Citrus Sinensis ID: 026239

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-
Protein Sequence
MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV
Secondary Structure (PSIPRED)
cccHHHHHHHccccccEEEEEcccHHcHHHHHHHHHHcccEEEEEccHHHHHHHHccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccEEEEEcccHHHHHHHHHHHHHcccEEEEcccHHHHHHHHHcccccccccccccccHHccccccEEEEEcccccccHHHHHHHHcccccHccccEEEEEccccHHHHHHHHHHcHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHccHHccccccccccccccccccHHccccccHcccccccccccEcccccHHHHHHHHHHHHccccccccccccEEEEc
Coil and Loop (DISEMBL)
MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEflglheddgqsshsvypnmhqeVGVNLVItdycmpgmtgYDLLKKIKessslrdipvvimssenvpsRISRCLEegaeefflkpvrlsdlnklkphLMKTKIKDQIKQQSQQQqeeesdesdfqspsppqqqpqesQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALeeglspertrpryngiatvv
Flexible Loop (DISEMBL)
MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTssyqvttvdSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRdipvvimssenvpsRISRCLEEGAEefflkpvrlsdlnKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKaleeglspertrpryngiatvv
Low Complexity Region (SEG)
MGMaaaaaaavaESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKqqsqqqqeeesdesdfqspsppqqqpqesqqsqqqqqqqqqqqqqqqqqqqqsNNNKRKALEEGLSPERTRPRYNGIATVV
Disordered region (IsUnstruct)
*********AVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLH*********VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSD***************************************************************************************************
Disordered Region (DISOPRED)
****************HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK****************************************************************************************V
Disordered Region (DISEMBL)
***********AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK******************************************************************LEEGLSPERTRPRYNGIATVV
Disordered Region (DISPRO)
*************SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLH****************EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQ***********************************************QQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMxxxxxxxxxxxxxxxxxxxxxESDFQSPSPPQQQPQExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGLSPERTRPRYNGIATVV
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	241	2.2.26 [Sep-21-2011]
O80366	234	Two-component response re	yes	no	0.941	0.970	0.612	3e-75
O80365	225	Two-component response re	no	no	0.912	0.977	0.597	1e-69
O82798	259	Two-component response re	no	no	0.597	0.555	0.569	2e-45
Q9SB04	184	Two-component response re	no	no	0.547	0.717	0.615	6e-45
Q9ZWS9	231	Two-component response re	no	no	0.543	0.567	0.601	6e-45
Q7G8V2	206	Two-component response re	no	no	0.543	0.635	0.601	3e-44
Q9ZWS7	206	Two-component response re	no	no	0.601	0.703	0.552	4e-44
Q9FPR6	153	Two-component response re	no	no	0.609	0.960	0.542	2e-43
Q9ZWS6	186	Two-component response re	no	no	0.614	0.795	0.554	5e-43
Q9SHC2	164	Two-component response re	no	no	0.572	0.841	0.563	3e-42

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

 Score =  281 bits (719), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 152/248 (61%), Positives = 180/248 (72%), Gaps = 21/248 (8%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLH-- 58
           MGMAA       ESQFHVLAVDDS+ DRKLIERLL+ SS QVTTVDSGSKALEFLGL   
Sbjct: 1   MGMAA-------ESQFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQS 53

Query: 59  -EDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSEN 117
            + +  ++ S  P  HQ V VNL+ITDYCMPGMTGYDLLKK+KESS+ RDIPVVIMSSEN
Sbjct: 54  TDSNDPNAFSKAPVNHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSEN 113

Query: 118 VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQ 177
           VP+RISRCLEEGAEEFFLKPVRL+DLNKLKPH+MKTK+K+       Q+ EE    S  +
Sbjct: 114 VPARISRCLEEGAEEFFLKPVRLADLNKLKPHMMKTKLKN-------QKLEEIETTSKVE 166

Query: 178 SPSPPQQQPQESQQSQQQQQQ----QQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPR 233
           +  P      E + S   + +    QQ     QQ++Q  S NNKRK++EEG+S +R RPR
Sbjct: 167 NGVPTAVADPEIKDSTNIEIEILPLQQDLLLVQQEEQTLSINNKRKSVEEGISTDRARPR 226

Query: 234 YNGIATVV 241
           ++GIAT V
Sbjct: 227 FDGIATAV 234

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 =  263 bits (671), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 138/231 (59%), Positives = 172/231 (74%), Gaps = 11/231 (4%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQ-SSHSVYP 70
            ES+FHVLAVDDS+ DRK+IERLL+ SS QVTTVDSGSKALEFLGL  DD   ++ S  P
Sbjct: 5   TESKFHVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNALSTSP 64

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
            +HQEV +NL+ITDYCMPGMTGYDLLKK+KES++ R IPVVIMSSENVP+RISRCLEEGA
Sbjct: 65  QIHQEVEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCLEEGA 124

Query: 131 EEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQ 190
           EEFFLKPV+L+DL KLKPH+MKTK+K   K+  +    EE         S P+ + +E +
Sbjct: 125 EEFFLKPVKLADLTKLKPHMMKTKLK---KESEKPVAIEEI------VVSKPEIEEEEEE 175

Query: 191 QSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
            S  +     Q+ + +Q +   S +NKRKA+EE +S +R+RP+YN I T V
Sbjct: 176 SSVIEILPLHQEIESEQLEPMLS-SNKRKAMEEVVSTDRSRPKYNDITTSV 225

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 =  182 bits (462), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 86/151 (56%), Positives = 116/151 (76%), Gaps = 7/151 (4%)

Query: 2   GMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDD 61
           G+    +A +   + HVLAVDDS++DR +IERLL+ +S +VT VDSG +ALEFLGL   D
Sbjct: 20  GIGGIESAPLDLDEVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGL---D 76

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSR 121
            + + + +  +     V+L+ITDYCMPGMTGY+LLKKIKESS+ R++PVVIMSSENV +R
Sbjct: 77  NEKASAEFDRLK----VDLIITDYCMPGMTGYELLKKIKESSNFREVPVVIMSSENVLTR 132

Query: 122 ISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK 152
           I RCLEEGA++F LKPV+L+D+ +L+ HL K
Sbjct: 133 IDRCLEEGAQDFLLKPVKLADVKRLRSHLTK 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. Modulates red light signaling through its interaction with the phytochrome B photoreceptor.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  181 bits (458), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 85/138 (61%), Positives = 112/138 (81%), Gaps = 6/138 (4%)

Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            HVLAVDDS++DRK IERLL+ SS +VT VDS ++AL++LGL   DG+++ SV     ++
Sbjct: 25  LHVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGL---DGENNSSVG---FED 78

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
           + +NL++TDY MPGMTGY+LLKKIKESS+ R+IPVVIMSSEN+  RI RCLEEGAE+F L
Sbjct: 79  LKINLIMTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLL 138

Query: 136 KPVRLSDLNKLKPHLMKT 153
           KPV+L+D+ +L+  LMK 
Sbjct: 139 KPVKLADVKRLRDSLMKA 156

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

 Score =  181 bits (458), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 83/138 (60%), Positives = 108/138 (78%), Gaps = 7/138 (5%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           Q HVLAVDDS++DR +IERLL+ +S +VT VDSG +ALEFLGL +D              
Sbjct: 32  QVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGLDDDKAAVEF-------D 84

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
            + V+L+ITDYCMPGMTGY+LLKKIKES+S +++PVVIMSSENV +RI RCLEEGAE+F 
Sbjct: 85  RLKVDLIITDYCMPGMTGYELLKKIKESTSFKEVPVVIMSSENVMTRIDRCLEEGAEDFL 144

Query: 135 LKPVRLSDLNKLKPHLMK 152
           LKPV+L+D+ +L+ +L +
Sbjct: 145 LKPVKLADVKRLRSYLTR 162

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 =  178 bits (451), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 83/138 (60%), Positives = 112/138 (81%), Gaps = 7/138 (5%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           + HVLAVDDS +DRK+IERLLK S+ +VTTV+SG++AL++LGL  D+G S         +
Sbjct: 17  ELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGL-------K 69

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
           ++ VNL++TDY MPG+TGY+LLKKIKESS+LR+IPVVIMSSEN+  RI +C+ EGAEEF 
Sbjct: 70  DLKVNLIVTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFL 129

Query: 135 LKPVRLSDLNKLKPHLMK 152
           LKPV+L+D+ +LK  +M+
Sbjct: 130 LKPVKLADVKRLKELIMR 147

Functions as response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  177 bits (450), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 84/152 (55%), Positives = 118/152 (77%), Gaps = 7/152 (4%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           M + A     V   + HVLAVDDSI+DRK+IERLL+ SS +VTTV+SG++AL++LGL  D
Sbjct: 9   MEIPAGGDLTVTTPELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGL--D 66

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPS 120
            G+ + ++     +++ VNL++TDY MPG++GYDLLKKIKESS+ R++PVVIMSSEN+  
Sbjct: 67  GGKGASNL-----KDLKVNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILP 121

Query: 121 RISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK 152
           RI  CL+EGAEEF LKPV+L+D+ ++K  +M+
Sbjct: 122 RIQECLKEGAEEFLLKPVKLADVKRIKQLIMR 153

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 =  175 bits (444), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 83/153 (54%), Positives = 117/153 (76%), Gaps = 6/153 (3%)

Query: 2   GMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDD 61
           G  + +  +  E + HVLAVDD++IDRKL+ER+LK SS +VTT ++G +ALE+LGL   D
Sbjct: 6   GSGSDSCLSSMEEELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGL--GD 63

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSR 121
            Q + S+   M     VNL+ITDYCMPGMTG++LLKK+KESS+L+++PVVI+SSEN+P+R
Sbjct: 64  PQQTDSLTNVMK----VNLIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTR 119

Query: 122 ISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK 154
           I++CL  GA+ F  KP++LSD+ KLK HL+  +
Sbjct: 120 INKCLASGAQMFMQKPLKLSDVEKLKCHLLNCR 152

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 =  174 bits (441), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 87/157 (55%), Positives = 118/157 (75%), Gaps = 9/157 (5%)

Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            HVLAVDDS +DRK IERLL+ SS +VT VDS ++AL++LGL  ++            ++
Sbjct: 25  LHVLAVDDSHVDRKFIERLLRVSSCKVTVVDSATRALQYLGLDVEEKSVGF-------ED 77

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
           + VNL++TDY MPGMTGY+LLKKIKESS+ R++PVVIMSSEN+  RI RCLEEGAE+F L
Sbjct: 78  LKVNLIMTDYSMPGMTGYELLKKIKESSAFREVPVVIMSSENILPRIDRCLEEGAEDFLL 137

Query: 136 KPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESD 172
           KPV+LSD+ +L+  LM  K++D    +S Q++E E++
Sbjct: 138 KPVKLSDVKRLRDSLM--KVEDLSFTKSIQKRELETE 172

Functions as response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Type-A response regulators seem to act as negative regulators of the cytokinin signaling.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  172 bits (435), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 80/142 (56%), Positives = 112/142 (78%), Gaps = 4/142 (2%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           + + HVLAVDD++IDRKL+ERLLK S  +VTT ++  +ALE+LGL  D  Q   ++  N+
Sbjct: 26  DEELHVLAVDDNLIDRKLVERLLKISCCKVTTAENALRALEYLGL-GDQNQHIDALTCNV 84

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
            +   V+L+ITDYCMPGMTG++LLKK+KESS+LR++PVVIMSSEN+P+RI++CL  GA+ 
Sbjct: 85  MK---VSLIITDYCMPGMTGFELLKKVKESSNLREVPVVIMSSENIPTRINKCLASGAQM 141

Query: 133 FFLKPVRLSDLNKLKPHLMKTK 154
           F  KP++L+D+ KLK HLM  +
Sbjct: 142 FMQKPLKLADVEKLKCHLMNCR 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)

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	241
388497694	239	unknown [Medicago truncatula]	0.970	0.979	0.703	3e-83
224086847	233	type-a response regulator [Populus trich	0.925	0.957	0.709	9e-82
370988687	227	type-A response regulator [Petunia x hyb	0.933	0.991	0.652	3e-80
309951238	227	putative A-type response regulator 7 [Po	0.900	0.955	0.682	6e-79
359807137	244	uncharacterized protein LOC100814494 [Gl	0.950	0.938	0.674	6e-79
309951236	230	putative A-type response regulator 6 [Po	0.912	0.956	0.705	7e-79
224137712	227	type-a response regulator [Populus trich	0.900	0.955	0.678	1e-78
358248966	248	uncharacterized protein LOC100788079 [Gl	0.958	0.931	0.674	4e-78
225441254	218	PREDICTED: two-component response regula	0.904	1.0	0.691	2e-77
255583668	221	two-component system sensor histidine ki	0.896	0.977	0.675	9e-77

>gi|388497694|gb|AFK36913.1| unknown [Medicago truncatula]

 Score =  313 bits (803), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 173/246 (70%), Positives = 195/246 (79%), Gaps = 12/246 (4%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           MGMAA       ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGL E+
Sbjct: 1   MGMAA-------ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLCEN 53

Query: 61  D--GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENV 118
           D    ++ SV+PN HQEV VNLVITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSENV
Sbjct: 54  DETNPNTPSVFPNNHQEVEVNLVITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENV 113

Query: 119 PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQS 178
           PSRI+RCLEEGAEEFFLKPVRLSDLN+LKPH+ KT++KDQ ++  Q+ +  E  E++ Q 
Sbjct: 114 PSRINRCLEEGAEEFFLKPVRLSDLNRLKPHMKKTQLKDQNQETEQKIENSEILENEEQH 173

Query: 179 -PSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPE--RTRPRYN 235
             S  Q    ES+   Q Q Q      QQQQ  QQ+NNNKRK++E+ LS E  RTRPRY+
Sbjct: 174 QASKSQHSHLESESQTQTQLQAHSTIDQQQQSLQQANNNKRKSVEQSLSFETDRTRPRYS 233

Query: 236 GIATVV 241
           GIATVV
Sbjct: 234 GIATVV 239

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224086847|ref|XP_002307983.1| type-a response regulator [Populus trichocarpa] gi|222853959|gb|EEE91506.1| type-a response regulator [Populus trichocarpa]

 Score =  308 bits (790), Expect = 9e-82,   Method: Compositional matrix adjust.
 Identities = 166/234 (70%), Positives = 190/234 (81%), Gaps = 11/234 (4%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSH----S 67
           + SQFHVLAVDDS+IDRKLIERLLKTSSYQVT VDSGSKAL+FLGLHE+D  S+     S
Sbjct: 7   SHSQFHVLAVDDSMIDRKLIERLLKTSSYQVTAVDSGSKALKFLGLHEEDDHSNPDTVPS 66

Query: 68  VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE 127
           V PN H+EV VNL+ITDYCMPGMTGYDLLKK+KESSSLRDIPVVIMSSENVPSRI+RCLE
Sbjct: 67  VSPNDHREVEVNLIITDYCMPGMTGYDLLKKVKESSSLRDIPVVIMSSENVPSRITRCLE 126

Query: 128 EGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQ 187
           EGAEEFFLKPVRL+DLN+LKPH+MKTKIK++     +Q+ +E+ + S+ QS    Q QP 
Sbjct: 127 EGAEEFFLKPVRLADLNRLKPHMMKTKIKNE-----KQEDQEKLENSEIQSEQ--QPQPP 179

Query: 188 ESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
              Q Q Q Q + Q Q Q     QQ NNNKRKA+EEGLSP+RTRPRYNGI T+V
Sbjct: 180 SQPQPQPQPQLESQSQPQPSPLLQQPNNNKRKAMEEGLSPDRTRPRYNGITTMV 233

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|370988687|dbj|BAL43557.1| type-A response regulator [Petunia x hybrida]

 Score =  303 bits (777), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 158/242 (65%), Positives = 184/242 (76%), Gaps = 17/242 (7%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGL--H 58
           MGMAAA      ESQFHVLAVDDS+IDRKLIERLLKTSS QVTTVDSGSKALEFLGL  H
Sbjct: 1   MGMAAA------ESQFHVLAVDDSLIDRKLIERLLKTSSCQVTTVDSGSKALEFLGLQEH 54

Query: 59  EDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENV 118
           E +  +   V  + HQE  +NL+ITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSENV
Sbjct: 55  EQNKSNQPCVSLDNHQEAEINLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENV 114

Query: 119 PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQS 178
           PSRI+RCLEEGAEEFFLKPVRLSD+NKL+PH+MK+K K   ++ +++    E  ES  + 
Sbjct: 115 PSRINRCLEEGAEEFFLKPVRLSDVNKLRPHMMKSKCKTHQEEVAEKIVTVEKQES-IEI 173

Query: 179 PSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIA 238
              P Q P        Q Q Q +    QQQQ+ Q+N+NKRKA+EE LSP+RTRPRYNG+ 
Sbjct: 174 AHVPSQIP--------QTQAQTESDAVQQQQKSQANSNKRKAMEENLSPDRTRPRYNGLT 225

Query: 239 TV 240
            +
Sbjct: 226 AI 227

Source: Petunia x hybrida

Species: Petunia x hybrida

Genus: Petunia

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951238|emb|CBX43989.1| putative A-type response regulator 7 [Populus x canadensis]

 Score =  299 bits (766), Expect = 6e-79,   Method: Compositional matrix adjust.
 Identities = 157/230 (68%), Positives = 181/230 (78%), Gaps = 13/230 (5%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHS--VYPN 71
           SQFHVLAVDDS+IDRKLIERLLKTSSYQVTTVDSGSKAL+FLGL ED+  +  +  V PN
Sbjct: 9   SQFHVLAVDDSLIDRKLIERLLKTSSYQVTTVDSGSKALKFLGLQEDEQSNPDTPFVSPN 68

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
            HQEV VNL+ITDYCMPGMTGYDLLKK+KESSSLR+IPVVIMSSENVPSRI+RCLEEGAE
Sbjct: 69  NHQEVEVNLIITDYCMPGMTGYDLLKKVKESSSLRNIPVVIMSSENVPSRITRCLEEGAE 128

Query: 132 EFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQ 191
           EFFLKPVRLSDLN+LKPH+MKTKIK+Q +++ ++ +               Q + Q+   
Sbjct: 129 EFFLKPVRLSDLNRLKPHMMKTKIKNQKQEEQEELEMPTI-----------QSEEQKQPV 177

