
Sbjct: 1   MSL----QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIG---KIFSN------ 47

Query: 61  VIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
             + +LI  +  +    G+ L +KI+        P+V M+
Sbjct: 48  --KYDLIFLEIILSDGDGWTLCKKIRNV---TTCPIVYMT 82

>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 = 49.5 bits (119), Expect = 9e-08
 Identities = 22/97 (22%), Positives = 43/97 (44%), Gaps = 16/97 (16%)

Query: 3  MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
          M T  Q  +L VDD     +++  +L+   +    +  G +AL     + E         
Sbjct: 1  MDTMRQ-RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALT---AVREL-------- 48

Query: 63 QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          + +L++ D  +PGM G D+ R ++       +P ++M
Sbjct: 49 RPDLVLLDLMLPGMNGIDVCRVLRAD---SGVP-IVM 81

>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 = 49.4 bits (119), Expect = 9e-08
 Identities = 19/91 (20%), Positives = 41/91 (45%), Gaps = 14/91 (15%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL V+D       +  LL+   ++ T V  G  AL      +            ++++ 
Sbjct: 6   SVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALA---EFDRA--------GADIVLL 54

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
           D  +PGM+G D+ ++++       +PV++++
Sbjct: 55  DLMLPGMSGTDVCKQLRAR---SSVPVIMVT 82

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 47.6 bits (114), Expect = 1e-07
 Identities = 21/93 (22%), Positives = 40/93 (43%), Gaps = 14/93 (15%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           VL  +D+ I R +  + L+  +  +T V +G +AL+       D           +II 
Sbjct: 12 SVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNRQFD-----------VIIM 60

Query: 70 DYCMPGMTGYD---LLRKIKESASLKDIPVVIM 99
          D  MP M G +    +R  + + + K   ++ +
Sbjct: 61 DIQMPVMDGLEAVSEIRNYERTHNTKRASIIAI 93

>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 = 46.7 bits (112), Expect = 2e-07
 Identities = 19/91 (20%), Positives = 38/91 (41%), Gaps = 14/91 (15%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +VL V+D    R+ +   L+    +V   ++  + L        D           LII 
Sbjct: 3   NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPD-----------LIIL 51

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
           D  +P   G + +R +++      +PV+++S
Sbjct: 52  DLGLPDGDGIEFIRDLRQW---SAVPVIVLS 79

>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 = 45.6 bits (109), Expect = 6e-07
 Identities = 19/90 (21%), Positives = 40/90 (44%), Gaps = 14/90 (15%)

Query: 10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L VDD      L++  L+ S Y V     G +AL+             +  + +LI+ 
Sbjct: 5  KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKA-----------ETEKPDLIVL 53

Query: 70 DYCMPGMTGYDLLRKIKESASLKDIPVVIM 99
          D  +P + G ++ +++++       P ++M
Sbjct: 54 DVMLPKLDGIEVCKQLRQQKL--MFP-ILM 80

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 45.7 bits (109), Expect = 7e-07
 Identities = 19/100 (19%), Positives = 41/100 (41%), Gaps = 16/100 (16%)

Query: 1  MGMVTDSQFHVLAVDDSIIDRKLIERLL-KTSSYQVTA-VDSGNKALEFLGLLNEDEQTN 58
            +++  +  V+ V+D  + ++ +  L+   S  ++    D G   L+FL          
Sbjct: 2  SLVMSGEKMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFL---------- 51

Query: 59 SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVI 98
           Q  +V+ I  D  +P + G  L + I +       P ++
Sbjct: 52 -QHNKVDAIFLDINIPSLDGVLLAQNISQ---FAHKPFIV 87

>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 = 44.7 bits (107), Expect = 1e-06
 Identities = 23/119 (19%), Positives = 55/119 (46%), Gaps = 15/119 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL V+D+ + R  ++  ++ + +QV   +   +A  +L     D           + I 
Sbjct: 2   RVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPD-----------IAIV 50

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKPVQLA 127
           D  +P   G  L+R+ + +     +P++++++ E+   ++   L  GA+++  KP  + 
Sbjct: 51  DLGLPDEDGLSLIRRWRSNDV--SLPILVLTARESWQDKV-EVLSAGADDYVTKPFHIE 106

>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 = 1e-06
 Identities = 32/124 (25%), Positives = 49/124 (39%), Gaps = 19/124 (15%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTN 58
           M +       VL VDD  + R   + LL+ +    +V   ++ + AL FL          
Sbjct: 1   MSLTV-----VLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFL---------- 45

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
                V+LI+ D  +P     D L ++K         V ++S E     I   LE GA+ 
Sbjct: 46  EADNTVDLILLDVNLPDAEAIDGLVRLK--RFDPSNAVALISGETDHELIRAALEAGADG 103

Query: 119 FFLK 122
           F  K
Sbjct: 104 FIPK 107

>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 = 45.5 bits (109), Expect = 2e-06
 Identities = 24/116 (20%), Positives = 49/116 (42%), Gaps = 20/116 (17%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +  VDD     K +   L+      T +  G   L                   ++++ 
Sbjct: 4   KIAVVDDDKNILKKVSEKLQQLGRVKTFLT-GEDFLN-------------DEEAFHVVVL 49

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMS--SENIPSRINRCLEEGAEEFFLKP 123
           D  +P  +GY++ R IKE+    +  V++++  S++  S + +  E GA+++  KP
Sbjct: 50  DVMLPDYSGYEICRMIKETRP--ETWVILLTLLSDDE-SVL-KGFEAGADDYVTKP 101

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 44.5 bits (106), Expect = 5e-06
 Identities = 23/123 (18%), Positives = 57/123 (46%), Gaps = 16/123 (13%)

Query: 2   GMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQV 61
            M   ++  +L ++D      ++   L  + Y V   DS    L      + D       
Sbjct: 31  QMGRMNEQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKAREDHPD------- 83

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFF 120
               LI+ D  +P   G D++++++++     +P++++++ + +  ++ R L  GA+++ 
Sbjct: 84  ----LILLDLGLPDFDGGDVVQRLRKN---SALPIIVLTARDTVEEKV-RLLGLGADDYL 135

Query: 121 LKP 123
           +KP
Sbjct: 136 IKP 138

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 44.3 bits (104), Expect = 5e-06
 Identities = 14/161 (8%), Positives = 41/161 (25%), Gaps = 18/161 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL ++        +   L      V       +A +               + V+++ T
Sbjct: 14  QVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD---------------VPVDVVFT 58

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
                             +       +V +     P+ +++ +E        +P+    V
Sbjct: 59  SIFQNRHHDEIAALLAAGTP---RTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRV 115

Query: 130 NKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRL 170
             +     +   +  K        +  +      ++ +  L
Sbjct: 116 LPVLVSARRISEEMAKLKQKTEQLQDRIAGQARINQAKVLL 156

>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 = 43.2 bits (103), Expect = 5e-06
 Identities = 27/133 (20%), Positives = 63/133 (47%), Gaps = 23/133 (17%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKLIERLLKT-SSYQVTA-VDSGNKALEFLGLLNEDEQTN 58
           M + +     ++  +D  + R+ + +L+K    +++ A  D+G  A++ +   N +    
Sbjct: 1   MSLTS-----LIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEEYNPN---- 51

Query: 59  SQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEE 118
                  ++I D  MPGMTG ++L +I++     +I V+I+++   P    + +    + 
Sbjct: 52  -------VVILDIEMPGMTGLEVLAEIRKKHL--NIKVIIVTTFKRPGYFEKAVVNDVDA 102

Query: 119 FFLK---PVQLAD 128
           + LK     +L +
Sbjct: 103 YVLKERSIEELVE 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 = 43.6 bits (104), Expect = 8e-06
 Identities = 30/115 (26%), Positives = 53/115 (46%), Gaps = 15/115 (13%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDD       +ER L+ S ++V     G +AL        D            I+ 
Sbjct: 9   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENRPD-----------AIVL 57

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKP 123
           D  MP + G  ++  ++   +  D+PV ++S+  ++  R+   LE GA+++ +KP
Sbjct: 58  DINMPVLDGVSVVTALRAMDN--DVPVCVLSARSSVDDRV-AGLEAGADDYLVKP 109

>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 = 43.4 bits (103), Expect = 9e-06
 Identities = 14/123 (11%), Positives = 34/123 (27%), Gaps = 15/123 (12%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTS---SYQVTAVDSGNKALEFLGLLNEDEQTNS 59
           M  +++ +V  + D  +  +L++  L++    + ++T               +       
Sbjct: 2   MKDENKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPESRSIQ----- 56

Query: 60  QVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF 119
                 +++ DY              K   S  D   VI++                   
Sbjct: 57  ------MLVIDYSRISDDVLTDYSSFKH-ISCPDAKEVIINCPQDIEHKLLFKWNNLAGV 109

Query: 120 FLK 122
           F  
Sbjct: 110 FYI 112

>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 = 42.0 bits (100), Expect = 3e-05
 Identities = 22/103 (21%), Positives = 42/103 (40%), Gaps = 25/103 (24%)

Query: 1   MGMVTDSQFHVLAVDDSIIDRKL---IERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQT 57
           M +       VL V+D   +R L   I   LK   + V     G + +        D   
Sbjct: 1   MNV------RVLVVED---ERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEPFD--- 48

Query: 58  NSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS 100
                   ++I D  +P   G+++L+ ++ES    + PV++++
Sbjct: 49  --------VVILDIMLPVHDGWEILKSMRESGV--NTPVLMLT 81

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12} Length = 134

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 24/113 (21%), Positives = 48/113 (42%), Gaps = 14/113 (12%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            + +DD  +    I  LL  +  ++ A +  G  A++ +  L  D           ++I 
Sbjct: 4   AIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPD-----------IVII 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
           D  +PG+ G  +L  +++        ++I+S++N       C + GA  F  K
Sbjct: 53  DVDIPGVNGIQVLETLRKRQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSK 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	187
3to5_A	134	CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, p	99.97
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.93
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.93
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	99.93
1yio_A	208	Response regulatory protein; transcription regulat	99.93
2lpm_A	123	Two-component response regulator; transcription re	99.93
3r0j_A	250	Possible two component system response transcript	99.93
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.92
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.92
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.92
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.91
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.91
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.91
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.91
3rqi_A	184	Response regulator protein; structural genomics, s	99.91
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.91
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.91
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.91
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.91
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.91
3c3w_A	225	Two component transcriptional regulatory protein;	99.91
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.91
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.91
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.91
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.91
3jte_A	143	Response regulator receiver protein; structural ge	99.9
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.9
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.9
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.9
3lua_A	140	Response regulator receiver protein; two-component	99.9
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.9
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.9
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.9
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.9
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.9
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.9
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.9
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.9
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.9
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.9
3f6c_A	134	Positive transcription regulator EVGA; structural	99.9
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.9
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.9
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.9
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.9
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.9
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.89
2zay_A	147	Response regulator receiver protein; structural ge	99.89
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.89
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.89
3nhm_A	133	Response regulator; protein structure initiative I	99.89
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.89
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.89
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.89
3luf_A	259	Two-component system response regulator/ggdef doma	99.89
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.89
2qxy_A	142	Response regulator; regulation of transcription, N	99.89
3c3m_A	138	Response regulator receiver protein; structural ge	99.89
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.89
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.89
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.89
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.89
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.88
3cz5_A	153	Two-component response regulator, LUXR family; str	99.88
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.88
2qr3_A	140	Two-component system response regulator; structura	99.88
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.88
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.88
3cg0_A	140	Response regulator receiver modulated diguanylate	99.88
3n53_A	140	Response regulator receiver modulated diguanylate;	99.88
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.88
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.88
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.88
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.88
4dad_A	146	Putative pilus assembly-related protein; response	99.88
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.88
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.88
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.87
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.87
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.87
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.87
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.87
3eq2_A	394	Probable two-component response regulator; adaptor	99.87
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.87
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.87
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.87
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.87
2rdm_A	132	Response regulator receiver protein; structural ge	99.87
3eqz_A	135	Response regulator; structural genomics, unknown f	99.86
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.86
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.86
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.86
2gkg_A	127	Response regulator homolog; social motility, recei	99.85
1w25_A	459	Stalked-cell differentiation controlling protein;	99.85
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.85
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.84
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.84
3c97_A	140	Signal transduction histidine kinase; structural g	99.84
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.84
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.83
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.83
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.83
3bre_A	358	Probable two-component response regulator; protein	99.82
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.81
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.8
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.75
3luf_A	259	Two-component system response regulator/ggdef doma	99.75
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.73
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	99.24
1w25_A	459	Stalked-cell differentiation controlling protein;	99.21
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	97.76
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	97.69
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	97.5
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	97.49
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	96.6
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	96.0
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	95.88
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	95.8
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	95.53
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	95.43
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	95.38
1xrs_B	262	D-lysine 5,6-aminomutase beta subunit; TIM barrel,	94.32
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	93.95
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	93.36
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	93.22
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	93.15
3kp1_A	763	D-ornithine aminomutase E component; 5 aminomutase	92.57
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	92.2
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.2
4e38_A	232	Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho	91.9
3lab_A	217	Putative KDPG (2-keto-3-deoxy-6-phosphogluconate)	91.68
2gek_A	406	Phosphatidylinositol mannosyltransferase (PIMA); G	91.07
2xci_A	374	KDO-transferase, 3-deoxy-D-manno-2-octulosonic aci	88.99
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	88.82
3bul_A	579	Methionine synthase; transferase, reactivation con	88.51
2bfw_A	200	GLGA glycogen synthase; glycosyltransferase family	87.96
3s83_A	259	Ggdef family protein; structural genomics, PSI-bio	87.64
3qz6_A	261	HPCH/HPAI aldolase; structural genomics, PSI-biolo	87.04
3qja_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	86.35
3l9w_A	413	Glutathione-regulated potassium-efflux system Pro	86.03
3fwz_A	140	Inner membrane protein YBAL; TRKA-N domain, E.coli	85.85
3q2i_A	354	Dehydrogenase; rossmann fold, UDP-sugar binding, N	85.85
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	85.57
2q5c_A	196	NTRC family transcriptional regulator; structural	85.13
3ioy_A	319	Short-chain dehydrogenase/reductase SDR; structura	84.88
2iw1_A	374	Lipopolysaccharide core biosynthesis protein RFAG;	84.88
1qv9_A	283	F420-dependent methylenetetrahydromethanopterin de	84.25
3ovp_A	228	Ribulose-phosphate 3-epimerase; iron binding, isom	83.95
3fro_A	439	GLGA glycogen synthase; glycosyltransferase family	83.88
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	83.83
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	83.81
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	83.66
3rht_A	259	(gatase1)-like protein; structural genomics, PSI-b	83.27
2iuy_A	342	Avigt4, glycosyltransferase; antibiotics, family G	83.04
2f9f_A	177	First mannosyl transferase (WBAZ-1); alpha-beta pr	82.05
3inp_A	246	D-ribulose-phosphate 3-epimerase; IDP02542, isomer	81.54
3c48_A	438	Predicted glycosyltransferases; retaining glycosyl	80.8
3e82_A	364	Putative oxidoreductase; NAD, GFO/IDH/MOCA family,	80.67
1rzu_A	485	Glycogen synthase 1; glycosyl-transferase, GT-B fo	80.52
2qzs_A	485	Glycogen synthase; glycosyl-transferase, GT-B fold	80.46
3m2t_A	359	Probable dehydrogenase; PSI, SGXNY, structural gen	80.41
3okp_A	394	GDP-mannose-dependent alpha-(1-6)-phosphatidylino	80.36
1xm3_A	264	Thiazole biosynthesis protein THIG; structural gen	80.34
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	80.17

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.97  E-value=1.4e-29  Score=177.24  Aligned_cols=124  Identities=27%  Similarity=0.531  Sum_probs=112.6

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      +..++|||||||++..+..++..|+..||. +..+.+|.+|++.+.           ..+||+|++|+.||++||+++++
T Consensus         9 m~k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~-----------~~~~DlillD~~MP~mdG~el~~   77 (134)
T 3to5_A            9 LNKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLK-----------KGDFDFVVTDWNMPGMQGIDLLK   77 (134)
T ss_dssp             CCTTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHH-----------HHCCSEEEEESCCSSSCHHHHHH
T ss_pred             hCCCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHH-----------hCCCCEEEEcCCCCCCCHHHHHH
Confidence            456789999999999999999999999986 567999999999994           44577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .||+....+++|||++|+..+.+...++++.||++|+.|||+.++|...+++++++
T Consensus        78 ~ir~~~~~~~ipvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~R  133 (134)
T 3to5_A           78 NIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIFER  133 (134)
T ss_dssp             HHHHSTTTTTCCEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHCC-
T ss_pred             HHHhCCCCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            99987655689999999999999999999999999999999999999999988753

>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=99.93  E-value=1e-25  Score=168.74  Aligned_cols=167  Identities=22%  Similarity=0.350  Sum_probs=134.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCC-ceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSS-YQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~-~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .+++|||+||++..+..+...|+..+ +.+ ..+.++.++++.+..           ..||+|++|+.+|+++|+++++.
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~~-----------~~~dlvllD~~lp~~~g~~~~~~   72 (215)
T 1a04_A            4 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-----------LDPDLILLDLNMPGMNGLETLDK   72 (215)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEEETTSTTSCHHHHHHH
T ss_pred             CceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHh-----------cCCCEEEEeCCCCCCcHHHHHHH
Confidence            34799999999999999999998764 877 578999999999843           34679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccc--ccc-ccccccc
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNIN--NKR-KGLEEID  161 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~  161 (187)
                      +++..+  .+|||++|+..+.+....+++.|+++|+.||++.++|..+++.+..+............  ... .......
T Consensus        73 lr~~~~--~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (215)
T 1a04_A           73 LREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTER  150 (215)
T ss_dssp             HHHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHSCCCCCTTTHHHHHHHC-------CC
T ss_pred             HHHhCC--CCcEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHcCCeecCHHHHHHHHHHhcccccCCCc
Confidence            999866  89999999999999999999999999999999999999999999987543221110000  000 0000112


Q ss_pred             cchhhhhhcccccccCCCCCCCccC
Q 046192          162 SADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       162 ~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ....++.+|.+++.++.+|.|++||
T Consensus       151 ~~~~Lt~rE~~vl~~l~~g~s~~~I  175 (215)
T 1a04_A          151 DVNQLTPRERDILKLIAQGLPNKMI  175 (215)
T ss_dssp             CGGGSCHHHHHHHHHHHTTCCHHHH
T ss_pred             cccCCCHHHHHHHHHHHcCCCHHHH
Confidence            2346899999999999999999886

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.93  E-value=3.8e-26  Score=175.34  Aligned_cols=166  Identities=16%  Similarity=0.267  Sum_probs=134.6

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      .+++||||||++..+..+...|+..||.|..+.++.++++.+..           ..||+||+|+.+|+++|+++++.|+
T Consensus        36 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-----------~~~DlvllD~~lp~~~G~~l~~~lr  104 (249)
T 3q9s_A           36 NEQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKARE-----------DHPDLILLDLGLPDFDGGDVVQRLR  104 (249)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------SCCSEEEEECCSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-----------CCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            45799999999999999999999999999999999999999843           4567999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc--ccccccccccccch
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI--NNKRKGLEEIDSAD  164 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~  164 (187)
                      + .+  .+|||++|+..+.....++++.||++|+.||++.++|..+++.++++...........  ..............
T Consensus       105 ~-~~--~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (249)
T 3q9s_A          105 K-NS--ALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLRQRTSESLSMGDLTLDPQKRLVTYKGEEL  181 (249)
T ss_dssp             T-TC--CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHCCCCSCCEEETTEEEETTTTEEEETTEEE
T ss_pred             c-CC--CCCEEEEECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhhcccCceeECCEEEecccCEEEECCEEe
Confidence            8 44  8999999999999999999999999999999999999999999998754321110000  00000011112223


Q ss_pred             hhhhhcccccccCCCC----CCCccC
Q 046192          165 RTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      .++.+|.++|.++.+|    +|++||
T Consensus       182 ~LT~rE~evL~ll~~g~~~~~s~~eI  207 (249)
T 3q9s_A          182 RLSPKEFDILALLIRQPGRVYSRQEI  207 (249)
T ss_dssp             CCCHHHHHHHHHHHHSTTCCCCHHHH
T ss_pred             ecCHHHHHHHHHHHHCCCceEcHHHH
Confidence            5899999999999998    999886

>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=99.93  E-value=1.7e-24  Score=148.31  Aligned_cols=119  Identities=31%  Similarity=0.473  Sum_probs=109.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+|++|+.||+++|+++++.+++.
T Consensus         3 ~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l~-----------~~~~dlvllD~~~p~~~g~~~~~~l~~~   71 (122)
T 3gl9_A            3 KKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLS-----------EFTPDLIVLXIMMPVMDGFTVLKKLQEK   71 (122)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHT-----------TBCCSEEEECSCCSSSCHHHHHHHHHTS
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHH-----------hcCCCEEEEeccCCCCcHHHHHHHHHhc
Confidence            58999999999999999999999999999999999999994           4456799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ...+++|||++|+..+......+++.|+++|+.||++.++|...++++++
T Consensus        72 ~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~  121 (122)
T 3gl9_A           72 EEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLLN  121 (122)
T ss_dssp             TTTTTSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             ccccCCCEEEEecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHhc
Confidence            54458999999999999999999999999999999999999999988764

>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=99.93  E-value=4e-26  Score=170.01  Aligned_cols=160  Identities=21%  Similarity=0.325  Sum_probs=134.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|||+||++..+..+...|+..||.+..+.++.++++.+           ....||+|++|+.+|+++|+++++.+++
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~-----------~~~~~dlvl~D~~lp~~~g~~~~~~l~~   72 (208)
T 1yio_A            4 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHR-----------RPEQHGCLVLDMRMPGMSGIELQEQLTA   72 (208)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHC-----------CTTSCEEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEcCCHHHHHHhh-----------hccCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            56899999999999999999998899999999999999988           3445779999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccccccccccccchhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTR  167 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (187)
                      ..+  ++|||++|+..+......+++.|+++|+.||++.++|..+++.+..+.........    .....  ......++
T Consensus        73 ~~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~----~~~~~--~~~~~~Lt  144 (208)
T 1yio_A           73 ISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLNAERRQARE----TQDQL--EQLFSSLT  144 (208)
T ss_dssp             TTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHHHHHHHHHHH----HHHHH--HHHHHTSC
T ss_pred             cCC--CCCEEEEeCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHhhhhhhHHHHH----HHHHH--HHHHHhcC
Confidence            876  89999999999999999999999999999999999999999999877543211100    00000  01123588


Q ss_pred             hhcccccccCCCCCCCccC
Q 046192          168 TRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       168 ~~e~~~l~l~~~g~~~~ei  186 (187)
                      .+|.+++.++.+|+|++||
T Consensus       145 ~rE~~vl~~l~~g~s~~~I  163 (208)
T 1yio_A          145 GREQQVLQLTIRGLMNKQI  163 (208)
T ss_dssp             HHHHHHHHHHTTTCCHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHH
Confidence            8999999999999999886

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.93  E-value=4.1e-27  Score=162.16  Aligned_cols=118  Identities=19%  Similarity=0.246  Sum_probs=103.9

Q ss_pred             CCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHH
Q 046192            3 MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDL   81 (187)
Q Consensus         3 ~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~   81 (187)
                      .|+.+++|||||||++..+..++..|+..||.|+ .+.++.+|++.+.           ..+||+|++|+.||+++|+++
T Consensus         3 ~m~~r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~~-----------~~~~DlvllDi~mP~~~G~el   71 (123)
T 2lpm_A            3 HMTERRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIAR-----------KGQFDIAIIDVNLDGEPSYPV   71 (123)
T ss_dssp             CCCCCCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHHH-----------HCCSSEEEECSSSSSCCSHHH
T ss_pred             CCCCCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHH-----------hCCCCEEEEecCCCCCCHHHH
Confidence            4678889999999999999999999999999986 6899999999994           445779999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           82 LRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        82 ~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ++.+|+.    ++|||++|++++....   .+.|+.+|+.|||+.++|..+++++.+
T Consensus        72 ~~~lr~~----~ipvI~lTa~~~~~~~---~~~g~~~yl~KP~~~~~L~~~l~~~~~  121 (123)
T 2lpm_A           72 ADILAER----NVPFIFATGYGSKGLD---TRYSNIPLLTKPFLDSELEAVLVQISK  121 (123)
T ss_dssp             HHHHHHT----CCSSCCBCTTCTTSCC---SSSCSCSCBCSSSSHHHHHHHHSTTCS
T ss_pred             HHHHHcC----CCCEEEEecCccHHHH---HhCCCCcEEECCCCHHHHHHHHHHHHh
Confidence            9999973    7899999998765543   467999999999999999998877654

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.93  E-value=2.6e-25  Score=170.50  Aligned_cols=168  Identities=21%  Similarity=0.313  Sum_probs=133.6

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .++++||||||++..+..+...|+..||.|..+.++.++++.+..           ..||+||+|+.||+++|+++++.+
T Consensus        21 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-----------~~~dlvllD~~lp~~~g~~~~~~l   89 (250)
T 3r0j_A           21 TPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARE-----------TRPDAVILDVXMPGMDGFGVLRRL   89 (250)
T ss_dssp             CSSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             CCCceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------CCCCEEEEeCCCCCCCHHHHHHHH
Confidence            346899999999999999999999999999999999999999943           456799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc---------cccccc
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI---------NNKRKG  156 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~---------~~~~~~  156 (187)
                      ++..+  ++|||++|+..+......+++.||++|+.||++.++|..+++.++++...........         ......
T Consensus        90 r~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (250)
T 3r0j_A           90 RADGI--DAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRRAGKGNKEPRNVRLTFADIELDEETHE  167 (250)
T ss_dssp             HHTTC--CCCEEEEECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHHHCC------CCEEEETTEEEETTTCC
T ss_pred             HhcCC--CCCEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHHhhccccccccceEEEECCEEEeccccE
Confidence            99876  8999999999999999999999999999999999999999999987643221100000         000000


Q ss_pred             ccccccchhhhhhcccccccCCC----CCCCccC
Q 046192          157 LEEIDSADRTRTRLNDTIDINND----GLPDLEI  186 (187)
Q Consensus       157 ~~~~~~~~~~~~~e~~~l~l~~~----g~~~~ei  186 (187)
                      ...-.....++.+|.++|.++..    ++|++||
T Consensus       168 ~~~~~~~~~LT~rE~~iL~~l~~~~~~~~s~~~i  201 (250)
T 3r0j_A          168 VWKAGQPVSLSPTEFTLLRYFVINAGTVLSKPKI  201 (250)
T ss_dssp             EEETTEEECCCHHHHHHHHHHHHTTTCCBCHHHH
T ss_pred             EEECCEEEecCHHHHHHHHHHHHCCCceEcHHHH
Confidence            01111223589999999999944    4887776

>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=99.92  E-value=3.6e-24  Score=149.38  Aligned_cols=123  Identities=22%  Similarity=0.418  Sum_probs=111.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+..||.|..+.++.++++.+.           ...||+|++|+.||+++|+++++.+++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlvl~D~~lp~~~g~~~~~~lr~   72 (136)
T 3t6k_A            4 PHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIY-----------KNLPDALICDVLLPGIDGYTLCKRVRQ   72 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHHHHHc
Confidence            479999999999999999999999999999999999999994           345679999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ......+|||++|+..+......+++.|+++|+.||++.++|..++++++.+..
T Consensus        73 ~~~~~~~pii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~~~~  126 (136)
T 3t6k_A           73 HPLTKTLPILMLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILARTT  126 (136)
T ss_dssp             SGGGTTCCEEEEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHHC--
T ss_pred             CCCcCCccEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHhccC
Confidence            643348999999999999999999999999999999999999999999987643

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.92  E-value=1.3e-23  Score=149.50  Aligned_cols=127  Identities=31%  Similarity=0.550  Sum_probs=113.5

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      |+..+.+|||+||++..+..+...|+..||.+..+.++.++++.+.           ..+||+||+|+.+|+.+|+++++
T Consensus         3 ~~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~dlii~D~~l~~~~g~~~~~   71 (154)
T 3gt7_A            3 LSNRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLS-----------LTRPDLIISDVLMPEMDGYALCR   71 (154)
T ss_dssp             ----CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHT-----------TCCCSEEEEESCCSSSCHHHHHH
T ss_pred             cccCCCcEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHH
Confidence            3556789999999999999999999999999999999999999994           44577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      .+++....+.+|||++++..+......+++.|+++|+.||++.++|..+++.++.+..
T Consensus        72 ~lr~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~  129 (154)
T 3gt7_A           72 WLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSGVK  129 (154)
T ss_dssp             HHHHSTTTTTSCEEEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHHHTC
T ss_pred             HHHhCCCcCCCCEEEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9998753348999999999999999999999999999999999999999999998754

>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=99.92  E-value=4.6e-25  Score=165.98  Aligned_cols=165  Identities=18%  Similarity=0.244  Sum_probs=133.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.+++.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-----------~~~dlvllD~~l~~~~g~~~~~~lr~~   71 (225)
T 1kgs_A            3 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALN-----------EPFDVVILDIMLPVHDGWEILKSMRES   71 (225)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------SCCSEEEEESCCSSSCHHHHHHHHHHT
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-----------CCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            589999999999999999999999999999999999999843           456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCc-----cccccccccccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNN-----INNKRKGLEEIDSA  163 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~  163 (187)
                      .+  ++|||++|+..+......+++.|+++|+.||++.++|..+++.+.++..........     ..........-...
T Consensus        72 ~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  149 (225)
T 1kgs_A           72 GV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRKSESKSTKLVCGDLILDTATKKAYRGSKE  149 (225)
T ss_dssp             TC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHHHCCSCSSEEEETTEEEETTTTEEEETTEE
T ss_pred             CC--CCCEEEEeCCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHhhcccccCceEEECCEEEecccCEEEECCEE
Confidence            76  899999999998999999999999999999999999999999998875432211000     00000000001122


Q ss_pred             hhhhhhcccccccCCCC----CCCccC
Q 046192          164 DRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ..++.+|.+++.++.+|    +|++||
T Consensus       150 ~~Lt~rE~~vL~~l~~~~~~~~s~~eI  176 (225)
T 1kgs_A          150 IDLTKKEYQILEYLVMNKNRVVTKEEL  176 (225)
T ss_dssp             ECCCHHHHHHHHHHHHTTTSCEEHHHH
T ss_pred             EecCHHHHHHHHHHHhCCCcccCHHHH
Confidence            35899999999999999    888776

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} SCOP: c.23.1.0

Probab=99.91  E-value=5.3e-24  Score=148.34  Aligned_cols=124  Identities=15%  Similarity=0.208  Sum_probs=112.5

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~   83 (187)
                      ..+.+|||+||++..+..+...|+..||.+..+.++.++++.+           ...+||+||+|+.+|+  .+|+++++
T Consensus         4 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l-----------~~~~~dlvi~D~~l~~~~~~g~~~~~   72 (136)
T 3kto_A            4 NHHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQ-----------ISDDAIGMIIEAHLEDKKDSGIELLE   72 (136)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSC-----------CCTTEEEEEEETTGGGBTTHHHHHHH
T ss_pred             CCCCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHH-----------hccCCCEEEEeCcCCCCCccHHHHHH
Confidence            4467999999999999999999999999999999999999888           4445779999999999  99999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      .+++..+  ++|||++|+..+......+++.|+++|+.||++.++|..+++++..+...
T Consensus        73 ~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~~~~  129 (136)
T 3kto_A           73 TLVKRGF--HLPTIVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIINGAKE  129 (136)
T ss_dssp             HHHHTTC--CCCEEEEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHHHHC-
T ss_pred             HHHhCCC--CCCEEEEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHhccCC
Confidence            9999876  89999999999999999999999999999999999999999999988654

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.91  E-value=8.3e-26  Score=170.61  Aligned_cols=171  Identities=13%  Similarity=0.097  Sum_probs=131.0

Q ss_pred             CCCCCceEEEEEeCCHHHHHHHHHHHHh-CCceEEE-eCCHHHHHHH-HhccCcccccccccccccEEEEeccCCCCCHH
Q 046192            3 MVTDSQFHVLAVDDSIIDRKLIERLLKT-SSYQVTA-VDSGNKALEF-LGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY   79 (187)
Q Consensus         3 ~~~~~~~~ilivd~~~~~~~~l~~~l~~-~~~~v~~-~~~~~~a~~~-l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~   79 (187)
                      |....+++||||||++..+..+...|+. .||.+.. +.++.+++.. +           ....||+||+|+.||+++|+
T Consensus         2 M~~~~~~~IlivdD~~~~~~~l~~~L~~~~~~~v~~~~~~~~~~~~~~~-----------~~~~~dlvllD~~mp~~~G~   70 (225)
T 3klo_A            2 MKDENKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKP-----------ESRSIQMLVIDYSRISDDVL   70 (225)
T ss_dssp             --CCSSEEEEEESCCSHHHHHHHHHHHHHSSEEEEEECGGGHHHHTTCS-----------GGGGCCEEEEEGGGCCHHHH
T ss_pred             CCCCCceEEEEEcCcHHHHHHHHHHHhhCCCceEEEEeCCcHHHHHHHh-----------hccCCCEEEEeCCCCCCCHH
Confidence            3445678999999999999999999984 5888865 4556665543 4           33457899999999999999


Q ss_pred             HHHHHHHh-hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc--cccc--
Q 046192           80 DLLRKIKE-SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI--NNKR--  154 (187)
Q Consensus        80 ~~~~~l~~-~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~--~~~~--  154 (187)
                      ++++.+++ ..+  ++|||++|+..+......+++.||++|+.||++.++|..+++.+.++...........  ....  
T Consensus        71 ~~~~~lr~~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~  148 (225)
T 3klo_A           71 TDYSSFKHISCP--DAKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQDEMWLTRKLAQEYILHYRAG  148 (225)
T ss_dssp             HHHHHHHHHHCT--TCEEEEEEECTTCCHHHHTTSTTEEEEEETTCCHHHHHHHHHHHHTTCCBCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhCC--CCcEEEEECCcchhHHHHHHHhCCCEEEecCCCHHHHHHHHHHHHCCCEeeCHHHHHHHHHHhhcc
Confidence            99999998 666  8999999999998999999999999999999999999999999998754321100000  0000  


Q ss_pred             ccccccccchhhhhhcccccccCCCCCCCccC
Q 046192          155 KGLEEIDSADRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       155 ~~~~~~~~~~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ...........++.+|.+++.++.+|+|++||
T Consensus       149 ~~~~~~~~~~~Lt~rE~~vL~~l~~g~s~~~I  180 (225)
T 3klo_A          149 NSVVTSQMYAKLTKREQQIIKLLGSGASNIEI  180 (225)
T ss_dssp             CCCCCCHHHHTSCHHHHHHHHHHTTTCCHHHH
T ss_pred             cccccccccccCCHHHHHHHHHHHcCCCHHHH
Confidence            00001112345899999999999999999886

>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=99.91  E-value=2.1e-23  Score=142.42  Aligned_cols=117  Identities=23%  Similarity=0.427  Sum_probs=107.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+.           ..+||+|++|+.+|+++|+++++.+++.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlii~D~~~p~~~g~~~~~~lr~~   71 (120)
T 3f6p_A            3 KKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVE-----------ELQPDLILLDIMLPNKDGVEVCREVRKK   71 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------TTCCSEEEEETTSTTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHHh-----------hCCCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            58999999999999999999999999999999999999994           3456799999999999999999999974


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .   .+|+|++|+..+......+++.|+++|+.||++.++|..+++.+++.
T Consensus        72 ~---~~~ii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l~~  119 (120)
T 3f6p_A           72 Y---DMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRR  119 (120)
T ss_dssp             C---CSCEEEEEESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTC
T ss_pred             C---CCCEEEEECCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHhc
Confidence            3   78999999999999999999999999999999999999999887753

>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=99.91  E-value=7.7e-25  Score=165.59  Aligned_cols=168  Identities=21%  Similarity=0.277  Sum_probs=134.6

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ...++|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.+
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-----------~~~dlvllD~~l~~~~g~~~~~~l   73 (233)
T 1ys7_A            5 VTSPRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATE-----------NRPDAIVLDINMPVLDGVSVVTAL   73 (233)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------SCCSEEEEESSCSSSCHHHHHHHH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHh-----------CCCCEEEEeCCCCCCCHHHHHHHH
Confidence            345799999999999999999999999999999999999999843           456799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccC-CCcc--ccc--c---ccc
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKE-PNNI--NNK--R---KGL  157 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~-~~~~--~~~--~---~~~  157 (187)
                      ++..+  .+|||++|+..+......+++.||++|+.||++.++|..+++.+.++....... ....  ...  .   ...
T Consensus        74 ~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (233)
T 1ys7_A           74 RAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRRGSTATSSSETITVGPLEVDIPGRRA  151 (233)
T ss_dssp             HHTTC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHHHCCCCCCCCEEEETTEEEETTTTEE
T ss_pred             HhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhccccccccCcccccCCeEEccCccEE
Confidence            98766  899999999998888899999999999999999999999999998875431111 0000  000  0   000


Q ss_pred             cccccchhhhhhcccccccCCCC----CCCccC
Q 046192          158 EEIDSADRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       158 ~~~~~~~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ..-.....++.+|.+++.++.+|    +|++||
T Consensus       152 ~~~~~~~~Lt~rE~~vL~~l~~g~~~~~s~~~I  184 (233)
T 1ys7_A          152 RVNGVDVDLTKREFDLLAVLAEHKTAVLSRAQL  184 (233)
T ss_dssp             EETTEECCCCHHHHHHHHHHHHTTTCCBCHHHH
T ss_pred             EECCEEeccCHHHHHHHHHHHhCCCCeEcHHHH
Confidence            00112235899999999999999    888876

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.91  E-value=8.2e-24  Score=155.03  Aligned_cols=122  Identities=16%  Similarity=0.297  Sum_probs=112.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++.+||||||++..+..+...|+..||.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.++
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlvl~D~~lp~~~g~~~~~~l~   74 (184)
T 3rqi_A            6 SDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAG-----------AEKFEFITVXLHLGNDSGLSLIAPLC   74 (184)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHT-----------TSCCSEEEECSEETTEESHHHHHHHH
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHh-----------hCCCCEEEEeccCCCccHHHHHHHHH
Confidence            4579999999999999999999999999999999999999994           44567999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +..+  ++|||++|+..+.+....+++.||++|+.||++.++|..+++.+..+..
T Consensus        75 ~~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~~~~~  127 (184)
T 3rqi_A           75 DLQP--DARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASEVQ  127 (184)
T ss_dssp             HHCT--TCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTHHHHH
T ss_pred             hcCC--CCCEEEEeCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHHhh
Confidence            9876  8999999999999999999999999999999999999999988887654

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.91  E-value=5.2e-23  Score=142.58  Aligned_cols=120  Identities=19%  Similarity=0.268  Sum_probs=110.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.+++.
T Consensus         4 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-----------~~~dlvl~D~~l~~~~g~~~~~~l~~~   72 (132)
T 3crn_A            4 KRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIEN-----------EFFNLALFXIKLPDMEGTELLEKAHKL   72 (132)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------SCCSEEEECSBCSSSBHHHHHHHHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhc-----------CCCCEEEEecCCCCCchHHHHHHHHhh
Confidence            689999999999999999999889999999999999999843           456799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      .+  .+|+|++|+..+......+++.|+++|+.||++.++|..+++++..+..
T Consensus        73 ~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~~  123 (132)
T 3crn_A           73 RP--GMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDEQE  123 (132)
T ss_dssp             CT--TSEEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEeccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHhccc
Confidence            76  8999999999999999999999999999999999999999999887654

>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=99.91  E-value=9.8e-23  Score=139.88  Aligned_cols=119  Identities=23%  Similarity=0.360  Sum_probs=109.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+|+||++..+..+...|+..||.+..+.++.++++.+.           ...||++++|+.+|+++|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~D~~l~~~~g~~~~~~l~~   71 (126)
T 1dbw_A            3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAP-----------DVRNGVLVTDLRMPDMSGVELLRNLGD   71 (126)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGG-----------GCCSEEEEEECCSTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHh-----------cCCCCEEEEECCCCCCCHHHHHHHHHh
Confidence            478999999999999999999989999999999999999884           345679999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|+|++|+..+......+++.|+++|+.||++.++|..+++++..+
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (126)
T 1dbw_A           72 LKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH  121 (126)
T ss_dssp             TTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTT
T ss_pred             cCC--CCCEEEEECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHh
Confidence            765  89999999999999999999999999999999999999999988764

>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=99.91  E-value=4.6e-23  Score=142.31  Aligned_cols=123  Identities=26%  Similarity=0.498  Sum_probs=109.1

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .+++|||+||++..+..++..|+..||. +..+.++.++++.+..          ...||+|++|+.+|+++|+++++.+
T Consensus         4 ~~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~----------~~~~dlvi~D~~~p~~~g~~~~~~l   73 (129)
T 3h1g_A            4 GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDA----------NADTKVLITDWNMPEMNGLDLVKKV   73 (129)
T ss_dssp             --CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHH----------CTTCCEEEECSCCSSSCHHHHHHHH
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHHh----------CCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3579999999999999999999999985 7789999999998842          2247799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++....+.+|||++|+..+......+++.|+++|+.||++.++|..+++.++.+
T Consensus        74 r~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l~~  127 (129)
T 3h1g_A           74 RSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLGT  127 (129)
T ss_dssp             HTSTTCTTCCEEEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHCC
T ss_pred             HhcCCCCCCeEEEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHhcc
Confidence            986544589999999999999999999999999999999999999999988754

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.91  E-value=3.5e-23  Score=144.52  Aligned_cols=122  Identities=26%  Similarity=0.393  Sum_probs=111.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+.+|+++++.+++.
T Consensus         5 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-----------~~~dlvllD~~l~~~~g~~l~~~l~~~   73 (137)
T 3cfy_A            5 PRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIER-----------SKPQLIILDLKLPDMSGEDVLDWINQN   73 (137)
T ss_dssp             CEEEEECSCTTHHHHHHHHTTTSSSEEEEESSHHHHHHHHHH-----------HCCSEEEECSBCSSSBHHHHHHHHHHT
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhcCceEEEeCCHHHHHHHHHh-----------cCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            489999999999999999999889999999999999999843           346699999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      .+  .+|||++++..+......+++.|+++|+.||++.++|..+++.+.++....
T Consensus        74 ~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~~~~  126 (137)
T 3cfy_A           74 DI--PTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKRAKLE  126 (137)
T ss_dssp             TC--CCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEEecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHHHHHHH
Confidence            65  899999999999999999999999999999999999999999988775443

>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=99.91  E-value=3.3e-23  Score=144.12  Aligned_cols=126  Identities=20%  Similarity=0.325  Sum_probs=114.1

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ....++|||+||++..+..+...|+..++.+..+.++.++++.+..           ..||+||+|+.+|+.+|+++++.
T Consensus         4 ~~~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~~-----------~~~dlvi~d~~l~~~~g~~~~~~   72 (137)
T 3hdg_A            4 REVALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGL-----------HAPDVIITDIRMPKLGGLEMLDR   72 (137)
T ss_dssp             ---CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHHH-----------HCCSEEEECSSCSSSCHHHHHHH
T ss_pred             cccccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHhc-----------cCCCEEEEeCCCCCCCHHHHHHH
Confidence            3456899999999999999999999988999999999999999944           45669999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      +++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++++.++....
T Consensus        73 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~~~  129 (137)
T 3hdg_A           73 IKAGGA--KPYVIVISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHIKLAK  129 (137)
T ss_dssp             HHHTTC--CCEEEECCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCC--CCcEEEEecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHHHHhcC
Confidence            999876  899999999999999999999999999999999999999999999886543