Query: 192 SQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
            Q   Q Q + Q Q      Q NNNKRKA+EEGLSP+RTRPRYNGI T+V
Sbjct: 178 QQPSSQPQPESQPQPSALLLQPNNNKRKAMEEGLSPDRTRPRYNGITTMV 227

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359807137|ref|NP_001241095.1| uncharacterized protein LOC100814494 [Glycine max] gi|255647755|gb|ACU24338.1| unknown [Glycine max]

 Score =  299 bits (766), Expect = 6e-79,   Method: Compositional matrix adjust.
 Identities = 164/243 (67%), Positives = 189/243 (77%), Gaps = 14/243 (5%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDD--GQSSHSVY 69
           AESQFHVLAVDDS+IDRKLIERLL+TSSY+VTTVDSGSKALEFLGL E+D    S+  V 
Sbjct: 3   AESQFHVLAVDDSLIDRKLIERLLRTSSYEVTTVDSGSKALEFLGLCENDESNPSTPYVC 62

Query: 70  PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
           PN HQEV VNLVITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSENVPSRI+RCLEEG
Sbjct: 63  PNNHQEVEVNLVITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRINRCLEEG 122

Query: 130 AEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEE---------ESDESDFQSPS 180
           AEEFFLKPVRLSDLNKLKPH+ KTK+KDQ KQ + ++ E+         +      +   
Sbjct: 123 AEEFFLKPVRLSDLNKLKPHMKKTKLKDQ-KQGTVEKLEDLEVQQQQPQQQIIIQNEQQQ 181

Query: 181 PPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPE--RTRPRYNGIA 238
            P+ +     +S+     Q   +QQQQ  QQ +NN+KRK +E+GLSPE  RTRPRY+GIA
Sbjct: 182 APKSRDLLQPESESHPHAQPTIEQQQQSLQQANNNSKRKTMEQGLSPETDRTRPRYSGIA 241

Query: 239 TVV 241
           TVV
Sbjct: 242 TVV 244

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309951236|emb|CBX43988.1| putative A-type response regulator 6 [Populus x canadensis]

 Score =  299 bits (765), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 165/234 (70%), Positives = 190/234 (81%), Gaps = 14/234 (5%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSH----S 67
           + SQFHVLAVDDS+IDRKLIERLLKTSSYQVT VDSGSKAL+FLGLHE+D QS+     S
Sbjct: 7   SHSQFHVLAVDDSMIDRKLIERLLKTSSYQVTAVDSGSKALKFLGLHEEDDQSNPDTVPS 66

Query: 68  VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE 127
           V PN H+EV VNL+ITDYCMPGMTGYDLLKK+KESSSLRDIPVVIMSSENVPSRI+RCLE
Sbjct: 67  VCPNDHREVEVNLIITDYCMPGMTGYDLLKKVKESSSLRDIPVVIMSSENVPSRITRCLE 126

Query: 128 EGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQ 187
           EGAEEFFLKPVRL+DLN+LKPH+MKTKIK++ KQ+ Q++ E+   +          +Q Q
Sbjct: 127 EGAEEFFLKPVRLADLNRLKPHMMKTKIKNE-KQEDQEKLEKSEIQ---------SEQQQ 176

Query: 188 ESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
           +  Q Q Q Q + Q Q Q     QQ NNNKRKA+EEGLSP+RTRPRYNGI T+V
Sbjct: 177 QPLQPQPQPQPESQSQPQPLPLLQQPNNNKRKAMEEGLSPDRTRPRYNGITTMV 230

Source: Populus x canadensis

Species: Populus x canadensis

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224137712|ref|XP_002322625.1| type-a response regulator [Populus trichocarpa] gi|222867255|gb|EEF04386.1| type-a response regulator [Populus trichocarpa]

 Score =  298 bits (763), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 156/230 (67%), Positives = 181/230 (78%), Gaps = 13/230 (5%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVY--PN 71
           SQFHVLAVDDS+IDRKLIERLLKTSSYQVTTVDSGSKAL+FLGL ED+  +  + Y  PN
Sbjct: 9   SQFHVLAVDDSLIDRKLIERLLKTSSYQVTTVDSGSKALKFLGLQEDEQSNPDTPYVSPN 68

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
            HQE+ VNL+ITDYCMPGMTGYDLLKK+KESSSLR+IPVVIMSSENVPSRI+RCLEEGAE
Sbjct: 69  NHQEMEVNLIITDYCMPGMTGYDLLKKVKESSSLRNIPVVIMSSENVPSRITRCLEEGAE 128

Query: 132 EFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQ 191
           EFFLKPVRLSDLN+LKPH+MKTKIK+Q +++ ++ +               Q + Q+   
Sbjct: 129 EFFLKPVRLSDLNRLKPHMMKTKIKNQKQEEQEELEIPAI-----------QSEEQKQPV 177

Query: 192 SQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
            Q   Q Q + Q Q      Q NNNKRKA+EEGLSP+RTRPRYNGI T+V
Sbjct: 178 QQPSSQPQPESQPQPSALLLQPNNNKRKAMEEGLSPDRTRPRYNGITTMV 227

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248966|ref|NP_001240226.1| uncharacterized protein LOC100788079 [Glycine max] gi|255641691|gb|ACU21117.1| unknown [Glycine max]

 Score =  296 bits (759), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 174/258 (67%), Positives = 194/258 (75%), Gaps = 27/258 (10%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           MGMAAA      ESQFHVLAVDDSIIDRKLIERLL+TSSYQVTTVDSGSKALEFLGL E+
Sbjct: 1   MGMAAA------ESQFHVLAVDDSIIDRKLIERLLRTSSYQVTTVDSGSKALEFLGLREN 54

Query: 61  D--GQSSHSVYPNMHQ--EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE 116
           D    S  SV PN HQ  EV VNLVITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSE
Sbjct: 55  DESNPSIPSVCPNNHQPQEVEVNLVITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSE 114

Query: 117 NVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEE------ 170
           NVPSRI+RCLEEGAEEFFLKPVRLSDLNKLKPH+ KTK KDQ ++  ++ ++ E      
Sbjct: 115 NVPSRINRCLEEGAEEFFLKPVRLSDLNKLKPHMKKTKFKDQKQETVERFEDSEVQQQQS 174

Query: 171 -----SDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGL 225
                      Q+P     QP    +S+ +   Q   +QQQQ  QQ +NNNKRK +E+GL
Sbjct: 175 QQQIIIQNEHHQAPKLQVLQP----ESESESHPQPTIEQQQQILQQANNNNKRKTMEQGL 230

Query: 226 SPE--RTRPRYNGIATVV 241
           SPE  RTRPRY+GIATVV
Sbjct: 231 SPETDRTRPRYSGIATVV 248

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225441254|ref|XP_002273990.1| PREDICTED: two-component response regulator ARR9 [Vitis vinifera]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 166/240 (69%), Positives = 194/240 (80%), Gaps = 22/240 (9%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           MGM+        ESQFHVLAVDDS+IDRKLIE+LLK SSYQVTTVDSGSKALEFLGLHE+
Sbjct: 1   MGMST-------ESQFHVLAVDDSLIDRKLIEKLLKNSSYQVTTVDSGSKALEFLGLHEN 53

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPS 120
           D  +  SV PN HQEV VNL+ITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSENVPS
Sbjct: 54  DPNTP-SVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPS 112

Query: 121 RISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPS 180
           RI+RCLEEGAEEFFLKPV++SD+N+LKPH+MK K KDQ ++  ++Q+++E +  + +   
Sbjct: 113 RITRCLEEGAEEFFLKPVQISDVNRLKPHMMKAKSKDQQQENEEKQEKQEEESKETEKSE 172

Query: 181 PPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATV 240
           P              + QQ QQQQQQQQQQQQSNNNKRKA+EEGLSP+RTRPRY+G+  V
Sbjct: 173 P--------------ESQQPQQQQQQQQQQQQSNNNKRKAIEEGLSPDRTRPRYSGLTVV 218

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583668|ref|XP_002532588.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis] gi|223527676|gb|EEF29785.1| two-component system sensor histidine kinase/response regulator, putative [Ricinus communis]

 Score =  292 bits (747), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 160/237 (67%), Positives = 180/237 (75%), Gaps = 21/237 (8%)

Query: 9   AAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSH-- 66
           +   ES+FHVLAVDDS+IDRKLIE+LLK SSYQVTTVDSGSKAL+FLGLHEDD  S    
Sbjct: 2   SVATESKFHVLAVDDSLIDRKLIEKLLKISSYQVTTVDSGSKALQFLGLHEDDRSSPEIP 61

Query: 67  SVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCL 126
           SV PN HQEV VNL+ITDYCMPGMTGYDLLKKIKESSSL++IPVVIMSSENVP+RI+RCL
Sbjct: 62  SVSPNSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLKNIPVVIMSSENVPARITRCL 121

Query: 127 EEGAEEFFLKPVRLSDLNKLKPHLMKTKIKD--QIKQQSQQQQEEESDESDFQSPSPPQQ 184
           EEGAEEFFLKPV+LSDLN+L+PH+MKTK K+  Q KQ++QQ  EE               
Sbjct: 122 EEGAEEFFLKPVQLSDLNRLRPHMMKTKSKNDKQEKQENQQVLEE--------------- 166

Query: 185 QPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
              E Q   Q  Q Q         QQ  +NNNKRK++EEGLSPERTRPRYN I TVV
Sbjct: 167 --SEVQSQLQSSQTQHLLSPPPPPQQPLNNNNKRKSMEEGLSPERTRPRYNDITTVV 221

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	241
TAIR|locus:2080590	234	ARR9 "response regulator 9" [A	0.605	0.623	0.778	1.6e-65
TAIR|locus:2040282	225	RR3 "response regulator 3" [Ar	0.605	0.648	0.761	2.6e-63
UNIPROTKB|Q4GZK2	201	rr9 "Type A response regulator	0.593	0.711	0.772	4.2e-59
UNIPROTKB|Q4GZK7	232	rr4 "Type A response regulator	0.589	0.612	0.763	1.9e-53
TAIR|locus:2194584	259	ARR4 "response regulator 4" [A	0.543	0.505	0.608	2e-41
TAIR|locus:2097870	184	RR5 "response regulator 5" [Ar	0.547	0.717	0.615	5.3e-40
TAIR|locus:2102509	153	RR17 "response regulator 17" [	0.564	0.888	0.577	1.8e-39
TAIR|locus:2027237	206	ARR15 "response regulator 15"	0.543	0.635	0.601	2.3e-39
TAIR|locus:2011286	206	ARR7 "response regulator 7" [A	0.564	0.660	0.566	2.9e-39
TAIR|locus:2025911	231	ARR3 "response regulator 3" [A	0.543	0.567	0.608	7.8e-39

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

 Score = 584 (210.6 bits), Expect = 1.6e-65, Sum P(2) = 1.6e-65
 Identities = 116/149 (77%), Positives = 130/149 (87%)

Query:    13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVY--- 69
             ESQFHVLAVDDS+ DRKLIERLL+ SS QVTTVDSGSKALEFLGL +    +  + +   
Sbjct:     6 ESQFHVLAVDDSLFDRKLIERLLQKSSCQVTTVDSGSKALEFLGLRQSTDSNDPNAFSKA 65

Query:    70 PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
             P  HQ V VNL+ITDYCMPGMTGYDLLKK+KESS+ RDIPVVIMSSENVP+RISRCLEEG
Sbjct:    66 PVNHQVVEVNLIITDYCMPGMTGYDLLKKVKESSAFRDIPVVIMSSENVPARISRCLEEG 125

Query:   130 AEEFFLKPVRLSDLNKLKPHLMKTKIKDQ 158
             AEEFFLKPVRL+DLNKLKPH+MKTK+K+Q
Sbjct:   126 AEEFFLKPVRLADLNKLKPHMMKTKLKNQ 154

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005515 "protein binding" evidence=IPI

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

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

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

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

GO:0010162 "seed dormancy process" evidence=RCA

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

 Score = 579 (208.9 bits), Expect = 2.6e-63, Sum P(2) = 2.6e-63
 Identities = 112/147 (76%), Positives = 130/147 (88%)

Query:    13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQ-SSHSVYPN 71
             ES+FHVLAVDDS+ DRK+IERLL+ SS QVTTVDSGSKALEFLGL  DD   ++ S  P 
Sbjct:     6 ESKFHVLAVDDSLFDRKMIERLLQKSSCQVTTVDSGSKALEFLGLRVDDNDPNALSTSPQ 65

Query:    72 MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             +HQEV +NL+ITDYCMPGMTGYDLLKK+KES++ R IPVVIMSSENVP+RISRCLEEGAE
Sbjct:    66 IHQEVEINLIITDYCMPGMTGYDLLKKVKESAAFRSIPVVIMSSENVPARISRCLEEGAE 125

Query:   132 EFFLKPVRLSDLNKLKPHLMKTKIKDQ 158
             EFFLKPV+L+DL KLKPH+MKTK+K +
Sbjct:   126 EFFLKPVKLADLTKLKPHMMKTKLKKE 152

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

GO:0005515 "protein binding" evidence=IPI

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

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

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

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

 Score = 566 (204.3 bits), Expect = 4.2e-59, Sum P(2) = 4.2e-59
 Identities = 112/145 (77%), Positives = 130/145 (89%)

Query:    13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
             E+ FHVLAVDDS+ DRKLIERLLKTSS+QVTTVDSGSKALEFLGLH+ +  S  S   + 
Sbjct:     6 EAPFHVLAVDDSLPDRKLIERLLKTSSFQVTTVDSGSKALEFLGLHDHE-DSPISTQSDQ 64

Query:    73 HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
              QEV VNL+ITDYCMPGMTGYDLLKKIKESS LRDIPVVIMSS+N+PSRI+RCLEEGA+E
Sbjct:    65 -QEVAVNLIITDYCMPGMTGYDLLKKIKESSYLRDIPVVIMSSDNIPSRINRCLEEGADE 123

Query:   133 FFLKPVRLSDLNKLKPHLMKTKIKD 157
             FFLKPVRLSD++KLKPH++K++ K+
Sbjct:   124 FFLKPVRLSDMSKLKPHILKSRCKE 148

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

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

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 110/144 (76%), Positives = 125/144 (86%)

Query:    13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHE--DDGQSSHSVYP 70
             ES+FHVLAVDDS+IDRKLIE LLK SSYQVTTVDSGSKALE LGL +  DD  SS S   
Sbjct:     7 ESRFHVLAVDDSLIDRKLIEMLLKNSSYQVTTVDSGSKALELLGLRDEGDDSSSSPSSSS 66

Query:    71 NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
               HQE+ VNL+ITDYCMPGMTGYDLLK++K SSSL+DIPVVIMSSENVP+RI+RCLE+GA
Sbjct:    67 PDHQEIDVNLIITDYCMPGMTGYDLLKRVKGSSSLKDIPVVIMSSENVPARINRCLEDGA 126

Query:   131 EEFFLKPVRLSDLNKLKPHLMKTK 154
             EEFFLKPV+L+D+ KLK HL+K K
Sbjct:   127 EEFFLKPVKLADMKKLKSHLLKRK 150

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

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

 Score = 421 (153.3 bits), Expect = 2.0e-41, Sum P(2) = 2.0e-41
 Identities = 84/138 (60%), Positives = 111/138 (80%)

Query:    15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
             + HVLAVDDS++DR +IERLL+ +S +VT VDSG +ALEFLGL   D + + + +  +  
Sbjct:    33 EVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGL---DNEKASAEFDRLK- 88

Query:    75 EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                V+L+ITDYCMPGMTGY+LLKKIKESS+ R++PVVIMSSENV +RI RCLEEGA++F 
Sbjct:    89 ---VDLIITDYCMPGMTGYELLKKIKESSNFREVPVVIMSSENVLTRIDRCLEEGAQDFL 145

Query:   135 LKPVRLSDLNKLKPHLMK 152
             LKPV+L+D+ +L+ HL K
Sbjct:   146 LKPVKLADVKRLRSHLTK 163

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

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 85/138 (61%), Positives = 113/138 (81%)

Query:    17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
             HVLAVDDS++DRK IERLL+ SS +VT VDS ++AL++LGL   DG+++ SV     +++
Sbjct:    26 HVLAVDDSMVDRKFIERLLRVSSCKVTVVDSATRALQYLGL---DGENNSSVG---FEDL 79

Query:    77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +NL++TDY MPGMTGY+LLKKIKESS+ R+IPVVIMSSEN+  RI RCLEEGAE+F LK
Sbjct:    80 KINLIMTDYSMPGMTGYELLKKIKESSAFREIPVVIMSSENILPRIDRCLEEGAEDFLLK 139

Query:   137 PVRLSDLNKLKPHLMKTK 154
             PV+L+D+ +L+  LMK +
Sbjct:   140 PVKLADVKRLRDSLMKAE 157

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

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

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

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

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

 Score = 421 (153.3 bits), Expect = 1.8e-39, P = 1.8e-39
 Identities = 82/142 (57%), Positives = 115/142 (80%)

Query:    13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
             E + HVLAVDD++IDRKL+ER+LK SS +VTT ++G +ALE+LGL   D Q + S+  N+
Sbjct:    17 EEELHVLAVDDNLIDRKLVERILKISSCKVTTAENGLRALEYLGL--GDPQQTDSL-TNV 73

Query:    73 HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
              +   VNL+ITDYCMPGMTG++LLKK+KESS+L+++PVVI+SSEN+P+RI++CL  GA+ 
Sbjct:    74 MK---VNLIITDYCMPGMTGFELLKKVKESSNLKEVPVVILSSENIPTRINKCLASGAQM 130

Query:   133 FFLKPVRLSDLNKLKPHLMKTK 154
             F  KP++LSD+ KLK HL+  +
Sbjct:   131 FMQKPLKLSDVEKLKCHLLNCR 152

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

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 83/138 (60%), Positives = 112/138 (81%)

Query:    15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
             + HVLAVDDS +DRK+IERLLK S+ +VTTV+SG++AL++LGL  D+G S         +
Sbjct:    17 ELHVLAVDDSFVDRKVIERLLKISACKVTTVESGTRALQYLGLDGDNGSSGL-------K 69

Query:    75 EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
             ++ VNL++TDY MPG+TGY+LLKKIKESS+LR+IPVVIMSSEN+  RI +C+ EGAEEF 
Sbjct:    70 DLKVNLIVTDYSMPGLTGYELLKKIKESSALREIPVVIMSSENIQPRIEQCMIEGAEEFL 129