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.91  E-value=2e-25  Score=168.63  Aligned_cols=165  Identities=18%  Similarity=0.242  Sum_probs=133.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC-ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS-YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~-~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++||||||++..+..+...|+..| |.++ .+.++.++++.+..           ..||+||+|+.+|+++|+++++.++
T Consensus         2 ~~ILivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~l~~-----------~~~dlvllD~~lp~~~g~~~~~~lr   70 (225)
T 3c3w_A            2 VKVFLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVPA-----------ARPDVAVLDVRLPDGNGIELCRDLL   70 (225)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTCTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEECSEETTEEHHHHHHHHH
T ss_pred             cEEEEEcCCHHHHHHHHHHHhcCCCcEEEEEECCHHHHHHHHhh-----------cCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            689999999999999999999876 8855 69999999999843           3466999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc--ccccccccccccch
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI--NNKRKGLEEIDSAD  164 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~  164 (187)
                      +..+  .+|||++|+..+......+++.|+++|+.||++.++|..+++.+.++...........  ..............
T Consensus        71 ~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (225)
T 3c3w_A           71 SRMP--DLRCLILTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGAGRSLLDNRAAAALMAKLRGAAEKQDPLS  148 (225)
T ss_dssp             HHCT--TCEEEEGGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHHHHHHSCTTT
T ss_pred             HhCC--CCcEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcCCeeeCHHHHHHHHHhcccccccccccC
Confidence            9876  8999999999999999999999999999999999999999999998754321110000  00000000002234


Q ss_pred             hhhhhcccccccCCCCCCCccC
Q 046192          165 RTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      .++.+|.+++.++.+|+|++||
T Consensus       149 ~LT~rE~~vL~~l~~g~s~~eI  170 (225)
T 3c3w_A          149 GLTDQERTLLGLLSEGLTNKQI  170 (225)
T ss_dssp             TSCHHHHHHHHHHHTTCCHHHH
T ss_pred             CCCHHHHHHHHHHHCCCCHHHH
Confidence            5899999999999999999987

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.91  E-value=1.8e-24  Score=164.59  Aligned_cols=164  Identities=18%  Similarity=0.300  Sum_probs=132.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|||+||++..+..+...|+..||.|..+.++.++++.+..           ..||+||+|+.+|+++|+++++.+++.
T Consensus         6 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-----------~~~dlvilD~~l~~~~g~~~~~~lr~~   74 (238)
T 2gwr_A            6 QRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRE-----------LRPDLVLLDLMLPGMNGIDVCRVLRAD   74 (238)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHHH-----------HCCSEEEEESSCSSSCHHHHHHHHHTT
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------CCCCEEEEeCCCCCCCHHHHHHHHHhC
Confidence            699999999999999999999899999999999999999844           346699999999999999999999985


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCccccc-----cccccccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNINNK-----RKGLEEIDSA  163 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~  163 (187)
                       +  .+|||++|+..+......+++.||++|+.||++.++|..+++.+.++..............     ..........
T Consensus        75 -~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (238)
T 2gwr_A           75 -S--GVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRRNDDEPAEMLSIADVEIDVPAHKVTRNGEQ  151 (238)
T ss_dssp             -C--CCCEEEEEETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCCCCSSCCCCEEEETTEEEETTTTEEEETTEE
T ss_pred             -C--CCcEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHhhcccCcccceecCceEEcccccEEEECCEE
Confidence             3  7999999999999999999999999999999999999999999998753321110000000     0000001112


Q ss_pred             hhhhhhcccccccCCCC----CCCccC
Q 046192          164 DRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ..++.+|.++|.++.+|    +|++||
T Consensus       152 ~~LT~rE~~vL~~l~~~~~~~~s~~eI  178 (238)
T 2gwr_A          152 ISLTPLEFDLLVALARKPRQVFTRDVL  178 (238)
T ss_dssp             ECCCHHHHHHHHHHHHSTTCCBCHHHH
T ss_pred             cccCHHHHHHHHHHHHCCCceecHHHH
Confidence            35899999999999999    888876

>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=99.91  E-value=5.6e-23  Score=142.79  Aligned_cols=125  Identities=22%  Similarity=0.402  Sum_probs=108.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      .++||||||++..+..+...|+..|+ .+..+.++.++++.+....+      ....||+|++|+.||+++|+++++.++
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            36899999999999999999998887 47789999999998854211      114578999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..+ ..+|||++|+..+......+++.|+++|+.||++.++|..+++.+...
T Consensus        76 ~~~~-~~~~ii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  127 (133)
T 2r25_B           76 RDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCAA  127 (133)
T ss_dssp             HHSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCTT
T ss_pred             hhcC-CCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHh
Confidence            7432 268999999999999999999999999999999999999999888754

>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=99.91  E-value=9.3e-23  Score=139.50  Aligned_cols=118  Identities=25%  Similarity=0.406  Sum_probs=109.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.+++..+..           ..||++++|+.+|+.+|+++++.+++.
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-----------~~~dlvl~D~~l~~~~g~~~~~~l~~~   72 (124)
T 1srr_A            4 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-----------ERPDLVLLDMKIPGMDGIEILKRMKVI   72 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCTTCCHHHHHHHHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-----------cCCCEEEEecCCCCCCHHHHHHHHHHh
Confidence            689999999999999999999889999999999999999843           346799999999999999999999988


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|+|++|+..+......+++.|+++|+.||++.++|..+++++..+
T Consensus        73 ~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1srr_A           73 DE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLPL  121 (124)
T ss_dssp             CT--TCEEEEEESSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHSCC
T ss_pred             CC--CCCEEEEEccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHhcc
Confidence            66  89999999999999999999999999999999999999999888754

>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=99.91  E-value=9e-23  Score=141.74  Aligned_cols=130  Identities=25%  Similarity=0.387  Sum_probs=110.4

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYD   80 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~   80 (187)
                      |++ +..+.+|||+||++..+..+...|+..||.+..+.++.+++..+...          .+||+||+|+.+|+.+|++
T Consensus         1 Ms~-~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~----------~~~dlvi~D~~l~~~~g~~   69 (136)
T 3hdv_A            1 MSL-VAARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQ----------KRIGLMITDLRMQPESGLD   69 (136)
T ss_dssp             -------CCEEEEECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHC----------TTEEEEEECSCCSSSCHHH
T ss_pred             CCC-CCCCCeEEEECCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHhC----------CCCcEEEEeccCCCCCHHH
Confidence            443 34568999999999999999999999999999999999999988432          2377999999999999999


Q ss_pred             HHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           81 LLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        81 ~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +++.+++.. .+.+|||++++..+......+++.|+++|+.||++.++|..+++++..+...
T Consensus        70 ~~~~l~~~~-~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~  130 (136)
T 3hdv_A           70 LIRTIRASE-RAALSIIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKIGEG  130 (136)
T ss_dssp             HHHHHHTST-TTTCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC----
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhcCchh
Confidence            999999873 2389999999999999999999999999999999999999999999987544

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.90  E-value=1.6e-22  Score=141.62  Aligned_cols=125  Identities=24%  Similarity=0.344  Sum_probs=114.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +++|||+||++..+..+...|+..||.+..+.++.++++.+...         ...||+||+|+.+|+.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~---------~~~~dlvi~d~~l~~~~g~~~~~~l~~   73 (143)
T 3jte_A            3 LAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTEN---------CNSIDVVITDMKMPKLSGMDILREIKK   73 (143)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHT---------TTTCCEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHHhC---------CCCCCEEEEeCCCCCCcHHHHHHHHHH
Confidence            37999999999999999999999999999999999999998421         345779999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      ..+  .+|||++++..+......+++.|+++|+.||++.++|..+++.++++....
T Consensus        74 ~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~~~~  127 (143)
T 3jte_A           74 ITP--HMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRKKLL  127 (143)
T ss_dssp             HCT--TCEEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHHHH
T ss_pred             hCC--CCeEEEEECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHHHHHHH
Confidence            876  899999999999999999999999999999999999999999999876543

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.90  E-value=9.1e-23  Score=140.67  Aligned_cols=123  Identities=27%  Similarity=0.431  Sum_probs=105.1

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .....+|||+||++..+..+...|+..||.+..+.++.++++.+.           ..+||+|++|+.+|+.+|+++++.
T Consensus         4 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~~l~~~~g~~~~~~   72 (130)
T 3eod_A            4 PLVGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLG-----------GFTPDLMICDIAMPRMNGLKLLEH   72 (130)
T ss_dssp             TTTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHT-----------TCCCSEEEECCC-----CHHHHHH
T ss_pred             CCCCCeEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHh-----------cCCCCEEEEecCCCCCCHHHHHHH
Confidence            345679999999999999999999999999999999999999994           445779999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC-ChHHHHHHHHHHhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV-QLADVNKLKPHLMKGI  140 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~-~~~~l~~~i~~~~~~~  140 (187)
                      +++..+  .+|+|++|+..+......+++.|+++|+.||+ +.++|..+++.++.+.
T Consensus        73 l~~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~~~  127 (130)
T 3eod_A           73 IRNRGD--QTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYPS  127 (130)
T ss_dssp             HHHTTC--CCCEEEEECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC--
T ss_pred             HHhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhchh
Confidence            999876  89999999999999999999999999999999 8999999999988763

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea}

Probab=99.90  E-value=1.2e-22  Score=141.93  Aligned_cols=131  Identities=21%  Similarity=0.380  Sum_probs=110.8

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHh-CCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKT-SSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG   78 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~-~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g   78 (187)
                      |++.+..+++|||+||++..+..+...|+. .||. +..+.++.++++.+.           ...||+|++|+.+|+.+|
T Consensus         1 M~~~~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~-----------~~~~dlii~d~~l~~~~g   69 (143)
T 3cnb_A            1 MSLNVKNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLH-----------TVKPDVVMLDLMMVGMDG   69 (143)
T ss_dssp             --------CEEEEECSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHH-----------HTCCSEEEEETTCTTSCH
T ss_pred             CcccccCCceEEEEECCHHHHHHHHHHHHhccCccEEEEECCHHHHHHHHH-----------hcCCCEEEEecccCCCcH
Confidence            666667789999999999999999999998 8998 888999999999994           345679999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +++++.+++....+.+|||++++..+......+++.|+++|+.||++.++|..+++++.++...
T Consensus        70 ~~~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~~  133 (143)
T 3cnb_A           70 FSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQKKA  133 (143)
T ss_dssp             HHHHHHHHTSTTTTTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHhCccccCCcEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHhhcc
Confidence            9999999984222389999999999999999999999999999999999999999999876543

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.90  E-value=9.3e-23  Score=141.47  Aligned_cols=121  Identities=21%  Similarity=0.389  Sum_probs=107.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|+|+||++..+..+...|+..|  +.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.++
T Consensus         4 ~~Ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~al~~~~~-----------~~~dlvilD~~lp~~~g~~~~~~l~   72 (133)
T 3b2n_A            4 TSLIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEE-----------YNPNVVILDIEMPGMTGLEVLAEIR   72 (133)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHHHSSEEEEEEESCHHHHHHHHHH-----------HCCSEEEECSSCSSSCHHHHHHHHH
T ss_pred             eEEEEECCCHHHHHHHHHHHhhCCCcEEEEEcCCHHHHHHHHhh-----------cCCCEEEEecCCCCCCHHHHHHHHH
Confidence            789999999999999999998876  456679999999999843           3467999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +..+  .+|||++|+..+.....++++.|+++|+.||++.++|..+++++..+...
T Consensus        73 ~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~~  126 (133)
T 3b2n_A           73 KKHL--NIKVIIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNNGEKE  126 (133)
T ss_dssp             HTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC----
T ss_pred             HHCC--CCcEEEEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcCCCc
Confidence            8765  89999999999999999999999999999999999999999999876543

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.90  E-value=3.6e-23  Score=144.58  Aligned_cols=124  Identities=19%  Similarity=0.313  Sum_probs=111.5

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHh-CCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-CCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKT-SSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-GMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~-~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-~~~g~~~~~~l   85 (187)
                      +.+|||+||++..+..+...|+. .||.+..+.++.++++.+..          ...||+||+|+.+| +.+|+++++.+
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l~~----------~~~~dlvi~D~~l~~~~~g~~~~~~l   73 (140)
T 3lua_A            4 DGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKD----------LDSITLIIMDIAFPVEKEGLEVLSAI   73 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTT----------CCCCSEEEECSCSSSHHHHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHHhc----------CCCCcEEEEeCCCCCCCcHHHHHHHH
Confidence            57999999999999999999998 89999999999999999843          04577999999999 99999999999


Q ss_pred             Hh--hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           86 KE--SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        86 ~~--~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      ++  ..+  .+|||++|+..+......+++.|+++|+.||++.++|..+++.++++....
T Consensus        74 ~~~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~~  131 (140)
T 3lua_A           74 RNNSRTA--NTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKICQRF  131 (140)
T ss_dssp             HHSGGGT--TCCEEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC----
T ss_pred             HhCcccC--CCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHhcccc
Confidence            99  555  999999999999999999999999999999999999999999999876543

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.90  E-value=2e-23  Score=145.73  Aligned_cols=127  Identities=15%  Similarity=0.271  Sum_probs=110.7

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      +.++.+|||+||++..+..+...|+..||.+..+.++.++++.+.           ..+||+||+|+.+|+.+|+++++.
T Consensus         3 ~~~~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~~l~~~~g~~~~~~   71 (140)
T 3grc_A            3 LAPRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVA-----------RRPYAAMTVDLNLPDQDGVSLIRA   71 (140)
T ss_dssp             --CCSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHH-----------HSCCSEEEECSCCSSSCHHHHHHH
T ss_pred             CCCCCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHHH
Confidence            344689999999999999999999999999999999999999994           345679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHH-HHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRIN-RCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~-~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +++....+++|||++++..+..... .+++.|+++|+.||++.++|..++++++++...
T Consensus        72 l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~~~~~  130 (140)
T 3grc_A           72 LRRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDNMAE  130 (140)
T ss_dssp             HHTSGGGTTCEEEEECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHHHHC-
T ss_pred             HHhCcccCCCCEEEEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHHhcCC
Confidence            9983222389999999987777776 889999999999999999999999999987554

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.90  E-value=1.4e-22  Score=142.54  Aligned_cols=122  Identities=28%  Similarity=0.524  Sum_probs=105.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..++|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+|++|+.||+++|+++++.++
T Consensus        13 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~-----------~~~~dlvl~D~~mp~~~g~~~~~~lr   81 (143)
T 3m6m_D           13 RSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMA-----------EEDYDAVIVDLHMPGMNGLDMLKQLR   81 (143)
T ss_dssp             --CEEEEECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            3579999999999999999999999999999999999999984           34567999999999999999999998


Q ss_pred             hhc--CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESA--SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~--~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..  ....+|+|++|+..+.+....+++.|+++|+.||++.++|..+++.+..+
T Consensus        82 ~~~~~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~~~  136 (143)
T 3m6m_D           82 VMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLAVS  136 (143)
T ss_dssp             HHHHTTCCCCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC--
T ss_pred             hchhccCCCCeEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHHHh
Confidence            542  22368999999999999999999999999999999999999999888755

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.90  E-value=2.3e-22  Score=142.16  Aligned_cols=135  Identities=27%  Similarity=0.383  Sum_probs=110.9

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG   78 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g   78 (187)
                      |...+...++|||+||++..+..+...|+..|+  .+..+.++.++++.+....+.    .....||+|++|+.+|+++|
T Consensus         1 m~~~~~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~----~~~~~~dlillD~~lp~~~g   76 (149)
T 1i3c_A            1 MSDESNPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY----ENSPRPNLILLDLNLPKKDG   76 (149)
T ss_dssp             -----CCCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG----TTCCCCSEEEECSCCSSSCH
T ss_pred             CCcccCCCCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhcccc----ccCCCCCEEEEeCCCCCCcH
Confidence            444445568999999999999999999998876  778899999999998531100    00135789999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++++.+++....+.+|||++|+..+......+++.||++|+.||++.++|..+++++.+.
T Consensus        77 ~~l~~~l~~~~~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  137 (149)
T 1i3c_A           77 REVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESF  137 (149)
T ss_dssp             HHHHHHHHHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHH
Confidence            9999999986433488999999999999999999999999999999999999999988754

>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=99.90  E-value=7.6e-24  Score=159.91  Aligned_cols=164  Identities=18%  Similarity=0.273  Sum_probs=131.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.+++.
T Consensus         5 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-----------~~~dlvllD~~l~~~~g~~~~~~l~~~   73 (230)
T 2oqr_A            5 TSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDR-----------AGADIVLLDLMLPGMSGTDVCKQLRAR   73 (230)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHH-----------HCCSEEEEESSCSSSCHHHHHHHHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-----------cCCCEEEEECCCCCCCHHHHHHHHHcC
Confidence            699999999999999999999899999999999999999843           346799999999999999999999985


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccC--CCcc--ccc-----cccccc
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKE--PNNI--NNK-----RKGLEE  159 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~--~~~~--~~~-----~~~~~~  159 (187)
                       +  .+|||++|+..+......+++.||++|+.||++.++|..+++.+.++.......  ....  ...     ......
T Consensus        74 -~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (230)
T 2oqr_A           74 -S--SVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDDSEMSDGVLESGPVRMDVERHVVSV  150 (230)
T ss_dssp             -C--SCSEEEEECCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTTTTCTTSTTCCSCEEETTEEEETTTTEEEE
T ss_pred             -C--CCCEEEEeCCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhhcccccccccccceeecCEEEeccccEEEE
Confidence             4  899999999988888999999999999999999999999999999875321110  0000  000     000000


Q ss_pred             cccchhhhhhcccccccCCCC----CCCccC
Q 046192          160 IDSADRTRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       160 ~~~~~~~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      -.....++.+|.+++.++.+|    +|++||
T Consensus       151 ~~~~~~Lt~rE~~vL~~l~~~~~~~~s~~~I  181 (230)
T 2oqr_A          151 NGDTITLPLKEFDLLEYLMRNSGRVLTRGQL  181 (230)
T ss_dssp             SSBCCCCCHHHHHHHHHHHHTTTSCEEHHHH
T ss_pred             CCeeeecCHHHHHHHHHHHhCCCceEcHHHH
Confidence            112235889999999999998    888776

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.90  E-value=1.6e-22  Score=139.64  Aligned_cols=127  Identities=21%  Similarity=0.352  Sum_probs=104.5

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ++..+.+|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+||+|+.+|+.+|+++++
T Consensus         2 ~~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-----------~~~dlii~d~~l~~~~g~~~~~   70 (132)
T 3lte_A            2 SLKQSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLST-----------FEPAIMTLDLSMPKLDGLDVIR   70 (132)
T ss_dssp             -----CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------TCCSEEEEESCBTTBCHHHHHH
T ss_pred             CCCCCccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh-----------cCCCEEEEecCCCCCCHHHHHH
Confidence            34557899999999999999999999999999999999999999943           4567999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      .+++..+...++|++++.... .....+++.|+++|+.||++.++|..++++...+...
T Consensus        71 ~l~~~~~~~~~~ii~~~~~~~-~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~~  128 (132)
T 3lte_A           71 SLRQNKVANQPKILVVSGLDK-AKLQQAVTEGADDYLEKPFDNDALLDRIHDLVNEGHH  128 (132)
T ss_dssp             HHHTTTCSSCCEEEEECCSCS-HHHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC----
T ss_pred             HHHhcCccCCCeEEEEeCCCh-HHHHHHHHhChHHHhhCCCCHHHHHHHHHHHcCCCCC
Confidence            999876433566666666544 4888999999999999999999999999998877543

>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=99.90  E-value=3.1e-22  Score=136.08  Aligned_cols=118  Identities=20%  Similarity=0.392  Sum_probs=108.5

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|+|+||++..+..+...|+..||.+..+.++.+++..+.           ...||++++|+.+|+++|+++++.+++.
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~-----------~~~~dlil~D~~l~~~~g~~~~~~l~~~   69 (121)
T 2pl1_A            1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLN-----------EHIPDIAIVDLGLPDEDGLSLIRRWRSN   69 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEECSCCSSSCHHHHHHHHHHT
T ss_pred             CeEEEEeCcHHHHHHHHHHHhhcCCEEEEeCCHHHHHHHHh-----------ccCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            37999999999999999999999999999999999999984           3456799999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|+|++++..+......+++.|+++|+.||++.++|...++++.+.
T Consensus        70 ~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  118 (121)
T 2pl1_A           70 DV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (121)
T ss_dssp             TC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEecCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHHh
Confidence            65  89999999999999999999999999999999999999999888754

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5}

Probab=99.90  E-value=2.7e-22  Score=142.29  Aligned_cols=124  Identities=19%  Similarity=0.307  Sum_probs=114.3

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+.+|||+||++..+..+...|+..||.|..+.++.++++.+.           ...||+||+|+.+|+.+|+++++.+
T Consensus        12 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~D~~l~~~~g~~~~~~l   80 (153)
T 3hv2_A           12 TRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLA-----------SREVDLVISAAHLPQMDGPTLLARI   80 (153)
T ss_dssp             CSCCEEEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             cCCceEEEECCCHHHHHHHHHHhcccCcEEEEECCHHHHHHHHH-----------cCCCCEEEEeCCCCcCcHHHHHHHH
Confidence            34689999999999999999999999999999999999999994           3456799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhC-CCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEG-AEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~g-a~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ++..+  .+|||++++..+......+++.| +++|+.||++.++|..+++.++++...
T Consensus        81 ~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~~~~~  136 (153)
T 3hv2_A           81 HQQYP--STTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQHS  136 (153)
T ss_dssp             HHHCT--TSEEEEECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHHHHH
T ss_pred             HhHCC--CCeEEEEECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHHHhHH
Confidence            99876  89999999999999999999999 999999999999999999999987544

>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=99.90  E-value=2.5e-22  Score=140.93  Aligned_cols=125  Identities=24%  Similarity=0.360  Sum_probs=111.6

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCce--EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~--v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ..+.+|||+||++..+..+...|+..|+.  +..+.++.++++.+.           ...||+||+|+.+|+.+|+++++
T Consensus         3 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~-----------~~~~dlii~D~~l~~~~g~~~~~   71 (144)
T 3kht_A            3 LRSKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQ-----------QAKYDLIILDIGLPIANGFEVMS   71 (144)
T ss_dssp             --CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHHT-----------TCCCSEEEECTTCGGGCHHHHHH
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHhh-----------cCCCCEEEEeCCCCCCCHHHHHH
Confidence            34689999999999999999999999876  778999999999994           44577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC-ChHHHHHHHHHHhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV-QLADVNKLKPHLMKGIS  141 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~-~~~~l~~~i~~~~~~~~  141 (187)
                      .+++....+.+|||++++..+......+++.|+++|+.||+ +.++|..+++.+++...
T Consensus        72 ~lr~~~~~~~~pii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~~~~  130 (144)
T 3kht_A           72 AVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSYWL  130 (144)
T ss_dssp             HHHSSSTTTTCCEEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHHHHH
T ss_pred             HHHhcccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHHHHH
Confidence            99984333489999999999999999999999999999999 99999999999997743

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.90  E-value=1.1e-23  Score=146.41  Aligned_cols=121  Identities=12%  Similarity=0.118  Sum_probs=110.2

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCC-ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSS-YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~-~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+.+|||+||++..+..+...|+..| |.+..+.++.++++.+           ...+||+||+|+.+|+.+|+++++.
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            345799999999999999999999999 9999999999998887           3445779999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++..+  .+|||++|+..+......+++.|+++|+.||++.++|..+++++..+
T Consensus        81 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~  133 (135)
T 3snk_A           81 ARALWA--TVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHDTG  133 (135)
T ss_dssp             HHGGGT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC--
T ss_pred             HHhhCC--CCcEEEEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHhcc
Confidence            999886  89999999999999999999999999999999999999999988765

>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=99.90  E-value=1.4e-22  Score=139.35  Aligned_cols=123  Identities=22%  Similarity=0.448  Sum_probs=109.4

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+++|||+||++..+..+...|+..|| .+..+.++.++++.+.           ...||++++|+.+|+++|+++++.
T Consensus         4 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~-----------~~~~dlvl~D~~l~~~~g~~~~~~   72 (129)
T 1p6q_A            4 AEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMA-----------QNPHHLVISDFNMPKMDGLGLLQA   72 (129)
T ss_dssp             SSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHH-----------TSCCSEEEECSSSCSSCHHHHHHH
T ss_pred             cccCeEEEEcCCHHHHHHHHHHHHHCCCcEEEecCCHHHHHHHHH-----------cCCCCEEEEeCCCCCCCHHHHHHH
Confidence            3457999999999999999999998898 7778999999999984           345679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++....+.+|+|++|+..+......+++.|+++|+.||++.++|..+++.+...
T Consensus        73 l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  127 (129)
T 1p6q_A           73 VRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             HTTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             HhcCccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9986433489999999999999999999999999999999999999999887653

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.90  E-value=8.7e-23  Score=141.34  Aligned_cols=122  Identities=18%  Similarity=0.320  Sum_probs=109.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ++|||+||++..+..+...|+..||.+. .+.++.++++.+..           ..||+|++|+.+|+.+|+++++.+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~-----------~~~dlii~d~~l~~~~g~~~~~~l~~   70 (134)
T 3f6c_A            2 LNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVET-----------LKPDIVIIDVDIPGVNGIQVLETLRK   70 (134)
T ss_dssp             EEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHH-----------HCCSEEEEETTCSSSCHHHHHHHHHH
T ss_pred             eEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHh-----------cCCCEEEEecCCCCCChHHHHHHHHh
Confidence            6999999999999999999999999888 78999999999944           45669999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      ..+  ++|||++|+..+......+++.|+++|+.||++.++|..+++.+.++....
T Consensus        71 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~~~  124 (134)
T 3f6c_A           71 RQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYF  124 (134)
T ss_dssp             TTC--CSEEEEEECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHTTCCBC
T ss_pred             cCC--CCeEEEEeCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHCCCEEe
Confidence            876  899999999999999999999999999999999999999999999875543

>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=99.90  E-value=1.3e-22  Score=139.39  Aligned_cols=121  Identities=18%  Similarity=0.225  Sum_probs=106.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+||+|+.+|+.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-----------~~~dlii~D~~l~~~~g~~~~~~l~~   71 (127)
T 3i42_A            3 LQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMST-----------RGYDAVFIDLNLPDTSGLALVKQLRA   71 (127)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHH-----------SCCSEEEEESBCSSSBHHHHHHHHHH
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHHh-----------cCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            3799999999999999999999999999999999999999943           45679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ....+.+|||++++..+... ..++..|+++|+.||++.++|...++...++.
T Consensus        72 ~~~~~~~~ii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~~~  123 (127)
T 3i42_A           72 LPMEKTSKFVAVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEGHH  123 (127)
T ss_dssp             SCCSSCCEEEEEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC---
T ss_pred             hhccCCCCEEEEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhccC
Confidence            73334899999999988888 88999999999999999999999998877653

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.90  E-value=4.5e-22  Score=140.71  Aligned_cols=123  Identities=24%  Similarity=0.380  Sum_probs=112.0

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ..+++|||+||++..+..+...|+..+  +.+..+.++.++++.+.           ...||+||+|+.+|+.+|+++++
T Consensus        18 ~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~-----------~~~~dlii~D~~l~~~~g~~~~~   86 (150)
T 4e7p_A           18 GSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLLE-----------KESVDIAILDVEMPVKTGLEVLE   86 (150)
T ss_dssp             --CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHT-----------TSCCSEEEECSSCSSSCHHHHHH
T ss_pred             CCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHhh-----------ccCCCEEEEeCCCCCCcHHHHHH
Confidence            346899999999999999999999876  77888999999999994           44567999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      .+++..+  .+|||++++..+......+++.|+++|+.||++.++|..++++++++..
T Consensus        87 ~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~~  142 (150)
T 4e7p_A           87 WIRSEKL--ETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLEGRK  142 (150)
T ss_dssp             HHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHTTCC
T ss_pred             HHHHhCC--CCeEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHcCCE
Confidence            9999876  8999999999999999999999999999999999999999999998754

>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=99.90  E-value=3.6e-22  Score=135.71  Aligned_cols=116  Identities=22%  Similarity=0.426  Sum_probs=105.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .+|+|+||++..+..+...|+..||.+ ..+.++.++++.+..           ..||++++|+.+|+.+|+++++.+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~~-----------~~~dlil~D~~l~~~~g~~~~~~l~~   71 (120)
T 1tmy_A            3 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKE-----------LKPDIVTMDITMPEMNGIDAIKEIMK   71 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-----------HCCSEEEEECSCGGGCHHHHHHHHHH
T ss_pred             ceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHHh-----------cCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            589999999999999999999889984 578999999999843           34679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ..+  .+|+|++|+..+......+++.|+++|+.||++.++|..+++++.
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (120)
T 1tmy_A           72 IDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVS  119 (120)
T ss_dssp             HCT--TCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHC
T ss_pred             hCC--CCeEEEEeCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHh
Confidence            876  899999999999999999999999999999999999999988764

>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=99.90  E-value=5.4e-22  Score=135.37  Aligned_cols=118  Identities=22%  Similarity=0.455  Sum_probs=108.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+|+||++..+..+...|+..||.+..+.++.++++.+..           ..||++++|+.+|+.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-----------~~~dlvi~D~~l~~~~g~~~~~~l~~   71 (123)
T 1xhf_A            3 TPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSE-----------YDINLVIMDINLPGKNGLLLARELRE   71 (123)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------SCCSEEEECSSCSSSCHHHHHHHHHH
T ss_pred             CceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHHhc-----------CCCCEEEEcCCCCCCCHHHHHHHHHh
Confidence            4689999999999999999999889999999999999999843           45679999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      . +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.++
T Consensus        72 ~-~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  120 (123)
T 1xhf_A           72 Q-A--NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  120 (123)
T ss_dssp             H-C--CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             C-C--CCcEEEEECCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHH
Confidence            7 4  89999999999999999999999999999999999999999888754

>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=99.90  E-value=5.3e-22  Score=140.55  Aligned_cols=132  Identities=25%  Similarity=0.443  Sum_probs=111.9

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +++||||||++..+..+...|+..|+  .+..+.++.++++.+......+  ......||+||+|+.+|+++|+++++.+
T Consensus         4 ~~~ILivddd~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~--~~~~~~~dliilD~~l~~~~g~~~~~~l   81 (152)
T 3heb_A            4 SVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSG--RVSAGRAQLVLLDLNLPDMTGIDILKLV   81 (152)
T ss_dssp             -CEEEEECCCHHHHHHHHHHHHHTTCCCCEEEESSHHHHHHHHHCTTSSS--GGGTTCBEEEEECSBCSSSBHHHHHHHH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHhcccccc--ccccCCCCEEEEeCCCCCCcHHHHHHHH
Confidence            58999999999999999999999998  8889999999999985221100  0013468899999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ++....+++|||++|+..+......+++.|+++|+.||++.++|..+++++.....
T Consensus        82 r~~~~~~~~pii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~  137 (152)
T 3heb_A           82 KENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFANAIRQLGLFFS  137 (152)
T ss_dssp             HHSTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHT
T ss_pred             HhcccccCCCEEEEecCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            98432348999999999999999999999999999999999999999999976543

>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=99.89  E-value=7.8e-22  Score=135.49  Aligned_cols=122  Identities=25%  Similarity=0.482  Sum_probs=108.4

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..++|+|+||++..+..+...|+..|| .+..+.++.++++.+.           ...||++++|+.+|+++|+++++.+
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~~-----------~~~~dlvi~D~~l~~~~g~~l~~~l   71 (128)
T 1jbe_A            3 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQ-----------AGGYGFVISDWNMPNMDGLELLKTI   71 (128)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHT-----------TCCCCEEEEESCCSSSCHHHHHHHH
T ss_pred             CccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHHHHHHH
Confidence            457899999999999999999998898 6888999999999984           3457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++....+.+|+|++|+..+......+++.|+++|+.||++.++|..+++++.+.
T Consensus        72 ~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  125 (128)
T 1jbe_A           72 RAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFEK  125 (128)
T ss_dssp             HC--CCTTCCEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HhhcccCCCcEEEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHHH
Confidence            985433489999999999999999999999999999999999999999888753

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.89  E-value=2.6e-22  Score=141.18  Aligned_cols=130  Identities=20%  Similarity=0.325  Sum_probs=111.6

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYD   80 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~   80 (187)
                      |.....++++|||+||++..+..+...|...||.|..+.++.+++..+..           ..||+||+|+.+|+.+|++
T Consensus         1 M~~~~~~~~~iLivd~~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-----------~~~dlii~d~~l~~~~g~~   69 (147)
T 2zay_A            1 MSLAEGKWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVK-----------THPHLIITEANMPKISGMD   69 (147)
T ss_dssp             -------CEEEEEECTTGGGGHHHHHHHHHHTEEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHH
T ss_pred             CCcccCCCceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHHc-----------CCCCEEEEcCCCCCCCHHH
Confidence            44455667899999999999999999999999999999999999999943           3567999999999999999


Q ss_pred             HHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           81 LLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        81 ~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +++.+++....+.+|||++++..+......+++.|+++|+.||++.++|..+++.+.....
T Consensus        70 ~~~~l~~~~~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~~  130 (147)
T 2zay_A           70 LFNSLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLLY  130 (147)
T ss_dssp             HHHHHHTSTTTTTSCEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCcccCCCCEEEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999998322238999999999999999999999999999999999999999999887644

>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=99.89  E-value=8.5e-22  Score=134.21  Aligned_cols=117  Identities=22%  Similarity=0.384  Sum_probs=107.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||++++|+.+|+++|+++++.+++ 
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~d~~l~~~~g~~~~~~l~~-   70 (122)
T 1zgz_A            3 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQ-----------NQSVDLILLDINLPDENGLMLTRALRE-   70 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHHT-
T ss_pred             cEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHHh-----------cCCCCEEEEeCCCCCCChHHHHHHHHh-
Confidence            58999999999999999999988999999999999999884           345679999999999999999999998 


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|+|++++..+......+++.|+++|+.||++.++|...++++.+.
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            44  89999999999999999999999999999999999999999888754

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi}

Probab=99.89  E-value=3.9e-22  Score=142.26  Aligned_cols=122  Identities=23%  Similarity=0.397  Sum_probs=111.1

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+++|||+||++..+..+...|+..||.+. .+.++.++++.+....|         .||+||+|+.+|+.+|+++++.
T Consensus        34 ~~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~l~~~~~---------~~dliilD~~l~~~~g~~~~~~  104 (157)
T 3hzh_A           34 GIPFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYP---------NIDIVTLXITMPKMDGITCLSN  104 (157)
T ss_dssp             TEECEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHGG---------GCCEEEECSSCSSSCHHHHHHH
T ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHhcCC---------CCCEEEEeccCCCccHHHHHHH
Confidence            3458999999999999999999999999988 89999999999954311         4679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      |++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++.++.
T Consensus       105 lr~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~  156 (157)
T 3hzh_A          105 IMEFDK--NARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVFV  156 (157)
T ss_dssp             HHHHCT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTTC
T ss_pred             HHhhCC--CCcEEEEeccCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            999876  8999999999999999999999999999999999999999988764

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.89  E-value=2.4e-22  Score=138.93  Aligned_cols=122  Identities=23%  Similarity=0.339  Sum_probs=105.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+ .||.+..+.++.++++.+..           .+||+||+|+.+|+.+|+++++.+++
T Consensus         4 ~~~ilivdd~~~~~~~l~~~l~-~~~~v~~~~~~~~a~~~l~~-----------~~~dlvi~d~~l~~~~g~~~~~~l~~   71 (133)
T 3nhm_A            4 KPKVLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQALA-----------HPPDVLISDVNMDGMDGYALCGHFRS   71 (133)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHT-TTSEEEEESSHHHHHHHHHH-----------SCCSEEEECSSCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHh-CCcEEEEECCHHHHHHHHhc-----------CCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            5799999999999999999998 78999999999999999943           45679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ..+.+++|||++++..+... ..+++.|+++|+.||++.++|..++++++.+...
T Consensus        72 ~~~~~~~pii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~~  125 (133)
T 3nhm_A           72 EPTLKHIPVIFVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLARAEA  125 (133)
T ss_dssp             STTTTTCCEEEEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHHHHC-
T ss_pred             CCccCCCCEEEEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHhhhcc
Confidence            75445899999999887777 8999999999999999999999999999987544

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.89  E-value=1.3e-22  Score=141.94  Aligned_cols=125  Identities=20%  Similarity=0.257  Sum_probs=110.7

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~g~~~~~~   84 (187)
                      ..+.+|||+||++..+..+...|+..||.+..+.++.++++.+..          ...||+||+|+.+|+ .+|+++++.
T Consensus         3 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~----------~~~~dlvi~D~~l~~~~~g~~~~~~   72 (140)
T 3h5i_A            3 LKDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSG----------GWYPDLILMDIELGEGMDGVQTALA   72 (140)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT----------TCCCSEEEEESSCSSSCCHHHHHHH
T ss_pred             CCCcEEEEEeCCHHHHHHHHHHHHHcCCEEEEecChHHHHHHHhc----------CCCCCEEEEeccCCCCCCHHHHHHH
Confidence            356899999999999999999999999999999999999999843          145779999999985 999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      +++. +  .+|||++|+..+......+++.|+++|+.||++.++|..+++.+++..+..
T Consensus        73 l~~~-~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~~~~  128 (140)
T 3h5i_A           73 IQQI-S--ELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLYEAN  128 (140)
T ss_dssp             HHHH-C--CCCEEEEESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhC-C--CCCEEEEECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHHHHhh
Confidence            9986 4  899999999988888889999999999999999999999999999876543

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.89  E-value=4.8e-22  Score=138.56  Aligned_cols=120  Identities=18%  Similarity=0.315  Sum_probs=109.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .++|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.+|+++|+++++.+++
T Consensus         4 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~-----------~~~dlvllD~~l~~~~g~~l~~~l~~   72 (136)
T 2qzj_A            4 QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFS-----------NKYDLIFLEIILSDGDGWTLCKKIRN   72 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------CCCSEEEEESEETTEEHHHHHHHHHT
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------cCCCEEEEeCCCCCCCHHHHHHHHcc
Confidence            5799999999999999999999889999999999999999843           34679999999999999999999997


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ..   .+|||++++..+......+++.|+++|+.||++.++|..+++.+.++..
T Consensus        73 ~~---~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~~~  123 (136)
T 2qzj_A           73 VT---TCPIVYMTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRMN  123 (136)
T ss_dssp             TC---CCCEEEEESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             CC---CCCEEEEEcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHHhh
Confidence            53   7899999999999999999999999999999999999999998887643

>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=99.89  E-value=4.7e-22  Score=135.74  Aligned_cols=120  Identities=26%  Similarity=0.423  Sum_probs=102.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+|+||++..+..+...|+..||.+..+.++.+++..+..           ..||++++|+.+|+++|+++++.+++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~~~~-----------~~~dlvi~D~~l~~~~g~~~~~~l~~~   70 (124)
T 1mb3_A            2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARE-----------NKPDLILMDIQLPEISGLEVTKWLKED   70 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-----------HCCSEEEEESBCSSSBHHHHHHHHHHS
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhc-----------CCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            479999999999999999999999999999999999998843           346799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ...+.+|+|++|+..+......+++.|+++|+.||++.++|..+++++..+
T Consensus        71 ~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~  121 (124)
T 1mb3_A           71 DDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (124)
T ss_dssp             TTTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             ccccCCcEEEEECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            433489999999998888899999999999999999999999999888754

>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=99.89  E-value=4e-22  Score=153.83  Aligned_cols=125  Identities=26%  Similarity=0.407  Sum_probs=113.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      .+++||||||++..+..+...|+..|+.+..+.++.++++.+...          ..||+|++|+.||+++|+++++.+|
T Consensus       123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~~~----------~~~dlvllD~~mP~~dG~~l~~~lr  192 (259)
T 3luf_A          123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQH----------PAIRLVLVDYYMPEIDGISLVRMLR  192 (259)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHC----------TTEEEEEECSCCSSSCHHHHHHHHH
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcC----------CCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            357999999999999999999999999999999999999998422          2378999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +..+...+|||++|+..+.....++++.||++|+.||++.++|...++++++...
T Consensus       193 ~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~  247 (259)
T 3luf_A          193 ERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLEALE  247 (259)
T ss_dssp             HHCCTTTSEEEEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             hccCCCCCeEEEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHHhHh
Confidence            9876567899999999999999999999999999999999999999999887643

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.89  E-value=9.8e-22  Score=137.69  Aligned_cols=129  Identities=22%  Similarity=0.302  Sum_probs=112.0

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      .++++|||+||++..+..+...|+..|+  .+..+.++.++++.+.....      ....||+||+|+.+|+.+|+++++
T Consensus         7 ~~~~~iLivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~a~~~l~~~~~------~~~~~dlvi~D~~l~~~~g~~~~~   80 (146)
T 3ilh_A            7 RKIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYA------AGRWPSIICIDINMPGINGWELID   80 (146)
T ss_dssp             CCEEEEEEECSCHHHHHHHHHHHHTTCCEEEEEEESSHHHHHHHHHHHHT------SSCCCSEEEEESSCSSSCHHHHHH
T ss_pred             CccceEEEEeCCHHHHHHHHHHHHhcCCCeeeeecCCHHHHHHHHHHhhc------cCCCCCEEEEcCCCCCCCHHHHHH
Confidence            3468999999999999999999999998  88889999999999854110      114678999999999999999999


Q ss_pred             HHHh----hcCCCCCcEEEEeCCCChhHHHHHHHhC-CCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           84 KIKE----SASLKDIPVVIMSSENIPSRINRCLEEG-AEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        84 ~l~~----~~~~~~~~iI~ls~~~~~~~~~~a~~~g-a~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      .+++    ..+  .+|+|++++..+......++..| +++|+.||++.++|..++++...+...
T Consensus        81 ~l~~~~~~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~~~~~  142 (146)
T 3ilh_A           81 LFKQHFQPMKN--KSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLNEGHH  142 (146)
T ss_dssp             HHHHHCGGGTT--TCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHCC---
T ss_pred             HHHHhhhhccC--CCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHHhccC
Confidence            9999    444  89999999999999999999999 999999999999999999999877543

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.89  E-value=7.3e-22  Score=138.09  Aligned_cols=121  Identities=22%  Similarity=0.370  Sum_probs=110.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+ +|+.+|+++++.+++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~-~~~~~g~~~~~~l~~   71 (142)
T 2qxy_A            4 TPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLR-----------REKIDLVFVDV-FEGEESLNLIRRIRE   71 (142)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHT-----------TSCCSEEEEEC-TTTHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHh-----------ccCCCEEEEeC-CCCCcHHHHHHHHHH
Confidence            579999999999999999999999999999999999999994           44577999999 999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ..+  .+|||++++..+......+++.|+++|+.||++.++|..+++++..+...
T Consensus        72 ~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~~  124 (142)
T 2qxy_A           72 EFP--DTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISSTPR  124 (142)
T ss_dssp             HCT--TCEEEEEESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC---
T ss_pred             HCC--CCCEEEEECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHhhccc
Confidence            876  89999999999999999999999999999999999999999999877544

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.89  E-value=5.9e-22  Score=138.23  Aligned_cols=121  Identities=24%  Similarity=0.428  Sum_probs=105.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+.+|+.+|+++++.+++.
T Consensus         4 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~dlvi~D~~l~~~~g~~~~~~l~~~   72 (138)
T 3c3m_A            4 YTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALN-----------ATPPDLVLLDIMMEPMDGWETLERIKTD   72 (138)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHHHS
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHh-----------ccCCCEEEEeCCCCCCCHHHHHHHHHcC
Confidence            69999999999999999999999999999999999999984           3456799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+...+|||++|+..+......++..|+++|+.||++.++|..+++.+..+.
T Consensus        73 ~~~~~~~ii~ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~~~~  124 (138)
T 3c3m_A           73 PATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLARR  124 (138)
T ss_dssp             TTTTTSCEEEEESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHHSCC
T ss_pred             cccCCCCEEEEECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHHHHh
Confidence            4334789999999876655566666778999999999999999999888653

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.89  E-value=2e-21  Score=137.90  Aligned_cols=124  Identities=27%  Similarity=0.311  Sum_probs=113.4

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .++++|||+||++..+..+...|+..||.+..+.++.+++..+.           ...||+||+|+.+|+.+|+++++.+
T Consensus         5 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~~l~~~~g~~~~~~l   73 (154)
T 2rjn_A            5 YKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALK-----------GTSVQLVISDMRMPEMGGEVFLEQV   73 (154)
T ss_dssp             CSCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHT-----------TSCCSEEEEESSCSSSCHHHHHHHH
T ss_pred             CCCCeEEEEcCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHh-----------cCCCCEEEEecCCCCCCHHHHHHHH
Confidence            45689999999999999999999999999999999999999994           4457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhC-CCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEG-AEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~g-a~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ++..+  .+|||++++..+......+++.| +++|+.||++.++|..+++.+..+...
T Consensus        74 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~~~~~  129 (154)
T 2rjn_A           74 AKSYP--DIERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLAFL  129 (154)
T ss_dssp             HHHCT--TSEEEEEECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHhCC--CCcEEEEecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHHHHHH
Confidence            99876  89999999998888999999998 999999999999999999999877543