Query:   135 LKPVRLSDLNKLKPHLMK 152
             LKPV+L+D+ +LK  +M+
Sbjct:   130 LKPVKLADVKRLKELIMR 147

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

GO:0007623 "circadian rhythm" evidence=RCA

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

 Score = 419 (152.6 bits), Expect = 2.9e-39, P = 2.9e-39
 Identities = 81/143 (56%), Positives = 117/143 (81%)

Query:    15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
             + HVLAVDDSI+DRK+IERLL+ SS +VTTV+SG++AL++LGL  D G+ + ++     +
Sbjct:    23 ELHVLAVDDSIVDRKVIERLLRISSCKVTTVESGTRALQYLGL--DGGKGASNL-----K 75

Query:    75 EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
             ++ VNL++TDY MPG++GYDLLKKIKESS+ R++PVVIMSSEN+  RI  CL+EGAEEF 
Sbjct:    76 DLKVNLIVTDYSMPGLSGYDLLKKIKESSAFREVPVVIMSSENILPRIQECLKEGAEEFL 135

Query:   135 LKPVRLSDLNKLKPHLMKTKIKD 157
             LKPV+L+D+ ++K  +M+ + ++
Sbjct:   136 LKPVKLADVKRIKQLIMRNEAEE 158

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

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 84/138 (60%), Positives = 111/138 (80%)

Query:    15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
             Q HVLAVDDS++DR +IERLL+ +S +VT VDSG +ALEFLGL  DD +++         
Sbjct:    32 QVHVLAVDDSLVDRIVIERLLRITSCKVTAVDSGWRALEFLGL--DDDKAAVEF-----D 84

Query:    75 EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
              + V+L+ITDYCMPGMTGY+LLKKIKES+S +++PVVIMSSENV +RI RCLEEGAE+F 
Sbjct:    85 RLKVDLIITDYCMPGMTGYELLKKIKESTSFKEVPVVIMSSENVMTRIDRCLEEGAEDFL 144

Query:   135 LKPVRLSDLNKLKPHLMK 152
             LKPV+L+D+ +L+ +L +
Sbjct:   145 LKPVKLADVKRLRSYLTR 162

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

---

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	0.6129	0.9419	0.9700	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pg.C_LG_VI000330	type-a response regulator (233 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	GA2ox7	gibberellin 2-oxidase (322 aa)							•		0.510
	GA2ox5	gibberellin 2-oxidase (306 aa)							•		0.508
	GA2ox2	gibberellin 2-oxidase (322 aa)							•		0.507
	GA2ox4	gibberellin 2-oxidase (322 aa)							•		0.506
	GA2ox3	gibberellin 2-oxidase (332 aa)							•		0.506
	GA2ox1	hypothetical protein (332 aa)							•		0.504
	GA2ox6	gibberellin 2-oxidase (332 aa)							•		0.504
	gw1.XIII.1446.1	serine/threonine protein kinase (574 aa)							•		0.502
	eugene3.00180913	serine/threonine protein kinase (637 aa)							•		0.502
	estExt_Genewise1_v1.C_770059	type-b response regulator (402 aa)							•		0.501

---

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	241
PLN03029	222	PLN03029, PLN03029, type-a response regulator prot	1e-103
cd00156	113	cd00156, REC, Signal receiver domain; originally t	8e-26
pfam00072	111	pfam00072, Response_reg, Response regulator receiv	1e-21
COG0784	130	COG0784, CheY, FOG: CheY-like receiver [Signal tra	2e-21
COG3437	360	COG3437, COG3437, Response regulator containing a	2e-17
COG3706	435	COG3706, PleD, Response regulator containing a Che	2e-16
COG2204	464	COG2204, AtoC, Response regulator containing CheY-	4e-16
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	1e-13
COG0745	229	COG0745, OmpR, Response regulators consisting of a	6e-13
COG4753	475	COG4753, COG4753, Response regulator containing Ch	1e-12
COG2197	211	COG2197, CitB, Response regulator containing a Che	2e-12
PRK15347	921	PRK15347, PRK15347, two component system sensor ki	1e-11
TIGR01818	463	TIGR01818, ntrC, nitrogen regulation protein NR(I)	1e-11
CHL00148	240	CHL00148, orf27, Ycf27; Reviewed	6e-11
PRK10841	924	PRK10841, PRK10841, hybrid sensory kinase in two-c	2e-10
PRK10610	129	PRK10610, PRK10610, chemotaxis regulatory protein	1e-09
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	2e-09
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	7e-09
PRK09390	202	PRK09390, fixJ, response regulator FixJ; Provision	2e-08
TIGR02154	226	TIGR02154, PhoB, phosphate regulon transcriptional	5e-08
smart00448	55	smart00448, REC, cheY-homologous receiver domain	6e-08
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	2e-07
COG2201	350	COG2201, CheB, Chemotaxis response regulator conta	2e-07
COG4566	202	COG4566, TtrR, Response regulator [Signal transduc	3e-07
COG3947	361	COG3947, COG3947, Response regulator containing Ch	6e-07
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	8e-07
PRK00742	354	PRK00742, PRK00742, chemotaxis-specific methyleste	2e-06
PRK10161	229	PRK10161, PRK10161, transcriptional regulator PhoB	4e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	5e-06
COG5624	505	COG5624, TAF61, Transcription initiation factor TF	5e-06
PRK10365	441	PRK10365, PRK10365, transcriptional regulatory pro	6e-06
PRK10693	303	PRK10693, PRK10693, response regulator of RpoS; Pr	9e-06
TIGR01387	218	TIGR01387, cztR_silR_copR, heavy metal response re	2e-05
PRK11361	457	PRK11361, PRK11361, acetoacetate metabolism regula	2e-05
PRK10923	469	PRK10923, glnG, nitrogen regulation protein NR(I);	3e-05
pfam13388	422	pfam13388, DUF4106, Protein of unknown function (D	6e-05
pfam13388	422	pfam13388, DUF4106, Protein of unknown function (D	6e-05
pfam13779	820	pfam13779, DUF4175, Domain of unknown function (DU	1e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	1e-04
PRK11107	919	PRK11107, PRK11107, hybrid sensory histidine kinas	1e-04
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	2e-04
PRK12757	256	PRK12757, PRK12757, cell division protein FtsN; Pr	2e-04
PRK05733	172	PRK05733, PRK05733, single-stranded DNA-binding pr	2e-04
PRK09935	210	PRK09935, PRK09935, transcriptional regulator FimZ	2e-04
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	3e-04
PRK03427	333	PRK03427, PRK03427, cell division protein ZipA; Pr	3e-04
pfam03276	582	pfam03276, Gag_spuma, Spumavirus gag protein	4e-04
PRK11517	223	PRK11517, PRK11517, transcriptional regulatory pro	4e-04
pfam09606	768	pfam09606, Med15, ARC105 or Med15 subunit of Media	6e-04
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	7e-04
PRK12757	256	PRK12757, PRK12757, cell division protein FtsN; Pr	8e-04
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	8e-04
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.001
PRK05733	172	PRK05733, PRK05733, single-stranded DNA-binding pr	0.001
PRK15115	444	PRK15115, PRK15115, response regulator GlrR; Provi	0.001
PRK04239	110	PRK04239, PRK04239, hypothetical protein; Provisio	0.001
PRK11083	228	PRK11083, PRK11083, DNA-binding response regulator	0.001
PRK09581	457	PRK09581, pleD, response regulator PleD; Reviewed	0.002
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.002
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.002
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	0.002
PRK10920	390	PRK10920, PRK10920, putative uroporphyrinogen III	0.002
PLN00212	493	PLN00212, PLN00212, glutelin; Provisional	0.002
TIGR02875	262	TIGR02875, spore_0_A, sporulation transcription fa	0.002
COG4565	224	COG4565, CitB, Response regulator of citrate/malat	0.002
PRK10336	219	PRK10336, PRK10336, DNA-binding transcriptional re	0.002
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.003
pfam09770	804	pfam09770, PAT1, Topoisomerase II-associated prote	0.003
PRK12757	256	PRK12757, PRK12757, cell division protein FtsN; Pr	0.003
PRK10263	1355	PRK10263, PRK10263, DNA translocase FtsK; Provisio	0.003
PRK13856	241	PRK13856, PRK13856, two-component response regulat	0.003
PRK09959	1197	PRK09959, PRK09959, hybrid sensory histidine kinas	0.003
pfam12090	191	pfam12090, Spt20, Spt20 family	0.003
PRK11637	428	PRK11637, PRK11637, AmiB activator; Provisional	0.003
pfam13388	422	pfam13388, DUF4106, Protein of unknown function (D	0.004
PRK09836	227	PRK09836, PRK09836, DNA-binding transcriptional ac	0.004

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

 Score =  296 bits (760), Expect = e-103
 Identities = 171/231 (74%), Positives = 193/231 (83%), Gaps = 16/231 (6%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSH--SVYP 70
           ESQFHVLAVDDS+IDRKLIE+LLKTSSYQVTTVDSGSKAL+FLGLHEDD  +    SV P
Sbjct: 6   ESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSP 65

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
           N HQEV VNL+ITDYCMPGMTGYDLLKKIKESSSLR+IPVVIMSSENVPSRI+RCLEEGA
Sbjct: 66  NSHQEVEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGA 125

Query: 131 EEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQ 190
           EEFFLKPV+LSDLN+LKPH+MKTK K+Q  +Q  Q+++E+ +ES+ QS            
Sbjct: 126 EEFFLKPVQLSDLNRLKPHMMKTKSKNQ--KQENQEKQEKLEESEIQS------------ 171

Query: 191 QSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV 241
           + Q+Q  QQ Q Q Q QQQ QQ NNNKRKA+EEGLSP+RTRPRYNGI TVV
Sbjct: 172 EKQEQPSQQPQSQPQPQQQPQQPNNNKRKAMEEGLSPDRTRPRYNGITTVV 222

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 = 96.9 bits (242), Expect = 8e-26
 Identities = 35/125 (28%), Positives = 60/125 (48%), Gaps = 20/125 (16%)

Query: 19  LAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGV 78
           L VDD  + R+L+ RLL+   Y+V   + G +AL  L                   E   
Sbjct: 1   LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALL------------------AEEKP 42

Query: 79  NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV 138
           +L++ D  MPGM G +LL++I++     DIP++ +++          L+ GA+++  KP 
Sbjct: 43  DLILLDIMMPGMDGLELLRRIRK--RGPDIPIIFLTAHGDDEDAVEALKAGADDYLTKPF 100

Query: 139 RLSDL 143
              +L
Sbjct: 101 SPEEL 105

Length = 113

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

 Score = 86.1 bits (214), Expect = 1e-21
 Identities = 37/126 (29%), Positives = 59/126 (46%), Gaps = 20/126 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL VDD  + R+L+ +LL+   Y V   D G +ALE L                  +E  
Sbjct: 1   VLIVDDDPLIRELLRQLLEKEGYVVAEADDGEEALELL------------------KEKR 42

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L++ D  MPGM G +LL++I+        PV+++++          L+ GA +F  KP
Sbjct: 43  PDLILLDIRMPGMDGLELLRRIRRRPP--TTPVIVLTAHGDEEDAVEALKAGANDFLSKP 100

Query: 138 VRLSDL 143
               +L
Sbjct: 101 FDPEEL 106

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

 Score = 86.1 bits (213), Expect = 2e-21
 Identities = 36/128 (28%), Positives = 64/128 (50%), Gaps = 20/128 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSK-ALEFLGLHEDDGQSSHSVYPNMHQE 75
            VL VDD  ++R+L++RLL+   Y+V     G + ALE L                    
Sbjct: 7   RVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELPQ--------------- 51

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
              +L++ D  MPGM G +LL++++      +IPV+++++    +   R L  GA+++  
Sbjct: 52  --PDLILLDINMPGMDGIELLRRLRA--RGPNIPVILLTAYADEADRERALAAGADDYLT 107

Query: 136 KPVRLSDL 143
           KP+ L + 
Sbjct: 108 KPIFLEEE 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 = 79.7 bits (197), Expect = 2e-17
 Identities = 43/164 (26%), Positives = 78/164 (47%), Gaps = 20/164 (12%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
            + +  VL VDD   + + + +LL+   Y+V   ++G +AL+ L                
Sbjct: 11  PDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLL---------------- 54

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSL-RDIPVVIMSSENVPSRISRCLEEGA 130
             QE   +LV+ D  MP M G ++L K+K  S   R IPV+++++        R LE GA
Sbjct: 55  --QEEPPDLVLLDVRMPEMDGAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGA 112

Query: 131 EEFFLKPVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQEEESDE 173
           +++  KP+   +L  ++  HL   + +D +  Q+   + +E   
Sbjct: 113 DDYLSKPISPKELVARVSSHLQLKRNEDFLLDQNLYLELQELRR 156

Length = 360

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

 Score = 77.4 bits (191), Expect = 2e-16
 Identities = 38/156 (24%), Positives = 74/156 (47%), Gaps = 26/156 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD    R+ + R+L+   ++V     G +AL  L                   E+ 
Sbjct: 135 ILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQL------------------AELP 176

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +LV+ D  MP M G +L  ++++    RDIP++++SS++    + R  E G  ++  KP
Sbjct: 177 PDLVLLDANMPDMDGLELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKP 236

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDE 173
           +   +L          +++ Q++++  ++Q  ES E
Sbjct: 237 IEEGELR--------ARLRRQLRRKRYERQLRESLE 264

Length = 435

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

 Score = 76.6 bits (189), Expect = 4e-16
 Identities = 45/162 (27%), Positives = 71/162 (43%), Gaps = 25/162 (15%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
                 +L VDD    R+L+E+ L+ + Y+V T +S  +ALE L     D          
Sbjct: 1   MMMMARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSESPFD---------- 50

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
                   LV+ D  MPGM G +LLK+IK      D+PV++M+           L  GA 
Sbjct: 51  --------LVLLDIRMPGMDGLELLKEIKSRDP--DLPVIVMTGHGDIDTAVEALRLGAF 100

Query: 132 EFFLKPV---RLSDLNK--LKPHLMKTKIKDQIKQQSQQQQE 168
           +F  KP    RL  + +  L+   ++ + +  +K+      E
Sbjct: 101 DFLEKPFDLDRLLAIVERALELRELQRENRRSLKRAKSLGGE 142

Length = 464

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

 Score = 69.2 bits (170), Expect = 1e-13
 Identities = 39/137 (28%), Positives = 66/137 (48%), Gaps = 25/137 (18%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD   + KL+E  L    Y V T  SG++A+      + D                
Sbjct: 5   ILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICEREQPD---------------- 48

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             +++ D  MPGM G+++ +++K   +   IPVV++++ + P    R LE GA++F  KP
Sbjct: 49  --IILLDVMMPGMDGFEVCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKP 106

Query: 138 V-------RLSDLNKLK 147
           +       R+  L +LK
Sbjct: 107 INDVALFARVKSLTRLK 123

Length = 457

>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 = 65.4 bits (160), Expect = 6e-13
 Identities = 26/127 (20%), Positives = 53/127 (41%), Gaps = 20/127 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D     +L++  L+   Y+V     G +ALE      D                
Sbjct: 2   RILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAREQPD---------------- 45

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              LV+ D  +P + G +L ++++        P++++++ +        LE GA+++  K
Sbjct: 46  ---LVLLDLMLPDLDGLELCRRLRAKKG-SGPPIIVLTARDDEEDRVLGLEAGADDYLTK 101

Query: 137 PVRLSDL 143
           P    +L
Sbjct: 102 PFSPREL 108

Length = 229

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

 Score = 66.2 bits (162), Expect = 1e-12
 Identities = 51/202 (25%), Positives = 88/202 (43%), Gaps = 34/202 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQ---VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           VL VDD  + R+ ++ L+   +     V T  +G +ALE +                  Q
Sbjct: 4   VLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELI------------------Q 45

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
           E   ++VITD  MPGM G DL+K IKE S   D   +I+S  +      + ++ G +++ 
Sbjct: 46  ETQPDIVITDINMPGMDGLDLIKAIKEQSP--DTEFIILSGYDEFEYAKKAMKLGVKDYL 103

Query: 135 LKPVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQEEES--DESDFQSPSP--PQQQPQES 189
           LKPV  ++L   LK      KI  ++++Q + +Q+ E          P     ++  +  
Sbjct: 104 LKPVDKAELEEALK------KIIGKLEEQQKVKQDIEKLLTLLIGHEPLEELAKKIYKWE 157

Query: 190 QQSQQQQQQQQQQQQQQQQQQQ 211
             +  Q Q    Q+  +   + 
Sbjct: 158 GATGIQSQLADSQRTLKDLAEH 179

Length = 475

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

 Score = 64.2 bits (157), Expect = 2e-12
 Identities = 39/173 (22%), Positives = 76/173 (43%), Gaps = 24/173 (13%)

Query: 17  HVLAVDDSIIDRKLIERLLKT-SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            VL VDD  + R+ + +LL+     +V     +G +AL+                  + +
Sbjct: 2   KVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALD------------------LAR 43

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
           E+  ++V+ D  MPGM G + LK+++      DI VV++++ + P+ + R L  GA+ + 
Sbjct: 44  ELKPDVVLLDLSMPGMDGLEALKQLRA--RGPDIKVVVLTAHDDPAYVIRALRAGADGYL 101

Query: 135 LKPVRLSDLNKLKPHLMK--TKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQ 185
           LK     +L +    +    T +   I ++        S E+       P++ 
Sbjct: 102 LKDASPEELVEAIRAVAAGGTYLPPDIARKLAGLLPSSSAEAPLAELLTPREL 154

Length = 211

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

 Score = 63.5 bits (155), Expect = 1e-11
 Identities = 39/132 (29%), Positives = 60/132 (45%), Gaps = 20/132 (15%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           Q  +L VDD   +R +I  +L     QVTT  SG++ALE LG                 Q
Sbjct: 690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALE-LG----------------RQ 732

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRD--IPVVIMSSENVPSRISRCLEEGAEE 132
               +LV+ D  MPG+ G +  +  ++  +  D    +V +++   P  I RC + G   
Sbjct: 733 HR-FDLVLMDIRMPGLDGLETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNH 791