>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=99.89  E-value=1.5e-21  Score=132.31  Aligned_cols=117  Identities=24%  Similarity=0.406  Sum_probs=106.7

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+|+||++..+..+...|+..||.+..+.++.++++.+..           ..||++++|+.+|+.+|+++++.+++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-----------~~~dlvl~D~~l~~~~g~~~~~~l~~~   70 (120)
T 2a9o_A            2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-----------EQPDIIILDLMLPEIDGLEVAKTIRKT   70 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEECSSCSSSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCHHHHHHHHHHHHhcCcEEEEecCHHHHHHHHHh-----------CCCCEEEEeccCCCCCHHHHHHHHHhC
Confidence            489999999999999999999899999999999999999843           356799999999999999999999974


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                       +  .+|+|++++..+......+++.|+++|+.||++.++|...++.+.+.
T Consensus        71 -~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  118 (120)
T 2a9o_A           71 -S--SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR  118 (120)
T ss_dssp             -C--CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC
T ss_pred             -C--CCCEEEEecCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHHcc
Confidence             4  79999999999999999999999999999999999999999887653

>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=99.89  E-value=1.2e-22  Score=164.18  Aligned_cols=119  Identities=22%  Similarity=0.313  Sum_probs=111.0

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +||||||++..+..+...|+..||.+..+.++.++++.+..           ..||+|++|+.||+++|+++++.+++..
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-----------~~~DlvllDi~mP~~dG~ell~~lr~~~   70 (368)
T 3dzd_A            2 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKE-----------LFFPVIVLDVWMPDGDGVNFIDFIKENS   70 (368)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------BCCSEEEEESEETTEETTTHHHHHHHHC
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHh-----------CCCCEEEEeCCCCCCCHHHHHHHHHhhC
Confidence            79999999999999999999999999999999999999944           4566999999999999999999999987


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +  .+|||++|++.+.+...++++.||++|+.||++.++|..+++++.....
T Consensus        71 ~--~~pvI~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~~~~  120 (368)
T 3dzd_A           71 P--DSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEYS  120 (368)
T ss_dssp             T--TCEEEEEECSSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHHS
T ss_pred             C--CCeEEEEeCCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHHHhh
Confidence            6  8999999999999999999999999999999999999999999887643

>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=99.89  E-value=4.8e-23  Score=154.61  Aligned_cols=162  Identities=14%  Similarity=0.201  Sum_probs=129.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|||+||++..+..+...|+..| .+..+.++.++++.+  .           .||+|++|+.+|+++|+++++.+++.
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~--~-----------~~dlvllD~~lp~~~g~~~~~~lr~~   68 (220)
T 1p2f_A            3 WKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE--E-----------AFHVVVLDVMLPDYSGYEICRMIKET   68 (220)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC--S-----------CCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc--C-----------CCCEEEEeCCCCCCCHHHHHHHHHhc
Confidence            699999999999999999999888 888899999998765  2           36699999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhccCCCcc--ccccccccccccchhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIKEPNNI--NNKRKGLEEIDSADRT  166 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~  166 (187)
                      .+  .+|||++|+..+......+++.|+++|+.||++.++|..+++.+.++...........  .........-.....+
T Consensus        69 ~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L  146 (220)
T 1p2f_A           69 RP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLEREKKGLYDFGDLKIDATGFTVFLKGKRIHL  146 (220)
T ss_dssp             CT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHCCCSEEEETTEEEETTTTEEEETTEECCC
T ss_pred             CC--CCcEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHccccccCcccccEEEECCCCEEEECCEEEec
Confidence            76  8999999999999999999999999999999999999999999987743100000000  0000000001112348


Q ss_pred             hhhcccccccCCCC----CCCccC
Q 046192          167 RTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       167 ~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      +.+|.+++.++.+|    +|++||
T Consensus       147 t~rE~~vl~~l~~~~~~~~s~~~I  170 (220)
T 1p2f_A          147 PKKEFEILLFLAENAGKVVTREKL  170 (220)
T ss_dssp             CHHHHHHHHHHHHTTTSCEEHHHH
T ss_pred             CHHHHHHHHHHHHCCCceEcHHHH
Confidence            99999999999999    888776

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.88  E-value=8.8e-23  Score=153.49  Aligned_cols=161  Identities=12%  Similarity=0.170  Sum_probs=127.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|||+||++..+..+...|+..||.|..+.++.++++.+.           ...||+||    +|+++|+++++.+++.
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~-----------~~~~dlvi----lp~~~g~~~~~~lr~~   65 (223)
T 2hqr_A            1 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMD-----------IRNYDLVM----VSDKNALSFVSRIKEK   65 (223)
T ss_dssp             CCEEEECSCHHHHHHHHHHHGGGTCCEEEESSHHHHHHHHT-----------TSCCSEEE----ECCTTHHHHHHHHHHH
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHCCcEEEEECCHHHHHHHHh-----------cCCCCEEE----eCCCCHHHHHHHHHhC
Confidence            37999999999999999999988999999999999999994           44567999    8999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC-ChHHHHHHHHHHhhhh--hhhccCCCccccccccccccccchh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV-QLADVNKLKPHLMKGI--SKEIKEPNNINNKRKGLEEIDSADR  165 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~-~~~~l~~~i~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  165 (187)
                       + .++|||++|+..+......+++.||++|+.||+ +.++|..+++.+.++.  ...................-.....
T Consensus        66 -~-~~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (223)
T 2hqr_A           66 -H-SSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRFWGSNVIEIGDLTISPDEEKIIYKGREVE  143 (223)
T ss_dssp             -C-TTSEEEEEESSCCHHHHHHHHHHTCSEEEETTCSCTHHHHHHHHHHTSSCCCCSEEETTEEEETTTTEEEETTEEEC
T ss_pred             -C-CCCcEEEEECCCCHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHHhccccCCeEEECCEEEecccCEEEECCEEEe
Confidence             3 379999999999999999999999999999999 9999999999999875  2111100000000000000111234


Q ss_pred             hhhhcccccccCCCC----CCCccC
Q 046192          166 TRTRLNDTIDINNDG----LPDLEI  186 (187)
Q Consensus       166 ~~~~e~~~l~l~~~g----~~~~ei  186 (187)
                      ++.+|.++|.++.+|    +|++||
T Consensus       144 Lt~rE~~vL~~l~~~~~~~~s~~~I  168 (223)
T 2hqr_A          144 VKGKPFEVLTHLARHRDQIVSKEQL  168 (223)
T ss_dssp             CCSTTTHHHHHHHHTCSEEEEHHHH
T ss_pred             cCHHHHHHHHHHHhCCCCcCCHHHH
Confidence            889999999999999    888776

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.88  E-value=1.7e-21  Score=138.02  Aligned_cols=123  Identities=20%  Similarity=0.320  Sum_probs=112.0

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHh-CCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKT-SSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~-~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      .++++|||+||++..+..+...|+. .||.+. .+.++.++++.+.           ...||+||+|+.+++.+|+++++
T Consensus         3 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l~-----------~~~~dlii~D~~l~~~~g~~~~~   71 (153)
T 3cz5_A            3 LSTARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYR-----------ETTPDIVVMDLTLPGPGGIEATR   71 (153)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHHH-----------TTCCSEEEECSCCSSSCHHHHHH
T ss_pred             CcccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHh-----------cCCCCEEEEecCCCCCCHHHHHH
Confidence            3458999999999999999999988 789888 7999999999994           34567999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      .+++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++++..+..
T Consensus        72 ~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~~  127 (153)
T 3cz5_A           72 HIRQWDG--AARILIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILAGRR  127 (153)
T ss_dssp             HHHHHCT--TCCEEEEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTTTCC
T ss_pred             HHHHhCC--CCeEEEEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHhCCc
Confidence            9999876  8999999999999999999999999999999999999999999987744

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.88  E-value=2.2e-21  Score=134.77  Aligned_cols=123  Identities=24%  Similarity=0.446  Sum_probs=106.7

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ....++|||+||++..+..+...|+..|+.+..+.++.++++.+.           ..+ |+|++|+.+|+++|+++++.
T Consensus         4 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~-----------~~~-dlvllD~~lp~~~g~~~~~~   71 (136)
T 1dcf_A            4 NFTGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS-----------HEH-KVVFMDVCMPGVENYQIALR   71 (136)
T ss_dssp             CCTTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCC-----------TTC-SEEEEECCSSTTTTTHHHHH
T ss_pred             ccCCCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHh-----------ccC-CEEEEeCCCCCCcHHHHHHH
Confidence            345689999999999999999999999999999999999998873           223 79999999999999999999


Q ss_pred             HHhhcCC---CCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASL---KDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~---~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++..+.   ...+||++|+..+......+++.|+++|+.||++.++|..+++++..+
T Consensus        72 l~~~~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  129 (136)
T 1dcf_A           72 IHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEP  129 (136)
T ss_dssp             HHHHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSC
T ss_pred             HHHhhhhccCCCceEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhch
Confidence            9854321   123588899998999999999999999999999999999999988765

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.88  E-value=1.1e-21  Score=136.66  Aligned_cols=122  Identities=21%  Similarity=0.224  Sum_probs=110.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTGYDLL   82 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g~~~~   82 (187)
                      +++|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+.++     +.+|++++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlvi~d~~~~~~~~~~~~g~~~~   71 (140)
T 2qr3_A            3 LGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLR-----------EENPEVVLLDMNFTSGINNGNEGLFWL   71 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHHH-----------HSCEEEEEEETTTTC-----CCHHHHH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHH-----------cCCCCEEEEeCCcCCCCCCCccHHHHH
Confidence            379999999999999999999999999999999999999994           34577999999999     99999999


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +.+++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++++.++...
T Consensus        72 ~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~~~  129 (140)
T 2qr3_A           72 HEIKRQYR--DLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAASQAKD  129 (140)
T ss_dssp             HHHHHHCT--TCCEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHTCC--
T ss_pred             HHHHhhCc--CCCEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHHhccc
Confidence            99999876  89999999998899999999999999999999999999999999877543

>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=99.88  E-value=1.6e-21  Score=135.31  Aligned_cols=120  Identities=22%  Similarity=0.372  Sum_probs=109.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|...||.+..+.++.+++..+..           ..||++++|+.+|+++|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-----------~~~dlvl~D~~l~~~~g~~~~~~l~~   71 (136)
T 1mvo_A            3 NKKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-----------EKPDLIVLDVMLPKLDGIEVCKQLRQ   71 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESSCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhh-----------cCCCEEEEecCCCCCCHHHHHHHHHc
Confidence            3689999999999999999999999999999999999998843           35679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ..+  .+|+|++++..+......+++.|+++|+.||++.++|...++.+..+.
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  122 (136)
T 1mvo_A           72 QKL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRS  122 (136)
T ss_dssp             TTC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHTC
T ss_pred             CCC--CCCEEEEECCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHHhh
Confidence            765  899999999988888999999999999999999999999999888653

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.88  E-value=2.8e-22  Score=140.08  Aligned_cols=130  Identities=23%  Similarity=0.426  Sum_probs=112.1

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYD   80 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~   80 (187)
                      |.+ +..+.+|||+||++..+..+...|+..||.+..+.++.++++.+.           ...||+||+|+.+|+.+|++
T Consensus         1 M~~-~~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~-----------~~~~dlii~d~~l~~~~g~~   68 (142)
T 3cg4_A            1 MSL-AEHKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLK-----------KGFSGVVLLDIMMPGMDGWD   68 (142)
T ss_dssp             ------CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------TCCCEEEEEESCCSSSCHHH
T ss_pred             CCC-CCCCCeEEEEcCCHHHHHHHHHHHHHCCeEEEEeCCHHHHHHHHH-----------hcCCCEEEEeCCCCCCCHHH
Confidence            443 456789999999999999999999999999999999999999994           34567999999999999999


Q ss_pred             HHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           81 LLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        81 ~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +++.+++....+.+|||++++..+......+++.|+++|+.||++.++|..+++.+++..+.
T Consensus        69 ~~~~l~~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~~  130 (142)
T 3cg4_A           69 TIRAILDNSLEQGIAIVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGFVRN  130 (142)
T ss_dssp             HHHHHHHTTCCTTEEEEEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCCCCEEEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHHHHhh
Confidence            99999983222389999999998888888999999999999999999999999999876543

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.88  E-value=1.7e-21  Score=135.69  Aligned_cols=123  Identities=15%  Similarity=0.279  Sum_probs=111.7

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-CCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-GMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-~~~g~~~~~   83 (187)
                      ..+++|||+||++..+..+...|+..||.+. .+.++.++++.+..           ..||+||+|+.+| +.+|+++++
T Consensus         7 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~-----------~~~dlii~d~~~~~~~~g~~~~~   75 (140)
T 3cg0_A            7 DDLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPD-----------LRPDIALVDIMLCGALDGVETAA   75 (140)
T ss_dssp             -CCCEEEEECCBHHHHHHHHHHHHHHTCEEEEEESSHHHHHHHHHH-----------HCCSEEEEESSCCSSSCHHHHHH
T ss_pred             CCCceEEEEECCHHHHHHHHHHHHHCCCeeEEEECCHHHHHHHHHh-----------CCCCEEEEecCCCCCCCHHHHHH
Confidence            3468999999999999999999999999999 49999999999943           3467999999998 799999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      .+++. +  .+|||++++..+......+++.|+++|+.||++.++|..+++.+.++...
T Consensus        76 ~l~~~-~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~~~  131 (140)
T 3cg0_A           76 RLAAG-C--NLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKKKL  131 (140)
T ss_dssp             HHHHH-S--CCCEEEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhC-C--CCCEEEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHhcccc
Confidence            99987 5  89999999999999999999999999999999999999999999987554

>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=99.88  E-value=2.3e-22  Score=140.47  Aligned_cols=126  Identities=22%  Similarity=0.321  Sum_probs=103.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+.. +.+..+.++.++++.+..           ..||+||+|+.+|+.+|+++++.+++
T Consensus         3 ~~~iLivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~-----------~~~dlvi~D~~l~~~~g~~~~~~l~~   70 (140)
T 3n53_A            3 LKKILIIDQQDFSRIELKNFLDSE-YLVIESKNEKEALEQIDH-----------HHPDLVILDMDIIGENSPNLCLKLKR   70 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTT-SEEEEESSHHHHHHHHHH-----------HCCSEEEEETTC------CHHHHHHT
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhc-ceEEEeCCHHHHHHHHhc-----------CCCCEEEEeCCCCCCcHHHHHHHHHc
Confidence            379999999999999999999887 999999999999999944           45679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhhcc
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKEIK  145 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~~~  145 (187)
                      ....+.+|||++++..+.+....+++.|+++|+.||++.++|..+++.++++......
T Consensus        71 ~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~~~~  128 (140)
T 3n53_A           71 SKGLKNVPLILLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLRTQNYYSD  128 (140)
T ss_dssp             STTCTTCCEEEEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccCCCCEEEEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHhhHHHHHH
Confidence            7633489999999998888899999999999999999999999999999988765443

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.88  E-value=1.6e-21  Score=134.42  Aligned_cols=119  Identities=18%  Similarity=0.348  Sum_probs=106.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|||+||++..+..+...|+.. ||.+. .+.++.++++.+..           ..||++++|+.+|+++|+++++.++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~~-----------~~~dlvllD~~l~~~~g~~~~~~l~   71 (130)
T 1dz3_A            3 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-----------KRPDILLLDIIMPHLDGLAVLERIR   71 (130)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHHHHHHHH
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHhc-----------CCCCEEEEecCCCCCCHHHHHHHHH
Confidence            68999999999999999999987 78776 68999999999843           3467999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +... +..|+|++|+..+......+++.|+++|+.||++.++|..+++++.+.
T Consensus        72 ~~~~-~~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~  123 (130)
T 1dz3_A           72 AGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGK  123 (130)
T ss_dssp             HHCS-SCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHHC
T ss_pred             hcCC-CCCcEEEEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhcC
Confidence            8521 278999999999999999999999999999999999999999988754

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.88  E-value=2.6e-21  Score=136.95  Aligned_cols=125  Identities=26%  Similarity=0.364  Sum_probs=110.6

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCce--EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~--v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ....+|||+||++..+..+...|+..|+.  +..+.++.++++.+..           ..||+||+|+.+|+.+|+++++
T Consensus        13 ~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~-----------~~~dlii~d~~l~~~~g~~~~~   81 (152)
T 3eul_A           13 PEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKA-----------HLPDVALLDYRMPGMDGAQVAA   81 (152)
T ss_dssp             -CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHHH-----------HCCSEEEEETTCSSSCHHHHHH
T ss_pred             CceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHHh-----------cCCCEEEEeCCCCCCCHHHHHH
Confidence            45689999999999999999999988843  4469999999999944           4567999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      .+++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++.+..+....
T Consensus        82 ~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~~~~~  139 (152)
T 3eul_A           82 AVRSYEL--PTRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKGRDVV  139 (152)
T ss_dssp             HHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHCC---
T ss_pred             HHHhcCC--CCeEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCeee
Confidence            9999876  899999999999999999999999999999999999999999999885543

>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=99.88  E-value=5.1e-21  Score=132.82  Aligned_cols=129  Identities=23%  Similarity=0.351  Sum_probs=111.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +.+|||+||++..+..+...|+..|+  .+..+.++.++++.+....+.    .....||+|++|+.+|+.+|+++++.+
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~~~----~~~~~~dlvi~d~~~~~~~g~~~~~~l   77 (140)
T 1k68_A            2 HKKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEY----ANASRPDLILLXLNLPKKDGREVLAEI   77 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGG----GSCCCCSEEEECSSCSSSCHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHccccc----ccCCCCcEEEEecCCCcccHHHHHHHH
Confidence            46899999999999999999999988  888999999999998531000    001467899999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ++....+.+|||++++..+......+++.|+++|+.||++.++|..+++++.+..
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            9975223899999999999999999999999999999999999999999988653

>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=99.88  E-value=3.7e-21  Score=135.05  Aligned_cols=133  Identities=26%  Similarity=0.428  Sum_probs=113.9

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCccccccccc--ccccEEEEeccCCCCCHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQV--IQVNLIITDYCMPGMTGYD   80 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~--~~~dlvi~d~~~~~~~g~~   80 (187)
                      .....+|||+||++..+..+...|+..|+  .+..+.++.++++.+....+.+   ...  ..||+||+|+.+|+.+|++
T Consensus         3 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~---~~~~~~~~dlvi~D~~l~~~~g~~   79 (149)
T 1k66_A            3 GNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYC---NPDIAPRPAVILLDLNLPGTDGRE   79 (149)
T ss_dssp             SCTTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSS---CGGGCCCCSEEEECSCCSSSCHHH
T ss_pred             CCCCccEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHHHHHHHHhccccc---CcccCCCCcEEEEECCCCCCCHHH
Confidence            44568999999999999999999999998  8889999999999995421110   001  4688999999999999999


Q ss_pred             HHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           81 LLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        81 ~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +++.+++....+.+|||++++..+......+++.|+++|+.||++.++|..+++++.+..
T Consensus        80 ~~~~l~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  139 (149)
T 1k66_A           80 VLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYW  139 (149)
T ss_dssp             HHHHHTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHh
Confidence            999999875223899999999999999999999999999999999999999999988653

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.88  E-value=6e-22  Score=139.26  Aligned_cols=123  Identities=8%  Similarity=0.148  Sum_probs=111.7

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCC-ceEEEeCCHHHHHHHHhccCccccccccc-ccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSS-YQVTAVDSGNKALEFLGLLNEDEQTNSQV-IQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~-~~v~~~~~~~~a~~~l~~~~~~~~~~~~~-~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ....+|||+||++..+..+...|+..| |.+..+.++.+++..+..          . ..||+||+|+.+|+++|+++++
T Consensus        18 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~~----------~~~~~dlvi~D~~l~~~~g~~~~~   87 (146)
T 4dad_A           18 QGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTD----------GLDAFDILMIDGAALDTAELAAIE   87 (146)
T ss_dssp             GGGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCHH----------HHTTCSEEEEECTTCCHHHHHHHH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHHh----------cCCCCCEEEEeCCCCCccHHHHHH
Confidence            446899999999999999999999988 999999999988877632          2 4577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+++..+  .+|||++++..+......+++.|+++|+.||++.++|..++++++.+.
T Consensus        88 ~l~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~~  142 (146)
T 4dad_A           88 KLSRLHP--GLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAAQC  142 (146)
T ss_dssp             HHHHHCT--TCEEEEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHHTC
T ss_pred             HHHHhCC--CCcEEEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHhhh
Confidence            9999876  899999999999999999999999999999999999999999998763

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.88  E-value=3e-21  Score=136.58  Aligned_cols=122  Identities=23%  Similarity=0.359  Sum_probs=111.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+. ||.+..+.++.++++.+....          +||+||+|+.+|+.+|+++++.+++
T Consensus         4 ~~~ILivdd~~~~~~~l~~~L~~-~~~v~~~~~~~~a~~~l~~~~----------~~dlvi~D~~l~~~~g~~~~~~l~~   72 (151)
T 3kcn_A            4 NERILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSD----------PFSVIMVDMRMPGMEGTEVIQKARL   72 (151)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTT-TSEEEEESSHHHHHHHHHHSC----------CCSEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHhcc-CceEEEeCCHHHHHHHHHcCC----------CCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            47999999999999999999975 899999999999999995332          3579999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhC-CCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEG-AEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~g-a~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ..+  .+|||++++..+......++..| +++|+.||++.++|..+++.++++...
T Consensus        73 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~~~~~  126 (151)
T 3kcn_A           73 ISP--NSVYLMLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQYDL  126 (151)
T ss_dssp             HCS--SCEEEEEECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHHHHHH
T ss_pred             cCC--CcEEEEEECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHHHHHH
Confidence            876  89999999999999999999999 999999999999999999999987543

>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=99.88  E-value=2.6e-21  Score=131.36  Aligned_cols=117  Identities=21%  Similarity=0.382  Sum_probs=106.5

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++|+|+||++..+..+...|+..||.+..+.++.+++..+..           ..||++++|+.+|+++|+++++.+++ 
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-----------~~~dlvi~D~~l~~~~g~~~~~~l~~-   69 (121)
T 1zh2_A            2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAAT-----------RKPDLIILDLGLPDGDGIEFIRDLRQ-   69 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESEETTEEHHHHHHHHHT-
T ss_pred             cEEEEEeCCHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHhc-----------CCCCEEEEeCCCCCCcHHHHHHHHHh-
Confidence            589999999999999999999889999999999999988843           34679999999999999999999995 


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|+|++++..+......+++.|+++|+.||++.++|..+++.+.++
T Consensus        70 ~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  118 (121)
T 1zh2_A           70 WS--AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  118 (121)
T ss_dssp             TC--CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHHh
Confidence            44  89999999999999999999999999999999999999999888765

>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=99.87  E-value=4.3e-22  Score=136.48  Aligned_cols=120  Identities=22%  Similarity=0.389  Sum_probs=108.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+|+||++..+..+...|+..||.+..+.++.++++.+           ....||++++|+.+|+.+|+++++.+++.
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            5899999999999999999998999999999999999887           33457799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ...+++|+|++|+..+......+++.|+++|+.||++.++|...++.+.++
T Consensus        72 ~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  122 (127)
T 2jba_A           72 SMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRR  122 (127)
T ss_dssp             TTTTTSCEEEEEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHHHC
T ss_pred             cccCCCCEEEEeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHhc
Confidence            533489999999998888899999999999999999999999999888764

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.87  E-value=2.4e-21  Score=135.51  Aligned_cols=133  Identities=23%  Similarity=0.385  Sum_probs=109.2

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG   78 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g   78 (187)
                      |.|| .++++|||+||++..+..+...|+..|+  .+..+.++.++++.+......     ....||+||+|+.+|+.+|
T Consensus         1 M~~m-~~~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~-----~~~~~dlii~D~~l~~~~g   74 (143)
T 2qvg_A            1 MSLA-ADKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKE-----NKIHPKLILLDINIPKMNG   74 (143)
T ss_dssp             -------CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTC-----CCCCCSEEEEETTCTTSCH
T ss_pred             CCcc-cCCCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccc-----cCCCCCEEEEecCCCCCCH
Confidence            5553 4567999999999999999999998887  899999999999998531110     1245789999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++++.+++....+.+|+|++++..+......+++.|+++|+.||++.++|..++.....+
T Consensus        75 ~~~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~~~~~  135 (143)
T 2qvg_A           75 IEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWILQSM  135 (143)
T ss_dssp             HHHHHHHTTSGGGTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCccccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHHh
Confidence            9999999987522389999999999999999999999999999999999999887655443

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.87  E-value=1.9e-21  Score=131.33  Aligned_cols=114  Identities=21%  Similarity=0.394  Sum_probs=102.4

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+|+||++..+..+...|+..||.+..+.++.++++.+..           ..||++++|+.+|+.+|+++++.+++.
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~-----------~~~dlvl~D~~l~~~~g~~~~~~l~~~   70 (116)
T 3a10_A            2 KRILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFS-----------GNYDLVILDIEMPGISGLEVAGEIRKK   70 (116)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------SCCSEEEECSCCSSSCHHHHHHHHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhc-----------CCCCEEEEECCCCCCCHHHHHHHHHcc
Confidence            489999999999999999999999999999999999999843           456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+  .+|+|++++..+..  ..+++.|+++|+.||++.++|..+++++.
T Consensus        71 ~~--~~~ii~~s~~~~~~--~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~  115 (116)
T 3a10_A           71 KK--DAKIILLTAYSHYR--SDMSSWAADEYVVKSFNFDELKEKVKKLL  115 (116)
T ss_dssp             CT--TCCEEEEESCGGGG--GCGGGGGSSEEEECCSSTHHHHHHHHHHT
T ss_pred             CC--CCeEEEEECCcchH--HHHHhccccceEECCCCHHHHHHHHHHHh
Confidence            75  89999999876554  67889999999999999999999888764

>3mm4_A Histidine kinase homolog; receiver domain, CKI1, cytokinin signaling, ROS fold, CHEY-like, transferase; 2.00A {Arabidopsis thaliana} PDB: 3mmn_A

Probab=99.87  E-value=4.1e-21  Score=143.27  Aligned_cols=130  Identities=24%  Similarity=0.379  Sum_probs=106.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCccc--ccccccccccEEEEeccCCCCCHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDE--QTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~--~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ...+||||||++..+..+..+|+..|| .|..+.++.++++.+.......  ........||+||+|+.||+++|+++++
T Consensus        60 ~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~~~~~~~~~~dlillD~~lp~~~G~el~~  139 (206)
T 3mm4_A           60 RGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLPFDYIFMDCQMPEMDGYEATR  139 (206)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHHHTCSSCCSCSEEEEESCCSSSCHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccccccccCCCCCEEEEcCCCCCCCHHHHHH
Confidence            457999999999999999999999998 8999999999999985420000  0000012578999999999999999999


Q ss_pred             HHHhh----cCCCCCcEEEEeCCC-ChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           84 KIKES----ASLKDIPVVIMSSEN-IPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        84 ~l~~~----~~~~~~~iI~ls~~~-~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .|++.    .+  .+|||++|+.. +.+....+++.|+++||.||++  +|..++++++.+.
T Consensus       140 ~lr~~~~~~~~--~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~~~  197 (206)
T 3mm4_A          140 EIRKVEKSYGV--RTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIESKR  197 (206)
T ss_dssp             HHHHHHHTTTC--CCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC---
T ss_pred             HHHhhhhhcCC--CCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHhhh
Confidence            99986    34  89999999987 7788999999999999999998  8999998888664

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.87  E-value=2.3e-21  Score=135.84  Aligned_cols=120  Identities=21%  Similarity=0.299  Sum_probs=102.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHh--CCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKT--SSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~--~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ++|||+||++..+..+...|..  .||.+. .+.++.++++.+.           ...||+|++|+.+|+++|+++++.+
T Consensus         3 ~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~~-----------~~~~dlvllD~~lp~~~g~~l~~~l   71 (141)
T 3cu5_A            3 LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIAL-----------KHPPNVLLTDVRMPRMDGIELVDNI   71 (141)
T ss_dssp             CEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHHT-----------TSCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHHh-----------cCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            5899999999999999999963  578777 7999999999983           3457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ++..+  .+|||++|+..+......+++.|+++|+.||++.++|..+++.+.....
T Consensus        72 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~~  125 (141)
T 3cu5_A           72 LKLYP--DCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQTVL  125 (141)
T ss_dssp             HHHCT--TCEEEEECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHHHHH
T ss_pred             HhhCC--CCcEEEEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            98766  8999999999888889999999999999999999999999999887654

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.87  E-value=1.5e-21  Score=158.74  Aligned_cols=122  Identities=25%  Similarity=0.477  Sum_probs=106.9

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      .+.+.+||||||++..+..+...|+..||.|..+.++.++++.+..           ..||+||+|+.||+++|+++++.
T Consensus         2 ~~~~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-----------~~~dlvllD~~mp~~~G~~~~~~   70 (394)
T 3eq2_A            2 HKVSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFES-----------EQPDLVICDLRMPQIDGLELIRR   70 (394)
T ss_dssp             --CEEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHH-----------SCCSEEEECCCSSSSCTHHHHHH
T ss_pred             CCCCCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhh-----------CCCCEEEEcCCCCCCCHHHHHHH
Confidence            4456899999999999999999999999999999999999999943           45679999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC-ChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV-QLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~-~~~~l~~~i~~~~~~  139 (187)
                      +++..+  ++|||++|+..+.+...++++.||++|+.||+ +.++|..+++++...
T Consensus        71 lr~~~~--~~pii~lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~~~  124 (394)
T 3eq2_A           71 IRQTAS--ETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALDR  124 (394)
T ss_dssp             HHHTTC--CCCEEEC---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHHHH
T ss_pred             HHhhCC--CCcEEEEEcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHHhh
Confidence            999876  89999999999999999999999999999999 588888888777754

>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=99.87  E-value=6.5e-21  Score=135.33  Aligned_cols=122  Identities=24%  Similarity=0.368  Sum_probs=111.3

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +..+|||+||++..+..+...|...||.+..+.++.+++..+           ....||+||+|+.+|+.+|+++++.++
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            357999999999999999999999999999999999999988           344577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +..+  .+|||++++..+......+++.|+++|+.||++.++|..+++.+..+..
T Consensus        71 ~~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~~  123 (155)
T 1qkk_A           71 ALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR  123 (155)
T ss_dssp             HHCT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             hhCC--CCCEEEEECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9876  8999999999889999999999999999999999999999999987654

>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=99.87  E-value=3.8e-21  Score=147.88  Aligned_cols=122  Identities=27%  Similarity=0.537  Sum_probs=112.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..++|||+||++..+..+...|+..||.|..+.++.++++.+.           ...||+|++|+.||+++|+++++.|+
T Consensus       128 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~-----------~~~~dlvl~D~~mp~~~G~~l~~~ir  196 (254)
T 2ayx_A          128 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLS-----------KNHIDIVLSDVNMPNMDGYRLTQRIR  196 (254)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHH-----------HSCCSEEEEEESSCSSCCHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHH-----------hCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            3578999999999999999999999999999999999999994           34577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +..+  .+|||++|+..+......+++.|+++|+.||++.++|..+++++.....
T Consensus       197 ~~~~--~~piI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~~~  249 (254)
T 2ayx_A          197 QLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERVR  249 (254)
T ss_dssp             HHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             hcCC--CCcEEEEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHHHhh
Confidence            9876  8999999999999999999999999999999999999999998876543

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.87  E-value=3.5e-21  Score=136.47  Aligned_cols=123  Identities=27%  Similarity=0.288  Sum_probs=100.9

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-Cc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +++|||+||++..+..+...|+.. |+ .+..+.++.++++.+..          ...||+||+|+.+|+.+|+++++.+
T Consensus         3 ~~~iLivdd~~~~~~~l~~~L~~~~g~~~v~~~~~~~~a~~~l~~----------~~~~dlvi~d~~l~~~~g~~~~~~l   72 (154)
T 2qsj_A            3 LTVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEA----------DNTVDLILLDVNLPDAEAIDGLVRL   72 (154)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHCTTEEEEEESSHHHHHHHHHT----------TCCCSEEEECC------CHHHHHHH
T ss_pred             ccEEEEEcCCHHHHHHHHHHHHhCCCceEEEEecCHHHHHHHHhc----------cCCCCEEEEeCCCCCCchHHHHHHH
Confidence            379999999999999999999887 77 67789999999999943          1457799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ++..+  .+|||++++..+......+++.|+++|+.||++.++|..+++.+..+...
T Consensus        73 ~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~~~~~  127 (154)
T 2qsj_A           73 KRFDP--SNAVALISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILEGEIF  127 (154)
T ss_dssp             HHHCT--TSEEEEC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHTTCCB
T ss_pred             HHhCC--CCeEEEEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHcCCEE
Confidence            99876  89999999998889999999999999999999999999999999987544

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.87  E-value=7.7e-21  Score=132.98  Aligned_cols=127  Identities=22%  Similarity=0.375  Sum_probs=104.2

Q ss_pred             CCCC-CCCceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC
Q 046192            1 MGMV-TDSQFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT   77 (187)
Q Consensus         1 m~~~-~~~~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~   77 (187)
                      |+|+ ....++|||+||++..+..+...|+.. ++.++ .+.++.++++.+..           ..||+||+|+.+|+.+
T Consensus         1 M~~~~~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-----------~~~dlvi~d~~l~~~~   69 (143)
T 2qv0_A            1 MSLVMSGEKMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQH-----------NKVDAIFLDINIPSLD   69 (143)
T ss_dssp             ---------CEEEEECSCHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHHHHH-----------CCCSEEEECSSCSSSC
T ss_pred             CccccCCCceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHh-----------CCCCEEEEecCCCCCC
Confidence            4443 344689999999999999999999876 78754 68999999999843           4567999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      |+++++.+++..+  ..|||++++..  +....+++.|+++|+.||++.++|..+++++.....+
T Consensus        70 g~~~~~~l~~~~~--~~~ii~~s~~~--~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~~~  130 (143)
T 2qv0_A           70 GVLLAQNISQFAH--KPFIVFITAWK--EHAVEAFELEAFDYILKPYQESRIINMLQKLTTAWEQ  130 (143)
T ss_dssp             HHHHHHHHTTSTT--CCEEEEEESCC--TTHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCC--CceEEEEeCCH--HHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999998654  77889898863  4678899999999999999999999999999877543

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.87  E-value=9.9e-21  Score=130.46  Aligned_cols=123  Identities=23%  Similarity=0.282  Sum_probs=108.1

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CCHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MTGYDLLRK   84 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~g~~~~~~   84 (187)
                      +++++|||+||++..+..+...|+..||.+..+.++.++++.+...          ..||+||+|+.+|+ .+|+++++.
T Consensus         3 m~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~----------~~~dlvi~d~~l~~~~~g~~~~~~   72 (132)
T 2rdm_A            3 LEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSG----------AAIDGVVTDIRFCQPPDGWQVARV   72 (132)
T ss_dssp             CSSCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTT----------CCCCEEEEESCCSSSSCHHHHHHH
T ss_pred             CCCceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHcC----------CCCCEEEEeeeCCCCCCHHHHHHH
Confidence            3458999999999999999999999999999999999999998432          15679999999997 999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      +++..+  .+|+|++++..+......++..|  +|+.||++.++|..+++++..+...
T Consensus        73 l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~~~~~  126 (132)
T 2rdm_A           73 AREIDP--NMPIVYISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNAREG  126 (132)
T ss_dssp             HHHHCT--TCCEEEEESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHHTTC-
T ss_pred             HHhcCC--CCCEEEEeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHhcCCC
Confidence            999876  89999999998888887777665  7999999999999999999877544

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.86  E-value=1.6e-21  Score=134.90  Aligned_cols=121  Identities=19%  Similarity=0.263  Sum_probs=107.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+|||+||++..+..+...|+..++.+..+.++.+++..+           ... ||+||+|+.+|+.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~-----------~~~-~dlvi~D~~l~~~~g~~~~~~l~~   70 (135)
T 3eqz_A            3 LNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLS-----------LNK-QDIIILDLMMPDMDGIEVIRHLAE   70 (135)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTCSCEEEESCHHHHTTSC-----------CCT-TEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             cceEEEEeCCHHHHHHHHHHHHhhcceeeeecCHHHHHHhh-----------ccC-CCEEEEeCCCCCCCHHHHHHHHHh
Confidence            47999999999999999999988888899999999998777           334 779999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCCh-----hHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           88 SASLKDIPVVIMSSENIP-----SRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~-----~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      ..+  .+|||++++..+.     .....+++.|+++|+.||++.++|..+++++..+...
T Consensus        71 ~~~--~~~ii~~s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~~~~~  128 (135)
T 3eqz_A           71 HKS--PASLILISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSNRQAE  128 (135)
T ss_dssp             TTC--CCEEEEEESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSCCC--
T ss_pred             CCC--CCCEEEEEeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHhhccc
Confidence            876  8999999998764     6677789999999999999999999999999987543

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.86  E-value=6.4e-22  Score=154.87  Aligned_cols=117  Identities=21%  Similarity=0.252  Sum_probs=106.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-CCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-GMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-~~~g~~~~~~l   85 (187)
                      ..+||++||++..+..+..+|+..||.|. .+.+|.+|++.+.           ..+||+||+|+.|| +++|+++++.|
T Consensus       160 ~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~~-----------~~~~dlvl~D~~MPd~mdG~e~~~~i  228 (286)
T 3n0r_A          160 ATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVT-----------RRTPGLVLADIQLADGSSGIDAVKDI  228 (286)
T ss_dssp             CCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHH-----------HCCCSEEEEESCCTTSCCTTTTTHHH
T ss_pred             CCcEEEEcCCHHHHHHHHHHhhccCceEEEEeCCHHHHHHHHH-----------hCCCCEEEEcCCCCCCCCHHHHHHHH
Confidence            46899999999999999999999999999 8999999999994           44567999999999 79999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      |+..   ++|||++|+..  +...++++.|+++||.||++.++|..+++.++...
T Consensus       229 r~~~---~~piI~lT~~~--~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~~  278 (286)
T 3n0r_A          229 LGRM---DVPVIFITAFP--ERLLTGERPEPTFLITKPFQPETVKAAIGQALFFH  278 (286)
T ss_dssp             HHHT---TCCEEEEESCG--GGGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHHS
T ss_pred             HhcC---CCCEEEEeCCH--HHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHhC
Confidence            9975   89999999974  45677899999999999999999999999998763

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B

Probab=99.86  E-value=2.1e-20  Score=130.30  Aligned_cols=118  Identities=21%  Similarity=0.319  Sum_probs=105.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|||+||++..+..+...|+.. |.+..+.++.++++.+.           ...||++++|+.+|+++|+++++.+++.
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            47999999999999999999865 88989999999999984           3456799999999999999999999988


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHh-CCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEE-GAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~-ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+  .+|+|++++..+......++.. |+++|+.||++.++|..+++.+..+.
T Consensus        70 ~~--~~~ii~~s~~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  120 (139)
T 2jk1_A           70 WP--ETVRIIITGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARMF  120 (139)
T ss_dssp             CT--TSEEEEEESCTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEeCCCChHHHHHHHHhhchhhhccCCCCHHHHHHHHHHHHHHH
Confidence            66  8899999999888888888876 59999999999999999999888664

>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=99.86  E-value=6.9e-21  Score=141.42  Aligned_cols=120  Identities=22%  Similarity=0.388  Sum_probs=109.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..+||||||++..+..+...|...||.+. .+.++.++++.+..           ..||+||+|+.+|+++|+++++.++
T Consensus        13 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~~-----------~~~dlvi~D~~~p~~~g~~~~~~l~   81 (205)
T 1s8n_A           13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-----------HKPDLVIMDVKMPRRDGIDAASEIA   81 (205)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-----------HCCSEEEEESSCSSSCHHHHHHHHH
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHhh-----------cCCCEEEEeCCCCCCChHHHHHHHH
Confidence            36999999999999999999999999988 79999999999843           3467999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +..+   .|||++|+..+......+++.|+++|+.||++.++|..+++.+..+..
T Consensus        82 ~~~~---~pii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~~  133 (205)
T 1s8n_A           82 SKRI---APIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFR  133 (205)
T ss_dssp             HTTC---SCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHHHH
T ss_pred             hcCC---CCEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHHHH
Confidence            8753   499999999999999999999999999999999999999999887653

>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=99.85  E-value=1.1e-20  Score=128.94  Aligned_cols=118  Identities=21%  Similarity=0.340  Sum_probs=106.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCC-CCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-GMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-~~~g~~~~~~l~~   87 (187)
                      .+|||+||++..+..+...|+..||.+..+.++.++++.+..           ..||++++|+.+| +.+|+++++.+++
T Consensus         6 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~-----------~~~dlvi~d~~~~~~~~g~~~~~~l~~   74 (127)
T 2gkg_A            6 KKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRR-----------DRPDLVVLAVDLSAGQNGYLICGKLKK   74 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHHH-----------HCCSEEEEESBCGGGCBHHHHHHHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHh-----------cCCCEEEEeCCCCCCCCHHHHHHHHhc
Confidence            699999999999999999999999999999999999999843           3467999999999 9999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ....+++|+|++ +..+......+++.|+++|+.||++.++|...++++.+
T Consensus        75 ~~~~~~~~ii~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  124 (127)
T 2gkg_A           75 DDDLKNVPIVII-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIG  124 (127)
T ss_dssp             STTTTTSCEEEE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             CccccCCCEEEE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHHc
Confidence            732238999999 88888889999999999999999999999999988775

>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=99.85  E-value=2.6e-20  Score=154.08  Aligned_cols=121  Identities=28%  Similarity=0.424  Sum_probs=110.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+||||||++..+..+...|+..||.|..+.++.++++.+..           ..||+||+|+.||+++|+++++.|++.
T Consensus         2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~~~-----------~~~dlvllD~~mp~~~G~~~~~~l~~~   70 (459)
T 1w25_A            2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAAR-----------DLPDIILLDVMMPGMDGFTVCRKLKDD   70 (459)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHHHHHHHHHS
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhc-----------CCCCEEEEcCCCCCCCHHHHHHHHhcC
Confidence            489999999999999999999889999999999999999843           346699999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ...+++|||++|+..+......+++.||++|+.||++.++|..+++.+.++.
T Consensus        71 ~~~~~~pii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~~~  122 (459)
T 1w25_A           71 PTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (459)
T ss_dssp             TTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            4334899999999999999999999999999999999999999998887653

>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=99.85  E-value=2.2e-20  Score=151.88  Aligned_cols=119  Identities=22%  Similarity=0.439  Sum_probs=110.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++||||||++..+..+...|+..||.|..+.++.++++.+.           ...||+||+|+.||+++|+++++.+++.
T Consensus         1 m~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~-----------~~~~DlvllD~~mp~~dG~ell~~lr~~   69 (387)
T 1ny5_A            1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLS-----------EKHFNVVLLDLLLPDVNGLEILKWIKER   69 (387)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hCCCCEEEEeCCCCCCCHHHHHHHHHhh
Confidence            37999999999999999999988999999999999999994           3456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+  ++|||++|+..+.+....+++.||++|+.||++.++|..+++++....
T Consensus        70 ~~--~~pvIvlT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  119 (387)
T 1ny5_A           70 SP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR  119 (387)
T ss_dssp             CT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEeCCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHHHHH
Confidence            76  899999999999999999999999999999999999999998887653

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.84  E-value=7.3e-20  Score=131.46  Aligned_cols=122  Identities=25%  Similarity=0.342  Sum_probs=100.4

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCC-ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSS-YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDL   81 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~-~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~   81 (187)
                      |+.++++|||+||++..+..+...|+..+ +.++ .+.++.++++.+..           ..||+||+|+.+|+.+|+++
T Consensus        21 M~~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~-----------~~~dlvilD~~l~~~~g~~l   89 (164)
T 3t8y_A           21 MTDRVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIE-----------LKPDVITMDIEMPNLNGIEA   89 (164)
T ss_dssp             ---CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEECSSCSSSCHHHH
T ss_pred             cccCccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhcc-----------CCCCEEEEeCCCCCCCHHHH
Confidence            34567899999999999999999999874 4444 68999999999944           34669999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEeCCCChh--HHHHHHHhCCCceeeCCCC---------hHHHHHHHHHHhhh
Q 046192           82 LRKIKESASLKDIPVVIMSSENIPS--RINRCLEEGAEEFFLKPVQ---------LADVNKLKPHLMKG  139 (187)
Q Consensus        82 ~~~l~~~~~~~~~~iI~ls~~~~~~--~~~~a~~~ga~~yl~kP~~---------~~~l~~~i~~~~~~  139 (187)
                      ++.+++..   .+|+|++++..+..  ....+++.|+++|+.||++         .+++..+++.+...
T Consensus        90 ~~~lr~~~---~~~ii~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~r~~~~~l~~~i~~~~~~  155 (164)
T 3t8y_A           90 LKLIMKKA---PTRVIMVSSLTEEGAAITIEALRNGAVDFITKPHGSISLTFRQVAPELLEKIRQAMNV  155 (164)
T ss_dssp             HHHHHHHS---CCEEEEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCGGGGGGHHHHHHHHHHHTTS
T ss_pred             HHHHHhcC---CceEEEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHHHHHhhhHHHHHHHHHHhCC
Confidence            99999876   37999999876654  6779999999999999999         56666666666654

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B*

Probab=99.84  E-value=3.9e-20  Score=129.84  Aligned_cols=113  Identities=29%  Similarity=0.419  Sum_probs=94.1

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhC-CceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTS-SYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~-~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      .++.+|||+||++..+..+...|+.. ||.++ .+.++.++++.+...          ..||+||+|+.+|+++|+++++
T Consensus        11 ~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~----------~~~dlvilD~~l~~~~g~~~~~   80 (145)
T 3kyj_B           11 GSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQ----------PNVDLILLDIEMPVMDGMEFLR   80 (145)
T ss_dssp             CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHC----------TTCCEEEECTTSCCCTTCHHHH
T ss_pred             CCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHhcC----------CCCCEEEEeCCCCCCCHHHHHH
Confidence            45689999999999999999999987 88865 799999999998432          1577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeC--CCChhHHHHHHHhCCCceeeCCCChHHHHH
Q 046192           84 KIKESASLKDIPVVIMSS--ENIPSRINRCLEEGAEEFFLKPVQLADVNK  131 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~--~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~  131 (187)
                      .+++..   ..|+++++.  ..+......+++.|+++|+.||++.++|..
T Consensus        81 ~lr~~~---~~~iiil~~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~  127 (145)
T 3kyj_B           81 HAKLKT---RAKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHDL  127 (145)
T ss_dssp             HHHHHC---CCEEC-CBSSCSTTSSHHHHHHHTTCSCCCBCCCSCC----
T ss_pred             HHHhcC---CCCeEEEEEeccCChHHHHHHHhCCCCEEEeCCCCHHHHHH
Confidence            999875   478888887  556777889999999999999999655443

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.84  E-value=4.1e-20  Score=129.02  Aligned_cols=122  Identities=20%  Similarity=0.309  Sum_probs=100.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .++|||+||++..+..+...|+..|+.+..+.++.++++.+..           ..||+|++|+.+|+.+|+++++.+++
T Consensus        10 ~~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l~~-----------~~~dlvllD~~lp~~~g~~~~~~l~~   78 (140)
T 3c97_A           10 PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQN-----------RQFDVIIMDIQMPVMDGLEAVSEIRN   78 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHHHH-----------SCCSEEEECTTCCSSCHHHHHHHHHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHHhc-----------CCCCEEEEeCCCCCCcHHHHHHHHHh
Confidence            3689999999999999999999889999999999999999843           35679999999999999999999997


Q ss_pred             hc---CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhhh
Q 046192           88 SA---SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISKE  143 (187)
Q Consensus        88 ~~---~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~~  143 (187)
                      ..   ..+.+|++++++........   ..|+++|+.||++.++|..+++.+..+....
T Consensus        79 ~~~~~~~~~~~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~~~~~~  134 (140)
T 3c97_A           79 YERTHNTKRASIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHSEGAEG  134 (140)
T ss_dssp             HHHHHTCCCCCCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC-----
T ss_pred             hhhhcCCCceEEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhCCCCCC
Confidence            42   11378999998865544332   6899999999999999999999998775443

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.84  E-value=8.2e-20  Score=122.87  Aligned_cols=116  Identities=20%  Similarity=0.259  Sum_probs=103.8

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+|+|+|+++..+..+...|+..||.+..+.++.+++..+..           ..||++++|..+++.+|.++++.+++.
T Consensus         2 ~~iliv~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~l~~-----------~~~dlii~d~~~~~~~~~~~~~~l~~~   70 (119)
T 2j48_A            2 GHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDL-----------LQPIVILMAWPPPDQSCLLLLQHLREH   70 (119)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-----------HCCSEEEEECSTTCCTHHHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHHHHhCCcEEEEecCHHHHHHHHHh-----------cCCCEEEEecCCCCCCHHHHHHHHHhc
Confidence            589999999999999999999999999999999999999843           356799999999999999999999997


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      ...+.+|+|++++..+..   .+++.|+++|+.||++.++|...++++..
T Consensus        71 ~~~~~~~ii~~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  117 (119)
T 2j48_A           71 QADPHPPLVLFLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQGLCP  117 (119)
T ss_dssp             CCCSSCCCEEEESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHTTCC
T ss_pred             cccCCCCEEEEeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHHHhc
Confidence            633489999999987766   89999999999999999999998887664

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.83  E-value=8.5e-21  Score=154.83  Aligned_cols=121  Identities=22%  Similarity=0.262  Sum_probs=105.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHh-CCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKT-SSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~-~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +++||||||++..+..+...|+. .++.|..+.++.+|++.+...          ..||+|++|+.||+++|+++++.++
T Consensus         3 ~~~ILivDD~~~~~~~l~~~L~~~~~~~v~~a~~g~eal~~l~~~----------~~~DlvllDi~mP~~dG~ell~~l~   72 (400)
T 3sy8_A            3 DLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESC----------GHVDIAICDLQMSGMDGLAFLRHAS   72 (400)
T ss_dssp             CEEEEEECSSHHHHHHHHHHHHHHCSEEEEEESSHHHHHHHHHHH----------SCEEEEEECSSCSSSCHHHHHHHHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHhcCCcEEEEecCHHHHHHHHhhC----------CCCCEEEEeCCCCCCCHHHHHHHHH
Confidence            37999999999999999999988 578888999999999998431          2577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCCh-----hHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKDIPVVIMSSENIP-----SRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~-----~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +..+  ..|||++|+..+.     ....+++..|+++|+.||++.++|..+++++....
T Consensus        73 ~~~~--~~~ii~~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~~~~  129 (400)
T 3sy8_A           73 LSGK--VHSVILSSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYNARR  129 (400)
T ss_dssp             HHTC--EEEEEESCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHHHHT
T ss_pred             hcCC--CceEEEEcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHHHhh
Confidence            8875  6778777777665     56778899999999999999999999999888654

>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=99.83  E-value=5.9e-22  Score=135.00  Aligned_cols=119  Identities=27%  Similarity=0.427  Sum_probs=108.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|+|+||++..+..+...|+..|+.+..+.++.++++.+.           ...||++++|+.+|+.+|+++++.+++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~-----------~~~~dlvi~d~~~~~~~g~~~~~~l~~   71 (124)
T 1dc7_A            3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALA-----------SKTPDVLLSDIRMPGMDGLALLKQIKQ   71 (124)
T ss_dssp             CCCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHSS-----------SCCCSCEEECSCSSHHHHCSTHHHHHH
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHh-----------cCCCCEEEEeeecCCCCHHHHHHHHHh
Confidence            368999999999999999999988999999999999999883           345779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|+|++++..+......+++.|+++|+.||++.++|...++++.++
T Consensus        72 ~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  121 (124)
T 1dc7_A           72 RHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (124)
T ss_dssp             HCT--TSCCCCBCCSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHHH
T ss_pred             hCC--CCCEEEEecCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHHh
Confidence            766  89999999998888889999999999999999999999999888764

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.83  E-value=5.3e-19  Score=122.79  Aligned_cols=118  Identities=15%  Similarity=0.267  Sum_probs=105.2

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ....+|||+||++..+..+...|+..||.+..+.++.+++..+..           ..||+||    +|+.+|+++++.+
T Consensus        16 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-----------~~~dlvi----~~~~~g~~~~~~l   80 (137)
T 2pln_A           16 RGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDI-----------RNYDLVM----VSDKNALSFVSRI   80 (137)
T ss_dssp             TTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-----------SCCSEEE----ECSTTHHHHHHHH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHHc-----------CCCCEEE----EcCccHHHHHHHH
Confidence            346899999999999999999999999999999999999999943           4566999    8899999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC-ChHHHHHHHHHHhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV-QLADVNKLKPHLMKGI  140 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~-~~~~l~~~i~~~~~~~  140 (187)
                      ++. + ..+|||++++..+......+++.|+++|+.||+ +.++|..+++.+..+.
T Consensus        81 ~~~-~-~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~~~  134 (137)
T 2pln_A           81 KEK-H-SSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRFW  134 (137)
T ss_dssp             HHH-S-TTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC--
T ss_pred             Hhc-C-CCccEEEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHhhh
Confidence            987 2 278999999999999999999999999999999 9999999999888653

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.82  E-value=9.2e-20  Score=146.05  Aligned_cols=119  Identities=21%  Similarity=0.379  Sum_probs=106.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHh-CCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKT-SSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~-~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..+||||||++..+..+...|.. .||.|..+.++.++++.+..           ..||+||+|+.||+++|+++++.++
T Consensus        18 ~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~~-----------~~~dlvl~D~~mp~~~G~~~~~~l~   86 (358)
T 3bre_A           18 AVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQ-----------IKPTVILQDLVMPGVDGLTLLAAYR   86 (358)
T ss_dssp             CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHHH-----------HCCSEEEEESBCSSSBHHHHHHHHT
T ss_pred             CceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHHh-----------CCCCEEEEeCCCCCCCHHHHHHHHh
Confidence            46899999999999999999964 58999899999999999944           3466999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      +....+.+|||++|+..+......+++.|+++|+.||++.++|..+++...
T Consensus        87 ~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~~  137 (358)
T 3bre_A           87 GNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHS  137 (358)
T ss_dssp             TSTTTTTSCEEEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHHH
T ss_pred             cCcccCCCcEEEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHHH
Confidence            864334899999999999999999999999999999999999988887664

>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=99.81  E-value=1.8e-19  Score=125.29  Aligned_cols=118  Identities=18%  Similarity=0.222  Sum_probs=101.7

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .+..+|||+||++..+..+...|+..||.+..+.++.++++.+..          ...||++++|+.+|+.+|+++++.+
T Consensus        13 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~----------~~~~dlvilD~~l~~~~g~~~~~~l   82 (138)
T 2b4a_A           13 MQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQ----------LSTCDLLIVSDQLVDLSIFSLLDIV   82 (138)
T ss_dssp             -CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGG----------GGSCSEEEEETTCTTSCHHHHHHHH
T ss_pred             CCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHh----------CCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            346899999999999999999999999999999999999998843          0456799999999999999999999


Q ss_pred             HhhcCCCCCcEEEEe-CCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMS-SENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls-~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++..+  .+|+|+++ +..+... ..++   +++|+.||++.++|...++++..+
T Consensus        83 ~~~~~--~~~ii~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~~~  131 (138)
T 2b4a_A           83 KEQTK--QPSVLILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHKPS  131 (138)
T ss_dssp             TTSSS--CCEEEEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTCCC
T ss_pred             HhhCC--CCCEEEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHHHh
Confidence            98665  89999999 8766666 6666   999999999999999999888765

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.80  E-value=4e-19  Score=130.95  Aligned_cols=116  Identities=10%  Similarity=0.082  Sum_probs=101.9

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..++||||||++..+..+...|...||.+..+.++.+++               ...||+||+|+.||+++|. +++.++
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            357999999999999999999998899998877766543               1247799999999999998 888888


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ...+  .+|||++|+..+.+....+++.|+++|+.||++.++|...++.+..+.
T Consensus        75 ~~~~--~~~ii~lt~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  126 (196)
T 1qo0_D           75 AGTP--RTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRIS  126 (196)
T ss_dssp             HSCT--TCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHHH
T ss_pred             ccCC--CCCEEEEEcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHHHHH
Confidence            7644  899999999999999999999999999999999999999998887664

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.75  E-value=3.4e-17  Score=131.36  Aligned_cols=118  Identities=25%  Similarity=0.365  Sum_probs=101.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-Cce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      +++||||||++..+..+...|+.. +|. +..+.++.++++.+...           .||+|++|+.||+++|+++++.|
T Consensus         3 ~~rVLIVDD~~~~r~~L~~~L~~~~g~~vv~~a~~~~eAl~~l~~~-----------~pDlVllDi~mp~~dGlell~~l   71 (349)
T 1a2o_A            3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKF-----------NPDVLTLDVEMPRMDGLDFLEKL   71 (349)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHH-----------CCSEEEEECCCSSSCHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHhcc-----------CCCEEEEECCCCCCCHHHHHHHH
Confidence            389999999999999999999986 888 45799999999999543           46699999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCCh--hHHHHHHHhCCCceeeCCCCh---------HHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIP--SRINRCLEEGAEEFFLKPVQL---------ADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~--~~~~~a~~~ga~~yl~kP~~~---------~~l~~~i~~~~~~  139 (187)
                      ++..   .+|||++|+..+.  +...++++.|+++|+.||++.         ++|...++.+.+.
T Consensus        72 ~~~~---p~pVIvlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~~~~~l~~~~~~L~~~I~~~~~~  133 (349)
T 1a2o_A           72 MRLR---PMPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQLGIREGMLAYSEMIAEKVRTAARA  133 (349)
T ss_dssp             HHSS---CCCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSSSCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             HhcC---CCcEEEEECCCcccHHHHHHHHhCCceEEEECCCCccchhHHHHHHHHHHHHHHHHhh
Confidence            9865   3899999988665  458899999999999999984         7777887777654

>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=99.75  E-value=4.6e-18  Score=131.08  Aligned_cols=103  Identities=17%  Similarity=0.318  Sum_probs=85.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhC-CceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTS-SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~-~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +.+||||||++..+..+...|... |+.+..+ ++.+++..+           ....||+|++|+.||+++|+++++.++
T Consensus         4 ~~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~-~~~~~~~~~-----------~~~~~dlvllD~~mP~~~G~~~~~~lr   71 (259)
T 3luf_A            4 KQKILIVEDSMTIRRMLIQAIAQQTGLEIDAF-DTLEGARHC-----------QGDEYVVALVDLTLPDAPSGEAVKVLL   71 (259)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHHHHCCEEEEE-SSTGGGTTC-----------CTTTEEEEEEESCBTTBTTSHHHHHHH
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCeEEEEe-ChHHHHHHh-----------hcCCCcEEEEeCCCCCCCHHHHHHHHH
Confidence            368999999999999999999764 7777555 444444444           234688999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCCh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL  126 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~  126 (187)
                      +.    ++|||++|+..+.+....+++.||++|+.||...
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            73    6899999999999999999999999999999643

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.73  E-value=1.3e-17  Score=145.71  Aligned_cols=119  Identities=18%  Similarity=0.223  Sum_probs=106.2

Q ss_pred             EEEEEeCCH-HH-------HHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCC----CC
Q 046192           10 HVLAVDDSI-ID-------RKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG----MT   77 (187)
Q Consensus        10 ~ilivd~~~-~~-------~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~----~~   77 (187)
                      +||||||++ ..       +..|...|+..||.|..+.++.+++..+...          ..+|+||+|+.||+    ++
T Consensus         2 ~ILiVdDd~~~~~~~~~~~~~~L~~~L~~~g~~v~~a~~g~~al~~~~~~----------~~~d~vilDi~lp~~~~~~~   71 (755)
T 2vyc_A            2 KVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSN----------EAIDCLMFSYQMEHPDEHQN   71 (755)
T ss_dssp             EEEEECCTTSTTSHHHHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTT----------CCCSEEEEECCCCSHHHHHH
T ss_pred             eEEEEeCCccccccccHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhcC----------CCCcEEEEeCCCCccccccc
Confidence            899999999 88       9999999999999999999999999999432          23779999999999    99


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCC-hhHHHHHHHhCCCceeeCCCChHH-HHHHHHHHhhhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENI-PSRINRCLEEGAEEFFLKPVQLAD-VNKLKPHLMKGI  140 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~-~~~~~~a~~~ga~~yl~kP~~~~~-l~~~i~~~~~~~  140 (187)
                      |+++++.||+.++  ++||+++|+.++ .+.....+..||+||+.||++..+ |...++.+++..
T Consensus        72 G~~ll~~iR~~~~--~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~rr~  134 (755)
T 2vyc_A           72 VRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMTRY  134 (755)
T ss_dssp             HHHHHHHHHHHST--TCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC--CCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999876  899999999876 677888899999999999999999 777777777653

>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=99.24  E-value=1.2e-11  Score=92.97  Aligned_cols=94  Identities=17%  Similarity=0.336  Sum_probs=76.9

Q ss_pred             ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHH
Q 046192           33 YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCL  112 (187)
Q Consensus        33 ~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~  112 (187)
                      +.|..+.++.++++.+..           ..||++++|+.||+++|+++++.+++..+  ..++++++.....+....++
T Consensus         6 ~~v~~~~~~~~a~~~~~~-----------~~~dlvl~D~~~p~~~g~~~~~~l~~~~~--~~~i~vi~~~~~~~~~~~~~   72 (237)
T 3cwo_X            6 LIVDDATNGREAVEKYKE-----------LKPDIVTMDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAI   72 (237)
T ss_dssp             EEEECCCSSSTTHHHHHH-----------HCCSCEEEECCSTTSSHHHHHHHHHHHSS--SCCEEEECCSSTHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHh-----------cCCCEEEEeCCCCCCCHHHHHHHHHHhCC--CCCEEEEECCCCHHHHHHHH
Confidence            445558889999998843           34669999999999999999999998766  56666666666688999999


Q ss_pred             HhCCCceeeCC--CChHHHHHHHHHHhhh
Q 046192          113 EEGAEEFFLKP--VQLADVNKLKPHLMKG  139 (187)
Q Consensus       113 ~~ga~~yl~kP--~~~~~l~~~i~~~~~~  139 (187)
                      +.|+++|+.||  ++..++...+.+....
T Consensus        73 ~~Ga~~~l~kp~~~~~~~l~~~i~~~~~~  101 (237)
T 3cwo_X           73 KAGAKDFIVNTAAVENPSLITQIAQTFGS  101 (237)
T ss_dssp             HTTCCEEEESHHHHHCTHHHHHHHHHHTG
T ss_pred             HCCHHheEeCCcccChHHHHHHHHHHhCC
Confidence            99999999999  7777888777766644

>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=99.21  E-value=6.9e-10  Score=91.48  Aligned_cols=120  Identities=17%  Similarity=0.237  Sum_probs=99.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|++++|+...+..+...|.. .+.+....++.++. ..           ....||++++|..||+++|+++++.++.
T Consensus       152 ~~~ilivdd~~~~~~~i~~~L~~-~~~~~~~~~~~~~~-~~-----------~~~~~dlil~D~~mp~~dG~~~~~~ir~  218 (459)
T 1w25_A          152 GGRVLIVDDNERQAQRVAAELGV-EHRPVIESDPEKAK-IS-----------AGGPVDLVIVNAAAKNFDGLRFTAALRS  218 (459)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTT-TSEEEEECCHHHHH-HH-----------HHSSCSEEEEETTCSSSCHHHHHHHHHT
T ss_pred             CCeEEEECCchhhHHHHHHHHhc-ccceeeccCHHHHh-hh-----------ccCCCCEEEEecCCCCCcHHHHHHHHHh
Confidence            46899999999988888888864 35566677777775 22           1234779999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .......|++++++..+......++..|+++|+.||++..++...+..+....
T Consensus       219 ~~~~~~~pii~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~~~~~  271 (459)
T 1w25_A          219 EERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQRK  271 (459)
T ss_dssp             SGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CccccCCcEEEEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHHHHHH
Confidence            76556899999999999999999999999999999999999988777766543

>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=97.76  E-value=4.6e-05  Score=66.15  Aligned_cols=105  Identities=11%  Similarity=0.121  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEE
Q 046192           20 DRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM   99 (187)
Q Consensus        20 ~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~l   99 (187)
                      ....|...|++.||.|..+.+.++++..+..          +..+++||+|++++   +.++++.||+.++  ++||.++
T Consensus        18 ~i~~L~~~Le~~g~~V~~a~s~~Da~~~i~~----------~~~i~avIld~d~~---~~~ll~~Ir~~~~--~iPVFl~   82 (715)
T 3n75_A           18 PIRELHRALERLNFQIVYPNDRDDLLKLIEN----------NARLCGVIFDWDKY---NLELCEEISKMNE--NLPLYAF   82 (715)
T ss_dssp             HHHHHHHHHHHTTCEEECCSSHHHHHHHHHH----------CTTEEEEEEEHHHH---HHHHHHHHHHHCT--TCEEEEE
T ss_pred             HHHHHHHHHHHCCcEEEEeCCHHHHHHHHHh----------CCCceEEEEecccc---HHHHHHHHHHhCC--CCCEEEE
Confidence            3456778888899999999999999999942          23488999999875   6889999999987  9999999


Q ss_pred             eCCCChhHHHHHHHhCCCceeeCCCChHHH-HHHHHHHhhh
Q 046192          100 SSENIPSRINRCLEEGAEEFFLKPVQLADV-NKLKPHLMKG  139 (187)
Q Consensus       100 s~~~~~~~~~~a~~~ga~~yl~kP~~~~~l-~~~i~~~~~~  139 (187)
                      ++......+....-.++++|+.+..+..++ ...+.+..+.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (715)
T 3n75_A           83 ANTYSTLDVSLNDLRLQISFFEYALGAAEDIANKIKQTTDE  123 (715)
T ss_dssp             CCTTCCCCGGGTTSCCEEEEECCCTTCHHHHHHHHHHHHHH
T ss_pred             ecCCcccccchhhhhccCeEEEeCCCCHHHHHHHHHHHHHH
Confidence            987543332221234678889887765554 4444444433

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=97.69  E-value=5.8e-05  Score=48.50  Aligned_cols=107  Identities=17%  Similarity=0.200  Sum_probs=80.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +..||+|..|-...-.+++++....|.++..+...                 .....|+|++++.+-..+       +..
T Consensus        12 ~~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~~~-----------------~e~~AdlIfCEYlLLPe~-------ifS   67 (121)
T 3q7r_A           12 PKHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQYK-----------------QELSADLVVCEYSLLPRE-------IRS   67 (121)
T ss_dssp             CEEEEEECSCHHHHHHHHHHSCTTTEEEEEESSCC-----------------CCTTEEEEEEEGGGSCTT-------CCC
T ss_pred             CcEEEEEecCchhhHHHHHhcCCcceeEEeccccC-----------------CcccceeEEEeeecChHH-------hcC
Confidence            46789999998888889999977779888754321                 333567999999653211       112


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .......-+|++-+.-+++...+.++.||. |+.+|+.+.-+..+++..++.
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            222236678888888899999999999999 999999999888888887764

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=97.50  E-value=0.0074  Score=42.59  Aligned_cols=121  Identities=19%  Similarity=0.240  Sum_probs=85.1

Q ss_pred             CceEEEEE----eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-C
Q 046192            7 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-T   77 (187)
Q Consensus         7 ~~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~   77 (187)
                      ...+|++.    |-|..-...+...|+..||+|..   ..+.++..+.+...+           +|+|.+...+.. . .
T Consensus        17 ~~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa~~~~-----------~diV~lS~~~~~~~~~   85 (161)
T 2yxb_A           17 RRYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQED-----------VDVIGVSILNGAHLHL   85 (161)
T ss_dssp             CSCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHHHHTT-----------CSEEEEEESSSCHHHH
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcC-----------CCEEEEEeechhhHHH
Confidence            45788887    78888888999999999999985   356778888885444           559998887654 2 3


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ..++++.+++.+. .+++|++ ...........+.+.|++.++..-.+..+....+..+....
T Consensus        86 ~~~~i~~L~~~g~-~~i~v~v-GG~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~~~~~  146 (161)
T 2yxb_A           86 MKRLMAKLRELGA-DDIPVVL-GGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAEEK  146 (161)
T ss_dssp             HHHHHHHHHHTTC-TTSCEEE-EECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCCEEEE-eCCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHHHHHh
Confidence            4567788888653 3566664 44444445556778999986665556667777777776553

>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=97.49  E-value=0.0006  Score=51.57  Aligned_cols=95  Identities=16%  Similarity=0.123  Sum_probs=68.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+|||++|++..+..+.+.|...|+.+..+.+.                  ....+|++++|+.++...+         
T Consensus        11 ~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~~------------------~~~~~~~ii~d~~~~~~~~---------   63 (254)
T 2ayx_A           11 GKRCWLAVRNASLCQFLETSLQRSGIVVTTYEGQ------------------EPTPEDVLITDEVVSKKWQ---------   63 (254)
T ss_dssp             TEEEEEECCCHHHHHHHHHHHTTTTEEEEECSSC------------------CCCTTCEEEEESSCSCCCC---------
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecCC------------------CCCcCcEEEEcCCCccccc---------
Confidence            5799999999999999999999999998877540                  1235789999999886532         


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                           ...++.++.......    ...+...++.+|+...++...+.++..
T Consensus        64 -----~~~~i~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~l~~~~~  105 (254)
T 2ayx_A           64 -----GRAVVTFCRRHIGIP----LEKAPGEWVHSVAAPHELPALLARIYL  105 (254)
T ss_dssp             -----SSEEEEECSSCCCSC----CTTSTTEEEECSSCCSHHHHHHHHHHT
T ss_pred             -----cceEEEEecccCCCc----ccccCCceeccccchHHHHHHHHHHhh
Confidence                 223555554322110    123445789999999888888877663

>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=96.60  E-value=0.0055  Score=45.05  Aligned_cols=67  Identities=10%  Similarity=0.315  Sum_probs=51.2

Q ss_pred             ccEEEEec-cCCCCCHH--HHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCcee------eCCCChHHHHHHH
Q 046192           64 VNLIITDY-CMPGMTGY--DLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF------LKPVQLADVNKLK  133 (187)
Q Consensus        64 ~dlvi~d~-~~~~~~g~--~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl------~kP~~~~~l~~~i  133 (187)
                      .++++.+. ..+.++|+  +.++.++..   .+.|+|.++...+.+...+++..|+++++      .+|++..++...+
T Consensus       145 ~~vli~~~~~~g~~~g~~~~~i~~~~~~---~~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~~~~~~~~~~~l  220 (237)
T 3cwo_X          145 GEILLTSIDRDGTKSGYDTEMIRFVRPL---TTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFREIDVRELKEYL  220 (237)
T ss_dssp             SEEEEEETTTTTCCSCCCHHHHHHHGGG---CCSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTTSSCHHHHHHHH
T ss_pred             CeEEEEecCCCCccccccHHHHHHHHHh---cCCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcCCCCHHHHHHHH
Confidence            34788886 45555664  455665554   38999999999999999999999999984      6788888876654

>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=96.00  E-value=0.12  Score=39.01  Aligned_cols=121  Identities=14%  Similarity=0.129  Sum_probs=84.5

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      .+.+.+.|.+.-.++.....+.+.|...-|.+..+.+.++.++.+..         .+..+||+|+...  +..-..+..
T Consensus         5 ~~~~~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~---------~~e~iDcLvle~~--~~~~~~~~~   73 (289)
T 1r8j_A            5 IVLSQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQT---------HRDQIDCLILVAA--NPSFRAVVQ   73 (289)
T ss_dssp             -CCCCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHH---------STTSCSEEEEETT--STTHHHHHH
T ss_pred             ccccceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHh---------ccccCCEEEEEeC--CCccHHHHH
Confidence            45678999999999999999999997777999999999999999965         3446999999862  234667888


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCcee-----eCCCChHHHHHHHHHHhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFF-----LKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl-----~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+.+.+-  -+|+|++.....   ....-..|-..|-     ...-..+.+...+.+++.+.
T Consensus        74 ~L~~~g~--lLP~vil~~~~~---~~~~~~~~~~~yh~aEv~l~~~ql~~l~~~Id~AI~~F  130 (289)
T 1r8j_A           74 QLCFEGV--VVPAIVVGDRDS---EDPDEPAKEQLYHSAELHLGIHQLEQLPYQVDAALAEF  130 (289)
T ss_dssp             HHHHTTC--CCCEEEESCCC---------CCSSCSSBTTCEEECTTCGGGHHHHHHHHHHHH
T ss_pred             HHHHcCc--cccEEEeccCcc---ccCCCCccceeccHHHHcCCHhHHHHHHHHHHHHHHHH
Confidence            9998876  889999876422   0000000112222     22334677777777777665

>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=95.88  E-value=0.2  Score=34.10  Aligned_cols=109  Identities=9%  Similarity=0.032  Sum_probs=71.5

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC--CHHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM--TGYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~--~g~~~~~~l~~~~   89 (187)
                      |-|..-...+...|+..||+|..   ..+.++..+.+...+           +|+|.+...+...  ...++++.+++.+
T Consensus        14 d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~~~-----------~d~v~lS~~~~~~~~~~~~~i~~l~~~g   82 (137)
T 1ccw_A           14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETK-----------ADAILVSSLYGQGEIDCKGLRQKCDEAG   82 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHT-----------CSEEEEEECSSTHHHHHTTHHHHHHHTT
T ss_pred             chhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcC-----------CCEEEEEecCcCcHHHHHHHHHHHHhcC
Confidence            34455556777888999999883   567888888885544           5599998877542  2345788888875


Q ss_pred             CCCCCcEEEEeCCC--Chh---HHHHHHHhCCCceeeCCCChHHHHHHHHH
Q 046192           90 SLKDIPVVIMSSEN--IPS---RINRCLEEGAEEFFLKPVQLADVNKLKPH  135 (187)
Q Consensus        90 ~~~~~~iI~ls~~~--~~~---~~~~a~~~ga~~yl~kP~~~~~l~~~i~~  135 (187)
                      . .+++|++=....  ..+   ....+.+.|++.|+..-.+..+....+..
T Consensus        83 ~-~~i~v~vGG~~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~~~l~~  132 (137)
T 1ccw_A           83 L-EGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKK  132 (137)
T ss_dssp             C-TTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHH
T ss_pred             C-CCCEEEEECCCcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHHHHHHH
Confidence            4 256665443321  112   24457899999988776677766555543

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=95.80  E-value=0.11  Score=37.93  Aligned_cols=102  Identities=12%  Similarity=0.099  Sum_probs=70.3

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |-|..-...+...|+..||+|...   ...++..+.+...+           ||+|.+...++. . .-
T Consensus        88 ~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~~~-----------~d~v~lS~~~~~~~~~~  156 (210)
T 1y80_A           88 VGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKKYQ-----------PDIVGMSALLTTTMMNM  156 (210)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHHHC-----------CSEEEEECCSGGGTHHH
T ss_pred             CCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEeccccccHHHH
Confidence            4577777    677788889999999999999863   35667777774444           559999887654 2 24


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCC
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP  123 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP  123 (187)
                      .++++.+++.+..+++||++-....+.+..   -..|++.|....
T Consensus       157 ~~~i~~l~~~~~~~~~~v~vGG~~~~~~~~---~~~gad~~~~da  198 (210)
T 1y80_A          157 KSTIDALIAAGLRDRVKVIVGGAPLSQDFA---DEIGADGYAPDA  198 (210)
T ss_dssp             HHHHHHHHHTTCGGGCEEEEESTTCCHHHH---HHHTCSEECSSH
T ss_pred             HHHHHHHHhcCCCCCCeEEEECCCCCHHHH---HHcCCeEEECCH
Confidence            457788887653235888776665554443   457988776543

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=95.53  E-value=0.36  Score=36.48  Aligned_cols=112  Identities=14%  Similarity=0.115  Sum_probs=75.6

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CC-H
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MT-G   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~-g   78 (187)
                      ..+|++.    |-|..-...+...|+..||+|..   --+.++..+.+...+           ||+|.+...++. .. -
T Consensus       123 ~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~~~~~-----------~d~V~lS~l~~~~~~~~  191 (258)
T 2i2x_B          123 KGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAVQKEK-----------PIMLTGTALMTTTMYAF  191 (258)
T ss_dssp             SCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHHHHHC-----------CSEEEEECCCTTTTTHH
T ss_pred             CCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEEeeccCCHHHH
Confidence            4577776    66777778889999999998864   346677777775444           559999887654 33 4


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .++++.+++.++  .+||++-....+.++.   -..|++.|....   .+..+.+..+..
T Consensus       192 ~~~i~~l~~~~~--~~~v~vGG~~~~~~~~---~~igad~~~~da---~~av~~~~~l~~  243 (258)
T 2i2x_B          192 KEVNDMLLENGI--KIPFACGGGAVNQDFV---SQFALGVYGEEA---ADAPKIADAIIA  243 (258)
T ss_dssp             HHHHHHHHTTTC--CCCEEEESTTCCHHHH---HTSTTEEECSST---THHHHHHHHHHT
T ss_pred             HHHHHHHHhcCC--CCcEEEECccCCHHHH---HHcCCeEEECCH---HHHHHHHHHHHc
Confidence            468889998776  6787766655554433   367887776533   444455555553

>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=95.43  E-value=0.12  Score=38.03  Aligned_cols=102  Identities=14%  Similarity=0.129  Sum_probs=70.6

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEE--eccCCC-CC
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIIT--DYCMPG-MT   77 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~--d~~~~~-~~   77 (187)
                      ..+|++.    |-|..=...+...|+..||+|...   -+.++.++.+...+           ||+|.+  ...+.. ..
T Consensus        92 ~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~~~-----------~d~v~l~~S~l~~~~~~  160 (215)
T 3ezx_A           92 AGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEAAKHK-----------GEKVLLVGSALMTTSML  160 (215)
T ss_dssp             CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHHTT-----------TSCEEEEEECSSHHHHT
T ss_pred             CCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHHcC-----------CCEEEEEchhcccCcHH
Confidence            4677776    667777788888899999999863   46677778885544           559988  776643 33


Q ss_pred             -HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCC
Q 046192           78 -GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKP  123 (187)
Q Consensus        78 -g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP  123 (187)
                       -.++++.+++.+...++||++=....+.++   +-..||+.|-...
T Consensus       161 ~~~~~i~~l~~~~~~~~v~v~vGG~~~~~~~---a~~iGad~~~~dA  204 (215)
T 3ezx_A          161 GQKDLMDRLNEEKLRDSVKCMFGGAPVSDKW---IEEIGADATAENA  204 (215)
T ss_dssp             HHHHHHHHHHHTTCGGGSEEEEESSSCCHHH---HHHHTCCBCCSSH
T ss_pred             HHHHHHHHHHHcCCCCCCEEEEECCCCCHHH---HHHhCCeEEECCH
Confidence             446888888876433677776665555543   3467999886543

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=95.38  E-value=0.36  Score=36.54  Aligned_cols=100  Identities=15%  Similarity=0.154  Sum_probs=65.5

Q ss_pred             HHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCHHHHHHHHHhhcCCCCCcE
Q 046192           23 LIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTGYDLLRKIKESASLKDIPV   96 (187)
Q Consensus        23 ~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g~~~~~~l~~~~~~~~~~i   96 (187)
                      ...+.|.+.||.+.. +.+.....+.+....+           ++| +....|     +..-.++++.+++. +  ++||
T Consensus       126 ~aa~~L~~~Gf~Vlpy~~dd~~~akrl~~~G~-----------~aV-mPlg~pIGsG~Gi~~~~lI~~I~e~-~--~vPV  190 (265)
T 1wv2_A          126 KAAEQLVKDGFDVMVYTSDDPIIARQLAEIGC-----------IAV-MPLAGLIGSGLGICNPYNLRIILEE-A--KVPV  190 (265)
T ss_dssp             HHHHHHHTTTCEEEEEECSCHHHHHHHHHSCC-----------SEE-EECSSSTTCCCCCSCHHHHHHHHHH-C--SSCB
T ss_pred             HHHHHHHHCCCEEEEEeCCCHHHHHHHHHhCC-----------CEE-EeCCccCCCCCCcCCHHHHHHHHhc-C--CCCE
Confidence            345555667999883 5544555555544444           355 443332     12347899999985 3  8999


Q ss_pred             EEEeCCCChhHHHHHHHhCCCceee-----CCCChHHHHHHHHHHh
Q 046192           97 VIMSSENIPSRINRCLEEGAEEFFL-----KPVQLADVNKLKPHLM  137 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~~yl~-----kP~~~~~l~~~i~~~~  137 (187)
                      |+=..-..++.+..+++.|+++.+.     |.-++......+...+
T Consensus       191 I~eGGI~TPsDAa~AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av  236 (265)
T 1wv2_A          191 LVDAGVGTASDAAIAMELGCEAVLMNTAIAHAKDPVMMAEAMKHAI  236 (265)
T ss_dssp             EEESCCCSHHHHHHHHHHTCSEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHcCCCEEEEChHHhCCCCHHHHHHHHHHHH
Confidence            9877778999999999999999764     4344666555544443

>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=94.32  E-value=0.84  Score=34.62  Aligned_cols=114  Identities=10%  Similarity=0.039  Sum_probs=73.2

Q ss_pred             ceEEEEE----eCCHHHHHHHHHH--------HHhC-CceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEec
Q 046192            8 QFHVLAV----DDSIIDRKLIERL--------LKTS-SYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDY   71 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~--------l~~~-~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~   71 (187)
                      ..+|++.    |-|..=...+..+        |+.. ||+|+.   .-+.++.++.+...           .+|+|.+..
T Consensus       120 ~~~Vvlatv~gD~HdiG~~iv~~~k~~~~~~~L~~~~G~eVi~LG~~vp~e~iv~aa~e~-----------~~d~VglS~  188 (262)
T 1xrs_B          120 KIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVEL-----------EADVLLVSQ  188 (262)
T ss_dssp             CEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHHT-----------TCSEEEEEC
T ss_pred             CCEEEEEeCCCCCchHHHHHHhhhhcccchHHHHhcCCcEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEEe
Confidence            4566654    5555555666666        8888 999975   34677788888544           455999999


Q ss_pred             cCCCC----C-HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHH
Q 046192           72 CMPGM----T-GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPH  135 (187)
Q Consensus        72 ~~~~~----~-g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~  135 (187)
                      .+...    . -.++++.+++.+...+++|++=....+.+   -+.+.|++.|..--....++...+..
T Consensus       189 l~t~~~~~~~~~~~~i~~L~~~g~~~~i~vivGG~~~~~~---~a~~iGad~~~~da~~~~~~a~~l~~  254 (262)
T 1xrs_B          189 TVTQKNVHIQNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVK  254 (262)
T ss_dssp             CCCTTSHHHHHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHH
T ss_pred             ecCCccchHHHHHHHHHHHHhcCCCCCCEEEEECCcCCHH---HHHHcCCeEEECCchHHHHHHHHHHH
Confidence            87752    2 23467788776532246665444433333   36678999988877777666554443

>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=93.95  E-value=1.3  Score=38.76  Aligned_cols=119  Identities=13%  Similarity=0.100  Sum_probs=79.2

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |-|..-...+...|+..||+|...   .+.++.++.....           .+|+|.+...+.. + ..
T Consensus       604 r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e~-----------~adiVglSsl~~~~~~~~  672 (762)
T 2xij_A          604 RPRLLVAKMGQDGHDRGAKVIATGFADLGFDVDIGPLFQTPREVAQQAVDA-----------DVHAVGVSTLAAGHKTLV  672 (762)
T ss_dssp             CCEEEEECCSSCCCCHHHHHHHHHHHHTTCEEEECCTTCCHHHHHHHHHHT-----------TCSEEEEEECSSCHHHHH
T ss_pred             CCEEEEEecCcchhhHHHHHHHHHHHhCCeEEeeCCCCCCHHHHHHHHHHc-----------CCCEEEEeeecHHHHHHH
Confidence            4566654    344444566777888899999863   4678888888444           4558888876653 2 35


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .++++.|++.+. .++ .|++...........+.+.|+++|+..-.+..+....+...+..
T Consensus       673 ~~vi~~Lr~~G~-~dv-~VivGG~~P~~d~~~l~~~GaD~~f~pgtd~~e~~~~i~~~l~~  731 (762)
T 2xij_A          673 PELIKELNSLGR-PDI-LVMCGGVIPPQDYEFLFEVGVSNVFGPGTRIPKAAVQVLDDIEK  731 (762)
T ss_dssp             HHHHHHHHHTTC-TTS-EEEEEESCCGGGHHHHHHHTCCEEECTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC-CCC-EEEEeCCCCcccHHHHHhCCCCEEeCCCCCHHHHHHHHHHHHHH
Confidence            568888988765 233 34455423343456678999999998666777777666666644

>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel, ribulose-phosphate binding barrel, carbohydrate metabolic process; HET: BTB; 1.80A {Salmonella enterica subsp}

Probab=93.36  E-value=1.4  Score=32.54  Aligned_cols=89  Identities=13%  Similarity=0.165  Sum_probs=61.5

Q ss_pred             CHHHHHHHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEecc------CCCCCHHHHHHHHHhhc
Q 046192           17 SIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC------MPGMTGYDLLRKIKESA   89 (187)
Q Consensus        17 ~~~~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~------~~~~~g~~~~~~l~~~~   89 (187)
                      +|.....+.+.+++.|..+.. +.+.+++.....            ..+|.|.+...      .+...++++++.+++. 
T Consensus       114 ~p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~------------~Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~~~-  180 (229)
T 3q58_A          114 RPVDIDSLLTRIRLHGLLAMADCSTVNEGISCHQ------------KGIEFIGTTLSGYTGPITPVEPDLAMVTQLSHA-  180 (229)
T ss_dssp             CSSCHHHHHHHHHHTTCEEEEECSSHHHHHHHHH------------TTCSEEECTTTTSSSSCCCSSCCHHHHHHHHTT-
T ss_pred             ChHHHHHHHHHHHHCCCEEEEecCCHHHHHHHHh------------CCCCEEEecCccCCCCCcCCCCCHHHHHHHHHc-
Confidence            344445555566666765554 788888766552            23667754322      1234567888888763 


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                         ++|+|.-+.-.+.+.+.+++..||++.+.
T Consensus       181 ---~ipvIA~GGI~t~~d~~~~~~~GadgV~V  209 (229)
T 3q58_A          181 ---GCRVIAEGRYNTPALAANAIEHGAWAVTV  209 (229)
T ss_dssp             ---TCCEEEESSCCSHHHHHHHHHTTCSEEEE
T ss_pred             ---CCCEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence               68999888888899999999999999865

>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=93.22  E-value=1.3  Score=38.49  Aligned_cols=118  Identities=11%  Similarity=0.110  Sum_probs=77.8

Q ss_pred             CceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-C
Q 046192            7 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-T   77 (187)
Q Consensus         7 ~~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~   77 (187)
                      ...+|++.    |-|..-...+...|+..||+|...   .+.++.++.....           .+|+|.+...+.. + .
T Consensus       595 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e~-----------~adiVglSsl~~~~~~~  663 (727)
T 1req_A          595 RRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEA-----------DVHVVGVSSLAGGHLTL  663 (727)
T ss_dssp             SCCEEEEECBTTCCCCHHHHHHHHHHHHHTCEEEECCTTBCHHHHHHHHHHT-----------TCSEEEEEECSSCHHHH
T ss_pred             CCCEEEEEeCCcchhHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHc-----------CCCEEEEeeecHhHHHH
Confidence            34566654    444455566777888889999863   4678888888444           4558888886653 2 3


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ..++++.|++.+. .++ .|++...........+.+.|+++|+..-.+..++...+...+
T Consensus       664 ~~~vi~~L~~~G~-~~i-~VivGG~~p~~d~~~l~~~GaD~~f~~gt~~~e~a~~l~~~l  721 (727)
T 1req_A          664 VPALRKELDKLGR-PDI-LITVGGVIPEQDFDELRKDGAVEIYTPGTVIPESAISLVKKL  721 (727)
T ss_dssp             HHHHHHHHHHTTC-TTS-EEEEEESCCGGGHHHHHHTTEEEEECTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CCC-EEEEcCCCccccHHHHHhCCCCEEEcCCccHHHHHHHHHHHH
Confidence            5568888988764 233 444554333444566789999999986667777655554444