Query: 133 FFLKPVRLSDLN 144
           +  KPV L+ L 
Sbjct: 792 YLTKPVTLAQLA 803

Length = 921

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

 Score = 63.2 bits (154), Expect = 1e-11
 Identities = 38/164 (23%), Positives = 67/164 (40%), Gaps = 29/164 (17%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++E+ L  + Y+V T  + +  L  L   + D                
Sbjct: 1   VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQPD---------------- 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L+ITD  MPG  G DLL +IK+      +PV++M++ +         + GA E+  KP
Sbjct: 45  --LLITDVRMPGEDGLDLLPQIKKRHP--QLPVIVMTAHSDLDTAVAAYQRGAFEYLPKP 100

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSP 181
             L +            + ++    +Q+Q    +D  + +  + 
Sbjct: 101 FDLDEA---------VTLVERALAHAQEQVALPADAGEAEDSAE 135

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|214376 CHL00148, orf27, Ycf27; Reviewed

 Score = 60.1 bits (146), Expect = 6e-11
 Identities = 37/126 (29%), Positives = 64/126 (50%), Gaps = 23/126 (18%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
            S+  +L VDD    RK++E  L    Y+V T   G +AL+                P  
Sbjct: 4   NSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKE----------QP-- 51

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAE 131
                 +LVI D  MP + GY + ++I++ S   D+P++++++  +V  RI+  LE GA+
Sbjct: 52  ------DLVILDVMMPKLDGYGVCQEIRKES---DVPIIMLTALGDVSDRIT-GLELGAD 101

Query: 132 EFFLKP 137
           ++ +KP
Sbjct: 102 DYVVKP 107

Length = 240

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

 Score = 59.6 bits (145), Expect = 2e-10
 Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 20/139 (14%)

Query: 5   AAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQS 64
           +   A        +L VDD  I+R+L+   L +  YQ  T + G  AL  L         
Sbjct: 791 STDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVL--------- 841

Query: 65  SHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISR 124
                     +  +++V+TD  MP M GY L +++++      +PV+ +++  +     R
Sbjct: 842 ---------SKNHIDIVLTDVNMPNMDGYRLTQRLRQLG--LTLPVIGVTANALAEEKQR 890

Query: 125 CLEEGAEEFFLKPVRLSDL 143
           CLE G +    KPV L  L
Sbjct: 891 CLEAGMDSCLSKPVTLDVL 909

Length = 924

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

 Score = 54.6 bits (131), Expect = 1e-09
 Identities = 35/128 (27%), Positives = 58/128 (45%), Gaps = 19/128 (14%)

Query: 11  VAESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVY 69
           +A+ +   L VDD    R+++  LLK   +  V   + G  AL                 
Sbjct: 1   MADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL----------------- 43

Query: 70  PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
            N  Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + G
Sbjct: 44  -NKLQAGGFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAG 102

Query: 130 AEEFFLKP 137
           A  + +KP
Sbjct: 103 ASGYVVKP 110

Length = 129

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 56.8 bits (138), Expect = 2e-09
 Identities = 25/69 (36%), Positives = 33/69 (47%)

Query: 157 DQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNN 216
           D+  +  Q+Q   +  E   Q     Q Q Q  QQ QQ Q QQQ QQ Q  Q  Q S   
Sbjct: 605 DETFRDLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQGGQGGQGSLAE 664

Query: 217 KRKALEEGL 225
           +++AL + L
Sbjct: 665 RQQALRDEL 673

Length = 820

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 55.3 bits (134), Expect = 7e-09
 Identities = 19/75 (25%), Positives = 27/75 (36%), Gaps = 2/75 (2%)

Query: 161 QQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQ--QQQQQQQQQSNNNKR 218
           Q+ +QQ ++         P    QQ Q  QQ QQ Q  Q  Q    ++QQ  +     +R
Sbjct: 618 QRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQGGQGGQGSLAERQQALRDELGRQR 677

Query: 219 KALEEGLSPERTRPR 233
             L           R
Sbjct: 678 GGLPGMGGEAGEAAR 692

Length = 820

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

 Score = 52.7 bits (127), Expect = 2e-08
 Identities = 33/122 (27%), Positives = 56/122 (45%), Gaps = 22/122 (18%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            V  VDD    R  +  LL ++ ++V   +S   A  FL               +    +
Sbjct: 5   VVHVVDDDEAMRDSLAFLLDSAGFEVRLFES---AQAFL---------------DALPGL 46

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
               V+TD  MPG+ G +LL+++K   S   +PV++M+   +VP  +   ++ GA +F  
Sbjct: 47  RFGCVVTDVRMPGIDGIELLRRLKARGSP--LPVIVMTGHGDVPLAV-EAMKLGAVDFIE 103

Query: 136 KP 137
           KP
Sbjct: 104 KP 105

Length = 202

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

 Score = 51.6 bits (124), Expect = 5e-08
 Identities = 30/120 (25%), Positives = 57/120 (47%), Gaps = 18/120 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L V+D    R+LI   L+ + Y V     G +AL                   +  E G
Sbjct: 5   ILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEAL------------------TLINERG 46

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L++ D+ +PG +G +L ++++     R IP++++++        R LE GA+++  KP
Sbjct: 47  PDLILLDWMLPGTSGIELCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKP 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|214668 smart00448, REC, cheY-homologous receiver domain

 Score = 47.6 bits (114), Expect = 6e-08
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 18/72 (25%)

Query: 17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           +L VDD  + R+L++ LL+   Y+V     G +ALE L                  +E 
Sbjct: 2  RILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELL------------------KEE 43

Query: 77 GVNLVITDYCMP 88
            +L++ D  MP
Sbjct: 44 KPDLILLDIMMP 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|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 51.4 bits (124), Expect = 2e-07
 Identities = 17/53 (32%), Positives = 22/53 (41%)

Query: 165 QQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNK 217
           ++Q+  SDE+          Q  E Q  Q Q  Q Q Q  QQ QQ Q     +
Sbjct: 598 REQQGLSDETFRDLQEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQ 650

Length = 820

>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 = 50.4 bits (121), Expect = 2e-07
 Identities = 44/179 (24%), Positives = 77/179 (43%), Gaps = 34/179 (18%)

Query: 18  VLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           VL VDDS + RK+I  +L +      V T  +G +A++ +   + D              
Sbjct: 4   VLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKKLKPD-------------- 49

Query: 76  VGVNLVIT-DYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSR----ISRCLEEGA 130
                VIT D  MP M G + L+KI     LR +PV+++SS  +           LE GA
Sbjct: 50  -----VITLDVEMPVMDGLEALRKIM---RLRPLPVIMVSS--LTEEGAEATLEALELGA 99

Query: 131 EEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQES 189
            +F  KP   S    L    +   + ++++  ++Q ++        ++P+    +P  +
Sbjct: 100 VDFIAKP---SGGISLGLDEVAELLIEKVRAAARQNRKSLRTPEPPRAPAFRPVKPGPA 155

Length = 350

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

 Score = 49.2 bits (118), Expect = 3e-07
 Identities = 33/127 (25%), Positives = 55/127 (43%), Gaps = 22/127 (17%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R  +  LL+++ +QV    S     EFL     D               G
Sbjct: 7   VHVVDDDESVRDALAFLLESAGFQVKCFASAE---EFLAAAPLD-------------RPG 50

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFLK 136
              ++ D  MPGM+G +L  ++ E      +PV+ ++   ++P  + + ++ GA +F  K
Sbjct: 51  C--LLLDVRMPGMSGLELQDRLAERGI--RLPVIFLTGHGDIPMAV-QAMKAGAVDFLEK 105

Query: 137 PVRLSDL 143
           P    DL
Sbjct: 106 PFSEQDL 112

Length = 202

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

 Score = 49.1 bits (117), Expect = 6e-07
 Identities = 27/139 (19%), Positives = 57/139 (41%), Gaps = 22/139 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           ++ VDD     KL+  +L  + ++V +     +AL+ L + +                  
Sbjct: 3   IIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEVFK------------------ 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L+  D  MP M G +  +++++  S   +P++ +SS    +  S       +++  KP
Sbjct: 45  PDLIFLDIVMPYMNGIEFAEQVRDIES--AVPIIFISSHAEYADDSF--GMNLDDYLPKP 100

Query: 138 VRLSDLNKLKPHLMKTKIK 156
           V    LN+     +K    
Sbjct: 101 VTPEKLNRAIDRRLKRVEL 119

Length = 361

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 49.1 bits (118), Expect = 8e-07
 Identities = 19/67 (28%), Positives = 22/67 (32%), Gaps = 1/67 (1%)

Query: 161 QQSQQQQEEESDESDFQSPSPPQQQPQESQQSQ-QQQQQQQQQQQQQQQQQQQSNNNKRK 219
           Q+    Q  E      Q      Q  Q+ QQ Q QQQ QQ Q  Q  Q    +     R 
Sbjct: 612 QEQFNAQRGEQQGQQGQGGQGQGQPGQQGQQGQGQQQGQQGQGGQGGQGSLAERQQALRD 671

Query: 220 ALEEGLS 226
            L     
Sbjct: 672 ELGRQRG 678

Length = 820

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

 Score = 47.5 bits (114), Expect = 2e-06
 Identities = 46/148 (31%), Positives = 63/148 (42%), Gaps = 34/148 (22%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           VL VDDS   R+LI  +L      +V  T   G +A E +     D              
Sbjct: 6   VLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPD-------------- 51

Query: 76  VGVNLVIT-DYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS---ENVPSRIS-RCLEEGA 130
                VIT D  MP M G D L+KI     LR  PVV++SS       + I+ R LE GA
Sbjct: 52  -----VITLDVEMPVMDGLDALEKIMR---LRPTPVVMVSSLTERG--AEITLRALELGA 101

Query: 131 EEFFLKPVR--LSDLNKLKPHLMKTKIK 156
            +F  KP       +++ K   +  K++
Sbjct: 102 VDFVTKPFLGISLGMDEYK-EELAEKVR 128

Length = 354

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

 Score = 46.2 bits (109), Expect = 4e-06
 Identities = 29/99 (29%), Positives = 49/99 (49%), Gaps = 8/99 (8%)

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
           N   E   +L++ D+ +PG +G   +K +K  S  RDIPVV++++        R LE GA
Sbjct: 40  NQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGA 99

Query: 131 EEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEE 169
           +++  KP          P  +  +IK  +++ S    EE
Sbjct: 100 DDYITKP--------FSPKELVARIKAVMRRISPMAVEE 130

Length = 229

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 46.3 bits (110), Expect = 5e-06
 Identities = 15/68 (22%), Positives = 34/68 (50%)

Query: 156 KDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNN 215
            ++ +++ +QQQ EE  +         +Q  +E   +Q+Q++Q ++  +Q   +Q+Q+  
Sbjct: 77  AEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEE 136

Query: 216 NKRKALEE 223
              KA   
Sbjct: 137 AAAKAAAA 144

Length = 387

>gnl|CDD|227911 COG5624, TAF61, Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]

 Score = 46.6 bits (110), Expect = 5e-06
 Identities = 13/75 (17%), Positives = 25/75 (33%)

Query: 162 QSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKAL 221
           Q  + ++E                 +  ++   +  Q QQ Q+Q    QQ+  +   +  
Sbjct: 200 QGLRARQEMMGLGIMAGGVYGVHDGRSKRRLVDRYPQFQQGQKQVLSPQQRFLHGMERYE 259

Query: 222 EEGLSPERTRPRYNG 236
             G+ P       NG
Sbjct: 260 ASGMPPPAEWAGSNG 274

Length = 505

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

 Score = 46.2 bits (109), Expect = 6e-06
 Identities = 40/136 (29%), Positives = 63/136 (46%), Gaps = 23/136 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD I    +++ LL+   Y V   +SG +ALE         Q    V+        
Sbjct: 8   ILVVDDDISHCTILQALLRGWGYNVALANSGRQALE---------QVREQVF-------- 50

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +LV+ D  M  M G   LK+IK  +    IPV+IM++ +        L+ GA ++ +KP
Sbjct: 51  -DLVLCDVRMAEMDGIATLKEIKALNPA--IPVLIMTAYSSVETAVEALKTGALDYLIKP 107

Query: 138 VRLSDLNKLKPHLMKT 153
           +   D + L+  L K 
Sbjct: 108 L---DFDNLQATLEKA 120

Length = 441

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

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 30/143 (20%), Positives = 59/143 (41%), Gaps = 14/143 (9%)

Query: 60  DDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVP 119
            +G  +  +      +    L+I D  MP M G + ++ ++        PV+++S+    
Sbjct: 4   ANGVDALELLGGFTPD----LIICDLAMPRMNGIEFVEHLRNRGD--QTPVLVISATENM 57

Query: 120 SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSP 179
           + I++ L  G ++  LKPV+  DLN+L+  +           +       E +E  F+  
Sbjct: 58  ADIAKALRLGVQDVLLKPVK--DLNRLREMVFACLYPSMFNSRV------EEEERLFRDW 109

Query: 180 SPPQQQPQESQQSQQQQQQQQQQ 202
                 P  + +  +Q Q   QQ
Sbjct: 110 DALVDNPAAAAKLLKQLQPPVQQ 132

Length = 303

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

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 29/127 (22%), Positives = 59/127 (46%), Gaps = 22/127 (17%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L V+D     + +++ L  S Y V    +G   L      + D                
Sbjct: 1   ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDDYD---------------- 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEFFLK 136
             L+I D  +PGM G+ +L+ ++ S      PV+ +++ ++V  ++ + L+ GA+++ +K
Sbjct: 45  --LIILDVMLPGMDGWQILQTLRRSGKQT--PVLFLTARDSVADKV-KGLDLGADDYLVK 99

Query: 137 PVRLSDL 143
           P   S+L
Sbjct: 100 PFSFSEL 106

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

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

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 28/129 (21%), Positives = 50/129 (38%), Gaps = 20/129 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD    R+++        ++    ++G  AL        D                
Sbjct: 7   ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPD---------------- 50

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             +V+ D  MP M G   LK+++        PV++M++          L  GA ++ +KP
Sbjct: 51  --VVLMDIRMPEMDGIKALKEMRSHE--TRTPVILMTAYAEVETAVEALRCGAFDYVIKP 106

Query: 138 VRLSDLNKL 146
             L +LN +
Sbjct: 107 FDLDELNLI 115

Length = 457

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

 Score = 44.1 bits (104), Expect = 3e-05
 Identities = 41/168 (24%), Positives = 73/168 (43%), Gaps = 24/168 (14%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++ER L  +    TT ++G++ LE L     D                
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTPD---------------- 49

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++++D  MPGM G  LLK+IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 50  --VLLSDIRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQ 185
             + +       L++  I    +QQ  +  +     +D    +P  Q 
Sbjct: 106 FDIDE----AVALVERAISHYQEQQQPRNIQVNGPTTDIIGEAPAMQD 149

Length = 469

>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106)

 Score = 43.1 bits (101), Expect = 6e-05
 Identities = 16/60 (26%), Positives = 25/60 (41%)

Query: 160 KQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRK 219
           K   Q   +  + +   Q+P+   QQ  + Q  Q  QQ   Q   QQ  Q +Q +   R+
Sbjct: 202 KPTQQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQQPPQTEQGHKRSRE 261

This family of proteins are found in large numbers in the Trichomonas vaginalis proteome. The function of this protein is unknown. Length = 422

>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106)

 Score = 43.1 bits (101), Expect = 6e-05
 Identities = 18/76 (23%), Positives = 31/76 (40%)

Query: 149 HLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQ 208
           H  K   +  ++  +QQ   +   +   Q P     QP +    Q   QQ  Q +Q  ++
Sbjct: 199 HAPKPTQQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQQPPQTEQGHKR 258

Query: 209 QQQQSNNNKRKALEEG 224
            ++Q N    K L+E 
Sbjct: 259 SREQGNQEFLKMLKED 274

This family of proteins are found in large numbers in the Trichomonas vaginalis proteome. The function of this protein is unknown. Length = 422

>gnl|CDD|222374 pfam13779, DUF4175, Domain of unknown function (DUF4175)

 Score = 42.6 bits (101), Expect = 1e-04
 Identities = 12/69 (17%), Positives = 19/69 (27%), Gaps = 2/69 (2%)

Query: 157 DQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQS--N 214
               Q    QQ ++             Q  Q S   +QQ  + +  +Q+           
Sbjct: 629 GGQGQGQPGQQGQQGQGQQQGQQGQGGQGGQGSLAERQQALRDELGRQRGGLPGMGGEAG 688

Query: 215 NNKRKALEE 223
              R AL  
Sbjct: 689 EAARDALGR 697

Length = 820

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 42.1 bits (99), Expect = 1e-04
 Identities = 17/64 (26%), Positives = 37/64 (57%), Gaps = 4/64 (6%)

Query: 164 QQQQEEESDESDFQSPSPPQQQPQESQQS----QQQQQQQQQQQQQQQQQQQQSNNNKRK 219
           QQQQ++ +  ++ Q     QQQ +E QQ     Q++ +Q ++++   Q+Q++Q+    ++
Sbjct: 67  QQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQ 126

Query: 220 ALEE 223
           A  +
Sbjct: 127 AALK 130

Length = 387

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

 Score = 42.1 bits (100), Expect = 1e-04
 Identities = 37/161 (22%), Positives = 66/161 (40%), Gaps = 21/161 (13%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V+AVDD+  + KLI  LL+     V   DSG +A+E       D                
Sbjct: 670 VMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQRPFD---------------- 713

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L++ D  MPGM G    + I++    ++ P++ +++  +     R L  G +++  KP
Sbjct: 714 --LILMDIQMPGMDGIRACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKP 771

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQS 178
           +   D   LK  L++ K   +   +    +  E       +
Sbjct: 772 I---DEAMLKQVLLRYKPGPKFTSRVVAPEPPEPVHFPNAT 809

Length = 919

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 14/56 (25%), Positives = 17/56 (30%)

Query: 158 QIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQS 213
              QQ      +   +       P Q  P +  Q     QQ      Q  QQQQQ 
Sbjct: 214 VQPQQFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPPQPPQQQQQP 269

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|237191 PRK12757, PRK12757, cell division protein FtsN; Provisional

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 14/56 (25%), Positives = 22/56 (39%)

Query: 177 QSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRP 232
           Q+P  P+   Q  QQ+QQQQ      Q Q     +Q+    +      +  +   P
Sbjct: 110 QTPQVPRSTVQIQQQAQQQQPPATTAQPQPVTPPRQTTAPVQPQTPAPVRTQPAAP 165

Length = 256

>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein; Provisional

 Score = 40.7 bits (95), Expect = 2e-04
 Identities = 11/46 (23%), Positives = 18/46 (39%)