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=93.15  E-value=0.44  Score=36.16  Aligned_cols=99  Identities=14%  Similarity=0.153  Sum_probs=62.5

Q ss_pred             HHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC-----HHHHHHHHHhhcCCCC-CcEE
Q 046192           25 ERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT-----GYDLLRKIKESASLKD-IPVV   97 (187)
Q Consensus        25 ~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~-----g~~~~~~l~~~~~~~~-~~iI   97 (187)
                      .+.|.+.||.|. .+.+.-...+.+....|           ++| +.+..|-.+     -.++++.+++..+  + +|||
T Consensus       117 a~~L~k~Gf~Vlpy~~~D~~~ak~l~~~G~-----------~aV-mPlg~pIGsG~Gi~~~~~L~~i~~~~~--~~vPVI  182 (268)
T 2htm_A          117 AERLIEEDFLVLPYMGPDLVLAKRLAALGT-----------ATV-MPLAAPIGSGWGVRTRALLELFAREKA--SLPPVV  182 (268)
T ss_dssp             HHHHHHTTCEECCEECSCHHHHHHHHHHTC-----------SCB-EEBSSSTTTCCCSTTHHHHHHHHHTTT--TSSCBE
T ss_pred             HHHHHHCCCEEeeccCCCHHHHHHHHhcCC-----------CEE-EecCccCcCCcccCCHHHHHHHHHhcC--CCCeEE
Confidence            344445699877 34333354455544444           355 554443222     3567888888433  6 9999


Q ss_pred             EEeCCCChhHHHHHHHhCCCceee-----CCCChHHHHHHHHHHh
Q 046192           98 IMSSENIPSRINRCLEEGAEEFFL-----KPVQLADVNKLKPHLM  137 (187)
Q Consensus        98 ~ls~~~~~~~~~~a~~~ga~~yl~-----kP~~~~~l~~~i~~~~  137 (187)
                      +=..-.+.+.+..+++.|+++.+.     |.-++......+....
T Consensus       183 ~~GGI~tpsDAa~AmeLGAdgVlVgSAI~~a~dP~~ma~af~~Av  227 (268)
T 2htm_A          183 VDAGLGLPSHAAEVMELGLDAVLVNTAIAEAQDPPAMAEAFRLAV  227 (268)
T ss_dssp             EESCCCSHHHHHHHHHTTCCEEEESHHHHTSSSHHHHHHHHHHHH
T ss_pred             EeCCCCCHHHHHHHHHcCCCEEEEChHHhCCCCHHHHHHHHHHHH
Confidence            877788999999999999999764     4444666555554443

>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=92.57  E-value=1.4  Score=37.73  Aligned_cols=117  Identities=10%  Similarity=0.085  Sum_probs=73.8

Q ss_pred             ceEEEEE----eCCHHHHHHH----HHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC-
Q 046192            8 QFHVLAV----DDSIIDRKLI----ERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-   75 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l----~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-   75 (187)
                      ..+|++.    |-|..=...+    ...|+..||+|.-   ..+.++.++.+...+           +|+|.+...+.. 
T Consensus       602 kGKVVIATVgGD~HDIGKklVaNIVa~~LE~aGFEVIDLGvdVPpEeIVeAA~Eed-----------ADVVGLSsLLTt~  670 (763)
T 3kp1_A          602 PLKIVAATVGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAAIELK-----------ADAILASTIISHD  670 (763)
T ss_dssp             CCEEEEEEBTTCCCCHHHHHTTSTTTTCGGGGTCEEEECCSSBCHHHHHHHHHHTT-----------CSEEEEECCCCGG
T ss_pred             CCEEEEEeCCCChhhhhhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcC-----------CCEEEEeccccCc
Confidence            4677766    3333222222    4678888999986   347788888885544           559999988776 


Q ss_pred             ---CCH-HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           76 ---MTG-YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        76 ---~~g-~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                         +.. -++++.+++.+....++|++=....+.+.   +...|++.|.....+..++...+.....
T Consensus       671 dihL~~MkevIelLrE~GlrDkIkVIVGGa~~tqd~---AkeIGADa~f~DATeAVeVA~~Ll~~l~  734 (763)
T 3kp1_A          671 DIHYKNMKRIHELAVEKGIRDKIMIGCGGTQVTPEV---AVKQGVDAGFGRGSKGIHVATFLVKKRR  734 (763)
T ss_dssp             GHHHHHHHHHHHHHHHTTCTTTSEEEEECTTCCHHH---HHTTTCSEEECTTCCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhcCCCCCCEEEEECCCCCHHH---HHHcCCcEEECCcchHHHHHHHHHHHHH
Confidence               233 35788888876532355554333344433   4589999998877777666555444443

>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=92.20  E-value=2.6  Score=31.20  Aligned_cols=88  Identities=14%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEecc------CCCCCHHHHHHHHHhhcC
Q 046192           18 IIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC------MPGMTGYDLLRKIKESAS   90 (187)
Q Consensus        18 ~~~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~------~~~~~g~~~~~~l~~~~~   90 (187)
                      |.....+.+.++..|..+.. +.+.+++.....            ..+|.|.+...      -....++++++.+++.  
T Consensus       115 p~~l~~~i~~~~~~g~~v~~~v~t~eea~~a~~------------~Gad~Ig~~~~g~t~~~~~~~~~~~~i~~l~~~--  180 (232)
T 3igs_A          115 PVAVEALLARIHHHHLLTMADCSSVDDGLACQR------------LGADIIGTTMSGYTTPDTPEEPDLPLVKALHDA--  180 (232)
T ss_dssp             SSCHHHHHHHHHHTTCEEEEECCSHHHHHHHHH------------TTCSEEECTTTTSSSSSCCSSCCHHHHHHHHHT--
T ss_pred             HHHHHHHHHHHHHCCCEEEEeCCCHHHHHHHHh------------CCCCEEEEcCccCCCCCCCCCCCHHHHHHHHhc--
Confidence            44445555666666765554 778877766542            23667754321      1224467888888874  


Q ss_pred             CCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           91 LKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        91 ~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                        ++|+|.-+.-.+.+.+.+++..||++.+.
T Consensus       181 --~ipvIA~GGI~t~~d~~~~~~~GadgV~V  209 (232)
T 3igs_A          181 --GCRVIAEGRYNSPALAAEAIRYGAWAVTV  209 (232)
T ss_dssp             --TCCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             --CCcEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence              68999888888899999999999999864

>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=92.20  E-value=0.49  Score=37.58  Aligned_cols=105  Identities=10%  Similarity=0.038  Sum_probs=68.4

Q ss_pred             CCceEEEEEeCCHHHHHHHHHHHHhC---CceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            6 DSQFHVLAVDDSIIDRKLIERLLKTS---SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         6 ~~~~~ilivd~~~~~~~~l~~~l~~~---~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      ..+++++|+|.|+...+.|.+++.+.   .|.+..+++.+.+.+.+.           ..++|++++|-......     
T Consensus        19 ~~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~-----------~~~~dilli~e~~~~~~-----   82 (373)
T 3fkq_A           19 GMKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVK-----------EYRIDVLIAEEDFNIDK-----   82 (373)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHH-----------HHTCSEEEEETTCCCCG-----
T ss_pred             CceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHh-----------cCCCCEEEEcchhhhhh-----
Confidence            34799999999999999999999653   589999999999999984           34567999997765421     


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                         ....  ...++++++.....+.      ..-...+.|--+.+++...+....
T Consensus        83 ---~~~~--~~~~v~~l~~~~~~~~------~~~~~~i~kyq~~~~i~~ei~~~~  126 (373)
T 3fkq_A           83 ---SEFK--RNCGLAYFTGTPGIEL------IKDEIAICKYQRVDVIFKQILGVY  126 (373)
T ss_dssp             ---GGGC--SSCEEEEEESCTTCCE------ETTEEEEETTSCHHHHHHHHHHHH
T ss_pred             ---hhhc--ccCcEEEEECCCCCCc------CCCCceeeccCCHHHHHHHHHHHH
Confidence               1111  1445666655432210      011124677667777655554444

>4e38_A Keto-hydroxyglutarate-aldolase/keto-deoxy-phospho aldolase; lyase; 1.64A {Vibrionales bacterium swat-3}

Probab=91.90  E-value=1.7  Score=32.29  Aligned_cols=98  Identities=15%  Similarity=0.190  Sum_probs=63.6

Q ss_pred             HHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCC
Q 046192           24 IERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE  102 (187)
Q Consensus        24 l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~  102 (187)
                      +.+.|.+.+. -|....+.+++....+..-..        -  +-.+.+.+...++.+.++.+++..+  . .+|-....
T Consensus        27 ~~~~l~~~~vv~Vir~~~~~~a~~~a~al~~g--------G--i~~iEvt~~t~~a~e~I~~l~~~~~--~-~~iGaGTV   93 (232)
T 4e38_A           27 INNQLKALKVIPVIAIDNAEDIIPLGKVLAEN--------G--LPAAEITFRSDAAVEAIRLLRQAQP--E-MLIGAGTI   93 (232)
T ss_dssp             HHHHHHHHCEEEEECCSSGGGHHHHHHHHHHT--------T--CCEEEEETTSTTHHHHHHHHHHHCT--T-CEEEEECC
T ss_pred             HHHHHHhCCEEEEEEcCCHHHHHHHHHHHHHC--------C--CCEEEEeCCCCCHHHHHHHHHHhCC--C-CEEeECCc
Confidence            4455555563 334467777777776544321        2  3345555556678999999998764  4 45556667


Q ss_pred             CChhHHHHHHHhCCCceeeCCCChHHHHHHHHH
Q 046192          103 NIPSRINRCLEEGAEEFFLKPVQLADVNKLKPH  135 (187)
Q Consensus       103 ~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~  135 (187)
                      -+.+.+..+..+||+ |+.-|-...++.+..+.
T Consensus        94 lt~~~a~~Ai~AGA~-fIvsP~~~~~vi~~~~~  125 (232)
T 4e38_A           94 LNGEQALAAKEAGAT-FVVSPGFNPNTVRACQE  125 (232)
T ss_dssp             CSHHHHHHHHHHTCS-EEECSSCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHcCCC-EEEeCCCCHHHHHHHHH
Confidence            789999999999997 45556555666555444

>2gek_A Phosphatidylinositol mannosyltransferase (PIMA); GT4 glycosyltransferase, rossmann fold, complex; HET: GDP; 2.40A {Mycobacterium smegmatis} PDB: 2gej_A*

Probab=91.07  E-value=2.2  Score=33.29  Aligned_cols=108  Identities=8%  Similarity=0.040  Sum_probs=67.7

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+++++++.+.  ..+.+.++...  +.+...-+..+..+.+.             ..|++++-......-|..+++.+
T Consensus       240 ~~~l~i~G~~~~--~~l~~~~~~~~~~v~~~g~~~~~~~~~~~~-------------~adv~v~ps~~~e~~~~~~~Ea~  304 (406)
T 2gek_A          240 DVEILIVGRGDE--DELREQAGDLAGHLRFLGQVDDATKASAMR-------------SADVYCAPHLGGESFGIVLVEAM  304 (406)
T ss_dssp             TCEEEEESCSCH--HHHHHHTGGGGGGEEECCSCCHHHHHHHHH-------------HSSEEEECCCSCCSSCHHHHHHH
T ss_pred             CeEEEEEcCCcH--HHHHHHHHhccCcEEEEecCCHHHHHHHHH-------------HCCEEEecCCCCCCCchHHHHHH
Confidence            456667766655  45555554321  22222334444455542             24577765332445577788887


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..     .+|+|...    .....+.+..|..+++..|.+.+++.+++..++..
T Consensus       305 a~-----G~PvI~~~----~~~~~e~i~~~~~g~~~~~~d~~~l~~~i~~l~~~  349 (406)
T 2gek_A          305 AA-----GTAVVASD----LDAFRRVLADGDAGRLVPVDDADGMAAALIGILED  349 (406)
T ss_dssp             HH-----TCEEEECC----CHHHHHHHTTTTSSEECCTTCHHHHHHHHHHHHHC
T ss_pred             Hc-----CCCEEEec----CCcHHHHhcCCCceEEeCCCCHHHHHHHHHHHHcC
Confidence            65     67877532    24556677778899999999999999999988764

>2xci_A KDO-transferase, 3-deoxy-D-manno-2-octulosonic acid transferase; KDTA, GSEA, glycosyltransferase superfamily B,; HET: PG4; 2.00A {Aquifex aeolicus} PDB: 2xcu_A*

Probab=88.99  E-value=2.6  Score=33.28  Aligned_cols=111  Identities=15%  Similarity=0.137  Sum_probs=64.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCce----------EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQ----------VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT   77 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~----------v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~   77 (187)
                      ..+++|+.+.+.....+.+.+++.|..          +.......+....+.             ..|++++--...+..
T Consensus       225 ~~~lvivG~g~~~~~~l~~~~~~~gl~~~~~~~~~~~v~~~~~~~dl~~~y~-------------~aDv~vl~ss~~e~g  291 (374)
T 2xci_A          225 SLKLILVPRHIENAKIFEKKARDFGFKTSFFENLEGDVILVDRFGILKELYP-------------VGKIAIVGGTFVNIG  291 (374)
T ss_dssp             TCEEEEEESSGGGHHHHHHHHHHTTCCEEETTCCCSSEEECCSSSCHHHHGG-------------GEEEEEECSSSSSSC
T ss_pred             CcEEEEECCCHHHHHHHHHHHHHCCCceEEecCCCCcEEEECCHHHHHHHHH-------------hCCEEEECCcccCCC
Confidence            467888888887666777777776643          222222234444442             256877643332223


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHH-HHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRC-LEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a-~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      |..+++.+..     .+|||.-+...+....... ..   ++++..|-+.++|.+++..++..
T Consensus       292 g~~~lEAmA~-----G~PVI~~~~~~~~~e~~~~~~~---~G~l~~~~d~~~La~ai~~ll~d  346 (374)
T 2xci_A          292 GHNLLEPTCW-----GIPVIYGPYTHKVNDLKEFLEK---EGAGFEVKNETELVTKLTELLSV  346 (374)
T ss_dssp             CCCCHHHHTT-----TCCEEECSCCTTSHHHHHHHHH---TTCEEECCSHHHHHHHHHHHHHS
T ss_pred             CcCHHHHHHh-----CCCEEECCCccChHHHHHHHHH---CCCEEEeCCHHHHHHHHHHHHhH
Confidence            4445665543     7889853233333333322 23   34677777899999999998863

>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=88.82  E-value=2.1  Score=32.26  Aligned_cols=58  Identities=19%  Similarity=0.340  Sum_probs=40.9

Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCC------ChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSEN------IPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~------~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+++++.+|+..|  ++|+++++-..      .......+.+.|+++++.-.+..+++...+..+.
T Consensus        81 ~~~~v~~ir~~~~--~~Pi~~m~y~n~v~~~g~~~f~~~~~~aG~dgvii~dl~~ee~~~~~~~~~  144 (262)
T 2ekc_A           81 VLELSETLRKEFP--DIPFLLMTYYNPIFRIGLEKFCRLSREKGIDGFIVPDLPPEEAEELKAVMK  144 (262)
T ss_dssp             HHHHHHHHHHHCT--TSCEEEECCHHHHHHHCHHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcC--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHH
Confidence            3456788887654  78999874331      1455677889999999998777777666655544

>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=88.51  E-value=5.2  Score=33.87  Aligned_cols=101  Identities=12%  Similarity=0.213  Sum_probs=68.7

Q ss_pred             ceEEEEE----eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-C-CH
Q 046192            8 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-M-TG   78 (187)
Q Consensus         8 ~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~-~g   78 (187)
                      ..+|++.    |-|..-...+..+|+..||+|+..   -..++.++.+...           .+|+|.+...+.. . .-
T Consensus        98 ~~kVLlatv~GD~HdiG~~iva~~L~~~G~eVi~LG~~vP~e~iv~aa~~~-----------~~diVgLS~l~t~~~~~m  166 (579)
T 3bul_A           98 NGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEV-----------NADLIGLSGLITPSLDEM  166 (579)
T ss_dssp             SCEEEEEEBTTCCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHHH-----------TCSEEEEECCSTHHHHHH
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHc-----------CCCEEEEEecCCCCHHHH
Confidence            4677777    566777788888889999999763   4677777777544           4559999886653 2 23


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHh-----CCCceeeCC
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEE-----GAEEFFLKP  123 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~-----ga~~yl~kP  123 (187)
                      .++++.+++.++  ++||++=....+.++..  -..     ||+.|....
T Consensus       167 ~~~i~~Lr~~g~--~i~ViVGGa~~~~~~a~--~~i~p~~~GAD~ya~DA  212 (579)
T 3bul_A          167 VNVAKEMERQGF--TIPLLIGGATTSKAHTA--VKIEQNYSGPTVYVQNA  212 (579)
T ss_dssp             HHHHHHHHHTTC--CSCEEEESTTCCHHHHH--HHTGGGCSSCEEECCSH
T ss_pred             HHHHHHHHHcCC--CCeEEEEccccchhhhh--hhhhhcccCCeEEECCH
Confidence            357788888765  78887666655555432  123     888776543

>2bfw_A GLGA glycogen synthase; glycosyltransferase family 5 UDP/ADP-glucose-glycogen syntha rossman folds, transferase; 1.8A {Pyrococcus abyssi} SCOP: c.87.1.8

Probab=87.96  E-value=5.1  Score=27.82  Aligned_cols=106  Identities=9%  Similarity=0.087  Sum_probs=70.6

Q ss_pred             ceEEEEEeCCH-HHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            8 QFHVLAVDDSI-IDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         8 ~~~ilivd~~~-~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      ..+++++++.+ .....+...++..+ .|..   .-+.++....+.             ..|++++-... ..-|..+++
T Consensus        70 ~~~l~i~G~~~~~~~~~l~~~~~~~~-~v~~~~g~~~~~~~~~~~~-------------~ad~~l~ps~~-e~~~~~~~E  134 (200)
T 2bfw_A           70 EMRFIIIGKGDPELEGWARSLEEKHG-NVKVITEMLSREFVRELYG-------------SVDFVIIPSYF-EPFGLVALE  134 (200)
T ss_dssp             GEEEEEECCBCHHHHHHHHHHHHHCT-TEEEECSCCCHHHHHHHHT-------------TCSEEEECCSC-CSSCHHHHH
T ss_pred             CeEEEEECCCChHHHHHHHHHHHhcC-CEEEEeccCCHHHHHHHHH-------------HCCEEEECCCC-CCccHHHHH
Confidence            57778887654 24566777777766 3443   334556666662             25687775443 445677777


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .+..     .+|+|.. ..   ....+.+ .|-.+++..|-+.+++.+.+..++.
T Consensus       135 a~a~-----G~PvI~~-~~---~~~~e~~-~~~~g~~~~~~~~~~l~~~i~~l~~  179 (200)
T 2bfw_A          135 AMCL-----GAIPIAS-AV---GGLRDII-TNETGILVKAGDPGELANAILKALE  179 (200)
T ss_dssp             HHHT-----TCEEEEE-SC---HHHHHHC-CTTTCEEECTTCHHHHHHHHHHHHH
T ss_pred             HHHC-----CCCEEEe-CC---CChHHHc-CCCceEEecCCCHHHHHHHHHHHHh
Confidence            7765     7787754 22   2344445 6788999999999999999998886

>3s83_A Ggdef family protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, signaling protein; HET: MSE; 1.34A {Caulobacter crescentus} PDB: 3u2e_A

Probab=87.64  E-value=2  Score=31.90  Aligned_cols=100  Identities=12%  Similarity=0.183  Sum_probs=60.9

Q ss_pred             HHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCHHHHHHHHHhhcCCCCCcE
Q 046192           24 IERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTGYDLLRKIKESASLKDIPV   96 (187)
Q Consensus        24 l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g~~~~~~l~~~~~~~~~~i   96 (187)
                      .-..|+..|+.+..  +.++...+..+..           -++|.|=+|..+-     +.....+++.+.......++.+
T Consensus       144 ~l~~l~~~G~~ialDdfG~g~ssl~~L~~-----------l~~d~iKiD~~~v~~~~~~~~~~~~~~~i~~~a~~~g~~v  212 (259)
T 3s83_A          144 ILKTLRDAGAGLALDDFGTGFSSLSYLTR-----------LPFDTLKIDRYFVRTMGNNAGSAKIVRSVVKLGQDLDLEV  212 (259)
T ss_dssp             HHHHHHHHTCEEEEECC---CHHHHHHHH-----------SCCCEEEECHHHHHHTTTCHHHHHHHHHHHHHHHHTTCEE
T ss_pred             HHHHHHHCCCEEEEECCCCCchhHHHHHh-----------CCCCEEEECHHHHhhhhcCchHHHHHHHHHHHHHHCCCeE
Confidence            34455667988876  6677777888844           4566999996331     1223334554443322114444


Q ss_pred             EEEeCCCChhHHHHHHHhCCC---ce-eeCCCChHHHHHHHHH
Q 046192           97 VIMSSENIPSRINRCLEEGAE---EF-FLKPVQLADVNKLKPH  135 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~---~y-l~kP~~~~~l~~~i~~  135 (187)
                      | ...-.+.+....+.+.|++   +| +.||.+.+++...+..
T Consensus       213 i-aeGVEt~~~~~~l~~lG~~~~QG~~~~~p~~~~~~~~~l~~  254 (259)
T 3s83_A          213 V-AEGVENAEMAHALQSLGCDYGQGFGYAPALSPQEAEVYLNE  254 (259)
T ss_dssp             E-ECCCCSHHHHHHHHHHTCCEECBTTTBCCBCHHHHHHHHHH
T ss_pred             E-EEeCCCHHHHHHHHhcCCCEeecCcccCCCCHHHHHHHHHH
Confidence            4 5555678888888899976   34 7899999998776543

>3qz6_A HPCH/HPAI aldolase; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.00A {Desulfitobacterium hafniense} SCOP: c.1.12.0

Probab=87.04  E-value=6.8  Score=29.46  Aligned_cols=101  Identities=11%  Similarity=0.075  Sum_probs=62.2

Q ss_pred             HHHHHHhCC--ceEEEeC-CHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEe
Q 046192           24 IERLLKTSS--YQVTAVD-SGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS  100 (187)
Q Consensus        24 l~~~l~~~~--~~v~~~~-~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls  100 (187)
                      +++.|....  +.++... +....++.+           ....+|.|++|+.-.-.+.-.+...++........++|-+-
T Consensus         6 ~k~~l~~g~~~~g~~~~~~~~p~~~e~a-----------~~~g~D~vilDlEhav~~~~k~~~~l~a~~~~~~~~~VRVn   74 (261)
T 3qz6_A            6 LKKKLSAGKSVVGTMLNLVYNPDIVRIY-----------AEAGLDYFIVDCEHAAYTFREINHLVSVAKNAGVSVLVRIP   74 (261)
T ss_dssp             HHHHHHTTCCEEEEEESSCCCTTHHHHH-----------HHTTCSEEEEESSSSCCCHHHHHHHHHHHHHHTCEEEEECS
T ss_pred             HHHHHHCCCCEEEEEEecCCCHHHHHHH-----------hcCCcCEEEEeccCCCCCHHHHHHHHHHHhhcCCeEEEEeC
Confidence            455565432  2333333 455666666           34458899999988777766666666553211133444444


Q ss_pred             CCCChhHHHHHHHhCCCceee-CCCChHHHHHHHHHH
Q 046192          101 SENIPSRINRCLEEGAEEFFL-KPVQLADVNKLKPHL  136 (187)
Q Consensus       101 ~~~~~~~~~~a~~~ga~~yl~-kP~~~~~l~~~i~~~  136 (187)
                      . .+...+..++..|+++.+. |--+.+++..+...+
T Consensus        75 ~-~~~~di~~~ld~G~~gI~lP~v~saed~~~~~~~~  110 (261)
T 3qz6_A           75 Q-VDRAHVQRLLDIGAEGFMIPGVQSAETMRETVRLA  110 (261)
T ss_dssp             S-CCHHHHHHHHHHTCCEEEETTCCSHHHHHHHHHHH
T ss_pred             C-CCHHHHHHHHhcCCCEEEECCcCCHHHHHHHHHHh
Confidence            4 4667889999999998754 444677776666554

>3qja_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, T structural genomics consortium, TBSGC, lyase; 1.29A {Mycobacterium tuberculosis} PDB: 3t40_A* 3t44_A* 3t55_A* 3t78_A* 4fb7_A*

Probab=86.35  E-value=9.1  Score=28.99  Aligned_cols=89  Identities=10%  Similarity=-0.013  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHHHHHhhcCCCCCcE
Q 046192           20 DRKLIERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLRKIKESASLKDIPV   96 (187)
Q Consensus        20 ~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~~l~~~~~~~~~~i   96 (187)
                      ....+.......|..+.. +.+.+++...+..            .+|++-+.-.-..  ..+++.+..+.+..+ .++|+
T Consensus       150 ~l~~l~~~a~~lGl~~lvev~t~ee~~~A~~~------------Gad~IGv~~r~l~~~~~dl~~~~~l~~~v~-~~~pv  216 (272)
T 3qja_A          150 VLVSMLDRTESLGMTALVEVHTEQEADRALKA------------GAKVIGVNARDLMTLDVDRDCFARIAPGLP-SSVIR  216 (272)
T ss_dssp             HHHHHHHHHHHTTCEEEEEESSHHHHHHHHHH------------TCSEEEEESBCTTTCCBCTTHHHHHGGGSC-TTSEE
T ss_pred             HHHHHHHHHHHCCCcEEEEcCCHHHHHHHHHC------------CCCEEEECCCcccccccCHHHHHHHHHhCc-ccCEE
Confidence            344455555667876654 7888876555421            2567777642211  123566777776543 26888


Q ss_pred             EEEeCCCChhHHHHHHHhCCCceee
Q 046192           97 VIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      |..+.-.+.+.+..+.+.|+++++.
T Consensus       217 VaegGI~t~edv~~l~~~GadgvlV  241 (272)
T 3qja_A          217 IAESGVRGTADLLAYAGAGADAVLV  241 (272)
T ss_dssp             EEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             EEECCCCCHHHHHHHHHcCCCEEEE
Confidence            8888888899999999999999976

>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=86.03  E-value=6.5  Score=31.68  Aligned_cols=54  Identities=17%  Similarity=0.176  Sum_probs=38.4

Q ss_pred             cccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           63 QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      ..|+||+-+.-+ .....++..+++.+|  +++||+-+.  +........++||+..+.
T Consensus        68 ~A~~viv~~~~~-~~n~~i~~~ar~~~p--~~~Iiara~--~~~~~~~L~~~Gad~Vi~  121 (413)
T 3l9w_A           68 KAEVLINAIDDP-QTNLQLTEMVKEHFP--HLQIIARAR--DVDHYIRLRQAGVEKPER  121 (413)
T ss_dssp             TCSEEEECCSSH-HHHHHHHHHHHHHCT--TCEEEEEES--SHHHHHHHHHTTCSSCEE
T ss_pred             ccCEEEECCCCh-HHHHHHHHHHHHhCC--CCeEEEEEC--CHHHHHHHHHCCCCEEEC
Confidence            467888876432 234557778888876  777877665  477888888999997664

>3fwz_A Inner membrane protein YBAL; TRKA-N domain, E.coli, structural genomics, PSI-2, Pro structure initiative; HET: MSE AMP; 1.79A {Escherichia coli k-12}

Probab=85.85  E-value=5.8  Score=26.32  Aligned_cols=107  Identities=13%  Similarity=0.150  Sum_probs=57.1

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCc-----c---ccccc--ccccccEEEEeccCCCCCH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNE-----D---EQTNS--QVIQVNLIITDYCMPGMTG   78 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~-----~---~~~~~--~~~~~dlvi~d~~~~~~~g   78 (187)
                      -+|+|++-.. +...+...|...|+.|..+....+.++.+....-     |   +.++.  .-...|++++-+.-+. ..
T Consensus         8 ~~viIiG~G~-~G~~la~~L~~~g~~v~vid~~~~~~~~~~~~g~~~i~gd~~~~~~l~~a~i~~ad~vi~~~~~~~-~n   85 (140)
T 3fwz_A            8 NHALLVGYGR-VGSLLGEKLLASDIPLVVIETSRTRVDELRERGVRAVLGNAANEEIMQLAHLECAKWLILTIPNGY-EA   85 (140)
T ss_dssp             SCEEEECCSH-HHHHHHHHHHHTTCCEEEEESCHHHHHHHHHTTCEEEESCTTSHHHHHHTTGGGCSEEEECCSCHH-HH
T ss_pred             CCEEEECcCH-HHHHHHHHHHHCCCCEEEEECCHHHHHHHHHcCCCEEECCCCCHHHHHhcCcccCCEEEEECCChH-HH
Confidence            4566666644 3444555555566666665444444433321100     0   00000  1235678877654322 22


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      ..++..+++..+  ..++|....  +.+......+.|++..+.
T Consensus        86 ~~~~~~a~~~~~--~~~iiar~~--~~~~~~~l~~~G~d~vi~  124 (140)
T 3fwz_A           86 GEIVASARAKNP--DIEIIARAH--YDDEVAYITERGANQVVM  124 (140)
T ss_dssp             HHHHHHHHHHCS--SSEEEEEES--SHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHHHHCC--CCeEEEEEC--CHHHHHHHHHCCCCEEEC
Confidence            345667777765  677776554  467777778899885554

>3q2i_A Dehydrogenase; rossmann fold, UDP-sugar binding, NAD binding oxidoreductase; HET: NAD HP7; 1.50A {Chromobacterium violaceum} PDB: 3q2k_A*

Probab=85.85  E-value=3.8  Score=31.94  Aligned_cols=110  Identities=18%  Similarity=0.171  Sum_probs=60.5

Q ss_pred             CCCCCCceEEEEEeCCHHHHHHHHHHHHh-CCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHH
Q 046192            2 GMVTDSQFHVLAVDDSIIDRKLIERLLKT-SSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY   79 (187)
Q Consensus         2 ~~~~~~~~~ilivd~~~~~~~~l~~~l~~-~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~   79 (187)
                      .||+..+++|.||+--..-...+..+.+. .+++++. +....+..+.+..            .+.+-..+      +--
T Consensus         7 ~m~~~~~~rvgiiG~G~~g~~~~~~l~~~~~~~~lvav~d~~~~~~~~~~~------------~~~~~~~~------~~~   68 (354)
T 3q2i_A            7 PPITDRKIRFALVGCGRIANNHFGALEKHADRAELIDVCDIDPAALKAAVE------------RTGARGHA------SLT   68 (354)
T ss_dssp             CCCCSSCEEEEEECCSTTHHHHHHHHHHTTTTEEEEEEECSSHHHHHHHHH------------HHCCEEES------CHH
T ss_pred             ecCCCCcceEEEEcCcHHHHHHHHHHHhCCCCeEEEEEEcCCHHHHHHHHH------------HcCCceeC------CHH
Confidence            34556779999999877666666555554 4677664 4433333333311            01121111      111


Q ss_pred             HHHHHHHhhcCCCCCcEEEEeCC--CChhHHHHHHHhCCCceeeCCCC--hHHHHHHHHHH
Q 046192           80 DLLRKIKESASLKDIPVVIMSSE--NIPSRINRCLEEGAEEFFLKPVQ--LADVNKLKPHL  136 (187)
Q Consensus        80 ~~~~~l~~~~~~~~~~iI~ls~~--~~~~~~~~a~~~ga~~yl~kP~~--~~~l~~~i~~~  136 (187)
                      ++   +..  +  ++-+|+++..  ...+.+..+++.|.+=++-||+.  .++..+.++.+
T Consensus        69 ~l---l~~--~--~~D~V~i~tp~~~h~~~~~~al~~gk~v~~EKP~a~~~~~~~~l~~~a  122 (354)
T 3q2i_A           69 DM---LAQ--T--DADIVILTTPSGLHPTQSIECSEAGFHVMTEKPMATRWEDGLEMVKAA  122 (354)
T ss_dssp             HH---HHH--C--CCSEEEECSCGGGHHHHHHHHHHTTCEEEECSSSCSSHHHHHHHHHHH
T ss_pred             HH---hcC--C--CCCEEEECCCcHHHHHHHHHHHHCCCCEEEeCCCcCCHHHHHHHHHHH
Confidence            22   222  1  4445555443  33556778899998888999964  45554444433

>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=85.57  E-value=4.3  Score=29.91  Aligned_cols=52  Identities=10%  Similarity=0.309  Sum_probs=36.2

Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCC------hhHHHHHHHhCCCceeeCCCChHHHHHH
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENI------PSRINRCLEEGAEEFFLKPVQLADVNKL  132 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~------~~~~~~a~~~ga~~yl~kP~~~~~l~~~  132 (187)
                      +.++++.+++..   +.||.+++....      .+.+..+.+.||+..+.-....++....
T Consensus        68 ~~~~i~~i~~~~---~~pv~~~~~~~~~~~~~~~~~~~~~~~~Gad~v~~~~~~~~~~~~~  125 (248)
T 1geq_A           68 AFWIVKEFRRHS---STPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEF  125 (248)
T ss_dssp             HHHHHHHHHTTC---CCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTCCGGGHHHH
T ss_pred             HHHHHHHHHhhC---CCCEEEEeccchhhhcCHHHHHHHHHHCCCCEEEECCCChhhHHHH
Confidence            467888888763   678888764222      5788889999999998865555443333

>2q5c_A NTRC family transcriptional regulator; structural genomics, protein structure initiative; HET: SO4 GOL; 1.49A {Clostridium acetobutylicum atcc 824}

Probab=85.13  E-value=8.5  Score=27.54  Aligned_cols=44  Identities=11%  Similarity=0.037  Sum_probs=34.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEE-eCCHHHHHHHHhcc
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTA-VDSGNKALEFLGLL   51 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~-~~~~~~a~~~l~~~   51 (187)
                      ..+|+++-..+.......++....+.++.. ..+.++++......
T Consensus         4 ~~~I~~iapy~~l~~~~~~i~~e~~~~i~i~~~~l~~~v~~a~~~   48 (196)
T 2q5c_A            4 SLKIALISQNENLLNLFPKLALEKNFIPITKTASLTRASKIAFGL   48 (196)
T ss_dssp             CCEEEEEESCHHHHHHHHHHHHHHTCEEEEEECCHHHHHHHHHHH
T ss_pred             CCcEEEEEccHHHHHHHHHHHhhhCCceEEEECCHHHHHHHHHHh
Confidence            568999999999999888888876656554 57788888877554

>3ioy_A Short-chain dehydrogenase/reductase SDR; structural genomics, oxidoreductase, PSI-2, protein structure initiative; 1.90A {Novosphingobium aromaticivorans DSM12444}

Probab=84.88  E-value=4.5  Score=31.12  Aligned_cols=94  Identities=7%  Similarity=0.010  Sum_probs=54.3

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY   79 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~   79 (187)
                      |.|+.....+|||-+...-+...+...|.+.|+.|..+ .+.+.+-+.......      ......+.++..++.+.+.+
T Consensus         1 M~m~~l~~k~vlVTGas~gIG~~la~~l~~~G~~Vv~~~r~~~~~~~~~~~l~~------~~~~~~~~~~~~Dl~~~~~v   74 (319)
T 3ioy_A            1 MSLKDFAGRTAFVTGGANGVGIGLVRQLLNQGCKVAIADIRQDSIDKALATLEA------EGSGPEVMGVQLDVASREGF   74 (319)
T ss_dssp             --CCCCTTCEEEEETTTSTHHHHHHHHHHHTTCEEEEEESCHHHHHHHHHHHHH------HTCGGGEEEEECCTTCHHHH
T ss_pred             CCccCCCCCEEEEcCCchHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHh------cCCCCeEEEEECCCCCHHHH
Confidence            66655556689999999988999999998889988764 443333222211110      11112355555555554444


Q ss_pred             -HHHHHHHhhcCCCCCcEEEEeCC
Q 046192           80 -DLLRKIKESASLKDIPVVIMSSE  102 (187)
Q Consensus        80 -~~~~~l~~~~~~~~~~iI~ls~~  102 (187)
                       ++++.+.+...  .+-+++..+.
T Consensus        75 ~~~~~~~~~~~g--~id~lv~nAg   96 (319)
T 3ioy_A           75 KMAADEVEARFG--PVSILCNNAG   96 (319)
T ss_dssp             HHHHHHHHHHTC--CEEEEEECCC
T ss_pred             HHHHHHHHHhCC--CCCEEEECCC
Confidence             36667766554  5566665543

>2iw1_A Lipopolysaccharide core biosynthesis protein RFAG; transferase, lipopolysaccharide biosynthesis, family GT-4, glycosyltransferase, LPS; HET: U2F; 1.5A {Escherichia coli} SCOP: c.87.1.8 PDB: 2iv7_A*

Probab=84.88  E-value=8.2  Score=29.54  Aligned_cols=107  Identities=14%  Similarity=0.218  Sum_probs=65.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ..+++++++.+.  ..+.+..+..+.  .|......++..+.+.             ..|++++-.. ...-|..+++.+
T Consensus       228 ~~~l~i~G~g~~--~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~-------------~ad~~v~ps~-~e~~~~~~~Ea~  291 (374)
T 2iw1_A          228 NTLLFVVGQDKP--RKFEALAEKLGVRSNVHFFSGRNDVSELMA-------------AADLLLHPAY-QEAAGIVLLEAI  291 (374)
T ss_dssp             TEEEEEESSSCC--HHHHHHHHHHTCGGGEEEESCCSCHHHHHH-------------HCSEEEECCS-CCSSCHHHHHHH
T ss_pred             ceEEEEEcCCCH--HHHHHHHHHcCCCCcEEECCCcccHHHHHH-------------hcCEEEeccc-cCCcccHHHHHH
Confidence            356677776542  445555554431  3443333333444442             2457776543 345577788887


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeC-CCChHHHHHHHHHHhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK-PVQLADVNKLKPHLMKG  139 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~k-P~~~~~l~~~i~~~~~~  139 (187)
                      ..     .+|+|........    +.+..|..+++.. |.+.+++.+++..++..
T Consensus       292 a~-----G~Pvi~~~~~~~~----e~i~~~~~g~~~~~~~~~~~l~~~i~~l~~~  337 (374)
T 2iw1_A          292 TA-----GLPVLTTAVCGYA----HYIADANCGTVIAEPFSQEQLNEVLRKALTQ  337 (374)
T ss_dssp             HH-----TCCEEEETTSTTT----HHHHHHTCEEEECSSCCHHHHHHHHHHHHHC
T ss_pred             HC-----CCCEEEecCCCch----hhhccCCceEEeCCCCCHHHHHHHHHHHHcC
Confidence            65     7788875543333    3345567789887 89999999999998864

>1qv9_A F420-dependent methylenetetrahydromethanopterin dehydrogenase; monomer: alpha/beta domain, helix bundle, trimer of dimers, oxidoreductase; HET: MSE; 1.54A {Methanopyrus kandleri} SCOP: c.127.1.1 PDB: 1u6i_A 1u6j_A 1u6k_A* 3iqe_A* 3iqf_A* 3iqz_A*

Probab=84.25  E-value=2.2  Score=31.83  Aligned_cols=58  Identities=17%  Similarity=0.241  Sum_probs=45.8

Q ss_pred             cccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC
Q 046192           63 QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV  124 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~  124 (187)
                      .||++|+=.-.|...|..-.+.+....   +.|.|++++..... ..++++..-.+|++-+.
T Consensus        64 ~pDfvI~isPN~a~PGP~~ARE~l~~~---~iP~IvI~D~p~~K-~kd~l~~~g~GYIivk~  121 (283)
T 1qv9_A           64 EPDFIVYGGPNPAAPGPSKAREMLADS---EYPAVIIGDAPGLK-VKDEMEEQGLGYILVKP  121 (283)
T ss_dssp             CCSEEEEECSCTTSHHHHHHHHHHHTS---SSCEEEEEEGGGGG-GHHHHHHTTCEEEEETT
T ss_pred             CCCEEEEECCCCCCCCchHHHHHHHhC---CCCEEEEcCCcchh-hHHHHHhcCCcEEEEec
Confidence            466999888888888998888877654   89999999986666 66888888888876544

>3ovp_A Ribulose-phosphate 3-epimerase; iron binding, isomerase; HET: XPE; 1.70A {Homo sapiens} SCOP: c.1.2.0 PDB: 3ovq_A* 3ovr_A* 3qc3_A

Probab=83.95  E-value=5.1  Score=29.49  Aligned_cols=56  Identities=16%  Similarity=0.366  Sum_probs=40.1

Q ss_pred             cccEEEEeccCCCCCH-------HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           63 QVNLIITDYCMPGMTG-------YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        63 ~~dlvi~d~~~~~~~g-------~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .+|.|++....|+..|       ++-++.+|+..+  +.++. +...-+.+.+..+.++||+.++.
T Consensus       134 ~~D~Vl~msv~pGf~Gq~f~~~~l~ki~~lr~~~~--~~~I~-VdGGI~~~t~~~~~~aGAd~~Vv  196 (228)
T 3ovp_A          134 QIDMALVMTVEPGFGGQKFMEDMMPKVHWLRTQFP--SLDIE-VDGGVGPDTVHKCAEAGANMIVS  196 (228)
T ss_dssp             GCSEEEEESSCTTTCSCCCCGGGHHHHHHHHHHCT--TCEEE-EESSCSTTTHHHHHHHTCCEEEE
T ss_pred             cCCeEEEeeecCCCCCcccCHHHHHHHHHHHHhcC--CCCEE-EeCCcCHHHHHHHHHcCCCEEEE
Confidence            3788888777777654       455777777654  55554 55555788999999999998654

>3fro_A GLGA glycogen synthase; glycosyltransferase family, UDP/ADP-glucose-glycogen synthas rossman folds, transferase; HET: NHF; 2.50A {Pyrococcus abyssi} SCOP: c.87.1.8 PDB: 2bis_A* 3l01_A*

Probab=83.88  E-value=14  Score=28.90  Aligned_cols=107  Identities=9%  Similarity=0.105  Sum_probs=72.1

Q ss_pred             CceEEEEEeCCHH-HHHHHHHHHHhCCceEEE-eC--CHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            7 SQFHVLAVDDSII-DRKLIERLLKTSSYQVTA-VD--SGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         7 ~~~~ilivd~~~~-~~~~l~~~l~~~~~~v~~-~~--~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      ...+++|+++.+. ....+.+..+..+ .+.. ..  +.++..+.+.             ..|++++-... ..-|..++
T Consensus       284 ~~~~l~i~G~g~~~~~~~l~~~~~~~~-~~~~~~g~~~~~~~~~~~~-------------~adv~v~ps~~-e~~~~~~~  348 (439)
T 3fro_A          284 QEMRFIIIGKGDPELEGWARSLEEKHG-NVKVITEMLSREFVRELYG-------------SVDFVIIPSYF-EPFGLVAL  348 (439)
T ss_dssp             GGEEEEEECCCCHHHHHHHHHHHHHCT-TEEEECSCCCHHHHHHHHT-------------TCSEEEECBSC-CSSCHHHH
T ss_pred             CCeEEEEEcCCChhHHHHHHHHHhhcC-CEEEEcCCCCHHHHHHHHH-------------HCCEEEeCCCC-CCccHHHH
Confidence            4678888887653 3366777777776 4443 33  5566666663             24577766544 45667777


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      +.+..     .+|+|....    ....+.+..| .+++..|.+.+++.+++..++.
T Consensus       349 EAma~-----G~Pvi~s~~----~~~~e~~~~~-~g~~~~~~d~~~la~~i~~ll~  394 (439)
T 3fro_A          349 EAMCL-----GAIPIASAV----GGLRDIITNE-TGILVKAGDPGELANAILKALE  394 (439)
T ss_dssp             HHHHT-----TCEEEEESS----THHHHHCCTT-TCEEECTTCHHHHHHHHHHHHH
T ss_pred             HHHHC-----CCCeEEcCC----CCcceeEEcC-ceEEeCCCCHHHHHHHHHHHHh
Confidence            77765     778876432    2344455566 8999999999999999998887

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=83.83  E-value=1.6  Score=33.12  Aligned_cols=58  Identities=14%  Similarity=0.361  Sum_probs=41.1

Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCCC------ChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSEN------IPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~~------~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      +++++.+|+...  ++|+++++-..      ......++.++|+++.+.-....++..+.+..+.+
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            567777777644  78998886432      26678889999999998877777665555544443

>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=83.81  E-value=2  Score=32.71  Aligned_cols=58  Identities=14%  Similarity=0.361  Sum_probs=40.8

Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeC------CCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSS------ENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~------~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+++++.+|+..+  ++|+++++-      +.-.....++.++|+++.+.-...+++.......+.
T Consensus        84 ~~~~v~~~r~~~~--~~Pivlm~Y~n~v~~~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~~~~~  147 (271)
T 3nav_A           84 CFELIAQIRARNP--ETPIGLLMYANLVYARGIDDFYQRCQKAGVDSVLIADVPTNESQPFVAAAE  147 (271)
T ss_dssp             HHHHHHHHHHHCT--TSCEEEEECHHHHHHTCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CCCEEEEecCcHHHHHhHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            3567777887654  889998863      234667888999999999887666666544444443

>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=83.66  E-value=1.6  Score=32.99  Aligned_cols=58  Identities=17%  Similarity=0.409  Sum_probs=40.3

Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCC------CChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSE------NIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~------~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ++++++.+|+...  ++|+++++-.      .....+..+.++|+++++.-....+++...+..+.
T Consensus        81 ~~~~v~~ir~~~~--~~Pv~lm~y~n~v~~~g~~~~~~~~~~aGadgii~~d~~~e~~~~~~~~~~  144 (268)
T 1qop_A           81 CFEMLAIIREKHP--TIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEESAPFRQAAL  144 (268)
T ss_dssp             HHHHHHHHHHHCS--SSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGCHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CCCEEEEEcccHHHHhhHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHH
Confidence            4466788887644  7898887522      22577888999999999988777666555554443

>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.83A {Planctomyces limnophilus}

Probab=83.27  E-value=0.93  Score=34.31  Aligned_cols=33  Identities=15%  Similarity=0.194  Sum_probs=26.3

Q ss_pred             ceEEEEEeCC--HHHHHHHHHHHHhCCceEEEeCC
Q 046192            8 QFHVLAVDDS--IIDRKLIERLLKTSSYQVTAVDS   40 (187)
Q Consensus         8 ~~~ilivd~~--~~~~~~l~~~l~~~~~~v~~~~~   40 (187)
                      +.+||||+++  +.-...+...|+..||+|.....
T Consensus         4 m~~vLiV~g~~~~~~a~~l~~aL~~~g~~V~~i~~   38 (259)
T 3rht_A            4 MTRVLYCGDTSLETAAGYLAGLMTSWQWEFDYIPS   38 (259)
T ss_dssp             --CEEEEESSCTTTTHHHHHHHHHHTTCCCEEECT
T ss_pred             CceEEEECCCCchhHHHHHHHHHHhCCceEEEecc
Confidence            4699999998  66778899999999999887543

>2iuy_A Avigt4, glycosyltransferase; antibiotics, family GT-4, avilamycin A; HET: MES; 2.1A {Streptomyces viridochromogenes} PDB: 2iv3_A*

Probab=83.04  E-value=6.3  Score=30.00  Aligned_cols=106  Identities=8%  Similarity=0.052  Sum_probs=65.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEE--EeCCHHHHHHHHhccCcccccccccccccEEEEecc---------CCCCC
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVT--AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYC---------MPGMT   77 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~--~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~---------~~~~~   77 (187)
                      .+++|+++.+ ....+.++.+..+-.|.  ..-+..+..+.+.             ..|++++-..         ....-
T Consensus       189 ~~l~i~G~g~-~~~~l~~~~~~~~~~v~~~g~~~~~~l~~~~~-------------~adv~v~ps~~~~~~~~~~~~E~~  254 (342)
T 2iuy_A          189 RRLVLAGPAW-EPEYFDEITRRYGSTVEPIGEVGGERRLDLLA-------------SAHAVLAMSQAVTGPWGGIWCEPG  254 (342)
T ss_dssp             CCEEEESCCC-CHHHHHHHHHHHTTTEEECCCCCHHHHHHHHH-------------HCSEEEECCCCCCCTTCSCCCCCC
T ss_pred             cEEEEEeCcc-cHHHHHHHHHHhCCCEEEeccCCHHHHHHHHH-------------hCCEEEECCcccccccccccccCc
Confidence            4566777654 23344444443332233  2334455555552             2457776544         24556


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHh--CCCceeeCCCChHHHHHHHHHHhh
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEE--GAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~--ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      |..+++.+..     .+|+|....    ....+.+..  |..+++..| +.+++.+++..++.
T Consensus       255 ~~~~~EAma~-----G~PvI~s~~----~~~~e~~~~~~~~~g~~~~~-d~~~l~~~i~~l~~  307 (342)
T 2iuy_A          255 ATVVSEAAVS-----GTPVVGTGN----GCLAEIVPSVGEVVGYGTDF-APDEARRTLAGLPA  307 (342)
T ss_dssp             CHHHHHHHHT-----TCCEEECCT----TTHHHHGGGGEEECCSSSCC-CHHHHHHHHHTSCC
T ss_pred             cHHHHHHHhc-----CCCEEEcCC----CChHHHhcccCCCceEEcCC-CHHHHHHHHHHHHH
Confidence            7778887765     778875433    234555666  788999999 99999999988876

>2f9f_A First mannosyl transferase (WBAZ-1); alpha-beta protein, structural genomics, PSI, protein struct initiative; 1.80A {Archaeoglobus fulgidus} SCOP: c.87.1.8

Probab=82.05  E-value=9.9  Score=26.00  Aligned_cols=107  Identities=7%  Similarity=0.106  Sum_probs=65.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHH--hC----CceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLK--TS----SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDL   81 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~--~~----~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~   81 (187)
                      ..+++++.+.+.. ..+.+.+.  ..    .+.+...-+.++....+.             ..|++++-.. ...-|..+
T Consensus        50 ~~~l~i~G~~~~~-~~l~~~~~~~~~~l~~~v~~~g~~~~~e~~~~~~-------------~adi~v~ps~-~e~~~~~~  114 (177)
T 2f9f_A           50 DEKLYIVGWFSKG-DHAERYARKIMKIAPDNVKFLGSVSEEELIDLYS-------------RCKGLLCTAK-DEDFGLTP  114 (177)
T ss_dssp             TSCEEEEBCCCTT-STHHHHHHHHHHHSCTTEEEEESCCHHHHHHHHH-------------HCSEEEECCS-SCCSCHHH
T ss_pred             CcEEEEEecCccH-HHHHHHHHhhhcccCCcEEEeCCCCHHHHHHHHH-------------hCCEEEeCCC-cCCCChHH
Confidence            3566777655432 23334333  21    233444445555666663             2457776333 34456777


Q ss_pred             HHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           82 LRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        82 ~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++.+..     .+|+|....    ....+.+..|..+++. |.+.+++.+++..++..
T Consensus       115 ~Eama~-----G~PvI~~~~----~~~~e~i~~~~~g~~~-~~d~~~l~~~i~~l~~~  162 (177)
T 2f9f_A          115 IEAMAS-----GKPVIAVNE----GGFKETVINEKTGYLV-NADVNEIIDAMKKVSKN  162 (177)
T ss_dssp             HHHHHT-----TCCEEEESS----HHHHHHCCBTTTEEEE-CSCHHHHHHHHHHHHHC
T ss_pred             HHHHHc-----CCcEEEeCC----CCHHHHhcCCCccEEe-CCCHHHHHHHHHHHHhC
Confidence            777764     778876432    3445555667788988 99999999999998854

>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc genomics, center for structural genomics of infectious DISE csgid; 2.05A {Francisella tularensis subsp}

Probab=81.54  E-value=6.8  Score=29.29  Aligned_cols=73  Identities=12%  Similarity=0.196  Sum_probs=49.2

Q ss_pred             ccEEEEeccC----CC-CCHHHHHHHHHhhcCCCCCcEEE-EeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           64 VNLIITDYCM----PG-MTGYDLLRKIKESASLKDIPVVI-MSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        64 ~dlvi~d~~~----~~-~~g~~~~~~l~~~~~~~~~~iI~-ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .|.+=+|+.-    |+ .-|..+++.||+..|  +.|+.+ +--.....++..+.++||+.+..-.....++.+.++.+.
T Consensus        54 ~d~lHvDVmDg~FVpnit~G~~~v~~lr~~~p--~~~ldvHLmv~~p~~~i~~~~~aGAd~itvH~Ea~~~~~~~i~~ir  131 (246)
T 3inp_A           54 ADNIHFDVMDNHYVPNLTFGPMVLKALRDYGI--TAGMDVHLMVKPVDALIESFAKAGATSIVFHPEASEHIDRSLQLIK  131 (246)
T ss_dssp             CCCEEEEEEBSSSSSCBCCCHHHHHHHHHHTC--CSCEEEEEECSSCHHHHHHHHHHTCSEEEECGGGCSCHHHHHHHHH
T ss_pred             CCEEEEEecCCCcCcchhcCHHHHHHHHHhCC--CCeEEEEEeeCCHHHHHHHHHHcCCCEEEEccccchhHHHHHHHHH
Confidence            3455555533    33 348999999999875  677766 444445678888999999988777654455666666654


Q ss_pred             h
Q 046192          138 K  138 (187)
Q Consensus       138 ~  138 (187)
                      +
T Consensus       132 ~  132 (246)
T 3inp_A          132 S  132 (246)
T ss_dssp             T
T ss_pred             H
Confidence            3

>3c48_A Predicted glycosyltransferases; retaining glycosyltransferase, beta alpha beta, substrate AS catalysis; 2.10A {Corynebacterium glutamicum} PDB: 3c4v_A* 3c4q_A*

Probab=80.80  E-value=13  Score=29.20  Aligned_cols=109  Identities=6%  Similarity=0.088  Sum_probs=67.0

Q ss_pred             ceEEEEEeCC---HHHHHHHHHHHHhCCc--eEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHH
Q 046192            8 QFHVLAVDDS---IIDRKLIERLLKTSSY--QVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYD   80 (187)
Q Consensus         8 ~~~ilivd~~---~~~~~~l~~~l~~~~~--~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~   80 (187)
                      ..+++|+++.   ......+.+..++.|.  .|..  .-+.++..+.+.             ..|++++-.. ...-|..
T Consensus       276 ~~~l~i~G~~~~~g~~~~~l~~~~~~~~l~~~v~~~g~~~~~~~~~~~~-------------~adv~v~ps~-~e~~~~~  341 (438)
T 3c48_A          276 NLRVIICGGPSGPNATPDTYRHMAEELGVEKRIRFLDPRPPSELVAVYR-------------AADIVAVPSF-NESFGLV  341 (438)
T ss_dssp             SEEEEEECCBC------CHHHHHHHHTTCTTTEEEECCCCHHHHHHHHH-------------HCSEEEECCS-CCSSCHH
T ss_pred             ceEEEEEeCCCCCCcHHHHHHHHHHHcCCCCcEEEcCCCChHHHHHHHH-------------hCCEEEECcc-ccCCchH
Confidence            4677777761   1234556666665442  2333  334466666663             2457776443 3445677


Q ss_pred             HHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           81 LLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        81 ~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +++.+..     .+|||.....    ...+.+..|..+++..|.+.+++.+++..++..
T Consensus       342 ~~Eama~-----G~PvI~~~~~----~~~e~i~~~~~g~~~~~~d~~~la~~i~~l~~~  391 (438)
T 3c48_A          342 AMEAQAS-----GTPVIAARVG----GLPIAVAEGETGLLVDGHSPHAWADALATLLDD  391 (438)
T ss_dssp             HHHHHHT-----TCCEEEESCT----THHHHSCBTTTEEEESSCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHc-----CCCEEecCCC----ChhHHhhCCCcEEECCCCCHHHHHHHHHHHHcC
Confidence            7777764     7788764332    233445567788999999999999999988764

>3e82_A Putative oxidoreductase; NAD, GFO/IDH/MOCA family, PSI-2, NYSGXRC, 11136F, structural genomics, protein structure initiative; 2.04A {Klebsiella pneumoniae subsp}

Probab=80.67  E-value=5.9  Score=31.10  Aligned_cols=109  Identities=10%  Similarity=0.216  Sum_probs=55.3

Q ss_pred             CCCCCCCceEEEEEeCCHHHHHHHHHHHHhC-CceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCH
Q 046192            1 MGMVTDSQFHVLAVDDSIIDRKLIERLLKTS-SYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTG   78 (187)
Q Consensus         1 m~~~~~~~~~ilivd~~~~~~~~l~~~l~~~-~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g   78 (187)
                      |+| ++.++||.||+--..-.......+... +++++. +....+....   ..++           +-..+      + 
T Consensus         1 M~~-~~~~~rvgiiG~G~~g~~~~~~~l~~~~~~~l~av~d~~~~~~~~---~~~~-----------~~~~~------~-   58 (364)
T 3e82_A            1 MSL-SNNTINIALIGYGFVGKTFHAPLIRSVPGLNLAFVASRDEEKVKR---DLPD-----------VTVIA------S-   58 (364)
T ss_dssp             -------CEEEEEECCSHHHHHTHHHHHHTSTTEEEEEEECSCHHHHHH---HCTT-----------SEEES------C-
T ss_pred             CCC-CCCcceEEEECCCHHHHHHHHHHHhhCCCeEEEEEEcCCHHHHHh---hCCC-----------CcEEC------C-
Confidence            543 455699999999876665455556554 677765 3322222221   1111           11111      1 


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEeCC--CChhHHHHHHHhCCCceeeCCCC--hHHHHHHHHHHh
Q 046192           79 YDLLRKIKESASLKDIPVVIMSSE--NIPSRINRCLEEGAEEFFLKPVQ--LADVNKLKPHLM  137 (187)
Q Consensus        79 ~~~~~~l~~~~~~~~~~iI~ls~~--~~~~~~~~a~~~ga~~yl~kP~~--~~~l~~~i~~~~  137 (187)
                         .+.+-+. +  ++-+|+++..  ...+.+..|+++|.+=|+-||+.  .++..+.+..+.
T Consensus        59 ---~~~ll~~-~--~~D~V~i~tp~~~H~~~~~~al~aGk~Vl~EKPla~~~~e~~~l~~~a~  115 (364)
T 3e82_A           59 ---PEAAVQH-P--DVDLVVIASPNATHAPLARLALNAGKHVVVDKPFTLDMQEARELIALAE  115 (364)
T ss_dssp             ---HHHHHTC-T--TCSEEEECSCGGGHHHHHHHHHHTTCEEEECSCSCSSHHHHHHHHHHHH
T ss_pred             ---HHHHhcC-C--CCCEEEEeCChHHHHHHHHHHHHCCCcEEEeCCCcCCHHHHHHHHHHHH
Confidence               1222221 1  4445555443  34566778888998888889874  555544444433

>1rzu_A Glycogen synthase 1; glycosyl-transferase, GT-B fold, rossmann fold, ADP-binding, transferase; HET: ADP; 2.30A {Agrobacterium tumefaciens} SCOP: c.87.1.8 PDB: 1rzv_A

Probab=80.52  E-value=20  Score=28.63  Aligned_cols=107  Identities=10%  Similarity=0.031  Sum_probs=69.7

Q ss_pred             ceEEEEEeCCH-HHHHHHHHHHHhCCceEE-Ee-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            8 QFHVLAVDDSI-IDRKLIERLLKTSSYQVT-AV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         8 ~~~ilivd~~~-~~~~~l~~~l~~~~~~v~-~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+++|+++.+ .....+.++....+-.|. .. .+.++....+.             ..|++++-.. ...-|..+++.
T Consensus       320 ~~~l~ivG~g~~~~~~~l~~~~~~~~~~v~~~~g~~~~~~~~~~~-------------~adv~v~pS~-~E~~~~~~lEA  385 (485)
T 1rzu_A          320 GGRLVVLGAGDVALEGALLAAASRHHGRVGVAIGYNEPLSHLMQA-------------GCDAIIIPSR-FEPCGLTQLYA  385 (485)
T ss_dssp             TCEEEEEECBCHHHHHHHHHHHHHTTTTEEEEESCCHHHHHHHHH-------------HCSEEEECCS-CCSSCSHHHHH
T ss_pred             CceEEEEeCCchHHHHHHHHHHHhCCCcEEEecCCCHHHHHHHHh-------------cCCEEEECcc-cCCCCHHHHHH
Confidence            46777887765 356677777766553343 22 24444345552             2457776544 34556778888


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhC---------CCceeeCCCChHHHHHHHHHHh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEG---------AEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~g---------a~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      +..     .+|+|....    .-..+.+..|         ..+++..|.+.++|.+++..++
T Consensus       386 ma~-----G~PvI~s~~----gg~~e~v~~~~~~~~~~~~~~G~l~~~~d~~~la~~i~~ll  438 (485)
T 1rzu_A          386 LRY-----GCIPVVART----GGLADTVIDANHAALASKAATGVQFSPVTLDGLKQAIRRTV  438 (485)
T ss_dssp             HHH-----TCEEEEESS----HHHHHHCCBCCHHHHHTTCCCBEEESSCSHHHHHHHHHHHH
T ss_pred             HHC-----CCCEEEeCC----CChhheecccccccccccCCcceEeCCCCHHHHHHHHHHHH
Confidence            765     778886432    3445555666         7899999999999999999887

>2qzs_A Glycogen synthase; glycosyl-transferase, GT-B fold, rossmann fold, closed-form, ADP and glucose binding, glycogen biosynthesis; HET: GLC ADP 250; 2.20A {Escherichia coli} PDB: 2r4t_A* 2r4u_A* 3guh_A* 3cx4_A* 3cop_A* 3d1j_A

Probab=80.46  E-value=18  Score=29.01  Aligned_cols=107  Identities=8%  Similarity=0.020  Sum_probs=68.4

Q ss_pred             ceEEEEEeCCH-HHHHHHHHHHHhCCceEE-Ee-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            8 QFHVLAVDDSI-IDRKLIERLLKTSSYQVT-AV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         8 ~~~ilivd~~~-~~~~~l~~~l~~~~~~v~-~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ..+++|+++.+ .....+.++....+-.+. .. .+.++....+.             ..|++++-.. ...-|..+++.
T Consensus       321 ~~~l~ivG~g~~~~~~~l~~~~~~~~~~v~~~~g~~~~~~~~~~~-------------~adv~v~pS~-~E~~g~~~lEA  386 (485)
T 2qzs_A          321 GGQLALLGAGDPVLQEGFLAAAAEYPGQVGVQIGYHEAFSHRIMG-------------GADVILVPSR-FEPCGLTQLYG  386 (485)
T ss_dssp             TCEEEEEEEECHHHHHHHHHHHHHSTTTEEEEESCCHHHHHHHHH-------------HCSEEEECCS-CCSSCSHHHHH
T ss_pred             CcEEEEEeCCchHHHHHHHHHHHhCCCcEEEeCCCCHHHHHHHHH-------------hCCEEEECCc-cCCCcHHHHHH
Confidence            45667777654 356667777666553343 22 23333344542             2457776544 34556777887


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhC---------CCceeeCCCChHHHHHHHHHHh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEG---------AEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~g---------a~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      +..     .+|||....    .-..+.+..|         ..+++..|.+.++|.+++..++
T Consensus       387 ma~-----G~PvI~s~~----gg~~e~v~~~~~~~~~~~~~~G~l~~~~d~~~la~~i~~ll  439 (485)
T 2qzs_A          387 LKY-----GTLPLVRRT----GGLADTVSDCSLENLADGVASGFVFEDSNAWSLLRAIRRAF  439 (485)
T ss_dssp             HHH-----TCEEEEESS----HHHHHHCCBCCHHHHHTTCCCBEEECSSSHHHHHHHHHHHH
T ss_pred             HHC-----CCCEEECCC----CCccceeccCccccccccccceEEECCCCHHHHHHHHHHHH
Confidence            765     778886432    3445555666         7899999999999999999887

>3m2t_A Probable dehydrogenase; PSI, SGXNY, structural genomics, protein structure initiative; HET: NAD; 2.30A {Chromobacterium violaceum}

Probab=80.41  E-value=6.6  Score=30.75  Aligned_cols=107  Identities=15%  Similarity=0.062  Sum_probs=59.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhC-CceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTS-SYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~-~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ++++|.||+--..-.......|.+. ++++.. +....+..+.+....+.           .-..      .+-    +.
T Consensus         4 ~~~rigiIG~G~~g~~~~~~~l~~~~~~~l~av~d~~~~~~~~~a~~~~~-----------~~~~------~~~----~~   62 (359)
T 3m2t_A            4 SLIKVGLVGIGAQMQENLLPSLLQMQDIRIVAACDSDLERARRVHRFISD-----------IPVL------DNV----PA   62 (359)
T ss_dssp             CCEEEEEECCSHHHHHTHHHHHHTCTTEEEEEEECSSHHHHGGGGGTSCS-----------CCEE------SSH----HH
T ss_pred             CcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEEcCCHHHHHHHHHhcCC-----------Cccc------CCH----HH
Confidence            4689999999987765444455544 677764 44444443443221111           1011      121    22


Q ss_pred             HHhhcCCCCCcEEEEeCC--CChhHHHHHHHhCCCceeeCCCC--hHHHHHHHHHHh
Q 046192           85 IKESASLKDIPVVIMSSE--NIPSRINRCLEEGAEEFFLKPVQ--LADVNKLKPHLM  137 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~--~~~~~~~~a~~~ga~~yl~kP~~--~~~l~~~i~~~~  137 (187)
                      +-+..   ++-+|+++..  ...+.+..|+++|.+=|+-||+.  .++..+.++.+.
T Consensus        63 ll~~~---~vD~V~i~tp~~~H~~~~~~al~aGkhVl~EKPla~~~~e~~~l~~~a~  116 (359)
T 3m2t_A           63 MLNQV---PLDAVVMAGPPQLHFEMGLLAMSKGVNVFVEKPPCATLEELETLIDAAR  116 (359)
T ss_dssp             HHHHS---CCSEEEECSCHHHHHHHHHHHHHTTCEEEECSCSCSSHHHHHHHHHHHH
T ss_pred             HhcCC---CCCEEEEcCCcHHHHHHHHHHHHCCCeEEEECCCcCCHHHHHHHHHHHH
Confidence            22221   4455555543  34566788999999999999964  555555554443

>3okp_A GDP-mannose-dependent alpha-(1-6)-phosphatidylino monomannoside mannosyltransferase...; GT-B fold, alpha-mannosyltransferase; HET: GDD; 2.00A {Corynebacterium glutamicum} PDB: 3okc_A* 3oka_A*

Probab=80.36  E-value=6.8  Score=30.22  Aligned_cols=108  Identities=12%  Similarity=0.128  Sum_probs=63.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccC------CCCCHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCM------PGMTGY   79 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~------~~~~g~   79 (187)
                      ..+++|+++.+.. ..+........  ..+...-+.++..+.+.             ..|++++-...      ...-|.
T Consensus       229 ~~~l~i~G~g~~~-~~l~~~~~~~~~~v~~~g~~~~~~~~~~~~-------------~ad~~v~ps~~~~~~~~~e~~~~  294 (394)
T 3okp_A          229 DAQLLIVGSGRYE-STLRRLATDVSQNVKFLGRLEYQDMINTLA-------------AADIFAMPARTRGGGLDVEGLGI  294 (394)
T ss_dssp             TCEEEEECCCTTH-HHHHHHTGGGGGGEEEEESCCHHHHHHHHH-------------HCSEEEECCCCBGGGTBCCSSCH
T ss_pred             CeEEEEEcCchHH-HHHHHHHhcccCeEEEcCCCCHHHHHHHHH-------------hCCEEEecCccccccccccccCc
Confidence            3566666655432 33333332221  22223334455555552             24577775544      145567


Q ss_pred             HHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           80 DLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        80 ~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+++.+..     .+|+|......    ..+.+..| .+++..|-+.+++.+++..++..
T Consensus       295 ~~~Ea~a~-----G~PvI~~~~~~----~~e~i~~~-~g~~~~~~d~~~l~~~i~~l~~~  344 (394)
T 3okp_A          295 VYLEAQAC-----GVPVIAGTSGG----APETVTPA-TGLVVEGSDVDKLSELLIELLDD  344 (394)
T ss_dssp             HHHHHHHT-----TCCEEECSSTT----GGGGCCTT-TEEECCTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHc-----CCCEEEeCCCC----hHHHHhcC-CceEeCCCCHHHHHHHHHHHHhC
Confidence            77777765     77888643322    22334556 88999999999999999998864

>1xm3_A Thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI, NESG, northeast structural genomics consortium; 1.80A {Bacillus subtilis} SCOP: c.1.31.1 PDB: 1tyg_A

Probab=80.34  E-value=10  Score=28.42  Aligned_cols=42  Identities=26%  Similarity=0.306  Sum_probs=34.9

Q ss_pred             CHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           77 TGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        77 ~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .+.+.++.+++..   ++|+++...-.+.+.+.+++..||++.+.
T Consensus       165 ~~~~~l~~i~~~~---~iPviv~gGI~t~eda~~~~~~GAdgViV  206 (264)
T 1xm3_A          165 LNPLNLSFIIEQA---KVPVIVDAGIGSPKDAAYAMELGADGVLL  206 (264)
T ss_dssp             SCHHHHHHHHHHC---SSCBEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             CCHHHHHHHHhcC---CCCEEEEeCCCCHHHHHHHHHcCCCEEEE
Confidence            3577888888743   89999988888899999999999998764

>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=80.17  E-value=3.7  Score=31.16  Aligned_cols=70  Identities=13%  Similarity=0.157  Sum_probs=46.8

Q ss_pred             ccEEEEeccCCC--CC--------------------HHHHHHHHHhhcCCCCCcEEEEeCC------CChhHHHHHHHhC
Q 046192           64 VNLIITDYCMPG--MT--------------------GYDLLRKIKESASLKDIPVVIMSSE------NIPSRINRCLEEG  115 (187)
Q Consensus        64 ~dlvi~d~~~~~--~~--------------------g~~~~~~l~~~~~~~~~~iI~ls~~------~~~~~~~~a~~~g  115 (187)
                      .|++.+++-..+  .+                    .++.++.+|+. +  ++|+++++-.      ........+..+|
T Consensus        43 aD~IElG~PfsdP~adGp~Iq~a~~~Al~~G~~~~~~~~~v~~ir~~-~--~~Pii~m~y~n~v~~~g~~~f~~~~~~aG  119 (271)
T 1ujp_A           43 ADLLEIGLPYSDPLGDGPVIQRASELALRKGMSVQGALELVREVRAL-T--EKPLFLMTYLNPVLAWGPERFFGLFKQAG  119 (271)
T ss_dssp             CSSEEEECCCCC----CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH-C--CSCEEEECCHHHHHHHCHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCcccccHHHHHHHHHHHHcCCCHHHHHHHHHHHHhc-C--CCCEEEEecCcHHHHhhHHHHHHHHHHcC
Confidence            789998875542  22                    34667888876 4  7999997422      2245577789999


Q ss_pred             CCceeeCCCChHHHHHHHHHH
Q 046192          116 AEEFFLKPVQLADVNKLKPHL  136 (187)
Q Consensus       116 a~~yl~kP~~~~~l~~~i~~~  136 (187)
                      +++++.-....++.......+
T Consensus       120 ~dGviv~Dl~~ee~~~~~~~~  140 (271)
T 1ujp_A          120 ATGVILPDLPPDEDPGLVRLA  140 (271)
T ss_dssp             CCEEECTTCCGGGCHHHHHHH
T ss_pred             CCEEEecCCCHHHHHHHHHHH
Confidence            999998766666554444443

---

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	187
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	7e-19
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	1e-18
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	4e-18
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	2e-17
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	2e-17
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	4e-17
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	7e-17
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	7e-17
d1peya_	119	c.23.1.1 (A:) Sporulation response regulator Spo0F	1e-16
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	1e-16
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	5e-16
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	2e-15
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	3e-15
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	7e-15
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	8e-15
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	8e-15
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	2e-14
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	2e-14
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	3e-14
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	6e-14
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	2e-13
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	3e-13
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	5e-13
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	9e-13
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	4e-12
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	1e-11
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	7e-11
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	9e-11
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	9e-11
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	1e-10
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	1e-10
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	2e-10
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	2e-10
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	1e-08

>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 = 76.1 bits (187), Expect = 7e-19
 Identities = 28/119 (23%), Positives = 58/119 (48%), Gaps = 11/119 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L V+D    R+++  +L+ + +Q    +  + A+  L     D           LI+ D
Sbjct: 3   ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPD-----------LILLD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           + +PG +G   ++ +K  +  +DIPVV++++        R LE GA+++  KP    ++
Sbjct: 52  WMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKEL 110

>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 = 76.3 bits (187), Expect = 1e-18
 Identities = 31/121 (25%), Positives = 57/121 (47%), Gaps = 6/121 (4%)

Query: 11  VLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           +  V+D+  D +LI+  L  S   ++V  V  G +A+ +L    E    +    + +LI+
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANAS----RPDLIL 60

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
            D  +P   G ++L +IK   +LK IPVV++S+      I    +     +  K   L+ 
Sbjct: 61  LDLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQ 120

Query: 129 V 129
           +
Sbjct: 121 L 121

>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 = 74.7 bits (183), Expect = 4e-18
 Identities = 33/122 (27%), Positives = 62/122 (50%), Gaps = 6/122 (4%)

Query: 10  HVLAVDDSIIDRKLIERLLKTS--SYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            +L V+DS  D +L++ +LKTS   +++  +  G  A+ FL    + +       + NLI
Sbjct: 5   VILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL----QQQGEYENSPRPNLI 60

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           + D  +P   G ++L +IK++  LK IPVV++++ +    +    E     +  K   L 
Sbjct: 61  LLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLK 120

Query: 128 DV 129
           D+
Sbjct: 121 DL 122

>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 = 72.4 bits (177), Expect = 2e-17
 Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 11/119 (9%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D+ ++ KL   LL+   Y+      G  AL        D           LI+ D
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENKPD-----------LILMD 52

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +P ++G ++ + +KE   L  IPVV +++  +     R  E G E +  KP+ +   
Sbjct: 53  IQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHF 111

>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 = 72.9 bits (178), Expect = 2e-17
 Identities = 34/122 (27%), Positives = 62/122 (50%), Gaps = 3/122 (2%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            +L V+DS  D    +RLL+       +    +G++AL+FL         +    +  +I
Sbjct: 8   PLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDI-APRPAVI 66

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           + D  +PG  G ++L++IK+   LK IPVVIM++ + P  I  C       + +KP+++ 
Sbjct: 67  LLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEID 126

Query: 128 DV 129
            +
Sbjct: 127 RL 128

>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 = 71.9 bits (176), Expect = 4e-17
 Identities = 29/123 (23%), Positives = 52/123 (42%), Gaps = 15/123 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL +D++ + R + + LL     +VT V S  + L  +              +  ++  
Sbjct: 9   KVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS------------HEHKVVFM 56

Query: 70  DYCMPGMTGYDLLRKIKE---SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           D CMPG+  Y +  +I E       +   +V +S     S   +C+  G +   LKPV L
Sbjct: 57  DVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSL 116

Query: 127 ADV 129
            ++
Sbjct: 117 DNI 119

>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 = 71.1 bits (174), Expect = 7e-17
 Identities = 30/120 (25%), Positives = 51/120 (42%), Gaps = 14/120 (11%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQV 64
           S+  VL+VDDS + R+++  ++ + S    V        A + +   N D          
Sbjct: 2   SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFNPD---------- 51

Query: 65  NLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV 124
            ++  D  MP M G D L K+     +  + V  ++ +     + R LE GA +F  KP 
Sbjct: 52  -VLTLDVEMPRMDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTL-RALELGAIDFVTKPQ 109

>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 = 70.0 bits (171), Expect = 1e-16
 Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 14/127 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD    R L+  +     YQ     +G +AL+ +     D           L++ D
Sbjct: 4   ILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPD-----------LVLLD 52

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD-V 129
             +PGM G ++L+++K     ++I V+IM++      I    E GA   F KP  + +  
Sbjct: 53  MKIPGMDGIEILKRMKVID--ENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIR 110

Query: 130 NKLKPHL 136
           + +K +L
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 = 70.0 bits (171), Expect = 1e-16
 Identities = 27/119 (22%), Positives = 53/119 (44%), Gaps = 8/119 (6%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +L V+D+ +++++I+R+L     + +     G +A + +  L    +        N+I  
Sbjct: 4   ILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGE------NYNMIFM 57

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
           D  MP + G    + I+        P+V +++    S I  CLE G   F  KP++   
Sbjct: 58  DVQMPKVDGLLSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPK 115

>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 = 68.7 bits (168), Expect = 5e-16
 Identities = 21/122 (17%), Positives = 49/122 (40%), Gaps = 14/122 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            V   DD+     L++  + +      +    +G   L+ L           +  + +++
Sbjct: 3   KVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQML-----------EEKRPDIL 51

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           + D  MP + G  +L +I+         V+++++        + +E GA  F LKP  + 
Sbjct: 52  LLDIIMPHLDGLAVLERIRAGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDME 110

Query: 128 DV 129
           ++
Sbjct: 111 NL 112

>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 = 67.3 bits (164), Expect = 2e-15
 Identities = 28/128 (21%), Positives = 56/128 (43%), Gaps = 12/128 (9%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQV 61
           M    +  VL VDD +  R L+   L+   + Q+TA   G + ++ +             
Sbjct: 1   MSLAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNPHH------- 53

Query: 62  IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL 121
               L+I+D+ MP M G  LL+ ++ + + K    +I++++   + + +    GA     
Sbjct: 54  ----LVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLA 109

Query: 122 KPVQLADV 129
           KP  +  +
Sbjct: 110 KPFTIEKM 117

>d1a04a2 c.23.1.1 (A:5-142) Nitrate/nitrite response regulator (NarL), receiver domain {Escherichia coli [TaxId: 562]} Length = 138

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Nitrate/nitrite response regulator (NarL), receiver domain
species: Escherichia coli [TaxId: 562]

 Score = 67.2 bits (164), Expect = 3e-15
 Identities = 30/122 (24%), Positives = 56/122 (45%), Gaps = 15/122 (12%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLI 67
            +L +DD  + R  +++L+  +     V    +G + +E    L+ D           LI
Sbjct: 4   TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPD-----------LI 52

Query: 68  ITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLA 127
           + D  MPGM G + L K++E +      +V+ S  N    +   L+ GA+ + LK ++  
Sbjct: 53  LLDLNMPGMNGLETLDKLREKS--LSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPE 110

Query: 128 DV 129
           D+
Sbjct: 111 DL 112

>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 = 65.3 bits (159), Expect = 7e-15
 Identities = 25/121 (20%), Positives = 59/121 (48%), Gaps = 14/121 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
            VL VDD+   R +++ ++  + Y+      +G +A+E             + ++ +++ 
Sbjct: 3   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKY-----------KELKPDIVT 51

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
            D  MP M G D +++I +     +  +++ S+    + +   ++ GA++F +KP Q + 
Sbjct: 52  MDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSR 109

Query: 129 V 129
           V
Sbjct: 110 V 110

>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 = 65.3 bits (159), Expect = 8e-15
 Identities = 28/130 (21%), Positives = 49/130 (37%), Gaps = 19/130 (14%)

Query: 9   FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           F V  V+D      LI+  L     +VT   SG+   +            SQ+   +L+I
Sbjct: 3   FRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHR----------SQLSTCDLLI 52

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ--- 125
               +  ++ + LL  +KE    K   V+I+++      +    E     +  KP     
Sbjct: 53  VSDQLVDLSIFSLLDIVKEQT--KQPSVLILTTGR--HELIESSEHNL-SYLQKPFAISE 107

Query: 126 -LADVNKLKP 134
             A ++  KP
Sbjct: 108 LRAAIDYHKP 117

>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 = 65.5 bits (159), Expect = 8e-15
 Identities = 32/123 (26%), Positives = 57/123 (46%), Gaps = 13/123 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
            +  V  VDD    R ++ER L  +    T  ++GN+ L  L     D           +
Sbjct: 2   QRGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD-----------V 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           +++D  MPGM G  LL++IK+      +PV+IM++ +         ++GA ++  KP  +
Sbjct: 51  LLSDIRMPGMDGLALLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDI 108

Query: 127 ADV 129
            + 
Sbjct: 109 DEA 111

>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 = 64.3 bits (156), Expect = 2e-14
 Identities = 24/120 (20%), Positives = 53/120 (44%), Gaps = 14/120 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           H+L V+D ++ R  ++ + +   Y V     G +  + L   + +           L+I 
Sbjct: 4   HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDIN-----------LVIM 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  +PG  G  L R+++E     ++ ++ ++  +        LE GA+++  KP    ++
Sbjct: 53  DINLPGKNGLLLARELREQ---ANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPREL 109

>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 = 64.3 bits (156), Expect = 2e-14
 Identities = 26/119 (21%), Positives = 55/119 (46%), Gaps = 14/119 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           +L VDD      +I+  +    Y+V    +G +ALE       D           +II D
Sbjct: 3   ILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPD-----------IIILD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +P + G ++ + I+++     +P++++S+++        LE GA+++  KP    ++
Sbjct: 52  LMLPEIDGLEVAKTIRKT---SSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNREL 107

>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 = 64.0 bits (155), Expect = 3e-14
 Identities = 31/127 (24%), Positives = 57/127 (44%), Gaps = 13/127 (10%)

Query: 3   MVTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVI 62
           +  +    +L VDD  I+R+L+   L +  YQ    + G            D        
Sbjct: 3   VSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDG-----------VDALNVLSKN 51

Query: 63  QVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLK 122
            ++++++D  MP M GY L ++I++      +PV+ +++  +     RCLE G +    K
Sbjct: 52  HIDIVLSDVNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEKQRCLESGMDSCLSK 109

Query: 123 PVQLADV 129
           PV L  +
Sbjct: 110 PVTLDVI 116

>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 = 64.9 bits (157), Expect = 6e-14
 Identities = 31/170 (18%), Positives = 63/170 (37%), Gaps = 15/170 (8%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
            VL  +D  + R  +  +L+   Y++      G +A+E   L   D           L+I
Sbjct: 5   RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPD-----------LVI 53

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
            D  MP   G D   +I      +  P+V++++ +    + R  + GA  + +KP  ++D
Sbjct: 54  MDVKMPRRDGIDAASEIASK---RIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISD 110

Query: 129 VNKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDINN 178
           +       +    +       +    + LE     +R +  L     +  
Sbjct: 111 LIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHGMTE 160

>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 = 62.4 bits (151), Expect = 2e-13
 Identities = 29/120 (24%), Positives = 54/120 (45%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            V  +DD    RK +++ L+ + + V++  S  +AL  L                 ++I+
Sbjct: 2   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGL-----------SADFAGIVIS 50

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MPGM G  L RKI       D+P+++++         + +++GA +F  KP     +
Sbjct: 51  DIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRL 108

>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 = 61.2 bits (148), Expect = 3e-13
 Identities = 27/123 (21%), Positives = 50/123 (40%), Gaps = 13/123 (10%)

Query: 7   SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNL 66
             + V  VDD    RK +  +L  + + V    S    L F   +              +
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNG-----------V 50

Query: 67  IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQL 126
           ++TD  MP M+G +LLR + +     +IP ++++           ++ GA +F  KP + 
Sbjct: 51  LVTDLRMPDMSGVELLRNLGDLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFED 108

Query: 127 ADV 129
             +
Sbjct: 109 TVI 111

>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 = 60.8 bits (147), Expect = 5e-13
 Identities = 28/120 (23%), Positives = 52/120 (43%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            V  VDD +  R+ +  LL+++ ++V   D  +  LE                    ++ 
Sbjct: 4   TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHG-----------CLVL 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MPGM+G +L  ++   +    IP+V +++        R ++ GA EF  KP +   +
Sbjct: 53  DMRMPGMSGIELQEQLTAIS--DGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQAL 110

>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 = 60.0 bits (145), Expect = 9e-13
 Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 14/120 (11%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           H++ V+D  + +  ++       Y V+   SG    E +           Q   V+LI+ 
Sbjct: 3   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM-----------QNQSVDLILL 51

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  +P   G  L R ++E      + +++++  +        LE GA+++  KP++L ++
Sbjct: 52  DINLPDENGLMLTRALRER---STVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELREL 108

>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 = 58.7 bits (141), Expect = 4e-12
 Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 11/120 (9%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD   + +L+E  L    Y+V+    G  AL             +     ++I+ 
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAM-----------AARDLPDIILL 51

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MPGM G+ + RK+K+  + + IPVV++++ +      + LE GA +F  KP+    +
Sbjct: 52  DVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVML 111

>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 = 57.0 bits (137), Expect = 1e-11
 Identities = 31/120 (25%), Positives = 54/120 (45%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDD       +ER L+ S ++V     G +AL        D            I+ 
Sbjct: 3   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENRPD-----------AIVL 51

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  MP + G  ++  ++   +  D+PV ++S+ +        LE GA+++ +KP  LA++
Sbjct: 52  DINMPVLDGVSVVTALRAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAEL 109

>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 = 55.1 bits (132), Expect = 7e-11
 Identities = 25/119 (21%), Positives = 52/119 (43%), Gaps = 14/119 (11%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D    R+ +   L+    +V   ++  + L        D           LII D
Sbjct: 3   VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPD-----------LIILD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +P   G + +R +++      +PV+++S+ +  S     L+ GA+++  KP  + ++
Sbjct: 52  LGLPDGDGIEFIRDLRQW---SAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGEL 107

>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 = 55.0 bits (132), Expect = 9e-11
 Identities = 25/120 (20%), Positives = 56/120 (46%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
           +VL ++D  + R L+E  L     +V + + G +A + L   + +           +++ 
Sbjct: 2   NVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKHFN-----------VVLL 50

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  +P + G ++L+ IKE +   +  V++++           ++ GA +F  KP  L ++
Sbjct: 51  DLLLPDVNGLEILKWIKERS--PETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEI 108

>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 = 54.7 bits (131), Expect = 9e-11
 Identities = 26/119 (21%), Positives = 52/119 (43%), Gaps = 13/119 (10%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D      LI   LK   + V     G + +        D           ++I D
Sbjct: 4   VLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEPFD-----------VVILD 52

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +P   G+++L+ ++ES    + PV+++++ +      + L  GA+++  KP  L ++
Sbjct: 53  IMLPVHDGWEILKSMRESG--VNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLREL 109

>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 = 55.1 bits (132), Expect = 1e-10
 Identities = 20/120 (16%), Positives = 41/120 (34%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL VDD+    + +   L      V    S  +  +                 V+L+I 
Sbjct: 15  RVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKIS-----------AGGPVDLVIV 61

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           +       G      ++     + +PV+ M   +   R+ + LE G  +   +P+   ++
Sbjct: 62  NAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQEL 121

>d1mvoa_ c.23.1.1 (A:) PhoP receiver domain {Bacillus subtilis [TaxId: 1423]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoP receiver domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 54.3 bits (130), Expect = 1e-10
 Identities = 26/120 (21%), Positives = 54/120 (45%), Gaps = 13/120 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            +L VDD      L++  L+ S Y V     G +AL+       D           LI+ 
Sbjct: 4   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEKPD-----------LIVL 52

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
           D  +P + G ++ +++++       P++++++++        LE GA+++  KP    +V
Sbjct: 53  DVMLPKLDGIEVCKQLRQQK--LMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREV 110

>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 = 53.6 bits (128), Expect = 2e-10
 Identities = 23/119 (19%), Positives = 53/119 (44%), Gaps = 13/119 (10%)

Query: 11  VLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITD 70
           VL V+D+ + R  ++  ++ + +QV   +   +A  +L     D           + I D
Sbjct: 3   VLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPD-----------IAIVD 51

Query: 71  YCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
             +P   G  L+R+ + +     +P++++++          L  GA+++  KP  + +V
Sbjct: 52  LGLPDEDGLSLIRRWRSND--VSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEV 108

>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 = 55.0 bits (131), Expect = 2e-10
 Identities = 14/170 (8%), Positives = 41/170 (24%), Gaps = 18/170 (10%)

Query: 10  HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIIT 69
            VL ++        +   L      V       +A                 + V+++ T
Sbjct: 13  QVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEA---------------FDVPVDVVFT 57

Query: 70  DYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADV 129
                             +       +V +     P+ +++ +E        +P+    V
Sbjct: 58  SIFQNRHHDEIAALLAAGTP---RTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRV 114

Query: 130 NKLKPHLMKGISKEIKEPNNINNKRKGLEEIDSADRTRTRLNDTIDINND 179
             +     +   +  K        +  +      ++ +  L      +  
Sbjct: 115 LPVLVSARRISEEMAKLKQKTEQLQDRIAGQARINQAKVLLMQRHGWDER 164

>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 = 48.9 bits (116), Expect = 1e-08
 Identities = 22/121 (18%), Positives = 48/121 (39%), Gaps = 16/121 (13%)

Query: 9   FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLII 68
           + +  VDD     K +   L+      T +  G   L                   ++++
Sbjct: 3   WKIAVVDDDKNILKKVSEKLQQLGRVKTFLT-GEDFLN-------------DEEAFHVVV 48

Query: 69  TDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD 128
            D  +P  +GY++ R IKE+    +  V++++  +    + +  E GA+++  KP     
Sbjct: 49  LDVMLPDYSGYEICRMIKETRP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEI 106

Query: 129 V 129
           +
Sbjct: 107 L 107

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	187
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	99.96
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.96
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.96
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.96
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.96
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.96
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.96
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.96
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.96
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.96
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.96
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.96
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.95
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.95
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.95
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.95
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.95
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.95
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.95
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.95
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.95
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.95
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.95
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.95
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.94
d1s8na_	190	Probable two-component system transcriptional regu	99.94
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.94
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.94
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.94
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.94
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.93
d2b4aa1	118	Hypothetical protein BH3024 {Bacillus halodurans [	99.92
d1a2oa1	140	Methylesterase CheB, N-terminal domain {Salmonella	99.91
d1qo0d_	189	Positive regulator of the amidase operon AmiR {Pse	99.87
d1ccwa_	137	Glutamate mutase, small subunit {Clostridium cochl	97.05
d1r8ja2	135	N-terminal domain of the circadian clock protein K	96.77
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	96.06
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	95.54
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	94.06
d1dxea_	253	2-dehydro-3-deoxy-galactarate aldolase {Escherichi	93.86
d1mxsa_	216	KDPG aldolase {Pseudomonas putida [TaxId: 303]}	93.35
d1wbha1	213	KDPG aldolase {Escherichia coli [TaxId: 562]}	93.16
d1vhca_	212	Hypothetical protein HI0047 {Haemophilus influenza	92.81
d1id1a_	153	Rck domain from putative potassium channel Kch {Es	92.39
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	92.36
d1wa3a1	202	KDPG aldolase {Thermotoga maritima [TaxId: 2336]}	92.23
d1l3la1	65	Quorum-sensing transcription factor TraR, C-termin	90.76
d1a04a1	67	Nitrate/nitrite response regulator (NarL) {Escheri	90.69
d1izca_	299	Macrophomate synthase {Macrophoma commelinae [TaxI	90.47
d1xm3a_	251	Thiazole biosynthesis protein ThiG {Bacillus subti	89.58
d1wv2a_	243	Thiazole biosynthesis protein ThiG {Pseudomonas ae	89.37
d1fsea_	67	Germination protein GerE {Bacillus subtilis [TaxId	89.29
d1yioa1	70	Response regulatory protein StyR, C-terminal domai	88.55
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	87.81
d1o4ua1	170	Quinolinic acid phosphoribosyltransferase (Nicotin	84.26
d1w0ma_	226	Triosephosphate isomerase {Thermoproteus tenax [Ta	83.39
d1u6ka1	282	F420-dependent methylenetetrahydromethanopterin de	82.97
d1rzua_	477	Glycogen synthase 1, GlgA {Agrobacterium tumefacie	82.33
d2fy8a1	129	Potassium channel-related protein MthK {Archaeon M	81.64
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	80.47
d1ka9f_	251	Cyclase subunit (or domain) of imidazoleglycerolph	80.01

>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=4.4e-29  Score=169.83  Aligned_cols=118  Identities=20%  Similarity=0.392  Sum_probs=110.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      +|||||||++..+..+...|+..||.|..+.++.+|++.+.           ...||+|++|+.||+++|+++++++++.
T Consensus         1 mrILvVDDd~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~-----------~~~~dliilD~~mP~~~G~e~~~~i~~~   69 (119)
T d2pl1a1           1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLN-----------EHIPDIAIVDLGLPDEDGLSLIRRWRSN   69 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEECSCCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hcccceeehhccCCCchhHHHHHHHHhc
Confidence            48999999999999999999999999999999999999994           4456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|+|++|+..+.+...++++.||++|+.||++.++|...+++++++
T Consensus        70 ~~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lrR  118 (119)
T d2pl1a1          70 DV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (119)
T ss_dssp             TC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             Cc--ccceEeeeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            76  89999999999999999999999999999999999999999988853

>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=7.1e-29  Score=169.72  Aligned_cols=120  Identities=23%  Similarity=0.358  Sum_probs=111.8

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +..|||||||++..+..++..|+..||.|..+.++.+|++.+.           ..+||+|++|+.||+++|+++++++|
T Consensus         2 ~~~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~-----------~~~~dlvi~D~~mp~~~G~e~~~~lr   70 (123)
T d1dbwa_           2 QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAP-----------DVRNGVLVTDLRMPDMSGVELLRNLG   70 (123)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGG-----------GCCSEEEEEECCSTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHh-----------hcCCcEEEEeccCccccchHHHHHHH
Confidence            3589999999999999999999999999999999999999994           44567999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..+  ++|+|++|++.+.+...+|++.||++|+.||++.++|..+++++.+.
T Consensus        71 ~~~~--~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a~e~  121 (123)
T d1dbwa_          71 DLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEH  121 (123)
T ss_dssp             HTTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTT
T ss_pred             hcCC--CCeEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9876  89999999999999999999999999999999999999999887653

>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=99.96  E-value=7e-29  Score=169.77  Aligned_cols=119  Identities=27%  Similarity=0.425  Sum_probs=112.0

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.+||||||++..+..++..|+..||.|..+.++.+|++.+           ...+||+|++|+.||+++|+++++++++
T Consensus         3 k~~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~l-----------~~~~~dlii~D~~mp~~~G~el~~~l~~   71 (123)
T d1krwa_           3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAAL-----------ASKTPDVLLSDIRMPGMDGLALLKQIKQ   71 (123)
T ss_dssp             CCEEEEESSSHHHHHHHHHHHHHTTCEEEEESSSHHHHHHH-----------TTCCCSEEEECCSSSSSTTHHHHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHH-----------HhCCCCEEEehhhcCCchHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999           4455779999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  ++|||++|+..+.+...+|++.||++|+.||++.++|..+++++++.
T Consensus        72 ~~~--~~piI~~t~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~~  121 (123)
T d1krwa_          72 RHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (123)
T ss_dssp             HSS--SCCEEESCCCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             hCC--CCeEEEEecCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHHc
Confidence            876  89999999999999999999999999999999999999999998865

>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=99.96  E-value=4.2e-29  Score=170.36  Aligned_cols=118  Identities=26%  Similarity=0.386  Sum_probs=110.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      +|||||||++..+..+...|+..||+|..+.++.+|++.+..           ..||+|++|+.||+++|+++++.+|+.
T Consensus         2 PkILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-----------~~~dlvl~D~~mP~~~G~el~~~ir~~   70 (121)
T d1ys7a2           2 PRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATE-----------NRPDAIVLDINMPVLDGVSVVTALRAM   70 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------SCCSEEEEESSCSSSCHHHHHHHHHHT
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------CCCCEEEEEeeccCcccHHHHHHHHhc
Confidence            589999999999999999999999999999999999999944           456699999999999999999999997


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  ++|||++|+..+.+...+|++.||++|+.||++.++|..+++++++.
T Consensus        71 ~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~r  119 (121)
T d1ys7a2          71 DN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRR  119 (121)
T ss_dssp             TC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHc
Confidence            76  89999999999999999999999999999999999999999998864

>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=99.96  E-value=3.1e-28  Score=166.03  Aligned_cols=119  Identities=24%  Similarity=0.433  Sum_probs=111.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      |||||||++..+..+...|+..||.|..+.++.+|++.+           ...+||+|++|+.||+++|+++++.||+..
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            799999999999999999999999999999999999999           445677999999999999999999999876


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ...++|||++|+..+.....++++.||++|+.||++.++|...++++++.
T Consensus        71 ~~~~~pvi~lt~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lrR  120 (121)
T d1zesa1          71 MTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR  120 (121)
T ss_dssp             TTTTSCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             cCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            66689999999999999999999999999999999999999999988753

>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=99.96  E-value=1e-28  Score=168.68  Aligned_cols=119  Identities=22%  Similarity=0.371  Sum_probs=111.5

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ++|||||||++..+..++..|+..||.|..+.++.+|++.+.           ..+||+|++|+.||+++|+++++.+|+
T Consensus         1 nirILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~-----------~~~~dlillD~~mp~~~g~~~~~~lr~   69 (122)
T d1kgsa2           1 NVRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMAL-----------NEPFDVVILDIMLPVHDGWEILKSMRE   69 (122)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHHH-----------hhCccccccccccccchhHHHHHHHHh
Confidence            469999999999999999999999999999999999999994           445679999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+|||++|+..+.....++++.||++|+.||++.++|...++++++.
T Consensus        70 ~~~--~~piI~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~r  119 (122)
T d1kgsa2          70 SGV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  119 (122)
T ss_dssp             TTC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             cCC--CCcEEEEcCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHHH
Confidence            776  89999999999999999999999999999999999999999988865

>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=99.96  E-value=3e-28  Score=165.65  Aligned_cols=116  Identities=26%  Similarity=0.428  Sum_probs=109.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      -|||||||++..+..+...|+..||.|..+.++.+|++.+..           .+||+|++|+.||+++|+++++.+|+.
T Consensus         2 krILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~-----------~~~dlillD~~mP~~~G~el~~~lr~~   70 (119)
T d1peya_           2 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTK-----------ERPDLVLLDMKIPGMDGIEILKRMKVI   70 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCTTCCHHHHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHh-----------CCCCEEEEeccCCCCCHHHHHHHHHHh
Confidence            489999999999999999999999999999999999999944           456699999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      .+  ++|||++|++.+.+...+|++.||++|+.||++.++|..++++++
T Consensus        71 ~~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~L  117 (119)
T d1peya_          71 DE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL  117 (119)
T ss_dssp             CT--TCEEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHS
T ss_pred             CC--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHC
Confidence            76  899999999999999999999999999999999999999998765

>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=99.96  E-value=3.6e-28  Score=169.76  Aligned_cols=120  Identities=24%  Similarity=0.371  Sum_probs=112.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      ++||||||++..+..+...|+..||.+..+.++.+|++.+           ....||+|++|+.||+++|+++++.+++.
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            4799999999999999999999999999999999999999           44567799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      .+  ++|||++|++.+.+...+|++.||++|+.||++.++|..+++++....+
T Consensus        70 ~~--~~pvI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~~~  120 (140)
T d1qkka_          70 DP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR  120 (140)
T ss_dssp             CT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEECCCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHHHH
Confidence            76  8999999999999999999999999999999999999999998886643

>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=99.96  E-value=2.9e-28  Score=168.00  Aligned_cols=125  Identities=21%  Similarity=0.430  Sum_probs=113.7

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      ....++|||||||++..+..+...|+..||. +..+.++.+|++.+           ...+||+||+|+.||+++|++++
T Consensus         2 s~~~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l-----------~~~~~dlii~D~~mP~~~G~el~   70 (129)
T d1p6qa_           2 SLAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM-----------AQNPHHLVISDFNMPKMDGLGLL   70 (129)
T ss_dssp             CCSSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHH-----------HTSCCSEEEECSSSCSSCHHHHH
T ss_pred             CCCCCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHH-----------HhCCCCeEEeeeecCCCChHHHH
Confidence            3455789999999999999999999999995 67789999999999           44567799999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +.+|+.....++|||++|+..+.+...++++.|+++|+.||++.++|..++++++..
T Consensus        71 ~~lr~~~~~~~~pii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~~  127 (129)
T d1p6qa_          71 QAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFGA  127 (129)
T ss_dssp             HHHTTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHHC
T ss_pred             HHHHhCcccCCCeEEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            999987666789999999999999999999999999999999999999999998754

>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=99.96  E-value=3.3e-28  Score=169.36  Aligned_cols=119  Identities=22%  Similarity=0.439  Sum_probs=111.5

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      +|||||||++..+..++..|+..||.|..+.++.+|++.+.           ..+||+|++|+.||+++|+++++.+|+.
T Consensus         1 mkILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eAl~~l~-----------~~~~dlvilD~~mp~~~G~e~~~~lr~~   69 (137)
T d1ny5a1           1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLS-----------EKHFNVVLLDLLLPDVNGLEILKWIKER   69 (137)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEecCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhh-----------ccccccchHHHhhhhhhHHHHHHHHHHh
Confidence            48999999999999999999999999999999999999994           4457799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      .+  ++|||++|++.+.+...+|++.||+||+.||++.++|..++++++...
T Consensus        70 ~~--~~piI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  119 (137)
T d1ny5a1          70 SP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR  119 (137)
T ss_dssp             CT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             CC--CCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            76  999999999999999999999999999999999999999998887653

>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=99.96  E-value=6.2e-28  Score=164.56  Aligned_cols=118  Identities=22%  Similarity=0.381  Sum_probs=110.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      -|||||||++..+..++..|+..||+|..+.++.+|++.+..           .+||+||+|+.||+++|++++++++..
T Consensus         3 krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~-----------~~~dlillD~~mp~~~G~~~~~~~r~~   71 (121)
T d1mvoa_           3 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAET-----------EKPDLIVLDVMLPKLDGIEVCKQLRQQ   71 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESSCSSSCHHHHHHHHHHT
T ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhc-----------ccccEEEecccccCCCCchhhhhhhcc
Confidence            489999999999999999999999999999999999999944           456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  ..|||++|+..+.+...++++.||++|+.||+++++|...++.++++
T Consensus        72 ~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lrR  120 (121)
T d1mvoa_          72 KL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRR  120 (121)
T ss_dssp             TC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHT
T ss_pred             CC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            76  89999999999999999999999999999999999999999988753

>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=99.96  E-value=1.1e-27  Score=162.43  Aligned_cols=115  Identities=23%  Similarity=0.422  Sum_probs=107.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      |||||||++..+..+...|+..||+|..+.++.+|++.+..           .+||+|++|+.||+++|+++++.+++..
T Consensus         2 rILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-----------~~~dlillD~~mp~~~G~~~~~~i~~~~   70 (117)
T d2a9pa1           2 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEA-----------EQPDIIILDLMLPEIDGLEVAKTIRKTS   70 (117)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEECSSCSSSCHHHHHHHHHTTC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------cCCCEEEeccccCCCCccHHHHHHHhCC
Confidence            79999999999999999999999999999999999999954           4566999999999999999999998753


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                         ++|||++|+..+.....++++.||++|+.||++.++|...++++++
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               7999999999999999999999999999999999999999988875

>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=1e-27  Score=166.02  Aligned_cols=125  Identities=26%  Similarity=0.527  Sum_probs=115.2

Q ss_pred             CCCCceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHH
Q 046192            4 VTDSQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLR   83 (187)
Q Consensus         4 ~~~~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~   83 (187)
                      .....++||||||++..+..+...|+..||.|..+.++.+|++.+.           ..+||+||+|+.||+++|+++++
T Consensus         4 ~~~~~~~ILiVDD~~~~~~~l~~~L~~~g~~v~~a~~g~ea~~~~~-----------~~~~dlillD~~mP~~dG~el~~   72 (133)
T d2ayxa1           4 SDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLS-----------KNHIDIVLSDVNMPNMDGYRLTQ   72 (133)
T ss_dssp             CCCCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHH-----------HSCCSEEEEEESSCSSCCHHHHH
T ss_pred             CCCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEECcHHHHHHHHh-----------ccCceEEEEeccCCCCCHHHHHH
Confidence            3456799999999999999999999999999999999999999994           44577999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           84 KIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        84 ~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +||+..+  .+||+++|+..+.+....+++.|+++|+.||++.++|..+++.+.+...
T Consensus        73 ~ir~~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~r~r  128 (133)
T d2ayxa1          73 RIRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERVR  128 (133)
T ss_dssp             HHHHHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCC--CCCEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHHH
Confidence            9999876  8999999999999999999999999999999999999999988886543

>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=99.95  E-value=1.4e-27  Score=162.09  Aligned_cols=115  Identities=23%  Similarity=0.442  Sum_probs=107.2

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      .|||||||++..+..++..|+..||.|. .+.++.+|++.+.           +.+||+|++|+.||+++|+++++.+++
T Consensus         2 krILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~~-----------~~~~dliilD~~mp~~~G~e~~~~ir~   70 (118)
T d1u0sy_           2 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYK-----------ELKPDIVTMDITMPEMNGIDAIKEIMK   70 (118)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHH-----------HHCCSEEEEECSCGGGCHHHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHH-----------hccCCEEEEecCCCCCCHHHHHHHHHH
Confidence            4899999999999999999999999987 5799999999994           445679999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHH
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHL  136 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~  136 (187)
                      ..+  ++|||++|++.+.....++++.||++|+.||++.++|.++++++
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            886  89999999999999999999999999999999999999999875

>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=99.95  E-value=9.7e-28  Score=163.11  Aligned_cols=116  Identities=21%  Similarity=0.389  Sum_probs=108.4

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhc
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESA   89 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~   89 (187)
                      +||||||++..+..+...|+..||+|..+.++.+|++.+..           ..||+|++|+.||+++|+++++.+|+..
T Consensus         2 nILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~-----------~~~dliilD~~mP~~~G~e~~~~ir~~~   70 (119)
T d1zh2a1           2 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAAT-----------RKPDLIILDLGLPDGDGIEFIRDLRQWS   70 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESEETTEEHHHHHHHHHTTC
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHh-----------cCCCEEEeccccCCCCCchHHHHHHhcc
Confidence            69999999999999999999999999999999999999944           4566999999999999999999999753


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                         ..|+|++|+..+.+...++++.||++|+.||++.++|..++++++++
T Consensus        71 ---~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrr  117 (119)
T d1zh2a1          71 ---AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  117 (119)
T ss_dssp             ---CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             ---CCcEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhh
Confidence               68999999999999999999999999999999999999999998864

>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=99.95  E-value=2.3e-27  Score=161.65  Aligned_cols=117  Identities=23%  Similarity=0.465  Sum_probs=109.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .+||||||++..+..+...|+..||+|..+.++.++++.+.           ..+||+|++|+.||+++|+++++.+++.
T Consensus         3 p~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~-----------~~~~dlii~D~~mp~~~G~~~~~~~r~~   71 (121)
T d1xhfa1           3 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILS-----------EYDINLVIMDINLPGKNGLLLARELREQ   71 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHH-----------HSCCSEEEECSSCSSSCHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHH-----------hcCCCEEEeecccCCccCcHHHHHHHhc
Confidence            59999999999999999999999999999999999999994           4457799999999999999999999986


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .   ++|||++|+.++.....++++.||++|+.|||++++|..++++++++
T Consensus        72 ~---~~pii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~R  119 (121)
T d1xhfa1          72 A---NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  119 (121)
T ss_dssp             C---CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             C---CCcEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            3   89999999999999999999999999999999999999999988863

>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=99.95  E-value=1.1e-27  Score=163.68  Aligned_cols=120  Identities=26%  Similarity=0.423  Sum_probs=105.9

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      -|||||||++..+..+...|+..||++..+.++.+|++.+..           .+||+|++|+.||+++|+++++.||+.
T Consensus         2 krILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~-----------~~~dlil~D~~mp~~dG~el~~~ir~~   70 (123)
T d1mb3a_           2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARE-----------NKPDLILMDIQLPEISGLEVTKWLKED   70 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHH-----------HCCSEEEEESBCSSSBHHHHHHHHHHS
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHh-----------CCCCEEEEEeccCCCcHHHHHHHHHhC
Confidence            389999999999999999999999999999999999999944           456799999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ....++|||++|+........+++++|+++|+.||++..+|...++++++.
T Consensus        71 ~~~~~iPii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~r  121 (123)
T d1mb3a_          71 DDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER  121 (123)
T ss_dssp             TTTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHSC
T ss_pred             CCcCCCCeEEEEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhC
Confidence            766789999999999999999999999999999999999999999998853

>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=99.95  E-value=2.3e-27  Score=163.17  Aligned_cols=125  Identities=22%  Similarity=0.405  Sum_probs=111.6

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCce-EEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQ-VTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~-v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ++|||||||++..+..+...|+..|+. |..+.+|.+|++.+....+      ...+||+|++|+.||+++|+++++.+|
T Consensus         1 sirVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~------~~~~~dlillD~~mP~~dG~el~~~ir   74 (128)
T d2r25b1           1 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTS------KGENYNMIFMDVQMPKVDGLLSTKMIR   74 (128)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHH------HTCCCSEEEECSCCSSSCHHHHHHHHH
T ss_pred             CeEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhh------ccCCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            379999999999999999999999985 6779999999998854322      235689999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +... ..+|||++|++.+.....++++.|+++|+.||++.++|..++++++.+
T Consensus        75 ~~~~-~~~piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  126 (128)
T d2r25b1          75 RDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFCAA  126 (128)
T ss_dssp             HHSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHCTT
T ss_pred             HccC-CCCeEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            7644 378999999999999999999999999999999999999999988765

>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=99.95  E-value=5.5e-27  Score=159.56  Aligned_cols=118  Identities=21%  Similarity=0.379  Sum_probs=109.3

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +.|||||||++..+..+...|+..||.|..+.++.++++.+.           ...||+|++|+.||+++|+++++.++.
T Consensus         1 P~rILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~~-----------~~~~dliilD~~mp~~~g~~~~~~~~~   69 (120)
T d1zgza1           1 PHHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQ-----------NQSVDLILLDINLPDENGLMLTRALRE   69 (120)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHH-----------HSCCSEEEEESCCSSSCHHHHHHHHHT
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHH-----------hcCCCEEeeehhhccchhHHHHHHHhc
Confidence            358999999999999999999999999999999999999994           445679999999999999999999887


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..   .+|||++|+..+.....+|+++||++|+.||++.++|...+++++++
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   78999999999999999999999999999999999999999988865

>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=99.95  E-value=3.4e-27  Score=164.35  Aligned_cols=122  Identities=25%  Similarity=0.398  Sum_probs=111.1

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      ++||||||||+..+..++.+|+..+  +.|..+.++.++++.+..           ..||+|++|+.||+++|+++++.+
T Consensus         2 Pi~VLiVDD~~~~r~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~-----------~~~DlvllD~~mP~~~G~el~~~i   70 (138)
T d1a04a2           2 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAES-----------LDPDLILLDLNMPGMNGLETLDKL   70 (138)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEEETTSTTSCHHHHHHHH
T ss_pred             CCEEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-----------cCCCEEEEecCCCCCCHHHHHHHH
Confidence            5899999999999999999998776  455669999999999954           456699999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGISK  142 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~~  142 (187)
                      |+..+  ..|+|++|+..+.+...++++.||++|+.||++.++|..+++++.+|..+
T Consensus        71 r~~~~--~~~vivlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~g~~~  125 (138)
T d1a04a2          71 REKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMV  125 (138)
T ss_dssp             HHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHSCCC
T ss_pred             HhhCC--CCCEEEEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHCCCCc
Confidence            99876  89999999999999999999999999999999999999999999987543

>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=99.95  E-value=3.6e-27  Score=164.44  Aligned_cols=121  Identities=28%  Similarity=0.424  Sum_probs=112.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .|||||||++..+..++..|+..||+|..+.++.+|++.+..           ..||+|++|+.||+++|+++++.++..
T Consensus         2 arILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~-----------~~~dlil~D~~~p~~~G~~~~~~ir~~   70 (139)
T d1w25a1           2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAAR-----------DLPDIILLDVMMPGMDGFTVCRKLKDD   70 (139)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHHHHHHHHHS
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEEccchhhhhhhhc-----------ccceeeeeeccccCCCchHHHHHhhhc
Confidence            589999999999999999999999999999999999999954           456699999999999999999999987


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ....++|||++|+..+.....++++.||+||+.||++..+|...++.+++..
T Consensus        71 ~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr~~  122 (139)
T d1w25a1          71 PTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (139)
T ss_dssp             TTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             ccccCCCEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            6666899999999999999999999999999999999999999998887653

>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=99.95  E-value=5.1e-27  Score=159.69  Aligned_cols=115  Identities=19%  Similarity=0.304  Sum_probs=105.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .|||||||++..+..++..|+..|+ +..+.++.+++..             ..+||+||+|+.||+++|+++++.+|..
T Consensus         3 ~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~~-------------~~~~dlillD~~mP~~~G~~~~~~lr~~   68 (120)
T d1p2fa2           3 WKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLND-------------EEAFHVVVLDVMLPDYSGYEICRMIKET   68 (120)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHHC-------------CSCCSEEEEESBCSSSBHHHHHHHHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHhc-------------CCCCCEEEEeCcccccchhHHHHHHhhc
Confidence            7999999999999999999998886 7788999988652             1247899999999999999999999998


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .+  .+|||++|+.++.+...+|++.||++|+.||+++++|..++++++++
T Consensus        69 ~~--~~~ii~it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~r  117 (120)
T d1p2fa2          69 RP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLER  117 (120)
T ss_dssp             CT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             CC--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            76  89999999999999999999999999999999999999999998865

>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=99.95  E-value=5e-27  Score=161.51  Aligned_cols=119  Identities=24%  Similarity=0.388  Sum_probs=111.2

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      +++||||||++..+..+...|+..||.|..+.++.++++.+           ....||+||+|+.||+++|+++++.+++
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           4456779999999999999999999999


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ..+  .+||+++|++++.+...++++.||++|+.||++.++|..+++++++.
T Consensus        71 ~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  120 (128)
T d1yioa2          71 ISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL  120 (128)
T ss_dssp             TTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             hCC--CCeEEEEEEECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            876  89999999999999999999999999999999999999999988864

>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=99.94  E-value=1.3e-26  Score=158.32  Aligned_cols=119  Identities=18%  Similarity=0.350  Sum_probs=105.8

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCC-ceE-EEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSS-YQV-TAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~-~~v-~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .+|||||||++..+..+...|+..| +.+ ..+.+|.+|++.+..           ..||+|++|+.||+++|+++++.|
T Consensus         1 sirILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~~~-----------~~~dlillD~~mP~~dG~e~~~~i   69 (123)
T d1dz3a_           1 SIKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEE-----------KRPDILLLDIIMPHLDGLAVLERI   69 (123)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEEESCCSSSCHHHHHHHH
T ss_pred             CcEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHh-----------cCCCEEEEcCCCCCCCHHHHHHHH
Confidence            3799999999999999999998776 444 468999999999944           456699999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      |+..+ ..+|||++|+..+.+...++++.||++|+.||++.++|..++++++.
T Consensus        70 r~~~~-~~~~ii~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~~  121 (123)
T d1dz3a_          70 RAGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  121 (123)
T ss_dssp             HHHCS-SCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             HhcCC-CCCeEEEEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            98655 34679999999999999999999999999999999999999998874

>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=99.94  E-value=5.9e-27  Score=171.46  Aligned_cols=121  Identities=21%  Similarity=0.378  Sum_probs=110.8

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      .++|||||||++..+..+..+|+..||.++ .+.++.+|++.+...           .||+||+|++||++||+++++.+
T Consensus         2 ~p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~~~~-----------~pDlvllDi~mP~~dG~e~~~~i   70 (190)
T d1s8na_           2 VPRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELH-----------KPDLVIMDVKMPRRDGIDAASEI   70 (190)
T ss_dssp             CCCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHH-----------CCSEEEEESSCSSSCHHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHhcC-----------CCCEEEEeccccCcchHHHHHHH
Confidence            368999999999999999999999999876 589999999999554           45699999999999999999999


Q ss_pred             HhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           86 KESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        86 ~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      ++..   ++|||++|++++.++..+|+++||++|+.||+++++|..+++.+..+..
T Consensus        71 r~~~---~~pIi~lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~~~~~~  123 (190)
T d1s8na_          71 ASKR---IAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFR  123 (190)
T ss_dssp             HHTT---CSCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHHHH
T ss_pred             HhcC---CCCEEEEeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHHHHhhH
Confidence            9863   6899999999999999999999999999999999999999988887654

>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=9e-26  Score=158.14  Aligned_cols=129  Identities=27%  Similarity=0.388  Sum_probs=113.4

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      ++.+||||||++..+..++..|++.|  +.+..+.+|.+|++.+......    .....||+||+|+.||+++|++++++
T Consensus         2 ppk~ILiVdD~~~~~~~l~~~L~~~g~~~~v~~a~~g~~Al~~l~~~~~~----~~~~~pdlIllD~~mP~~~G~el~~~   77 (144)
T d1i3ca_           2 PPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY----ENSPRPNLILLDLNLPKKDGREVLAE   77 (144)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG----TTCCCCSEEEECSCCSSSCHHHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHhchhh----hccCCCCEEEEECccccccchHHHHH
Confidence            35689999999999999999998876  5788899999999999653221    02346899999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           85 IKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ||+.....++|||++|+..+.....+|++.||++|+.||++.++|...++.+...
T Consensus        78 ir~~~~~~~iPvi~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~l~~~  132 (144)
T d1i3ca_          78 IKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESF  132 (144)
T ss_dssp             HHHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HHhCcccCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            9997666689999999999999999999999999999999999999999887764

>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=7.5e-26  Score=157.85  Aligned_cols=127  Identities=24%  Similarity=0.366  Sum_probs=112.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      -|||||||++..+..++..|++.|  |.|..+.+|.+|++.+......    .....||+|++|+.||+++|++++++||
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            589999999999999999999876  6889999999999999643211    1334689999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +.....++|||++|+..+.+...++++.||++|+.||++.++|..+++.+.+.
T Consensus        79 ~~~~~~~iPvI~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~i~~~  131 (140)
T d1k68a_          79 SDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEF  131 (140)
T ss_dssp             HSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             hCcccCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            87655689999999999999999999999999999999999999999887654

>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=99.94  E-value=6.7e-26  Score=159.68  Aligned_cols=134  Identities=26%  Similarity=0.430  Sum_probs=115.3

Q ss_pred             CCCceEEEEEeCCHHHHHHHHHHHHhCCc--eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            5 TDSQFHVLAVDDSIIDRKLIERLLKTSSY--QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         5 ~~~~~~ilivd~~~~~~~~l~~~l~~~~~--~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      +...-+||||||++..+..++..|++.||  .|..+.+|.+|++.+....+.. .......||+|++|++||+++|++++
T Consensus         3 ~~~~~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~-~~~~~~~pdlillD~~mP~~~G~el~   81 (149)
T d1k66a_           3 GNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYC-NPDIAPRPAVILLDLNLPGTDGREVL   81 (149)
T ss_dssp             SCTTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSS-CGGGCCCCSEEEECSCCSSSCHHHHH
T ss_pred             CCCCCcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhcccc-ccccccCCCeEEccccccCCCcHHHH
Confidence            34456799999999999999999999987  7888999999999996542210 00023468999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      ++||+.....++|||++|+..+.+...++++.||++|+.||++..+|...++++++.
T Consensus        82 ~~ir~~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  138 (149)
T d1k66a_          82 QEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKY  138 (149)
T ss_dssp             HHHTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             HHHHhccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            999987655689999999999999999999999999999999999999999999875

>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=99.94  E-value=9.6e-26  Score=159.49  Aligned_cols=122  Identities=16%  Similarity=0.239  Sum_probs=107.1

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ...|||||||++..+..+...|+..||.+..  ++.++...+           ...+||+||+|+.||+++|+++++.||
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            4579999999999999999999999987743  456777766           344577999999999999999999999


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGIS  141 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~~  141 (187)
                      +.....++|||++|+..+......+++.||++|+.|||++++|...++..++...
T Consensus        79 ~~~~~~~iPiI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~~~  133 (153)
T d1w25a2          79 SEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQRKR  133 (153)
T ss_dssp             TSGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             hccccccceeEEeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHHHHHH
Confidence            8765568999999999999999999999999999999999999999988886543

>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=99.93  E-value=3.5e-25  Score=153.30  Aligned_cols=121  Identities=25%  Similarity=0.463  Sum_probs=109.0

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +.+|||||||++..+..+...|+..||++..+.++.+|++.+.            .+||+|++|+.||+++|+++++.||
T Consensus         6 ~g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~------------~~~dlillD~~mP~~dG~el~~~ir   73 (134)
T d1dcfa_           6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS------------HEHKVVFMDVCMPGVENYQIALRIH   73 (134)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCC------------TTCSEEEEECCSSTTTTTHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhh------------cCCCeEEEEeccCCCchHHHHHHHH
Confidence            5689999999999999999999999999999999999998762            2478999999999999999999998


Q ss_pred             hhc---CCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           87 ESA---SLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        87 ~~~---~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      +..   ....+|||++|+..+.+...++++.|+++|+.||++.++|..++++++..
T Consensus        74 ~~~~~~~~~~~~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~~  129 (134)
T d1dcfa_          74 EKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEP  129 (134)
T ss_dssp             HHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHSC
T ss_pred             HhcccccCCCCeEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhhh
Confidence            642   22357899999999999999999999999999999999999999988754

>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=99.92  E-value=4.8e-25  Score=149.34  Aligned_cols=113  Identities=19%  Similarity=0.284  Sum_probs=97.4

Q ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            8 QFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         8 ~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ++|||||||++..+..+...|+..||.|..+.++.++++.+..          ..+||+||+|+.||+++|+++++.+|+
T Consensus         2 p~rILvVdDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~----------~~~~dliilD~~lp~~~G~el~~~ir~   71 (118)
T d2b4aa1           2 PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQ----------LSTCDLLIVSDQLVDLSIFSLLDIVKE   71 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGG----------GGSCSEEEEETTCTTSCHHHHHHHHTT
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCCeEEECCHHHHHHHHHh----------cCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            5799999999999999999999999999999999999987732          235789999999999999999999998


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHH
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPH  135 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~  135 (187)
                      ..+  ++|||++|+..+.  ...+...|+ ||+.|||+.++|..+++.
T Consensus        72 ~~~--~~pii~lt~~~~~--~~~~~~~~~-dyl~KP~~~~eL~~~i~~  114 (118)
T d2b4aa1          72 QTK--QPSVLILTTGRHE--LIESSEHNL-SYLQKPFAISELRAAIDY  114 (118)
T ss_dssp             SSS--CCEEEEEESCC----CCCCSSSCE-EEEESSCCHHHHHHHHHH
T ss_pred             cCC--CCcEEEEECCccH--HHHHhhcCC-CEEECCCCHHHHHHHHHH
Confidence            765  8999999987543  334566676 899999999999988864

>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=99.91  E-value=1e-23  Score=146.90  Aligned_cols=106  Identities=27%  Similarity=0.354  Sum_probs=89.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK   84 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~   84 (187)
                      +++|||||||++..+..+..+|+..|  +.|..+.+|.+|++.+..           ..||+||+|+.||++||+++++.
T Consensus         2 ~kirVLiVDD~~~~r~~l~~~L~~~g~~~~v~~a~~g~~al~~~~~-----------~~pDlvllDi~MP~~dG~e~~~~   70 (140)
T d1a2oa1           2 SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKK-----------FNPDVLTLDVEMPRMDGLDFLEK   70 (140)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHH-----------HCCSEEEEECCCSSSCHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhCCCeEEEEEECCHHHHHHHHHh-----------cCCCEEEEcCCCCCCCHHHHHHH
Confidence            35899999999999999999999888  456678999999999954           45669999999999999999999


Q ss_pred             HHhhcCCCCCcEEEEeCCC-ChhHHHHHHHhCCCceeeCCCC
Q 046192           85 IKESASLKDIPVVIMSSEN-IPSRINRCLEEGAEEFFLKPVQ  125 (187)
Q Consensus        85 l~~~~~~~~~~iI~ls~~~-~~~~~~~a~~~ga~~yl~kP~~  125 (187)
                      +++..+  ..++++++... +.++..+|++.||++|+.||+.
T Consensus        71 ir~~~~--~~~i~i~~~~~~~~~~~~~al~~Ga~~yl~KP~~  110 (140)
T d1a2oa1          71 LMRLRP--MPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQL  110 (140)
T ss_dssp             HHHSSC--CCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSS
T ss_pred             HHHhCC--CCcEEEEEecCCChHHHHHHHHcCCCEEEECCCC
Confidence            999876  55566665443 3457788999999999999974

>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=99.87  E-value=3e-22  Score=145.84  Aligned_cols=116  Identities=10%  Similarity=0.078  Sum_probs=102.2

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      ..+|||||||++..+..+...|+..||.|..+.++.+++.               .+||+|++|++||+++|..+.. ++
T Consensus        10 ~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al~---------------~~~Dlvl~D~~mp~~~~~~~~~-~~   73 (189)
T d1qo0d_          10 RELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD---------------VPVDVVFTSIFQNRHHDEIAAL-LA   73 (189)
T ss_dssp             GGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSCS---------------SCCSEEEEECCSSTHHHHHHHH-HH
T ss_pred             cCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhcc---------------CCCCEEEEcCCCCCcHHHHHHH-HH
Confidence            4689999999999999999999999999999988877642               2588999999999987765554 55


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~~~  140 (187)
                      ...|  .+|||++|++.+.+++.+|++.||++||.||++.++|..+++.+....
T Consensus        74 ~~~p--~~pvI~lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~~~~~  125 (189)
T d1qo0d_          74 AGTP--RTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRIS  125 (189)
T ss_dssp             HSCT--TCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHHH
T ss_pred             HcCC--CCCEEEEeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhccccc
Confidence            5555  899999999999999999999999999999999999999998877654

>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=97.05  E-value=0.015  Score=38.28  Aligned_cols=117  Identities=9%  Similarity=0.068  Sum_probs=81.3

Q ss_pred             eEEEE--E--eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCC--HH
Q 046192            9 FHVLA--V--DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMT--GY   79 (187)
Q Consensus         9 ~~ili--v--d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~--g~   79 (187)
                      .+|++  +  |-|..-...+...|+..||+|..   ..+.++.++.+...+           +|+|.+...+....  ..
T Consensus         4 ~kVvi~~~~gD~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~~~-----------~d~v~lS~~~~~~~~~~~   72 (137)
T d1ccwa_           4 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETK-----------ADAILVSSLYGQGEIDCK   72 (137)
T ss_dssp             CEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHT-----------CSEEEEEECSSTHHHHHT
T ss_pred             CEEEEEecCCChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHHHhcC-----------CCEEEEeeccccchHHHH
Confidence            45555  3  55666678888899999999885   457888888885554           55999999887632  23


Q ss_pred             HHHHHHHhhcCCCCCcEEEEeCC----C-ChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHh
Q 046192           80 DLLRKIKESASLKDIPVVIMSSE----N-IPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLM  137 (187)
Q Consensus        80 ~~~~~l~~~~~~~~~~iI~ls~~----~-~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~  137 (187)
                      ++++.+++... .++||++=..-    . ..+...+..+.|++..+....+++++.+.+++-+
T Consensus        73 ~~~~~l~~~~~-~~i~iivGG~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l~~~l  134 (137)
T d1ccwa_          73 GLRQKCDEAGL-EGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLKKDL  134 (137)
T ss_dssp             THHHHHHHTTC-TTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcc-CCCEEEEeCCcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHHHHHh
Confidence            46777877653 46777654332    1 2445556668899988888888888877776654

>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=96.77  E-value=0.015  Score=38.01  Aligned_cols=118  Identities=14%  Similarity=0.145  Sum_probs=81.5

Q ss_pred             CceEEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHH
Q 046192            7 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIK   86 (187)
Q Consensus         7 ~~~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~   86 (187)
                      +++.|.+.=.++.....+++.|...-|.+..+.++++.++.+..         .+..+|++|+--.  +.+-..+..++.
T Consensus         3 s~LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~---------~~e~iDcLVl~~~--~~~l~~l~~qL~   71 (135)
T d1r8ja2           3 SQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQT---------HRDQIDCLILVAA--NPSFRAVVQQLC   71 (135)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHH---------STTSCSEEEEETT--STTHHHHHHHHH
T ss_pred             ceEEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHh---------CcccCCEEEEEec--CCccHHHHHHHH
Confidence            46889999999999999999997777999999999999999965         3446999987332  234456778888


Q ss_pred             hhcCCCCCcEEEEeCCCChhHHHHHHHhCCCce-----eeCCCChHHHHHHHHHHhhhh
Q 046192           87 ESASLKDIPVVIMSSENIPSRINRCLEEGAEEF-----FLKPVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        87 ~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~y-----l~kP~~~~~l~~~i~~~~~~~  140 (187)
                      +.+-  -.|.|++.+........   ..|-.+|     ..++-..+.+-..+.+++.+.
T Consensus        72 ~~Gl--LlPaViv~~~~~~~~~~---~~~~~~YH~aEv~l~~~qL~ql~~~ID~AIsrF  125 (135)
T d1r8ja2          72 FEGV--VVPAIVVGDRDSEDPDE---PAKEQLYHSAELHLGIHQLEQLPYQVDAALAEF  125 (135)
T ss_dssp             HTTC--CCCEEEESCCC---------CCSSCSSBTTCEEECTTCGGGHHHHHHHHHHHH
T ss_pred             hcCc--cccEEEEecCCCCCCCC---CCCceeeeeeeEEcCHHHHHHHHHHHHHHHHHH
Confidence            8876  78999986543221110   1222223     233445677777777777664

>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=96.06  E-value=0.091  Score=35.54  Aligned_cols=109  Identities=12%  Similarity=0.135  Sum_probs=74.5

Q ss_pred             CceEEEEE----eCCHHHHHHHHHHHHhCCceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CC
Q 046192            7 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MT   77 (187)
Q Consensus         7 ~~~~iliv----d~~~~~~~~l~~~l~~~~~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~   77 (187)
                      .+++|++.    |-|..-...+...|+..||+|..   ..+.++..+.....+           +|+|.+...+..  ..
T Consensus        36 r~pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~~~-----------advI~iSs~~~~~~~~  104 (168)
T d7reqa2          36 RRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEAD-----------VHVVGVSSLAGGHLTL  104 (168)
T ss_dssp             SCCEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHHHT-----------CSEEEEEECSSCHHHH
T ss_pred             CCCeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHccC-----------CCEEEEecCcccchHH
Confidence            34677765    45666778889999999999987   358888888885544           559998876654  23


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHH
Q 046192           78 GYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLAD  128 (187)
Q Consensus        78 g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~  128 (187)
                      .-++++.|++.+. .+++| ++...-.........+.|+++.+..-.+..+
T Consensus       105 ~~~l~~~L~~~g~-~~v~V-ivGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e  153 (168)
T d7reqa2         105 VPALRKELDKLGR-PDILI-TVGGVIPEQDFDELRKDGAVEIYTPGTVIPE  153 (168)
T ss_dssp             HHHHHHHHHHTTC-TTSEE-EEEESCCGGGHHHHHHHTEEEEECTTCCHHH
T ss_pred             HHHHHHHHHhcCC-CCeEE-EEeCCCCHHHHHHHHhCCCCEEECcCCCHHH
Confidence            4457788888753 34444 4555445666677889999986654444433

>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=95.54  E-value=0.18  Score=33.73  Aligned_cols=116  Identities=9%  Similarity=0.045  Sum_probs=74.3

Q ss_pred             ceEEEE--E--eCCHHHHHHHHHHHHhCC---------ceEEE---eCCHHHHHHHHhccCcccccccccccccEEEEec
Q 046192            8 QFHVLA--V--DDSIIDRKLIERLLKTSS---------YQVTA---VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDY   71 (187)
Q Consensus         8 ~~~ili--v--d~~~~~~~~l~~~l~~~~---------~~v~~---~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~   71 (187)
                      +.+|++  +  |-|..=...+..+|+..|         |+|.-   ..+.++.++.+...           .+|+|-+..
T Consensus        19 ~~~vv~~~~g~D~HdiG~~iv~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~a~e~-----------~~d~VglS~   87 (160)
T d1xrsb1          19 KIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVEL-----------EADVLLVSQ   87 (160)
T ss_dssp             CEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHHT-----------TCSEEEEEC
T ss_pred             CcEEEEEEeCCcHHHHHHHHHHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHHHHhc-----------CCCEEEEee
Confidence            455543  3  344444566777777778         78875   34778888888544           455999999