Query: 162 QSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQ 207
           Q   Q  +     +  +P    Q+PQ++ Q Q +   QQ   Q   
Sbjct: 116 QGDDQGGQGGGNYNQSAPRQQAQRPQQAAQQQSRPAPQQPAPQPAA 161

Length = 172

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

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 35/128 (27%), Positives = 56/128 (43%), Gaps = 22/128 (17%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           V+ +D   I R  IE LL K S  Q+    D     +++L              P     
Sbjct: 6   VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYL-----------RTRP----- 49

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
             V+L+I D  +PG  G+  LK+IK+  S   + V+ +SS++      R ++ GA  F  
Sbjct: 50  --VDLIIMDIDLPGTDGFTFLKRIKQIQS--TVKVLFLSSKSECFYAGRAIQAGANGFVS 105

Query: 136 KPVRLSDL 143
           K    +D+
Sbjct: 106 KCNDQNDI 113

Length = 210

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 41.6 bits (97), Expect = 3e-04
 Identities = 27/92 (29%), Positives = 34/92 (36%), Gaps = 5/92 (5%)

Query: 120 SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSP 179
           S +   L++G  E    P+        +P         Q  QQ QQ    +      Q P
Sbjct: 730 SPMKALLDDGPHEPLFTPIVEPVQQPQQP-----VAPQQQYQQPQQPVAPQPQYQQPQQP 784

Query: 180 SPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQ 211
             PQ Q Q+ QQ    Q Q QQ QQ    Q Q
Sbjct: 785 VAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQ 816

Length = 1355

>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 29/124 (23%), Positives = 44/124 (35%), Gaps = 12/124 (9%)

Query: 100 KESSSL-RDIPVVIMSSE--NVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIK 156
           KE SS+ RD P+  M S+  +         +EG  E  +  V  +  N  +    +   +
Sbjct: 30  KERSSMFRDRPLKRMKSKRDDDSYDEDVEDDEGVGEVRVHRVNHAPANAQEHEAARPSPQ 89

Query: 157 D---------QIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQ 207
                     Q +Q  QQ  E +        P+ P  QP +    Q Q +Q  QQ    Q
Sbjct: 90  HQYQPPYASAQPRQPVQQPPEAQVPPQHAPRPAQPAPQPVQQPAYQPQPEQPLQQPVSPQ 149

Query: 208 QQQQ 211
               
Sbjct: 150 VAPA 153

Length = 333

>gnl|CDD|217469 pfam03276, Gag_spuma, Spumavirus gag protein

 Score = 41.1 bits (96), Expect = 4e-04
 Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 3/77 (3%)

Query: 159 IKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKR 218
           I+   Q  Q+        +    P+ QPQ  ++ Q + +Q  Q  +QQQ +  Q+N  + 
Sbjct: 435 IRFLPQSDQQRPVSRGRGRGQRGPRSQPQNQRRQQNRGRQSSQPPRQQQNRSNQNNQRQS 494

Query: 219 KALEEGLSPERTRPRYN 235
           +         R +  YN
Sbjct: 495 QG---PNQGPRGQGGYN 508

Length = 582

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

 Score = 40.3 bits (94), Expect = 4e-04
 Identities = 28/126 (22%), Positives = 59/126 (46%), Gaps = 21/126 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L ++D+   ++ + + L  + Y +  V  G   L +L L +D                 
Sbjct: 3   ILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGL-YLALKDD----------------- 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L+I D  +PGM G+ +L+ ++ +   +  PV+ +++ +      R L+ GA ++ +KP
Sbjct: 45  YALIILDIMLPGMDGWQILQTLRTA---KQTPVICLTARDSVDDRVRGLDSGANDYLVKP 101

Query: 138 VRLSDL 143
              S+L
Sbjct: 102 FSFSEL 107

Length = 223

>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal

 Score = 40.4 bits (94), Expect = 6e-04
 Identities = 24/74 (32%), Positives = 36/74 (48%)

Query: 148 PHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQ 207
                 +++ Q++ Q QQQ +++   +D Q+    QQQ Q   Q QQ Q  Q Q   QQQ
Sbjct: 219 QQQQNPQMQQQLQNQQQQQMDQQQGPADAQAQMGQQQQGQGGMQPQQMQGGQMQVPMQQQ 278

Query: 208 QQQQQSNNNKRKAL 221
             QQQ   ++   L
Sbjct: 279 PPQQQPQQSQLGML 292

The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development. Length = 768

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 40.5 bits (94), Expect = 7e-04
 Identities = 20/56 (35%), Positives = 23/56 (41%)

Query: 158 QIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQS 213
              QQ QQ    +      Q P  PQ Q Q+ QQ    Q Q QQ QQ    Q Q +
Sbjct: 789 PQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQDT 844

Length = 1355

>gnl|CDD|237191 PRK12757, PRK12757, cell division protein FtsN; Provisional

 Score = 39.3 bits (92), Expect = 8e-04
 Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 3/59 (5%)

Query: 158 QIKQQSQ---QQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQS 213
           Q+ +Q Q   +QQ  +  E  +   +P   +     Q Q QQQQ      Q Q      
Sbjct: 86  QLLEQMQADMRQQPTQLSEVPYNEQTPQVPRSTVQIQQQAQQQQPPATTAQPQPVTPPR 144

Length = 256

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 40.1 bits (93), Expect = 8e-04
 Identities = 23/67 (34%), Positives = 27/67 (40%), Gaps = 3/67 (4%)

Query: 158 QIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQ---QQQQQQQQQQSN 214
           Q  QQ    Q +        +P P  QQPQ+    Q Q QQ QQ    Q Q QQ QQ   
Sbjct: 779 QQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVA 838

Query: 215 NNKRKAL 221
              +  L
Sbjct: 839 PQPQDTL 845

Length = 1355

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 13/60 (21%), Positives = 18/60 (30%)

Query: 157 DQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNN 216
            Q+     Q  +++      Q+  PPQ QP       Q Q       QQ Q         
Sbjct: 253 QQMPPPPPQPPQQQQQPPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQQPQLLPLVQQPQ 312

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 39.0 bits (91), Expect = 0.001
 Identities = 18/67 (26%), Positives = 20/67 (29%)

Query: 148 PHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQ 207
               +     Q      Q   +           PP QQPQ    SQQ      Q  QQQQ
Sbjct: 208 QGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPLQQPQFPGLSQQMPPPPPQPPQQQQ 267

Query: 208 QQQQQSN 214
           Q  Q   
Sbjct: 268 QPPQPQA 274

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein; Provisional

 Score = 38.4 bits (89), Expect = 0.001
 Identities = 14/46 (30%), Positives = 20/46 (43%)

Query: 165 QQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQ 210
           Q  ++        + S P+QQ Q  QQ+ QQQ +   QQ   Q   
Sbjct: 116 QGDDQGGQGGGNYNQSAPRQQAQRPQQAAQQQSRPAPQQPAPQPAA 161

Length = 172

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

 Score = 39.4 bits (92), Expect = 0.001
 Identities = 35/123 (28%), Positives = 56/123 (45%), Gaps = 22/123 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H+L VDD     KL+   L +  Y V T +SG +AL  L                     
Sbjct: 7   HLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVL------------------NRE 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
            V+LVI+D  M  M G  L  +I++      +PV+I+++  ++P  ++   ++G   F  
Sbjct: 49  KVDLVISDLRMDEMDGMQLFAEIQKVQP--GMPVIILTAHGSIPDAVA-ATQQGVFSFLT 105

Query: 136 KPV 138
           KPV
Sbjct: 106 KPV 108

Length = 444

>gnl|CDD|179798 PRK04239, PRK04239, hypothetical protein; Provisional

 Score = 37.2 bits (87), Expect = 0.001
 Identities = 15/39 (38%), Positives = 27/39 (69%)

Query: 190 QQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPE 228
           ++ Q+Q Q+QQQ Q++Q++ Q Q+   K+  L + L+PE
Sbjct: 12  EELQKQAQEQQQAQEEQEEAQAQAEAQKQAILRQILTPE 50

Length = 110

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

 Score = 38.4 bits (90), Expect = 0.001
 Identities = 28/129 (21%), Positives = 58/129 (44%), Gaps = 28/129 (21%)

Query: 13  ESQFHVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYP 70
             Q  +L V+D  +I D   +   L++  + V   + G  AL+ L               
Sbjct: 1   MQQPTILLVEDEQAIAD--TLVYALQSEGFTVEWFERGLPALDKL--------------- 43

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRC--LEE 128
              ++   +LVI D  +P ++G++L +++        +PV+ +++ +    + R   LE 
Sbjct: 44  ---RQQPPDLVILDVGLPDISGFELCRQLLAFHP--ALPVIFLTARS--DEVDRLVGLEI 96

Query: 129 GAEEFFLKP 137
           GA+++  KP
Sbjct: 97  GADDYVAKP 105

Length = 228

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

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 38/175 (21%), Positives = 73/175 (41%), Gaps = 36/175 (20%)

Query: 1   MGMAAAAAAAVAESQF--HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLH 58
           +G+ A    A A       +L VDD +   + I  +LK   ++V  V   S+AL     +
Sbjct: 139 IGVTALMIMAYANKDEDGRILLVDDDVSQAERIANILK-EEFRVVVVSDPSEAL----FN 193

Query: 59  EDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSL---RDIPVVIMSS 115
             +                 +LVI          YD L+   +  S    R +P++++  
Sbjct: 194 AAETN--------------YDLVIVSA---NFENYDPLRLCSQLRSKERTRYVPILLLVD 236

Query: 116 ENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIK-----DQIKQQSQQ 165
           E+   R+ + LE G  ++ ++P+   D N+L   + +T+I+     D ++   +Q
Sbjct: 237 EDDDPRLVKALELGVNDYLMRPI---DKNELLARV-RTQIRRKRYQDALRNNLEQ 287

Length = 457

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 14/69 (20%), Positives = 34/69 (49%)

Query: 152 KTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQ 211
           K   + + K++ QQ +E +  ++  Q      ++ + + Q Q++Q ++  +Q   +Q+Q 
Sbjct: 75  KRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQA 134

Query: 212 QSNNNKRKA 220
           +    K  A
Sbjct: 135 EEAAAKAAA 143

Length = 387

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 14/55 (25%), Positives = 14/55 (25%), Gaps = 2/55 (3%)

Query: 161 QQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNN 215
              Q  Q         Q    P Q P   Q     Q  QQ    QQ Q    S  
Sbjct: 202 GYPQPPQGHPEQVQPQQFLPAPSQAPA--QPPLPPQLPQQPPPLQQPQFPGLSQQ 254

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 38.9 bits (90), Expect = 0.002
 Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 7/76 (9%)

Query: 160 KQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQ-------QQQQQQQ 212
            QQ QQ    +      Q P  PQ Q Q+ QQ    Q Q QQ QQ        QQ QQ  
Sbjct: 752 VQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPV 811

Query: 213 SNNNKRKALEEGLSPE 228
           +   + +  ++ ++P+
Sbjct: 812 APQPQYQQPQQPVAPQ 827

Length = 1355

>gnl|CDD|236795 PRK10920, PRK10920, putative uroporphyrinogen III C-methyltransferase; Provisional

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 160 KQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNN 215
           KQQ+Q Q    +D    Q  +  + Q  + Q+ +   +QQ +   Q  +QQ     
Sbjct: 59  KQQAQNQTAT-NDALANQLTALQKAQESQKQELEGILKQQAKALDQANRQQAALAK 113

Length = 390

>gnl|CDD|215106 PLN00212, PLN00212, glutelin; Provisional

 Score = 38.6 bits (90), Expect = 0.002
 Identities = 19/47 (40%), Positives = 26/47 (55%)

Query: 185 QPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTR 231
           QP  +QQ +Q QQQQQ+  QQ Q QQ Q  + +   L+E     + R
Sbjct: 267 QPTLTQQQEQAQQQQQRLYQQVQYQQSQQTSGRWNGLDENFCTIKVR 313

Length = 493

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

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 20/79 (25%), Positives = 34/79 (43%)

Query: 79  NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV 138
           ++V+ D  MP + G  +L+K+ E        V+++S+        R +  GA+ + LKP 
Sbjct: 50  DVVVLDIIMPHLDGIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPF 109

Query: 139 RLSDLNKLKPHLMKTKIKD 157
            L  L      L      D
Sbjct: 110 DLEILAARIRQLAWGTNAD 128

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

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 28/168 (16%), Positives = 62/168 (36%), Gaps = 34/168 (20%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           +VL ++D  +  ++  R +K       V T  +  +A   +   + D             
Sbjct: 2   NVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKPD------------- 48

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                L++ D  MP   G +LL +++       + V+++++ +    I   L  G  ++ 
Sbjct: 49  -----LILLDIYMPDGNGIELLPELRSQH--YPVDVIVITAASDMETIKEALRYGVVDYL 101

Query: 135 LKPV-------RLSDLNKLKPHLMKT-----KIKDQIKQQSQQQQEEE 170
           +KP         L+   + +  L        K  DQ+     ++Q  +
Sbjct: 102 IKPFTFERLQQALTRYRQKRHALESHQQLSQKELDQLFNIQSKEQPPD 149

Length = 224

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

 Score = 38.0 bits (88), Expect = 0.002
 Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 81  VITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRL 140
           VI D  +PGM G D+L++ +E    +  PV+I+++ +  +     L  GA+++  KP  L
Sbjct: 48  VILDLTLPGMDGRDILREWREKG--QREPVLILTARDALAERVEGLRLGADDYLCKPFAL 105

Length = 219

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 16/72 (22%), Positives = 31/72 (43%)

Query: 152 KTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQ 211
           + K + Q  ++ QQ+Q  E +            Q Q+ Q  +  +Q   +Q+Q ++   +
Sbjct: 81  RKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAK 140

Query: 212 QSNNNKRKALEE 223
            +   K KA  E
Sbjct: 141 AAAAAKAKAEAE 152

Length = 387

>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 13/47 (27%), Positives = 20/47 (42%)

Query: 177 QSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEE 223
           Q+   P  Q  +     QQ Q QQ+  Q ++Q  Q S   +    +E
Sbjct: 292 QNAPLPPPQQPQLLPLVQQPQGQQRGPQFREQLVQLSQQQREALSQE 338

Members of this family are necessary for accurate chromosome transmission during cell division. Length = 804

>gnl|CDD|237191 PRK12757, PRK12757, cell division protein FtsN; Provisional

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 11/75 (14%), Positives = 22/75 (29%)

Query: 157 DQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNN 216
           +Q  Q  +   + +      Q P+   Q    +   Q     Q Q     + Q       
Sbjct: 109 EQTPQVPRSTVQIQQQAQQQQPPATTAQPQPVTPPRQTTAPVQPQTPAPVRTQPAAPVTQ 168

Query: 217 KRKALEEGLSPERTR 231
             +A +     E+ +
Sbjct: 169 AVEAPKVEAEKEKEQ 183

Length = 256

>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional

 Score = 38.1 bits (88), Expect = 0.003
 Identities = 23/61 (37%), Positives = 25/61 (40%), Gaps = 5/61 (8%)

Query: 158 QIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQ-----QQQQQQQQQ 212
              QQ QQ    +      Q P  PQ Q Q+ QQ    Q Q QQ Q     Q Q QQ QQ
Sbjct: 776 PQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQ 835

Query: 213 S 213
            
Sbjct: 836 P 836

Length = 1355

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

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 34/150 (22%), Positives = 65/150 (43%), Gaps = 37/150 (24%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           HVL +DD +  R LI   L   +++VT V    +    L           +         
Sbjct: 3   HVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVL-----------ASET------ 45

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRC-----LEEGAE 131
            V++V+ D  +    G ++++ +   S   D+P++I+S +    R+        LE GA 
Sbjct: 46  -VDVVVVDLNLGREDGLEIVRSLATKS---DVPIIIISGD----RLEEADKVVALELGAT 97

Query: 132 EFFLKP-------VRLSDLNKLKPHLMKTK 154
           +F  KP        R+    +++P++++TK
Sbjct: 98  DFIAKPFGTREFLARIRVALRVRPNVVRTK 127

Length = 241

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

 Score = 38.6 bits (89), Expect = 0.003
 Identities = 37/147 (25%), Positives = 61/147 (41%), Gaps = 23/147 (15%)

Query: 4    AAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQ 63
            A A        +  +L  DD   +R L++R L    Y V     G +AL  + +   D  
Sbjct: 947  AKAEQPITLPEKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYD-- 1004

Query: 64   SSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRIS 123
                            L+ITD  MP M G++L +K++E +S   +P+  +++    +   
Sbjct: 1005 ----------------LLITDVNMPNMDGFELTRKLREQNS--SLPIWGLTANAQANERE 1046

Query: 124  RCLEEGAEEFFLKPVRLSDLNKLKPHL 150
            + L  G      KP+    L+ LK HL
Sbjct: 1047 KGLSCGMNLCLFKPL---TLDVLKTHL 1070

Length = 1197

>gnl|CDD|221416 pfam12090, Spt20, Spt20 family

 Score = 37.0 bits (86), Expect = 0.003
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 175 DFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKR 218
           D+++  P Q Q Q   QSQ+QQ ++    Q QQ   Q+    K+
Sbjct: 81  DYRNTVPQQSQQQAQAQSQEQQDKENSPAQNQQADGQKQKPVKK 124

This presumed domain is found in the Spt20 proteins from both human and yeast. The Spt20 protein is part of the SAGA complex which is a large cmplex mediating histone deacetylation. Yeast Spt20 has been shown to play a role in structural integrity of the SAGA complex as as no intact SAGA could be purified in spt20 deletion strains. Length = 191

>gnl|CDD|236942 PRK11637, PRK11637, AmiB activator; Provisional

 Score = 37.8 bits (88), Expect = 0.003
 Identities = 14/39 (35%), Positives = 23/39 (58%)

Query: 183 QQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKAL 221
             Q  E ++ Q QQ+    +QQ QQQ+ +Q+ N ++K L
Sbjct: 183 AAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTL 221

Length = 428

>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106)

 Score = 37.7 bits (87), Expect = 0.004
 Identities = 14/52 (26%), Positives = 23/52 (44%)

Query: 161 QQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQ 212
           + + +  ++ + ++  Q P+      Q  QQ QQQ  Q  QQ   Q   QQ 
Sbjct: 198 RHAPKPTQQPTVQNPAQQPTVQNPAQQPQQQPQQQPVQPAQQPTPQNPAQQP 249

This family of proteins are found in large numbers in the Trichomonas vaginalis proteome. The function of this protein is unknown. Length = 422

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

 Score = 36.8 bits (85), Expect = 0.004
 Identities = 22/114 (19%), Positives = 58/114 (50%), Gaps = 10/114 (8%)

Query: 30  LIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG 89
           ++E   KT  Y    +  G     F+    D+G + +    ++      +L+I D  +P 
Sbjct: 5   IVEDEKKTGEY----LTKGLTEAGFVVDLADNGLNGY----HLAMTGDYDLIILDIMLPD 56

Query: 90  MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL 143
           + G+D+++ ++ ++  + +P++++++        + LE GA+++ +KP   ++L
Sbjct: 57  VNGWDIVRMLRSAN--KGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAEL 108

Length = 227

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	241
PLN03029	222	type-a response regulator protein; Provisional	100.0
COG0745	229	OmpR Response regulators consisting of a CheY-like	99.91
COG4566	202	TtrR Response regulator [Signal transduction mecha	99.89
COG4753	475	Response regulator containing CheY-like receiver d	99.88
COG2204	464	AtoC Response regulator containing CheY-like recei	99.88
COG4565	224	CitB Response regulator of citrate/malate metaboli	99.86
PF00072	112	Response_reg: Response regulator receiver domain;	99.86
COG3437	360	Response regulator containing a CheY-like receiver	99.85
COG2197	211	CitB Response regulator containing a CheY-like rec	99.82
COG0784	130	CheY FOG: CheY-like receiver [Signal transduction	99.79
PRK10046	225	dpiA two-component response regulator DpiA; Provis	99.79
COG3706	435	PleD Response regulator containing a CheY-like rec	99.78
KOG0519	786	consensus Sensory transduction histidine kinase [S	99.78
COG4567	182	Response regulator consisting of a CheY-like recei	99.76
COG3947	361	Response regulator containing CheY-like receiver a	99.76
PRK10816	223	DNA-binding transcriptional regulator PhoP; Provis	99.75
PRK10529	225	DNA-binding transcriptional activator KdpE; Provis	99.74
PRK09836	227	DNA-binding transcriptional activator CusR; Provis	99.74
PRK10643	222	DNA-binding transcriptional regulator BasR; Provis	99.74
PRK10161	229	transcriptional regulator PhoB; Provisional	99.73
PRK10430	239	DNA-binding transcriptional activator DcuR; Provis	99.73
PRK11173	237	two-component response regulator; Provisional	99.73
TIGR02154	226	PhoB phosphate regulon transcriptional regulatory	99.73
PRK09468	239	ompR osmolarity response regulator; Provisional	99.73
PRK10336	219	DNA-binding transcriptional regulator QseB; Provis	99.72
PRK10766	221	DNA-binding transcriptional regulator TorR; Provis	99.72
PRK10841	924	hybrid sensory kinase in two-component regulatory	99.72
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	99.71
TIGR03787	227	marine_sort_RR proteobacterial dedicated sortase s	99.71
PRK10701	240	DNA-binding transcriptional regulator RstA; Provis	99.71
CHL00148	240	orf27 Ycf27; Reviewed	99.71
PRK11083	228	DNA-binding response regulator CreB; Provisional	99.71
PRK10840	216	transcriptional regulator RcsB; Provisional	99.71
PRK13856	241	two-component response regulator VirG; Provisional	99.7
PRK10955	232	DNA-binding transcriptional regulator CpxR; Provis	99.7
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	99.7
PRK11517	223	transcriptional regulatory protein YedW; Provision	99.7
PRK09581	457	pleD response regulator PleD; Reviewed	99.7
PRK15347	921	two component system sensor kinase SsrA; Provision	99.69
PRK09958	204	DNA-binding transcriptional activator EvgA; Provis	99.69
TIGR02875	262	spore_0_A sporulation transcription factor Spo0A.	99.69
PRK15115	444	response regulator GlrR; Provisional	99.69
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.69
PRK09483	217	response regulator; Provisional	99.68
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	99.68
TIGR01387	218	cztR_silR_copR heavy metal response regulator. Mem	99.68
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.67
PRK11091	779	aerobic respiration control sensor protein ArcB; P	99.67
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.66
PRK14084	246	two-component response regulator; Provisional	99.65
PRK10360	196	DNA-binding transcriptional activator UhpA; Provis	99.65
PRK09935	210	transcriptional regulator FimZ; Provisional	99.64
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.64
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.64
PRK15479	221	transcriptional regulatory protein TctD; Provision	99.63
PRK11697	238	putative two-component response-regulatory protein	99.63
PRK09390	202	fixJ response regulator FixJ; Provisional	99.63
PRK09581	457	pleD response regulator PleD; Reviewed	99.62
PRK09959	1197	hybrid sensory histidine kinase in two-component r	99.62
PRK10710	240	DNA-binding transcriptional regulator BaeR; Provis	99.62
PRK12555	337	chemotaxis-specific methylesterase; Provisional	99.61
PRK10610	129	chemotaxis regulatory protein CheY; Provisional	99.6
COG2201	350	CheB Chemotaxis response regulator containing a Ch	99.6
PRK10100	216	DNA-binding transcriptional regulator CsgD; Provis	99.59
PRK10403	215	transcriptional regulator NarP; Provisional	99.57
PRK13558	665	bacterio-opsin activator; Provisional	99.57
PRK10651	216	transcriptional regulator NarL; Provisional	99.56
PRK11475	207	DNA-binding transcriptional activator BglJ; Provis	99.56
PRK13435	145	response regulator; Provisional	99.55
PRK00742	354	chemotaxis-specific methylesterase; Provisional	99.54
PRK15369	211	two component system sensor kinase SsrB; Provision	99.53
PRK15411	207	rcsA colanic acid capsular biosynthesis activation	99.52
COG3707	194	AmiR Response regulator with putative antiterminat	99.48
PRK13837	828	two-component VirA-like sensor kinase; Provisional	99.46
PRK09191	261	two-component response regulator; Provisional	99.45
cd00156	113	REC Signal receiver domain; originally thought to	99.41
PRK10693	303	response regulator of RpoS; Provisional	99.37
PRK13557	540	histidine kinase; Provisional	99.36
PRK15029	755	arginine decarboxylase; Provisional	99.31
COG3279	244	LytT Response regulator of the LytR/AlgR family [T	99.19
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	98.68
COG3706	435	PleD Response regulator containing a CheY-like rec	98.46
PF06490	109	FleQ: Flagellar regulatory protein FleQ; InterPro:	98.14
smart00448	55	REC cheY-homologous receiver domain. CheY regulate	97.85
cd02071	122	MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 bin	97.67
PF03709	115	OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal	97.56
PRK02261	137	methylaspartate mutase subunit S; Provisional	97.34
TIGR00640	132	acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal	97.26
cd02067	119	B12-binding B12 binding domain (B12-BD). This doma	97.08
TIGR01501	134	MthylAspMutase methylaspartate mutase, S subunit.	96.62
PRK15399	713	lysine decarboxylase LdcC; Provisional	96.53
PRK10618	894	phosphotransfer intermediate protein in two-compon	96.43
PRK15400	714	lysine decarboxylase CadA; Provisional	96.42
cd02070	201	corrinoid_protein_B12-BD B12 binding domain of cor	96.32
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	96.07
COG2185	143	Sbm Methylmalonyl-CoA mutase, C-terminal domain/su	95.91
cd02069	213	methionine_synthase_B12_BD B12 binding domain of m	95.79
cd04728	248	ThiG Thiazole synthase (ThiG) is the tetrameric en	95.69
cd02072	128	Glm_B12_BD B12 binding domain of glutamate mutase	95.65
COG4999	140	Uncharacterized domain of BarA-like signal transdu	95.05
TIGR02370	197	pyl_corrinoid methyltransferase cognate corrinoid	95.0
PF02310	121	B12-binding: B12 binding domain; InterPro: IPR0061	94.9
PRK00208	250	thiG thiazole synthase; Reviewed	94.88
PRK09426	714	methylmalonyl-CoA mutase; Reviewed	93.72
PF05690	247	ThiG: Thiazole biosynthesis protein ThiG; InterPro	93.67
PF07688	283	KaiA: KaiA domain; InterPro: IPR011648 KaiA is a c	93.59
PRK01130	221	N-acetylmannosamine-6-phosphate 2-epimerase; Provi	93.46
PF01408	120	GFO_IDH_MocA: Oxidoreductase family, NAD-binding R	93.12
PRK00043	212	thiE thiamine-phosphate pyrophosphorylase; Reviewe	93.04
CHL00162	267	thiG thiamin biosynthesis protein G; Validated	92.96
COG2022	262	ThiG Uncharacterized enzyme of thiazole biosynthes	92.95
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	92.64
PRK10558	256	alpha-dehydro-beta-deoxy-D-glucarate aldolase; Pro	91.98
TIGR03239	249	GarL 2-dehydro-3-deoxyglucarate aldolase. In E. co	91.21
PF02254	116	TrkA_N: TrkA-N domain; InterPro: IPR003148 The reg	91.18
PRK10128	267	2-keto-3-deoxy-L-rhamnonate aldolase; Provisional	91.1
TIGR00693	196	thiE thiamine-phosphate pyrophosphorylase. This mo	91.06
PRK08385	278	nicotinate-nucleotide pyrophosphorylase; Provision	91.03
TIGR03151	307	enACPred_II putative enoyl-(acyl-carrier-protein)	90.71
cd00331	217	IGPS Indole-3-glycerol phosphate synthase (IGPS);	90.71
cd04729	219	NanE N-acetylmannosamine-6-phosphate epimerase (Na	90.52
PRK03958	176	tRNA 2'-O-methylase; Reviewed	90.39
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	90.16
KOG4175	268	consensus Tryptophan synthase alpha chain [Amino a	90.1
cd04724	242	Tryptophan_synthase_alpha Ttryptophan synthase (TR	89.92
COG0512	191	PabA Anthranilate/para-aminobenzoate synthases com	89.88
TIGR02311	249	HpaI 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	89.79
PRK13111	258	trpA tryptophan synthase subunit alpha; Provisiona	89.57
PRK00278	260	trpC indole-3-glycerol-phosphate synthase; Reviewe	89.46
PLN02591	250	tryptophan synthase	89.25
PRK05749	425	3-deoxy-D-manno-octulosonic-acid transferase; Revi	89.2
cd04723	233	HisA_HisF Phosphoribosylformimino-5-aminoimidazole	89.1
cd00452	190	KDPG_aldolase KDPG and KHG aldolase. This family b	88.77
cd00564	196	TMP_TenI Thiamine monophosphate synthase (TMP synt	88.66
PRK12704	520	phosphodiesterase; Provisional	88.44
TIGR00007	230	phosphoribosylformimino-5-aminoimidazole carboxami	88.39
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	88.15
cd02068	127	radical_SAM_B12_BD B12 binding domain_like associa	88.14
PF01596	205	Methyltransf_3: O-methyltransferase; InterPro: IPR	88.09
PRK13125	244	trpA tryptophan synthase subunit alpha; Provisiona	88.08
PF01729	169	QRPTase_C: Quinolinate phosphoribosyl transferase,	88.0
PRK11840	326	bifunctional sulfur carrier protein/thiazole synth	87.9
cd04727	283	pdxS PdxS is a subunit of the pyridoxal 5'-phospha	87.59
PF02581	180	TMP-TENI: Thiamine monophosphate synthase/TENI; In	87.38
PRK05718	212	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	87.33
cd04730	236	NPD_like 2-Nitropropane dioxygenase (NPD), one of	87.11
CHL00200	263	trpA tryptophan synthase alpha subunit; Provisiona	86.39
PRK06774	191	para-aminobenzoate synthase component II; Provisio	86.37
PRK05567	486	inosine 5'-monophosphate dehydrogenase; Reviewed	86.36
PRK03659	601	glutathione-regulated potassium-efflux system prot	86.13
PRK05458	326	guanosine 5'-monophosphate oxidoreductase; Provisi	85.8
PRK07428	288	nicotinate-nucleotide pyrophosphorylase; Provision	85.52
PLN02591	250	tryptophan synthase	85.27
PRK13587	234	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	85.16
TIGR00343	287	pyridoxal 5'-phosphate synthase, synthase subunit	84.97
PLN02775	286	Probable dihydrodipicolinate reductase	84.87
PLN02274	505	inosine-5'-monophosphate dehydrogenase	84.67
PRK06543	281	nicotinate-nucleotide pyrophosphorylase; Provision	84.37
KOG2335	358	consensus tRNA-dihydrouridine synthase [Translatio	84.34
PF03060	330	NMO: Nitronate monooxygenase; InterPro: IPR004136	84.1
TIGR00566	188	trpG_papA glutamine amidotransferase of anthranila	83.84
cd02065	125	B12-binding_like B12 binding domain (B12-BD). Most	83.65
PF04131	192	NanE: Putative N-acetylmannosamine-6-phosphate epi	83.6
TIGR01037	300	pyrD_sub1_fam dihydroorotate dehydrogenase (subfam	83.53
PRK06849	389	hypothetical protein; Provisional	83.31
TIGR00736	231	nifR3_rel_arch TIM-barrel protein, putative. Membe	83.29
PRK07695	201	transcriptional regulator TenI; Provisional	83.06
PRK03562	621	glutathione-regulated potassium-efflux system prot	83.02
PRK04180	293	pyridoxal biosynthesis lyase PdxS; Provisional	83.01
KOG1601	340	consensus GATA-4/5/6 transcription factors [Transc	82.99
PRK06843	404	inosine 5-monophosphate dehydrogenase; Validated	82.72
cd05014	128	SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5	82.64
PRK06552	213	keto-hydroxyglutarate-aldolase/keto-deoxy-phosphog	82.6
cd04732	234	HisA HisA. Phosphoribosylformimino-5-aminoimidazol	82.39
PRK05637	208	anthranilate synthase component II; Provisional	82.34
PRK07649	195	para-aminobenzoate/anthranilate synthase glutamine	82.29
PRK04302	223	triosephosphate isomerase; Provisional	82.2
TIGR01182	204	eda Entner-Doudoroff aldolase. 2-deydro-3-deoxypho	82.11
PRK06559	290	nicotinate-nucleotide pyrophosphorylase; Provision	81.86
COG0313	275	Predicted methyltransferases [General function pre	81.85
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	81.84
cd05013	139	SIS_RpiR RpiR-like protein. RpiR contains a SIS (S	81.83
PTZ00314	495	inosine-5'-monophosphate dehydrogenase; Provisiona	81.81
PLN02335	222	anthranilate synthase	81.7
PRK00748	233	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	81.56
COG0159	265	TrpA Tryptophan synthase alpha chain [Amino acid t	81.23
PRK05670	189	anthranilate synthase component II; Provisional	81.21
COG4122	219	Predicted O-methyltransferase [General function pr	81.17
PRK07896	289	nicotinate-nucleotide pyrophosphorylase; Provision	81.05
PRK09140	206	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; R	80.8
TIGR03088	374	stp2 sugar transferase, PEP-CTERM/EpsH1 system ass	80.79
PRK09490	1229	metH B12-dependent methionine synthase; Provisiona	80.77
COG0352	211	ThiE Thiamine monophosphate synthase [Coenzyme met	80.72
COG0157	280	NadC Nicotinate-nucleotide pyrophosphorylase [Coen	80.64
TIGR00262	256	trpA tryptophan synthase, alpha subunit. Tryptopha	80.59
COG3836	255	HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldola	80.48
TIGR01334	277	modD putative molybdenum utilization protein ModD.	80.37
PRK08007	187	para-aminobenzoate synthase component II; Provisio	80.36
PRK04128	228	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)met	80.36
PLN02871	465	UDP-sulfoquinovose:DAG sulfoquinovosyltransferase	80.3
PRK15482	285	transcriptional regulator MurR; Provisional	80.11

>PLN03029 type-a response regulator protein; Provisional

Probab=100.00  E-value=1.9e-38  Score=263.02  Aligned_cols=212  Identities=78%  Similarity=1.128  Sum_probs=163.7

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCC--CCCCCCCCcccccccEEEEeCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQS--SHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~--~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      .+++++||||||+...+..+..+|+..||.|.++.++.++++.+....+|...  .+++.+..+.+..+|+||+|+.||+
T Consensus         5 ~~~~~~VLiVdd~~~~~~~l~~~L~~~g~~v~~a~sg~~al~~l~~~~~d~~~p~~~~~~~~~~~~~~~dlVllD~~mp~   84 (222)
T PLN03029          5 TESQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQEVEVNLIITDYCMPG   84 (222)
T ss_pred             CCCCccEEEEeCCHHHHHHHHHHHHHcCceEEEECCHHHHHHHHHhccccccccccccccccccccccCCEEEEcCCCCC
Confidence            56789999999999999999999999999999999999999999765544211  2334445566778999999999999


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHHHHHHHHHHHHHhh-
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQE-  168 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~~~~~~~~~q~~~~-  168 (241)
                      ++|+++++.|+......++|||++|+........+++++|+++||.||++..+|.+++.++++.+.+.........+.. 
T Consensus        85 ~~G~e~l~~ir~~~~~~~ipvIils~~~~~~~~~~al~~Ga~dyl~KP~~~~~L~~l~~~~~~~~~~~~~~~~~~~~~~~  164 (222)
T PLN03029         85 MTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTKSKNQKQENQEKQEKL  164 (222)
T ss_pred             CCHHHHHHHHHhccccCCCcEEEEeCCCCHHHHHHHHHhCchheEECCCCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHh
Confidence            9999999999987655689999999999999999999999999999999999999998888877665544332222111 


Q ss_pred             ---hhcccCCCCCCCCCCCCCcchhhHHHHHHHHHHHHHHHHHHHHhhhhhHhhhhhhcCCCCCCCCCcCCCcccC
Q 026239          169 ---EESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPRYNGIATVV  241 (241)
Q Consensus       169 ---~~~~~~~~~~~s~~qqq~q~~qqqqqqqqqqqq~q~q~qq~~q~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~  241 (241)
                         ....+.......+++.+++.++++                  ++.+++|||+|+||+|||++|||||||||||
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  222 (222)
T PLN03029        165 EESEIQSEKQEQPSQQPQSQPQPQQQP------------------QQPNNNKRKAMEEGLSPDRTRPRYNGITTVV  222 (222)
T ss_pred             hhHHhhcccccccCCCCCCCCCCCCCC------------------CCcchhHHHHHHhccCCCCCCcccCCceeeC
Confidence               111111112222222222222222                  3789999999999999999999999999987