Q ss_pred             cCCCCCH-----HHHHHHHHhhcCCCCCcEEEEeC-CCChhHHHHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           72 CMPGMTG-----YDLLRKIKESASLKDIPVVIMSS-ENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        72 ~~~~~~g-----~~~~~~l~~~~~~~~~~iI~ls~-~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .+....+     -++++.+++.+...++|| ++.. ..+.+   .+-+.||+.|...-.+..++...+...++
T Consensus        88 l~t~~~~h~~~~~~~i~~l~~~g~~d~v~v-ivGG~~~~~~---~a~~~GaD~~f~~g~~a~~~a~~l~~~l~  156 (160)
T d1xrsb1          88 TVTQKNVHIQNMTHLIELLEAEGLRDRFVL-LCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVKTLN  156 (160)
T ss_dssp             CCCTTSHHHHHHHHHHHHHHHTTCGGGSEE-EEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHHHHH
T ss_pred             cccccchhHHHHHHHHHHHHHcCCCCceEE-EEcCCCCCHH---HHHHcCCCEEcCCCCCHHHHHHHHHHHHH
Confidence            8875432     256777887654212344 4444 33333   45678999998887778887766655554

>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=94.06  E-value=0.2  Score=33.31  Aligned_cols=109  Identities=13%  Similarity=0.204  Sum_probs=69.7

Q ss_pred             eCCHHHHHHHHHHHHhCCceEEEe---CCHHHHHHHHhccCcccccccccccccEEEEeccCCC-CC-HHHHHHHHHhhc
Q 046192           15 DDSIIDRKLIERLLKTSSYQVTAV---DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MT-GYDLLRKIKESA   89 (187)
Q Consensus        15 d~~~~~~~~l~~~l~~~~~~v~~~---~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~-g~~~~~~l~~~~   89 (187)
                      |-|..=...+..+|+..||+|+..   .+.++.++.+...+           +|+|.+...+.. +. -.++.+.+++.+
T Consensus        17 D~HdiG~~iv~~~l~~~G~~Vi~LG~~~p~e~~~~~~~~~~-----------~d~i~lS~l~~~~~~~~~~~~~~l~~~g   85 (156)
T d3bula2          17 DVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEVN-----------ADLIGLSGLITPSLDEMVNVAKEMERQG   85 (156)
T ss_dssp             CCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHHHT-----------CSEEEEECCSTHHHHHHHHHHHHHHHTT
T ss_pred             ChhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhhC-----------CCEEEEecccccchHHHHHHHHHHHhcc
Confidence            555666678888889999999873   57788888885554           459999998875 33 445788888877


Q ss_pred             CCCCCcEEEEeCCCChhHHHHHH---HhCCCceeeCCCChHHHHHHHHHHhhh
Q 046192           90 SLKDIPVVIMSSENIPSRINRCL---EEGAEEFFLKPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        90 ~~~~~~iI~ls~~~~~~~~~~a~---~~ga~~yl~kP~~~~~l~~~i~~~~~~  139 (187)
                      .  +.|+++-....+......-.   -.|++.|-.   +..+.......+...
T Consensus        86 ~--~~~vivGG~~~~~~~~~~~~~~~y~gad~ya~---DA~~av~~a~~Ll~~  133 (156)
T d3bula2          86 F--TIPLLIGGATTSKAHTAVKIEQNYSGPTVYVQ---NASRTVGVVAALLSD  133 (156)
T ss_dssp             C--CSCEEEESTTCCHHHHHHHTGGGCSSCEEECC---SHHHHHHHHHHHTCT
T ss_pred             c--cceEEEecccccchHHHhhhccccccceeecc---CHHHHHHHHHHHhCc
Confidence            6  67776555544433332111   035554443   344555555555544

>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=93.86  E-value=0.73  Score=32.94  Aligned_cols=94  Identities=17%  Similarity=0.153  Sum_probs=65.8

Q ss_pred             HHHHHHHhCC--ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEe
Q 046192           23 LIERLLKTSS--YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMS  100 (187)
Q Consensus        23 ~l~~~l~~~~--~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls  100 (187)
                      .+++.|+...  +-++.........+.+           ....+|.|++|..-...+--++...++........|++-+.
T Consensus         6 ~lk~~l~~g~~~~G~~~~~~~p~~~ei~-----------a~~G~Dfv~iD~EHg~~~~~~~~~~i~a~~~~g~~~~VRvp   74 (253)
T d1dxea_           6 KFKAALAAKQVQIGCWSALSNPISTEVL-----------GLAGFDWLVLDGEHAPNDISTFIPQLMALKGSASAPVVRVP   74 (253)
T ss_dssp             HHHHHHHTTCCEEEEEECSCSHHHHHHH-----------TTSCCSEEEEESSSSSCCHHHHHHHHHHTTTCSSEEEEECS
T ss_pred             HHHHHHHCCCCEEEEEecCCCHHHHHHH-----------HcCCCCEEEEecccCCCChhHHHHHHHHHhccCCCceecCC
Confidence            4566665432  3333344455666666           44568999999998888888888888776553344454444


Q ss_pred             CCCChhHHHHHHHhCCCceeeCCCChHH
Q 046192          101 SENIPSRINRCLEEGAEEFFLKPVQLAD  128 (187)
Q Consensus       101 ~~~~~~~~~~a~~~ga~~yl~kP~~~~~  128 (187)
                       ..+...+.++++.||++.+.--++..+
T Consensus        75 -~~~~~~i~~~LD~Ga~GIivP~v~s~e  101 (253)
T d1dxea_          75 -TNEPVIIKRLLDIGFYNFLIPFVETKE  101 (253)
T ss_dssp             -SSCHHHHHHHHHTTCCEEEESCCCSHH
T ss_pred             -CCCHHHHHHHHhcCccEEEecccCCHH
Confidence             468999999999999999987766544

>d1mxsa_ c.1.10.1 (A:) KDPG aldolase {Pseudomonas putida [TaxId: 303]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Pseudomonas putida [TaxId: 303]

Probab=93.35  E-value=0.37  Score=33.76  Aligned_cols=101  Identities=13%  Similarity=0.160  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEE
Q 046192           21 RKLIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIM   99 (187)
Q Consensus        21 ~~~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~l   99 (187)
                      ...+..+|++... -|....+.+++....+..-.        ..  +=++++.+...++++.++.+++..|  ++ .|-.
T Consensus         7 ~~~i~~~l~~~~iipvl~~~~~~~a~~~~~al~~--------~G--i~~iEitl~~p~a~~~i~~l~~~~p--~~-~vGa   73 (216)
T d1mxsa_           7 AARIDAICEKARILPVITIAREEDILPLADALAA--------GG--IRTLEVTLRSQHGLKAIQVLREQRP--EL-CVGA   73 (216)
T ss_dssp             HHHHHHHHHHHSEEEEECCSCGGGHHHHHHHHHH--------TT--CCEEEEESSSTHHHHHHHHHHHHCT--TS-EEEE
T ss_pred             HHHHHHHHHhCCEEEEEECCCHHHHHHHHHHHHH--------CC--CCEEEEeCCChhHHHHHHHHHHhCC--Cc-ceee
Confidence            4456666665553 23335566666655543221        11  3345555555678889999999876  53 5667


Q ss_pred             eCCCChhHHHHHHHhCCCceeeCCCChHHHHHHHHH
Q 046192          100 SSENIPSRINRCLEEGAEEFFLKPVQLADVNKLKPH  135 (187)
Q Consensus       100 s~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~~  135 (187)
                      ..-.+.+.+..+.++||+ |+.-|....++.+..+.
T Consensus        74 GTV~~~~~~~~a~~aGa~-FivsP~~~~~v~~~a~~  108 (216)
T d1mxsa_          74 GTVLDRSMFAAVEAAGAQ-FVVTPGITEDILEAGVD  108 (216)
T ss_dssp             ECCCSHHHHHHHHHHTCS-SEECSSCCHHHHHHHHH
T ss_pred             eeeecHHHHHHHHhCCCC-EEECCCCcHHHHHHHHh
Confidence            777899999999999996 66677777776665443

>d1wbha1 c.1.10.1 (A:1-213) KDPG aldolase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Escherichia coli [TaxId: 562]

Probab=93.16  E-value=0.37  Score=33.66  Aligned_cols=63  Identities=17%  Similarity=0.240  Sum_probs=44.8

Q ss_pred             EEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           67 IITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        67 vi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      =++++.+...++++.++.+++..|  ++ +|-...-.+.+.+..+.++||+ |+.-|.-..++.+..
T Consensus        42 ~~iEitl~tp~a~~~I~~l~~~~p--~~-~vGaGTV~~~~~~~~a~~aGa~-FivSP~~~~~v~~~a  104 (213)
T d1wbha1          42 RVLNVTLRTECAVDAIRAIAKEVP--EA-IVGAGTVLNPQQLAEVTEAGAQ-FAISPGLTEPLLKAA  104 (213)
T ss_dssp             CEEEEESCSTTHHHHHHHHHHHCT--TS-EEEEESCCSHHHHHHHHHHTCS-CEEESSCCHHHHHHH
T ss_pred             CEEEEeCCChhHHHHHHHHHHHCC--CC-eeeccccccHHHHHHHHHCCCc-EEECCCCCHHHHHHH
Confidence            344555555567888899998876  54 5667788899999999999998 554565555554443

>d1vhca_ c.1.10.1 (A:) Hypothetical protein HI0047 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: Hypothetical protein HI0047
species: Haemophilus influenzae [TaxId: 727]

Probab=92.81  E-value=0.61  Score=32.47  Aligned_cols=98  Identities=17%  Similarity=0.233  Sum_probs=61.9

Q ss_pred             HHHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeC
Q 046192           23 LIERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSS  101 (187)
Q Consensus        23 ~l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~  101 (187)
                      .+.+.|++.+. -+....+.+++....+....        ..  +=++.+.+-..++++.++.+++..+  + -+|-...
T Consensus         6 ~~~~~l~~~~iipvlr~~~~~~~~~~~~al~~--------~G--i~~iEitl~~~~a~~~I~~l~~~~p--~-~~vGaGT   72 (212)
T d1vhca_           6 QIIEKLRELKIVPVIALDNADDILPLADTLAK--------NG--LSVAEITFRSEAAADAIRLLRANRP--D-FLIAAGT   72 (212)
T ss_dssp             HHHHHHHHHCEEEEECCSSGGGHHHHHHHHHH--------TT--CCEEEEETTSTTHHHHHHHHHHHCT--T-CEEEEES
T ss_pred             HHHHHHHHCCEEEEEeCCCHHHHHHHHHHHHH--------CC--CCEEEEeCCChhHHHHHHHHHhcCC--C-ceEeeee
Confidence            34444555553 23334566666555433211        11  4455666666688899999998876  5 3566778


Q ss_pred             CCChhHHHHHHHhCCCceeeCCCChHHHHHHHH
Q 046192          102 ENIPSRINRCLEEGAEEFFLKPVQLADVNKLKP  134 (187)
Q Consensus       102 ~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i~  134 (187)
                      -.+.+.+..+.++||+ |+.-|.-..++.+..+
T Consensus        73 V~~~~~~~~a~~aGa~-FivSP~~~~~v~~~a~  104 (212)
T d1vhca_          73 VLTAEQVVLAKSSGAD-FVVTPGLNPKIVKLCQ  104 (212)
T ss_dssp             CCSHHHHHHHHHHTCS-EEECSSCCHHHHHHHH
T ss_pred             cccHHHHHHHHhhCCc-EEECCCCCHHHHHHHH
Confidence            8899999999999998 5555665556555443

>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=92.39  E-value=0.83  Score=29.51  Aligned_cols=97  Identities=12%  Similarity=0.028  Sum_probs=54.3

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHh
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKE   87 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~   87 (187)
                      ..+.++|.++.........+...|+.+... .+..+.++...-           ...+.+++-..-. ..-..++..+|+
T Consensus        27 ~~v~vId~d~~~~~~~~~~~~~~~~~vi~Gd~~d~~~L~~a~i-----------~~a~~vi~~~~~d-~~n~~~~~~~r~   94 (153)
T d1id1a_          27 QNVTVISNLPEDDIKQLEQRLGDNADVIPGDSNDSSVLKKAGI-----------DRCRAILALSDND-ADNAFVVLSAKD   94 (153)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHCTTCEEEESCTTSHHHHHHHTT-----------TTCSEEEECSSCH-HHHHHHHHHHHH
T ss_pred             CCEEEEeccchhHHHHHHHhhcCCcEEEEccCcchHHHHHhcc-----------ccCCEEEEccccH-HHHHHHHHHHHH
Confidence            456666666654433333333445555442 233445555522           2355777765332 233445666777


Q ss_pred             hcCCCCCcEEEEeCCCChhHHHHHHHhCCCceee
Q 046192           88 SASLKDIPVVIMSSENIPSRINRCLEEGAEEFFL  121 (187)
Q Consensus        88 ~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~  121 (187)
                      .+|  ..++++-+.  +.+......+.|++..+.
T Consensus        95 ~~~--~~~iia~~~--~~~~~~~l~~~Gad~vi~  124 (153)
T d1id1a_          95 MSS--DVKTVLAVS--DSKNLNKIKMVHPDIILS  124 (153)
T ss_dssp             HTS--SSCEEEECS--SGGGHHHHHTTCCSEEEC
T ss_pred             hCC--CCceEEEEc--CHHHHHHHHHCCCCEEEC
Confidence            666  778876665  467777778889875543

>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=92.36  E-value=0.23  Score=33.26  Aligned_cols=99  Identities=6%  Similarity=-0.009  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhCCceEEE--eCCHHHHHHHHhccCcccccccccccccEEEEeccCCC--CCHHHHHHHHHhhcCCCCCc
Q 046192           20 DRKLIERLLKTSSYQVTA--VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG--MTGYDLLRKIKESASLKDIP   95 (187)
Q Consensus        20 ~~~~l~~~l~~~~~~v~~--~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~--~~g~~~~~~l~~~~~~~~~~   95 (187)
                      -......+|...||++..  ..+..+..+.....           ..|++++......  .-+-++++.|+..+.  .  
T Consensus        52 ra~f~~n~f~~gGfev~~~~~~~~~e~v~aa~~~-----------~a~vvvicssd~~y~~~~~~~~~aLk~ag~--~--  116 (163)
T d7reqb2          52 REGFSSPVWHIAGIDTPQVEGGTTAEIVEAFKKS-----------GAQVADLCSSAKVYAQQGLEVAKALKAAGA--K--  116 (163)
T ss_dssp             HHHHHHHHHHHTTCBCCEEESCCHHHHHHHHHHH-----------TCSEEEEECCHHHHHHHHHHHHHHHHHTTC--S--
T ss_pred             HHHHHHHHHHccCeeeccCCCCCcHHHHHHHHhC-----------CCCEEEEecCccchHHHHHHHHHHHHhccc--c--
Confidence            345677888888988765  23556666766433           4557777765433  124468899998764  3  


Q ss_pred             EEEEeC-CCChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192           96 VVIMSS-ENIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus        96 iI~ls~-~~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      ++++.. ...........+.|+++|+.--.+.-+....+
T Consensus       117 ~~vlaGg~~~~~d~~~l~~aGVd~~i~~G~d~~~~l~~l  155 (163)
T d7reqb2         117 ALYLSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDTLSST  155 (163)
T ss_dssp             EEEEESCGGGGGGGHHHHHHHCCEEECTTCCHHHHHHHH
T ss_pred             eeEEEecCCCcccHHHHHhCCCCeEecCCCcHHHHHHHH
Confidence            333433 33445566778899999998877765554443

>d1wa3a1 c.1.10.1 (A:2-203) KDPG aldolase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Aldolase
family: Class I aldolase
domain: KDPG aldolase
species: Thermotoga maritima [TaxId: 2336]

Probab=92.23  E-value=0.53  Score=32.54  Aligned_cols=97  Identities=15%  Similarity=0.182  Sum_probs=56.9

Q ss_pred             HHHHHHhCCc-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCC
Q 046192           24 IERLLKTSSY-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSE  102 (187)
Q Consensus        24 l~~~l~~~~~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~  102 (187)
                      +.++|++.+. -+....+.+++....+..-.        ..  +=++.+.+-..++.+.++.+++... +++ +|-...-
T Consensus         2 ~~~~l~~~~iipvlr~~~~~~a~~~~~al~~--------~G--i~~iEitlr~p~a~~~i~~l~~~~~-~~~-~vGaGTV   69 (202)
T d1wa3a1           2 MEELFKKHKIVAVLRANSVEEAKEKALAVFE--------GG--VHLIEITFTVPDADTVIKELSFLKE-KGA-IIGAGTV   69 (202)
T ss_dssp             HHHHHHHHCEEEEECCSSHHHHHHHHHHHHH--------TT--CCEEEEETTSTTHHHHHHHTHHHHH-TTC-EEEEESC
T ss_pred             hHHHHHhCCEEEEEECCCHHHHHHHHHHHHH--------cC--CCEEEEecCCccHHHHHHHHHHhcC-CCc-EEEeccc
Confidence            3455655553 22335666666665543321        11  3345555556677888888775432 123 4556666


Q ss_pred             CChhHHHHHHHhCCCceeeCCCChHHHHHHH
Q 046192          103 NIPSRINRCLEEGAEEFFLKPVQLADVNKLK  133 (187)
Q Consensus       103 ~~~~~~~~a~~~ga~~yl~kP~~~~~l~~~i  133 (187)
                      .+.+.+..+.++||+ |+.-|.-..++.+..
T Consensus        70 ~~~~~~~~a~~aGa~-fivsP~~~~~v~~~~   99 (202)
T d1wa3a1          70 TSVEQCRKAVESGAE-FIVSPHLDEEISQFC   99 (202)
T ss_dssp             CSHHHHHHHHHHTCS-EEECSSCCHHHHHHH
T ss_pred             ccHHHHHHHHhhccc-EEeCCCCcHHHHHHH
Confidence            788999999999998 444565555555443

>d1l3la1 a.4.6.2 (A:170-234) Quorum-sensing transcription factor TraR, C-terminal domain {Agrobacterium tumefaciens [TaxId: 358]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: C-terminal effector domain of the bipartite response regulators
family: GerE-like (LuxR/UhpA family of transcriptional regulators)
domain: Quorum-sensing transcription factor TraR, C-terminal domain
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=90.76  E-value=0.0059  Score=34.77  Aligned_cols=22  Identities=14%  Similarity=-0.062  Sum_probs=20.4

Q ss_pred             hhhhhcccccccCCCCCCCccC
Q 046192          165 RTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      .++++|.+++.++.+|+|++||
T Consensus         4 ~Lt~rE~~vl~l~~~G~s~~eI   25 (65)
T d1l3la1           4 WLDPKEATYLRWIAVGKTMEEI   25 (65)
T ss_dssp             CCCHHHHHHHHHHTTTCCHHHH
T ss_pred             ccCHHHHHHHHHHHhcCCHHHH
Confidence            4789999999999999999987

>d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: C-terminal effector domain of the bipartite response regulators
family: GerE-like (LuxR/UhpA family of transcriptional regulators)
domain: Nitrate/nitrite response regulator (NarL)
species: Escherichia coli [TaxId: 562]

Probab=90.69  E-value=0.0067  Score=34.75  Aligned_cols=23  Identities=26%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             hhhhhhcccccccCCCCCCCccC
Q 046192          164 DRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ..++++|.+++.++.+|+|++||
T Consensus         5 ~~LT~rE~~vl~ll~~G~s~~eI   27 (67)
T d1a04a1           5 NQLTPRERDILKLIAQGLPNKMI   27 (67)
T ss_dssp             GGSCHHHHHHHHHHHTTCCHHHH
T ss_pred             ccCCHHHHHHHHHHHhCCCHHHH
Confidence            46899999999999999999987

>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=90.47  E-value=2.3  Score=30.98  Aligned_cols=105  Identities=11%  Similarity=0.168  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHhCC---ceEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHH---HHhhcCCCC
Q 046192           20 DRKLIERLLKTSS---YQVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRK---IKESASLKD   93 (187)
Q Consensus        20 ~~~~l~~~l~~~~---~~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~---l~~~~~~~~   93 (187)
                      ++..|++.+...+   +-++..-......+.+           ....||.|++|..-...+--++...   ++.......
T Consensus        27 ~r~~l~~~~~~~~~~~~G~~~~~~s~~~~e~~-----------a~~g~D~v~iD~EHg~~~~~~~~~~i~a~~~~~~~~~   95 (299)
T d1izca_          27 LRQALKDAMADPSKTLMGVAHGIPSTFVTKVL-----------AATKPDFVWIDVEHGMFNRLELHDAIHAAQHHSEGRS   95 (299)
T ss_dssp             HHHHHHHHHHCGGGCEEEEEECSCCHHHHHHH-----------HHTCCSEEEEETTTSCCCHHHHHHHHHHHHHHTTTCS
T ss_pred             HHHHHHHHhhccCCceeeeeccCCCHHHHHHH-----------HcCCCCEEEEcCCCCCCCHHHHHHHHHHHHHhCCCCC
Confidence            4777887776433   2333333344555666           4556889999999877775555444   433332112


Q ss_pred             CcEEEEeCCCChhHHHHHHHhCCCceeeCCCC-hHHHHHHHHHH
Q 046192           94 IPVVIMSSENIPSRINRCLEEGAEEFFLKPVQ-LADVNKLKPHL  136 (187)
Q Consensus        94 ~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~~-~~~l~~~i~~~  136 (187)
                      .|++-+. ..+...+.++++.||++.+.--++ .++...+++.+
T Consensus        96 ~~iVRvp-~~~~~~I~~~LD~Ga~GIivP~V~s~eea~~~v~~~  138 (299)
T d1izca_          96 LVIVRVP-KHDEVSLSTALDAGAAGIVIPHVETVEEVREFVKEM  138 (299)
T ss_dssp             EEEEECC-TTCHHHHHHHHHHTCSEEEETTCCCHHHHHHHHHHH
T ss_pred             CeEEeCC-CCChHHHHHHHHhCcCeeeccccccHHHHHHHHHhh
Confidence            3454454 457889999999999999886555 45555555544

>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=89.58  E-value=1.4  Score=31.14  Aligned_cols=102  Identities=17%  Similarity=0.094  Sum_probs=68.0

Q ss_pred             HHHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCC-----CHHHHHHHHHhhcCCCCCcEE
Q 046192           24 IERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGM-----TGYDLLRKIKESASLKDIPVV   97 (187)
Q Consensus        24 l~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~-----~g~~~~~~l~~~~~~~~~~iI   97 (187)
                      -.+.|-+.||.|.. +++.....+.+...-.            .+++-+-.|=+     .-...++.|++..   ++|||
T Consensus       117 Aae~Lv~eGF~VlpY~~~D~v~ak~Le~~Gc------------~avMPlgsPIGSg~Gl~n~~~l~~i~~~~---~vPvI  181 (251)
T d1xm3a_         117 ASEQLLEEGFIVLPYTSDDVVLARKLEELGV------------HAIMPGASPIGSGQGILNPLNLSFIIEQA---KVPVI  181 (251)
T ss_dssp             HHHHHHHTTCCEEEEECSCHHHHHHHHHHTC------------SCBEECSSSTTCCCCCSCHHHHHHHHHHC---SSCBE
T ss_pred             HHHHHHhCCcEEEEecCCCHHHHHHHHHcCC------------hhHHHhhhhhhcCCCcCChHHHHHHHhcC---CccEE
Confidence            34555568999986 4444444455533222            33444444422     2335778888763   89999


Q ss_pred             EEeCCCChhHHHHHHHhCCCceeeC-----CCChHHHHHHHHHHhhhh
Q 046192           98 IMSSENIPSRINRCLEEGAEEFFLK-----PVQLADVNKLKPHLMKGI  140 (187)
Q Consensus        98 ~ls~~~~~~~~~~a~~~ga~~yl~k-----P~~~~~l~~~i~~~~~~~  140 (187)
                      +=..-..+..+..|++.|+|+.|.-     --++....++++......
T Consensus       182 vDAGIG~pSdAa~AMElG~daVLvNTAIA~a~dPv~MA~A~~~Av~AG  229 (251)
T d1xm3a_         182 VDAGIGSPKDAAYAMELGADGVLLNTAVSGADDPVKMARAMKLAVEAG  229 (251)
T ss_dssp             EESCCCSHHHHHHHHHTTCSEEEESHHHHTSSSHHHHHHHHHHHHHHH
T ss_pred             EecCCCCHHHHHHHHHccCCEEEechhhhcCCCHHHHHHHHHHHHHHH
Confidence            9999899999999999999998764     446777777766666443

>d1wv2a_ c.1.31.1 (A:) Thiazole biosynthesis protein ThiG {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: ThiG-like
family: ThiG-like
domain: Thiazole biosynthesis protein ThiG
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=89.37  E-value=2.5  Score=29.79  Aligned_cols=100  Identities=15%  Similarity=0.180  Sum_probs=68.6

Q ss_pred             HHHHHhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCC-----CCCHHHHHHHHHhhcCCCCCcEEE
Q 046192           25 ERLLKTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMP-----GMTGYDLLRKIKESASLKDIPVVI   98 (187)
Q Consensus        25 ~~~l~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~-----~~~g~~~~~~l~~~~~~~~~~iI~   98 (187)
                      ...|-..||.|.. +++..-..+.+...-.            .+++-+--|     +..-...++.+++. +  ++|+|+
T Consensus       120 a~~Lv~egF~Vlpy~~~D~v~ak~le~~Gc------------~~vMplgsPIGsg~Gi~n~~~l~~i~~~-~--~vpviv  184 (243)
T d1wv2a_         120 AEQLVKDGFDVMVYTSDDPIIARQLAEIGC------------IAVMPLAGLIGSGLGICNPYNLRIILEE-A--KVPVLV  184 (243)
T ss_dssp             HHHHHTTTCEEEEEECSCHHHHHHHHHSCC------------SEEEECSSSTTCCCCCSCHHHHHHHHHH-C--SSCBEE
T ss_pred             HHHhhcCceEEEeccCCCHHHHhHHHHcCc------------eeeeecccccccccccccHHHHHhcccc-C--CcceEe
Confidence            3455567998887 4544455555543322            355555556     33334567777765 3  899999


Q ss_pred             EeCCCChhHHHHHHHhCCCceee-----CCCChHHHHHHHHHHhhh
Q 046192           99 MSSENIPSRINRCLEEGAEEFFL-----KPVQLADVNKLKPHLMKG  139 (187)
Q Consensus        99 ls~~~~~~~~~~a~~~ga~~yl~-----kP~~~~~l~~~i~~~~~~  139 (187)
                      =..-.....+..|++.|+|+.|.     |--++....++++.....
T Consensus       185 dAGIg~psdaa~AMElG~dgVLvnsaIa~A~dP~~mA~A~~~Av~a  230 (243)
T d1wv2a_         185 DAGVGTASDAAIAMELGCEAVLMNTAIAHAKDPVMMAEAMKHAIVA  230 (243)
T ss_dssp             ESCCCSHHHHHHHHHHTCSEEEESHHHHTSSSHHHHHHHHHHHHHH
T ss_pred             ecccCCHHHHHHHHHccCCEEEechHhhcCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999875     455788877777666644

>d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: C-terminal effector domain of the bipartite response regulators
family: GerE-like (LuxR/UhpA family of transcriptional regulators)
domain: Germination protein GerE
species: Bacillus subtilis [TaxId: 1423]

Probab=89.29  E-value=0.01  Score=33.87  Aligned_cols=22  Identities=14%  Similarity=0.110  Sum_probs=20.4

Q ss_pred             hhhhhcccccccCCCCCCCccC
Q 046192          165 RTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       165 ~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      .++++|.+++.++.+|+|++||
T Consensus         4 ~LT~rE~~vl~l~~~G~s~~eI   25 (67)
T d1fsea_           4 LLTKREREVFELLVQDKTTKEI   25 (67)
T ss_dssp             CCCHHHHHHHHHHTTTCCHHHH
T ss_pred             CCCHHHHHHHHHHHccCCHHHH
Confidence            3789999999999999999987

>d1yioa1 a.4.6.2 (A:131-200) Response regulatory protein StyR, C-terminal domain {Pseudomonas fluorescens [TaxId: 294]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: C-terminal effector domain of the bipartite response regulators
family: GerE-like (LuxR/UhpA family of transcriptional regulators)
domain: Response regulatory protein StyR, C-terminal domain
species: Pseudomonas fluorescens [TaxId: 294]

Probab=88.55  E-value=0.013  Score=33.77  Aligned_cols=23  Identities=17%  Similarity=0.278  Sum_probs=21.1

Q ss_pred             hhhhhhcccccccCCCCCCCccC
Q 046192          164 DRTRTRLNDTIDINNDGLPDLEI  186 (187)
Q Consensus       164 ~~~~~~e~~~l~l~~~g~~~~ei  186 (187)
                      ..++++|.+++.++.+|+|++||
T Consensus        11 ~~LT~rE~~vl~~l~~G~s~~eI   33 (70)
T d1yioa1          11 SSLTGREQQVLQLTIRGLMNKQI   33 (70)
T ss_dssp             HTSCHHHHHHHHHHTTTCCHHHH
T ss_pred             ccCCHHHHHHHHHHHcCCCHHHH
Confidence            45899999999999999999987

>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=87.81  E-value=1.6  Score=29.12  Aligned_cols=95  Identities=15%  Similarity=0.080  Sum_probs=62.6

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHh----CC-ceEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKT----SS-YQVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~----~~-~~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      -.|||-|+|-.+...+...++.    .. ..+. .+.+.+++.+.+.            ..+|+|++|-..|. +--+.+
T Consensus        51 d~ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv~s~~q~~~a~~------------~~~diImLDN~sp~-~~k~~v  117 (169)
T d1qpoa1          51 DAALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLP------------EKPELILLDNFAVW-QTQTAV  117 (169)
T ss_dssp             SSEEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGG------------GCCSEEEEETCCHH-HHHHHH
T ss_pred             ceEEeehhHHhHhcchhhhhhhhhhhcCCCceEEEeccHHHhhhhhh------------cCCcEEEecCcChH-hHHHHH
Confidence            3477888887777666666642    22 2343 4899999988873            24779999954332 233455


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCce
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEF  119 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~y  119 (187)
                      +.++...+   ..++-.|..-+.+.+.+....|+|-.
T Consensus       118 ~~~~~~~~---~i~lEaSGgI~~~ni~~ya~~GvD~I  151 (169)
T d1qpoa1         118 QRRDSRAP---TVMLESSGGLSLQTAATYAETGVDYL  151 (169)
T ss_dssp             HHHHHHCT---TCEEEEESSCCTTTHHHHHHTTCSEE
T ss_pred             HHhhccCC---eeEEEEeCCCCHHHHHHHHHcCCCEE
Confidence            56665543   34666777778888888888998743

>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=84.26  E-value=0.82  Score=30.62  Aligned_cols=92  Identities=17%  Similarity=0.172  Sum_probs=59.3

Q ss_pred             EEEEEeCCHHHHHHHHHHHHh----CC--c-eEEEeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHH
Q 046192           10 HVLAVDDSIIDRKLIERLLKT----SS--Y-QVTAVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLL   82 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~----~~--~-~v~~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~   82 (187)
                      .|||-|+|-.+...+...++.    .+  - ..+.+.+.+++.+.+.            ..+|+|++|-..|. +--++.
T Consensus        50 ~ilikdNHi~~~g~~~~~~~~~~~~~~~~~~I~VEv~~~~e~~~a~~------------~g~d~i~LDn~~pe-~~k~~~  116 (170)
T d1o4ua1          50 CVMIKDNHLKMYGSAERAVQEVRKIIPFTTKIEVEVENLEDALRAVE------------AGADIVMLDNLSPE-EVKDIS  116 (170)
T ss_dssp             CEEECHHHHHHHSSHHHHHHHHHTTSCTTSCEEEEESSHHHHHHHHH------------TTCSEEEEESCCHH-HHHHHH
T ss_pred             ceEEcccHHHHhccHHHHHHHHHhhCCCCceEEEEeCcHHHHHHHHh------------cCccEEEEcCcChh-hHhHHH
Confidence            477888887776666666643    22  1 2345889999988873            23679999954332 223455


Q ss_pred             HHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCC
Q 046192           83 RKIKESASLKDIPVVIMSSENIPSRINRCLEEGAE  117 (187)
Q Consensus        83 ~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~  117 (187)
                      +.++...+  . ..+-.+..-+.+.+......|+|
T Consensus       117 ~~lk~~~~--~-i~lEaSGGI~~~ni~~~a~~GVD  148 (170)
T d1o4ua1         117 RRIKDINP--N-VIVEVSGGITEENVSLYDFETVD  148 (170)
T ss_dssp             HHHHHHCT--T-SEEEEEECCCTTTGGGGCCTTCC
T ss_pred             HHHHhhCC--c-EEEEEECCCCHHHHHHHHHcCCC
Confidence            66776654  3 45556666677777777777877

>d1w0ma_ c.1.1.1 (A:) Triosephosphate isomerase {Thermoproteus tenax [TaxId: 2271]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Triosephosphate isomerase (TIM)
family: Triosephosphate isomerase (TIM)
domain: Triosephosphate isomerase
species: Thermoproteus tenax [TaxId: 2271]

Probab=83.39  E-value=5.2  Score=27.51  Aligned_cols=80  Identities=13%  Similarity=0.113  Sum_probs=53.8

Q ss_pred             HhCCceEEE-eCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHH-----------HHHHHHHhhcCCCCCcE
Q 046192           29 KTSSYQVTA-VDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGY-----------DLLRKIKESASLKDIPV   96 (187)
Q Consensus        29 ~~~~~~v~~-~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~-----------~~~~~l~~~~~~~~~~i   96 (187)
                      .+.|+.+.. +.+..++.+... .           .+++|...-.+.-+.|.           .+++.+++..+  ++||
T Consensus       111 ~~~gl~~ivcvge~~~~~~~~~-~-----------~~~iIayep~waIGtg~~~~~~~~~~i~~~i~~~~~~~~--~i~v  176 (226)
T d1w0ma_         111 KSLGLDVVVCAPDPRTSLAAAA-L-----------GPHAVAVEPPELIGTGRAVSRYKPEAIVETVGLVSRHFP--EVSV  176 (226)
T ss_dssp             HHTTCEEEEEESSHHHHHHHHH-T-----------CCSEEEECCGGGTTTSCCHHHHCHHHHHHHHHHHHHHCT--TSEE
T ss_pred             HHcCCEEEEecCchHHhhhhhc-c-----------ccceeeecchhhccCCCCCChhhhhHhhhhhhhhhccCC--CceE
Confidence            456887654 577776666542 2           24477777766533321           24455556555  8899


Q ss_pred             EEEeCCCChhHHHHHHHhCCCceeeC
Q 046192           97 VIMSSENIPSRINRCLEEGAEEFFLK  122 (187)
Q Consensus        97 I~ls~~~~~~~~~~a~~~ga~~yl~k  122 (187)
                      +.=.+-...+....+++.|+|+++.=
T Consensus       177 lygGgV~~~n~~~~~~~~g~dGvLVG  202 (226)
T d1w0ma_         177 ITGAGIESGDDVAAALRLGTRGVLLA  202 (226)
T ss_dssp             EEESSCCSHHHHHHHHHTTCSEEEEC
T ss_pred             EEecCcCChHHHHHHhcCCCCEEEec
Confidence            88777777888899999999999864

>d1u6ka1 c.127.1.1 (A:2-283) F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD) {Archaeon Methanopyrus kandleri [TaxId: 2320]}

class: Alpha and beta proteins (a/b)
fold: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
superfamily: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
family: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
domain: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)
species: Archaeon Methanopyrus kandleri [TaxId: 2320]

Probab=82.97  E-value=2.1  Score=30.12  Aligned_cols=59  Identities=17%  Similarity=0.242  Sum_probs=45.8

Q ss_pred             ccccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCCCceeeCCC
Q 046192           62 IQVNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGAEEFFLKPV  124 (187)
Q Consensus        62 ~~~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl~kP~  124 (187)
                      ..||++|+=--.|...|..-.+.+.+..   ++|.|++++..... ..+++...-.+|++-|.
T Consensus        62 ~~pDf~i~isPN~a~PGP~~ARE~l~~~---giP~ivI~D~p~~k-~~d~~~~~gfGYIi~k~  120 (282)
T d1u6ka1          62 FEPDFIVYGGPNPAAPGPSKAREMLADS---EYPAVIIGDAPGLK-VKDEMEEQGLGYILVKP  120 (282)
T ss_dssp             HCCSEEEEECSCTTSHHHHHHHHHHHTS---SSCEEEEEEGGGGG-GHHHHHHTTCEEEEETT
T ss_pred             cCCCEEEEECCCCCCCCcHHHHHHHHhc---CCCEEEEcCCcchh-hHHHHHhcCCcEEEEec
Confidence            3466888888778888998888887754   78999999887666 57888888888876544

>d1rzua_ c.87.1.8 (A:) Glycogen synthase 1, GlgA {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: UDP-Glycosyltransferase/glycogen phosphorylase
superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
family: Glycosyl transferases group 1
domain: Glycogen synthase 1, GlgA
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=82.33  E-value=1.9  Score=32.95  Aligned_cols=69  Identities=13%  Similarity=0.179  Sum_probs=47.1

Q ss_pred             ccEEEEeccCCCCCHHHHHHHHHhhcCCCCCcEEEEeCCCChhHH-----HHHHHhCCCceeeCCCChHHHHHHHHHHhh
Q 046192           64 VNLIITDYCMPGMTGYDLLRKIKESASLKDIPVVIMSSENIPSRI-----NRCLEEGAEEFFLKPVQLADVNKLKPHLMK  138 (187)
Q Consensus        64 ~dlvi~d~~~~~~~g~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~-----~~a~~~ga~~yl~kP~~~~~l~~~i~~~~~  138 (187)
                      .|++++--.. ...|.-+++.+..     .+|+|......-.+.+     ......+.++|+..|.++++|.+++.+++.
T Consensus       366 aD~~v~PS~~-E~fglv~lEAma~-----G~PvVas~~GG~~E~v~d~~~~~~~~~~~~G~l~~~~d~~~la~ai~~~l~  439 (477)
T d1rzua_         366 CDAIIIPSRF-EPCGLTQLYALRY-----GCIPVVARTGGLADTVIDANHAALASKAATGVQFSPVTLDGLKQAIRRTVR  439 (477)
T ss_dssp             CSEEEECCSC-CSSCSHHHHHHHH-----TCEEEEESSHHHHHHCCBCCHHHHHTTCCCBEEESSCSHHHHHHHHHHHHH
T ss_pred             CccccCCccc-cCCCHHHHHHHHc-----CCCEEEcCCCCCcceeecCCccccccCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            4577776553 6678888888876     7788864432222211     122344578999999999999999988775

>d2fy8a1 c.2.1.9 (A:116-244) Potassium channel-related protein MthK {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]}

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: Potassium channel-related protein MthK
species: Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]

Probab=81.64  E-value=4.1  Score=25.10  Aligned_cols=91  Identities=12%  Similarity=0.105  Sum_probs=56.7

Q ss_pred             EEEEEeCCHHHHHHHHHHHHhCCceEEEe-CCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHHHhh
Q 046192           10 HVLAVDDSIIDRKLIERLLKTSSYQVTAV-DSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKIKES   88 (187)
Q Consensus        10 ~ilivd~~~~~~~~l~~~l~~~~~~v~~~-~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l~~~   88 (187)
                      .|.++|.++...+.+    ...|+.+... .+..+.++...-           ...+.+++-..- +..-..++..+|+.
T Consensus        23 ~i~vi~~d~~~~~~~----~~~~~~~i~Gd~~~~~~L~~a~i-----------~~A~~vi~~~~~-d~~n~~~~~~~r~~   86 (129)
T d2fy8a1          23 EVFVLAEDENVRKKV----LRSGANFVHGDPTRVSDLEKANV-----------RGARAVIVNLES-DSETIHCILGIRKI   86 (129)
T ss_dssp             GEEEEESCTTHHHHH----HHTTCEEEESCTTSHHHHHHTTC-----------TTCSEEEECCSS-HHHHHHHHHHHHHH
T ss_pred             CCEEEEcchHHHHHH----HhcCccccccccCCHHHHHHhhh-----------hcCcEEEEeccc-hhhhHHHHHHHHHH
Confidence            466777777665433    3457766553 334566666533           234577765432 23344566777887


Q ss_pred             cCCCCCcEEEEeCCCChhHHHHHHHhCCCcee
Q 046192           89 ASLKDIPVVIMSSENIPSRINRCLEEGAEEFF  120 (187)
Q Consensus        89 ~~~~~~~iI~ls~~~~~~~~~~a~~~ga~~yl  120 (187)
                      +|  +.++++.+.  +.+......++|++..+
T Consensus        87 ~~--~~~iia~~~--~~~~~~~l~~~G~d~vi  114 (129)
T d2fy8a1          87 DE--SVRIIAEAE--RYENIEQLRMAGADQVI  114 (129)
T ss_dssp             CS--SSCEEEECS--SGGGHHHHHHHHCSEEE
T ss_pred             CC--CceEEEEEc--CHHHHHHHHHCCCCEEE
Confidence            76  788877765  56777778889998654

>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=80.47  E-value=5.4  Score=26.39  Aligned_cols=71  Identities=17%  Similarity=0.168  Sum_probs=50.0

Q ss_pred             eEEEEEeCCHHHHHHHHHHHHhCCc--eEE-EeCCHHHHHHHHhccCcccccccccccccEEEEeccCCCCCHHHHHHHH
Q 046192            9 FHVLAVDDSIIDRKLIERLLKTSSY--QVT-AVDSGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPGMTGYDLLRKI   85 (187)
Q Consensus         9 ~~ilivd~~~~~~~~l~~~l~~~~~--~v~-~~~~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~~~g~~~~~~l   85 (187)
                      -.|..||.++.....+..-++..+.  .+. ...+....++.+..         ...+||+|++|---......+++..|
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            4789999999999999998876542  333 35677777766532         33469999999643345567778877


Q ss_pred             Hhh
Q 046192           86 KES   88 (187)
Q Consensus        86 ~~~   88 (187)
                      .+.
T Consensus       136 ~~~  138 (182)
T d2fhpa1         136 LER  138 (182)
T ss_dssp             HHT
T ss_pred             HHC
Confidence            653

>d1ka9f_ c.1.2.1 (F:) Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Histidine biosynthesis enzymes
domain: Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF
species: Thermus thermophilus [TaxId: 274]

Probab=80.01  E-value=4.7  Score=28.19  Aligned_cols=69  Identities=17%  Similarity=0.198  Sum_probs=51.5

Q ss_pred             CHHHHHHHHhccCcccccccccccccEEEEeccCCC-CCH--HHHHHHHHhhcCCCCCcEEEEeCCCChhHHHHHHHhCC
Q 046192           40 SGNKALEFLGLLNEDEQTNSQVIQVNLIITDYCMPG-MTG--YDLLRKIKESASLKDIPVVIMSSENIPSRINRCLEEGA  116 (187)
Q Consensus        40 ~~~~a~~~l~~~~~~~~~~~~~~~~dlvi~d~~~~~-~~g--~~~~~~l~~~~~~~~~~iI~ls~~~~~~~~~~a~~~ga  116 (187)
                      +..+.+..+....++          .+++.|+.-.| +.|  +++++.+.+..   ..|+|+-..-.+.+...++++.|+
T Consensus       152 ~~~~~~~~~~~~g~~----------eii~tdi~~dG~~~G~d~~l~~~i~~~~---~~pii~~GGv~~~~dl~~l~~~g~  218 (251)
T d1ka9f_         152 HAVEWAVKGVELGAG----------EILLTSMDRDGTKEGYDLRLTRMVAEAV---GVPVIASGGAGRMEHFLEAFQAGA  218 (251)
T ss_dssp             EHHHHHHHHHHHTCC----------EEEEEETTTTTTCSCCCHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHhcCCC----------EEEEEeecccCccCCcchhHHHHHHhhc---ceeEEEecCCCCHHHHHHHHHCCC
Confidence            344556655444443          29999997766 334  67888887764   789999888899999999999999


Q ss_pred             Cceee
Q 046192          117 EEFFL  121 (187)
Q Consensus       117 ~~yl~  121 (187)
                      ++.+.
T Consensus       219 ~gvii  223 (251)
T d1ka9f_         219 EAALA  223 (251)
T ss_dssp             SEEEE
T ss_pred             CEEEE
Confidence            88764