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

Probab=99.91  E-value=7.1e-24  Score=176.05  Aligned_cols=119  Identities=22%  Similarity=0.419  Sum_probs=107.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..|...|...||.|..+.++.+|++.+...                   ||+||+|+.||+++|+++
T Consensus         1 ~~ILiveDd~~i~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~-------------------~dlviLD~~lP~~dG~~~   61 (229)
T COG0745           1 MRILLVEDDPELAELLKEYLEEEGYEVDVAADGEEALEAAREQ-------------------PDLVLLDLMLPDLDGLEL   61 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC-------------------CCEEEEECCCCCCCHHHH
Confidence            5899999999999999999999999999999999999998543                   559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |++||+. ....+|||++|+..+......++++|||||+.|||++.+|...+..++++.
T Consensus        62 ~~~iR~~-~~~~~PIi~Lta~~~~~d~v~gl~~GADDYl~KPf~~~EL~ARi~a~lRR~  119 (229)
T COG0745          62 CRRLRAK-KGSGPPIIVLTARDDEEDRVLGLEAGADDYLTKPFSPRELLARLRALLRRN  119 (229)
T ss_pred             HHHHHhh-cCCCCcEEEEECCCcHHHHHHHHhCcCCeeeeCCCCHHHHHHHHHHHHCcC
Confidence            9999965 345789999999999999999999999999999999999977666666544

>COG4566 TtrR Response regulator [Signal transduction mechanisms]

Probab=99.89  E-value=5.7e-22  Score=155.41  Aligned_cols=119  Identities=24%  Similarity=0.368  Sum_probs=107.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..-|.|||||..+|+.+..+|+..||.+.++.|+.+.|.......|                  .|+|+|+.||+++|++
T Consensus         4 ~~~V~vVDDD~~vr~al~~Ll~s~G~~v~~~~s~~~fL~~~~~~~p------------------GclllDvrMPg~sGle   65 (202)
T COG4566           4 EPLVHVVDDDESVRDALAFLLESAGFQVKCFASAEEFLAAAPLDRP------------------GCLLLDVRMPGMSGLE   65 (202)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHHhCCceeeeecCHHHHHhhccCCCC------------------CeEEEecCCCCCchHH
Confidence            3568899999999999999999999999999999999987544433                  4999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +...|.....  .+||||+|++.+.....++++.||.|||.|||+..+|...+...+..
T Consensus        66 lq~~L~~~~~--~~PVIfiTGhgDIpmaV~AmK~GAvDFLeKP~~~q~Lldav~~Al~~  122 (202)
T COG4566          66 LQDRLAERGI--RLPVIFLTGHGDIPMAVQAMKAGAVDFLEKPFSEQDLLDAVERALAR  122 (202)
T ss_pred             HHHHHHhcCC--CCCEEEEeCCCChHHHHHHHHcchhhHHhCCCchHHHHHHHHHHHHH
Confidence            9999999876  89999999999999999999999999999999999998776666544

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

Probab=99.88  E-value=3.9e-22  Score=178.04  Aligned_cols=121  Identities=31%  Similarity=0.498  Sum_probs=108.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhc--CCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKT--SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~--~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      +++||||||++.+|++|+.++..  .|+.|+ +|.||.+|++.+....                  |||||+|+.||+||
T Consensus         1 MykVlIVDDE~lIr~GLk~lI~w~~~g~eiVgtA~NG~eAleli~e~~------------------pDiviTDI~MP~md   62 (475)
T COG4753           1 MYKVLIVDDEPLIREGLKSLIDWEALGIEVVGTAANGKEALELIQETQ------------------PDIVITDINMPGMD   62 (475)
T ss_pred             CeeEEEecChHHHHHHHHHhCChhhcCCeEEEecccHHHHHHHHHhcC------------------CCEEEEecCCCCCc
Confidence            47999999999999999999964  478776 8999999999996555                  45999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~  155 (241)
                      |+++++.+++..+  ++.+||+|+.++.+.+.+|++.|+.|||+||++.++|..++.++.....
T Consensus        63 GLdLI~~ike~~p--~~~~IILSGy~eFeYak~Am~lGV~dYLLKP~~k~eL~~~L~ki~~kl~  124 (475)
T COG4753          63 GLDLIKAIKEQSP--DTEFIILSGYDEFEYAKKAMKLGVKDYLLKPVDKAELEEALKKIIGKLE  124 (475)
T ss_pred             HHHHHHHHHHhCC--CceEEEEeccchhHHHHHHHhcCchhheeCcCCHHHHHHHHHHHHHHHH
Confidence            9999999999765  9999999999999999999999999999999999999888777755443

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

Probab=99.88  E-value=5.3e-22  Score=177.46  Aligned_cols=120  Identities=34%  Similarity=0.520  Sum_probs=110.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||+...|..+...|+..||.|.++.++.+|++.+...                  .+|+||+|+.||+++|++
T Consensus         4 ~~~iLvVDDd~~ir~~l~~~L~~~G~~v~~a~~~~~al~~i~~~------------------~~~lvl~Di~mp~~~Gl~   65 (464)
T COG2204           4 MARILVVDDDPDIRELLEQALELAGYEVVTAESAEEALEALSES------------------PFDLVLLDIRMPGMDGLE   65 (464)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcC------------------CCCEEEEecCCCCCchHH
Confidence            46799999999999999999999999999999999999999654                  366999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++.|+...+  ++|||+||++.+.+.++.|++.||.|||.|||+++.|..++.+.+..+
T Consensus        66 ll~~i~~~~~--~~pVI~~Tg~g~i~~AV~A~k~GA~Dfl~KP~~~~~L~~~v~ral~~~  123 (464)
T COG2204          66 LLKEIKSRDP--DLPVIVMTGHGDIDTAVEALRLGAFDFLEKPFDLDRLLAIVERALELR  123 (464)
T ss_pred             HHHHHHhhCC--CCCEEEEeCCCCHHHHHHHHhcCcceeeeCCCCHHHHHHHHHHHHHHh
Confidence            9999999875  999999999999999999999999999999999999987777666543

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

Probab=99.86  E-value=9.4e-21  Score=151.30  Aligned_cols=121  Identities=19%  Similarity=0.372  Sum_probs=107.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ++|||||||+.+...-+++++.. ||.++ ++.++++|...+....||                  ||++|+.||+.+|+
T Consensus         1 i~VLIiEDD~mVaeih~~yv~~~~gF~~vg~A~~~~ea~~~i~~~~pD------------------LILLDiYmPd~~Gi   62 (224)
T COG4565           1 INVLIIEDDPMVAEIHRRYVKQIPGFSVVGTAGTLEEAKMIIEEFKPD------------------LILLDIYMPDGNGI   62 (224)
T ss_pred             CcEEEEcCchHHHHHHHHHHHhCCCceEEEeeccHHHHHHHHHhhCCC------------------EEEEeeccCCCccH
Confidence            58999999999999999999865 78776 899999999999766555                  99999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIK  156 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~~  156 (241)
                      +|+.+|++...  .+-||++|+.++.+.+.++++.|+.|||+|||..+.|...+......+..
T Consensus        63 ~lL~~ir~~~~--~~DVI~iTAA~d~~tI~~alr~Gv~DYLiKPf~~eRl~~aL~~y~~~r~~  123 (224)
T COG4565          63 ELLPELRSQHY--PVDVIVITAASDMETIKEALRYGVVDYLIKPFTFERLQQALTRYRQKRHA  123 (224)
T ss_pred             HHHHHHHhcCC--CCCEEEEeccchHHHHHHHHhcCchhheecceeHHHHHHHHHHHHHHHHH
Confidence            99999998765  78899999999999999999999999999999999997766666554443

>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=99.86  E-value=1.5e-20  Score=138.23  Aligned_cols=110  Identities=34%  Similarity=0.617  Sum_probs=102.1

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      ||||||++..+..+..+|+..|| .|..+.++.+++..+....                  ||+||+|+.||+++|++++
T Consensus         1 Ilivd~~~~~~~~l~~~l~~~~~~~v~~~~~~~~~~~~~~~~~------------------~d~iiid~~~~~~~~~~~~   62 (112)
T PF00072_consen    1 ILIVDDDPEIRELLEKLLERAGYEEVTTASSGEEALELLKKHP------------------PDLIIIDLELPDGDGLELL   62 (112)
T ss_dssp             EEEEESSHHHHHHHHHHHHHTTEEEEEEESSHHHHHHHHHHST------------------ESEEEEESSSSSSBHHHHH
T ss_pred             cEEEECCHHHHHHHHHHHHhCCCCEEEEECCHHHHHHHhcccC------------------ceEEEEEeeeccccccccc
Confidence            79999999999999999999999 8999999999999996554                  5599999999999999999


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhh
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLK  147 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~  147 (241)
                      +.|+...+  .+|+|++|+..+.....+++++|+++||.||++.++|...+
T Consensus        63 ~~i~~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i  111 (112)
T PF00072_consen   63 EQIRQINP--SIPIIVVTDEDDSDEVQEALRAGADDYLSKPFSPEELRAAI  111 (112)
T ss_dssp             HHHHHHTT--TSEEEEEESSTSHHHHHHHHHTTESEEEESSSSHHHHHHHH
T ss_pred             cccccccc--cccEEEecCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHhh
Confidence            99998874  89999999999999999999999999999999999986654

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 ....

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

Probab=99.85  E-value=1.7e-20  Score=160.39  Aligned_cols=118  Identities=31%  Similarity=0.521  Sum_probs=108.1

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ....++||+|||++..+..++.+|+..||.|..+++|+++++.....                  .+|+||+|++||+|+
T Consensus        11 ~~~~~~vl~vDD~~~~~~~~~~lL~~~~y~v~~ae~g~~a~kl~~~~------------------~~dlvllD~~mp~md   72 (360)
T COG3437          11 PDEKLTVLLVDDEPDNLEALRQLLRMIGYRVIEAENGEEALKLLQEE------------------PPDLVLLDVRMPEMD   72 (360)
T ss_pred             CcccceEEEecCchhHHHHHHHHHHhcccceeeecCchHHHHHhccc------------------CCceEEeeccCCCcc
Confidence            45689999999999999999999999999999999999999988543                  366999999999999


Q ss_pred             HHHHHHHHHh-cCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhh
Q 026239           92 GYDLLKKIKE-SSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLK  147 (241)
Q Consensus        92 g~~ll~~ir~-~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~  147 (241)
                      |+++|.+|+. .+....+||+++|+..+.+...+++.+||++||.||+++.+|...+
T Consensus        73 g~ev~~~lk~~~p~t~~ip~i~lT~~~d~~~~~~~~~~g~~dyl~KP~~~~~l~~rv  129 (360)
T COG3437          73 GAEVLNKLKAMSPSTRRIPVILLTAYADSEDRQRALEAGADDYLSKPISPKELVARV  129 (360)
T ss_pred             HHHHHHHHHhcCCcccccceEEEeecCChHHHHHHHHhhHHHHhcCCCCHHHHHHHH
Confidence            9999999999 6667789999999999999999999999999999999998886544

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

Probab=99.82  E-value=2.3e-19  Score=147.56  Aligned_cols=119  Identities=28%  Similarity=0.485  Sum_probs=106.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCC-CEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSS-YQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g-~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ++|+|+||++.+|..++.+|...+ ++|+ .+.++.++++.+....                  ||+||+|+.||+++|+
T Consensus         1 ~~vlivDDh~l~r~gl~~~L~~~~~~~vv~~a~~~~~~l~~~~~~~------------------pdvvl~Dl~mP~~~G~   62 (211)
T COG2197           1 IKVLIVDDHPLVREGLRQLLELEPDLEVVGEASNGEEALDLARELK------------------PDVVLLDLSMPGMDGL   62 (211)
T ss_pred             CeEEEECCcHHHHHHHHHHHhhCCCCEEEEEeCCHHHHHHHhhhcC------------------CCEEEEcCCCCCCChH
Confidence            479999999999999999998765 7766 7888999999976554                  4599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++.|++..+  +++||++|...+...+.+++++||++|++|..++++|...+..+..+.
T Consensus        63 e~~~~l~~~~p--~~~vvvlt~~~~~~~v~~al~~Ga~Gyl~K~~~~~~l~~ai~~v~~G~  121 (211)
T COG2197          63 EALKQLRARGP--DIKVVVLTAHDDPAYVIRALRAGADGYLLKDASPEELVEAIRAVAAGG  121 (211)
T ss_pred             HHHHHHHHHCC--CCcEEEEeccCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCCC
Confidence            99999997654  889999999999999999999999999999999999998888887544

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

Probab=99.79  E-value=8e-18  Score=126.77  Aligned_cols=116  Identities=33%  Similarity=0.602  Sum_probs=99.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHH-HHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGS-KALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~-~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...+||+|||++..+..+...|...|+.|..+.++. +|++.+....                 .||+||+|+.||+++|
T Consensus         4 ~~~~vLivdD~~~~~~~~~~~l~~~g~~v~~a~~g~~~al~~~~~~~-----------------~~dlii~D~~mp~~~G   66 (130)
T COG0784           4 SGLRVLVVDDEPVNRRLLKRLLEDLGYEVVEAADGEEEALELLRELP-----------------QPDLILLDINMPGMDG   66 (130)
T ss_pred             CCcEEEEEcCCHHHHHHHHHHHHHcCCeEEEeCChHHHHHHHHHhCC-----------------CCCEEEEeCCCCCCCH
Confidence            468999999999999999999999999999999995 9999996542                 2569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHH-HHHhhH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSD-LNKLKP  148 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~-L~~~~~  148 (241)
                      +++++.++...  +.+|+|++|+.........+++.|+++|+.||+...+ |...+.
T Consensus        67 ~~~~~~l~~~~--~~~pvv~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~  121 (130)
T COG0784          67 IELLRRLRARG--PNIPVILLTAYADEADRERALAAGADDYLTKPIFLEEELLAALR  121 (130)
T ss_pred             HHHHHHHHhCC--CCCCEEEEEcCcCHHHHHHHHHcCCCeEEcCCCCcHHHHHHHHH
Confidence            99999999873  3788888999888776777899999999999977666 544333

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=99.79  E-value=5.7e-18  Score=140.40  Aligned_cols=120  Identities=14%  Similarity=0.278  Sum_probs=105.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhc-CCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKT-SSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~-~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ..++||||||++..+..+..+|.. .++. |..+.++.++++.+....                  ||+||+|+.||+++
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~~~------------------pdlvllD~~mp~~~   64 (225)
T PRK10046          3 APLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFK------------------PGLILLDNYLPDGR   64 (225)
T ss_pred             CcceEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC------------------CCEEEEeCCCCCCc
Confidence            358999999999999999999986 4775 568999999999996554                  45999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      |+++++.|+...+  .+|||++|+..+...+..+++.||++||.||++.++|...+.++...
T Consensus        65 gle~~~~l~~~~~--~~~iivls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~L~~~i~~~~~~  124 (225)
T PRK10046         65 GINLLHELVQAHY--PGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQR  124 (225)
T ss_pred             HHHHHHHHHhcCC--CCCEEEEEcCCCHHHHHHHHHcCccEEEECCcCHHHHHHHHHHHHHH
Confidence            9999999997544  67999999999999999999999999999999999998777666543

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

Probab=99.78  E-value=8.1e-18  Score=149.61  Aligned_cols=114  Identities=28%  Similarity=0.527  Sum_probs=106.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||+|||+...+..++.+|...||.|..+.++.+|+..+...                  .||+||+|+.||++||+
T Consensus       131 ~~~kILvvdD~~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~~~e~------------------~~dlil~d~~mp~~dg~  192 (435)
T COG3706         131 APKKILVVDDDATQRERLRRILQVEGFRVVEATDGEEALLQLAEL------------------PPDLVLLDANMPDMDGL  192 (435)
T ss_pred             cCceEEEEcCcHHHHHHHHHHHHhccceeeeecCHHHHHHHHhcC------------------CCcEEEEecCCCccCHH
Confidence            468999999999999999999999999999999999999999644                  46699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      ++|+.+|.......+|||++++.++.....++++.|++|||.||+...+|..
T Consensus       193 el~~~lr~~~~t~~ipii~~~~~~d~~~~~~Af~~G~~Dyi~kPi~~~~l~~  244 (435)
T COG3706         193 ELCTRLRQLERTRDIPIILLSSKDDDELVVRAFELGVNDYITKPIEEGELRA  244 (435)
T ss_pred             HHHHHHhcccccccccEEEEecccchHHHHHHHHcCCcceEecCCCHHHHHH
Confidence            9999999988878999999999999999999999999999999999888753

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

Probab=99.78  E-value=2e-18  Score=165.73  Aligned_cols=119  Identities=30%  Similarity=0.544  Sum_probs=108.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||+|||+...++....+|+..|..++.+.+|.+|++.+.                 ....||+||+|++||.|||+
T Consensus       665 ~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~sg~e~l~~~~-----------------~~~~y~~ifmD~qMP~mDG~  727 (786)
T KOG0519|consen  665 TGPKILLVDDNPVNRKVATGMLKKLGAEVTEVNSGQEALDKLK-----------------PPHSYDVIFMDLQMPEMDGY  727 (786)
T ss_pred             cCCceEEEecccchHHHHHHHHHHhCCeeEeecCcHHHHHhcC-----------------CCCcccEEEEEcCCcccchH
Confidence            4689999999999999999999999999999999999999985                 13568999999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++.++||+... .++|||+||+...++...+|++.|.|+||.|||+...|...+..+
T Consensus       728 e~~~~irk~~~-~~~pIvAlTa~~~~~~~~~c~~~Gmd~yl~KP~~~~~l~~~l~~~  783 (786)
T KOG0519|consen  728 EATREIRKKER-WHLPIVALTADADPSTEEECLEVGMDGYLSKPFTLEKLVKILREF  783 (786)
T ss_pred             HHHHHHHHhhc-CCCCEEEEecCCcHHHHHHHHHhCCceEEcccccHHHHHHHHHHH
Confidence            99999998765 589999999999999999999999999999999988876655544

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

Probab=99.76  E-value=1.1e-17  Score=126.54  Aligned_cols=111  Identities=18%  Similarity=0.290  Sum_probs=103.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+.||||||..+...|.+.|+..||.|.++.+..++|..++...|.                  -.++|+.|.+.+|+++
T Consensus        10 ~~lllvdDD~~f~~~LaRa~e~RGf~v~~a~~~~eal~~art~~Pa------------------yAvvDlkL~~gsGL~~   71 (182)
T COG4567          10 KSLLLVDDDTPFLRTLARAMERRGFAVVTAESVEEALAAARTAPPA------------------YAVVDLKLGDGSGLAV   71 (182)
T ss_pred             ceeEEecCChHHHHHHHHHHhccCceeEeeccHHHHHHHHhcCCCc------------------eEEEEeeecCCCchHH
Confidence            3799999999999999999999999999999999999999766555                  8899999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHh
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKL  146 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~  146 (241)
                      ++.|++...  +..||++|++.+....+.|++.||++||.||.+.+++...
T Consensus        72 i~~lr~~~~--d~rivvLTGy~sIATAV~AvKlGA~~YLaKPAdaDdi~aA  120 (182)
T COG4567          72 IEALRERRA--DMRIVVLTGYASIATAVEAVKLGACDYLAKPADADDILAA  120 (182)
T ss_pred             HHHHHhcCC--cceEEEEecchHHHHHHHHHHhhhhhhcCCCCChHHHHHH
Confidence            999999876  9999999999999999999999999999999999987543

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

Probab=99.76  E-value=4.1e-18  Score=141.78  Aligned_cols=117  Identities=23%  Similarity=0.416  Sum_probs=104.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++|+|||||......|..+|++.|..+..|++..+|++++....||                  |||+|+.||+|+|++|
T Consensus         1 ~~~iiVDdd~a~~~~l~~iLs~~~~~~~~~~~~~eal~~Le~~kpD------------------LifldI~mp~~ngief   62 (361)
T COG3947           1 PRIIIVDDDAAIVKLLSVILSRAGHEVRSCSHPVEALDLLEVFKPD------------------LIFLDIVMPYMNGIEF   62 (361)
T ss_pred             CcEEEEcchHHHHHHHHHHHHhccchhhccCCHHHHHHHHHhcCCC------------------EEEEEeecCCccHHHH
Confidence            4799999999999999999999998888999999999999766655                  9999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++.++...+  .+|||++|++.  +.....+...++||+.||++++.|++.+.++.+..
T Consensus        63 aeQvr~i~~--~v~iifIssh~--eya~dsf~~n~~dYl~KPvt~ekLnraIdr~~k~v  117 (361)
T COG3947          63 AEQVRDIES--AVPIIFISSHA--EYADDSFGMNLDDYLPKPVTPEKLNRAIDRRLKRV  117 (361)
T ss_pred             HHHHHHhhc--cCcEEEEecch--hhhhhhcccchHhhccCCCCHHHHHHHHHHHhccc
Confidence            999998875  89999999985  55667777888999999999999999988877443

>PRK10816 DNA-binding transcriptional regulator PhoP; Provisional

Probab=99.75  E-value=5.2e-17  Score=133.39  Aligned_cols=117  Identities=21%  Similarity=0.419  Sum_probs=104.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         1 m~iLlv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~~~------------------~dlvild~~l~~~~g~~l   62 (223)
T PRK10816          1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEHL------------------PDIAIVDLGLPDEDGLSL   62 (223)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhCC------------------CCEEEEECCCCCCCHHHH
Confidence            47999999999999999999999999999999999999885443                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  ++|||++|+..+......+++.||++|+.||++..+|...+..+++
T Consensus        63 ~~~lr~~~~--~~pii~ls~~~~~~~~~~~l~~Ga~d~l~kp~~~~eL~~~i~~~~~  117 (223)
T PRK10816         63 IRRWRSNDV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (223)
T ss_pred             HHHHHhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            999998654  8999999999999999999999999999999999998776665544

>PRK10529 DNA-binding transcriptional activator KdpE; Provisional

Probab=99.74  E-value=7e-17  Score=132.67  Aligned_cols=116  Identities=21%  Similarity=0.387  Sum_probs=103.0

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...||.+..+.++.+++..+...                  .||+||+|+.||+++|+++
T Consensus         2 ~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~l~~~~g~~~   63 (225)
T PRK10529          2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR------------------KPDLIILDLGLPDGDGIEF   63 (225)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCHHHH
Confidence            5899999999999999999999999999999999999877543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.|+..   ..+|+|++|+..+......+++.||++|+.||++..+|...+..+++
T Consensus        64 ~~~lr~~---~~~pvi~lt~~~~~~~~~~~~~~ga~~~l~kP~~~~~l~~~i~~~~~  117 (225)
T PRK10529         64 IRDLRQW---SAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (225)
T ss_pred             HHHHHcC---CCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            9999974   37899999999989999999999999999999999998776655543

>PRK09836 DNA-binding transcriptional activator CusR; Provisional

Probab=99.74  E-value=8.3e-17  Score=132.52  Aligned_cols=117  Identities=19%  Similarity=0.441  Sum_probs=104.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||++..+..+...|...||.|..+.++.+++..+...                  .||+||+|+.||+++|+++
T Consensus         1 m~iliv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~~~~~~g~~~   62 (227)
T PRK09836          1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTG------------------DYDLIILDIMLPDVNGWDI   62 (227)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhC------------------CCCEEEEECCCCCCCHHHH
Confidence            4799999999999999999998999999999999999887543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  ++|||++|+..+......+++.||++|+.||++..+|...+..+++
T Consensus        63 ~~~lr~~~~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  117 (227)
T PRK09836         63 VRMLRSANK--GMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLR  117 (227)
T ss_pred             HHHHHhcCC--CCCEEEEEcCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            999998653  7999999999999999999999999999999999998776655543

>PRK10643 DNA-binding transcriptional regulator BasR; Provisional

Probab=99.74  E-value=1.2e-16  Score=130.53  Aligned_cols=117  Identities=22%  Similarity=0.413  Sum_probs=104.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||++..+..+...|...|+.+..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~d~illd~~~~~~~g~~~   62 (222)
T PRK10643          1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGH------------------YSLVVLDLGLPDEDGLHL   62 (222)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC------------------CCEEEEECCCCCCCHHHH
Confidence            47999999999999999999999999999999999999885443                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  .+|||++|+..+......+++.|+++|+.||++.++|...+..+++
T Consensus        63 ~~~l~~~~~--~~pii~ls~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  117 (222)
T PRK10643         63 LRRWRQKKY--TLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIR  117 (222)
T ss_pred             HHHHHhcCC--CCcEEEEECCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHh
Confidence            999997653  7899999999999999999999999999999999999776665543

>PRK10161 transcriptional regulator PhoB; Provisional

Probab=99.73  E-value=1.2e-16  Score=131.65  Aligned_cols=119  Identities=26%  Similarity=0.438  Sum_probs=105.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~~------------------~dlvild~~l~~~~g~~~   64 (229)
T PRK10161          3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPW------------------PDLILLDWMLPGGSGIQF   64 (229)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhccC------------------CCEEEEeCCCCCCCHHHH
Confidence            67999999999999999999988999999999999999885433                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++.....+.+|||++|+..+......++++||++|+.||++..+|...+..+.+
T Consensus        65 ~~~l~~~~~~~~~pvi~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~  121 (229)
T PRK10161         65 IKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR  121 (229)
T ss_pred             HHHHHhccccCCCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            999997643357999999999999999999999999999999999999877766554

>PRK10430 DNA-binding transcriptional activator DcuR; Provisional

Probab=99.73  E-value=1.2e-16  Score=133.56  Aligned_cols=119  Identities=24%  Similarity=0.362  Sum_probs=102.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhc-CCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKT-SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+..+|.. .++.+. .+.++.+++..+...                ...||+||+|+.||+++|
T Consensus         1 m~~VLivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~a~~~~~~~----------------~~~~DlvilD~~~p~~~G   64 (239)
T PRK10430          1 MINVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEIIFNS----------------DTPIDLILLDIYMQQENG   64 (239)
T ss_pred             CeeEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhc----------------CCCCCEEEEecCCCCCCc
Confidence            36899999999999999999975 467654 789999999887421                123669999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..+.
T Consensus        65 ~eli~~l~~~~~--~~~vI~ls~~~~~~~~~~al~~Ga~~yl~Kp~~~~~l~~~i~~~~  121 (239)
T PRK10430         65 LDLLPVLHEAGC--KSDVIVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEALTGWR  121 (239)
T ss_pred             HHHHHHHHhhCC--CCCEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence            999999998654  899999999999999999999999999999999999987776544

>PRK11173 two-component response regulator; Provisional

Probab=99.73  E-value=1.1e-16  Score=132.86  Aligned_cols=118  Identities=23%  Similarity=0.465  Sum_probs=104.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||+|||++..+..+...|+..|+.|..+.++.+++..+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~iLiv~dd~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~l~~~~g~~   64 (237)
T PRK11173          3 TPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEN------------------DINLVIMDINLPGKNGLL   64 (237)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhhC------------------CCCEEEEcCCCCCCCHHH
Confidence            36899999999999999999999999999999999999988543                  356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.|+..   ..+|+|++|+..+......+++.||++|+.||++..+|...+..+++.
T Consensus        65 ~~~~lr~~---~~~pii~lt~~~~~~~~~~~~~~ga~d~l~kP~~~~eL~~~i~~~l~r  120 (237)
T PRK11173         65 LARELREQ---ANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  120 (237)
T ss_pred             HHHHHhcC---CCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHhc
Confidence            99999974   278999999998888888999999999999999999997665555443

>TIGR02154 PhoB phosphate regulon transcriptional regulatory protein PhoB

Probab=99.73  E-value=1.5e-16  Score=130.10  Aligned_cols=120  Identities=24%  Similarity=0.494  Sum_probs=105.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...|+.+..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~d~vi~d~~~~~~~g~~~   64 (226)
T TIGR02154         3 RRILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERG------------------PDLILLDWMLPGTSGIEL   64 (226)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHHhcC------------------CCEEEEECCCCCCcHHHH
Confidence            67999999999999999999988999999999999999885443                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+.....+.+|||++|+..+......+++.||++|+.||++.++|...+..++..
T Consensus        65 ~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  122 (226)
T TIGR02154        65 CRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRR  122 (226)
T ss_pred             HHHHHccccCCCCCEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHhcc
Confidence            9999976434578999999999888899999999999999999999997766665543

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

>PRK09468 ompR osmolarity response regulator; Provisional

Probab=99.73  E-value=1.5e-16  Score=132.07  Aligned_cols=119  Identities=21%  Similarity=0.444  Sum_probs=106.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +..+||||||++..+..+...|...||.+..+.++.+++..+...                  .||+||+|+.||+++|+
T Consensus         4 ~~~~iLiv~d~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~l~~~~g~   65 (239)
T PRK09468          4 ENYKILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRE------------------SFHLMVLDLMLPGEDGL   65 (239)
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCHH
Confidence            457899999999999999999999999999999999999988543                  35699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.|+...+  .+|||++++..+......+++.|+++||.||++.++|...+..+++
T Consensus        66 ~~~~~lr~~~~--~~pii~ls~~~~~~~~~~~l~~Ga~~~l~kP~~~~~L~~~i~~~~~  122 (239)
T PRK09468         66 SICRRLRSQNN--PTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLR  122 (239)
T ss_pred             HHHHHHHhcCC--CCCEEEEECCCcHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            99999997643  7999999999988888999999999999999999999776666544

>PRK10336 DNA-binding transcriptional regulator QseB; Provisional

Probab=99.72  E-value=1.9e-16  Score=129.13  Aligned_cols=117  Identities=25%  Similarity=0.413  Sum_probs=104.0

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||++..+..+...|...||.+..+.++.+++..+...                  .||+||+|+.||+++|+++
T Consensus         1 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~l~~~~g~~~   62 (219)
T PRK10336          1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSA------------------PYDAVILDLTLPGMDGRDI   62 (219)
T ss_pred             CeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhC------------------CCCEEEEECCCCCCCHHHH
Confidence            4799999999999999999998899999999999999987533                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  .+|||++|+..+......+++.||++|+.||++..+|...+..+++
T Consensus        63 ~~~i~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~  117 (219)
T PRK10336         63 LREWREKGQ--REPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMR  117 (219)
T ss_pred             HHHHHhcCC--CCcEEEEECCCCHHHHHHHHhCCCCeEEECCCCHHHHHHHHHHHHh
Confidence            999998643  7899999999988888999999999999999999999776666544

>PRK10766 DNA-binding transcriptional regulator TorR; Provisional

Probab=99.72  E-value=2.8e-16  Score=128.72  Aligned_cols=116  Identities=22%  Similarity=0.439  Sum_probs=103.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||+...+..+...|...||.|..+.++.+++..+...                  .||+||+|+.||+++|+++
T Consensus         3 ~~iLlv~d~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~dlvild~~l~~~~g~~~   64 (221)
T PRK10766          3 YHILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQ------------------HVDLILLDINLPGEDGLML   64 (221)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCHHHH
Confidence            6899999999999999999999999999999999999988543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++..   ..+|+|++++..+......+++.||++|+.||++..+|...+..+++
T Consensus        65 ~~~lr~~---~~~~ii~l~~~~~~~~~~~~l~~Ga~d~l~kP~~~~~L~~~i~~~~~  118 (221)
T PRK10766         65 TRELRSR---STVGIILVTGRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLW  118 (221)
T ss_pred             HHHHHhC---CCCCEEEEECCCcHHHHHHHHHcCCCcEEeCCCCHHHHHHHHHHHHh
Confidence            9999974   27899999999988888999999999999999999998766655543

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

Probab=99.72  E-value=1.4e-16  Score=156.22  Aligned_cols=118  Identities=31%  Similarity=0.557  Sum_probs=107.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+...|+..||.|..+.++.+|++.+...                  .||+||+|+.||+|+|+
T Consensus       800 ~~~~ILvVdD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~------------------~~DlVl~D~~mP~mdG~  861 (924)
T PRK10841        800 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKN------------------HIDIVLTDVNMPNMDGY  861 (924)
T ss_pred             CCCEEEEECCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhC------------------CCCEEEEcCCCCCCCHH
Confidence            457999999999999999999999999999999999999998644                  35699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|++...  .+|||++|+....+...+|+++|+++||.||++..+|..++..+.
T Consensus       862 el~~~ir~~~~--~~pII~lTa~~~~~~~~~~~~aG~d~~L~KPv~~~~L~~~L~~~~  917 (924)
T PRK10841        862 RLTQRLRQLGL--TLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVYA  917 (924)
T ss_pred             HHHHHHHhcCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHH
Confidence            99999998754  799999999999999999999999999999999999987766553

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=99.71  E-value=1.3e-16  Score=156.38  Aligned_cols=120  Identities=26%  Similarity=0.420  Sum_probs=108.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|...|+.|..+.++.+|++.+...                  .||+||+|+.||+++|+
T Consensus       666 ~~~~vLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~~~~~------------------~~dlil~D~~mp~~~g~  727 (919)
T PRK11107        666 LPLTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQR------------------PFDLILMDIQMPGMDGI  727 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhC------------------CCCEEEEeCCCCCCcHH
Confidence            357999999999999999999999999999999999999998544                  46699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|+......++|||++|+........+|++.|+++||.||++..+|...+..+.
T Consensus       728 ~~~~~lr~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  785 (919)
T PRK11107        728 RACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKPIDEAMLKQVLLRYK  785 (919)
T ss_pred             HHHHHHHhcccCCCCCEEEEeCCCCHHHHHHHHHcCCCeEeeCCCCHHHHHHHHHHHc
Confidence            9999999865556899999999999999999999999999999999999977766554

>TIGR03787 marine_sort_RR proteobacterial dedicated sortase system response regulator

Probab=99.71  E-value=4.1e-16  Score=128.25  Aligned_cols=117  Identities=21%  Similarity=0.326  Sum_probs=103.6

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC--CCHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG--MTGYD   94 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~--~~g~~   94 (241)
                      +||+|||+...+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+  .+|++
T Consensus         2 ~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvild~~l~~~~~~g~~   63 (227)
T TIGR03787         2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFRQRL------------------PDLAIIDIGLGEEIDGGFM   63 (227)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHHhCC------------------CCEEEEECCCCCCCCCHHH
Confidence            6999999999999999999988999999999999999885443                  559999999998  58999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.++...+  .+|||++|+..+......++++||++|+.||++..+|...+..++++
T Consensus        64 ~~~~i~~~~~--~~pii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~~  120 (227)
T TIGR03787        64 LCQDLRSLSA--TLPIIFLTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRR  120 (227)
T ss_pred             HHHHHHhcCC--CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHHHh
Confidence            9999997643  78999999999999999999999999999999999998777666543

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.

>PRK10701 DNA-binding transcriptional regulator RstA; Provisional

Probab=99.71  E-value=3.9e-16  Score=129.81  Aligned_cols=116  Identities=22%  Similarity=0.276  Sum_probs=102.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~iLivedd~~~~~~l~~~L~~~g~~v~~~~~~~~~l~~~~~~~------------------~dlvild~~l~~~~g~~~   63 (240)
T PRK10701          2 NKIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILREQ------------------PDLVLLDIMLPGKDGMTI   63 (240)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHhhCC------------------CCEEEEeCCCCCCCHHHH
Confidence            48999999999999999999999999999999999999885443                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.|+...   .+|+|++++.........+++.|+++|+.||++..+|...+..+++
T Consensus        64 ~~~ir~~~---~~pii~l~~~~~~~~~~~~~~~Ga~d~l~kP~~~~~l~~~i~~~l~  117 (240)
T PRK10701         64 CRDLRPKW---QGPIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLR  117 (240)
T ss_pred             HHHHHhcC---CCCEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            99999742   6799999998888888899999999999999999998766555443

>CHL00148 orf27 Ycf27; Reviewed

Probab=99.71  E-value=4.8e-16  Score=128.68  Aligned_cols=119  Identities=29%  Similarity=0.509  Sum_probs=105.0

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      .+.++||+|||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+++|
T Consensus         4 ~~~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~l~~~~~~~------------------~d~illd~~~~~~~g   65 (240)
T CHL00148          4 NSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQ------------------PDLVILDVMMPKLDG   65 (240)
T ss_pred             CCCceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCH
Confidence            34689999999999999999999988999999999999999875433                  569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.++..   ..+|+|++|+..+......+++.||++|+.||++..+|...+..+.+
T Consensus        66 ~~~~~~l~~~---~~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~L~~~i~~~~~  122 (240)
T CHL00148         66 YGVCQEIRKE---SDVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLR  122 (240)
T ss_pred             HHHHHHHHhc---CCCcEEEEECCCCHHhHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            9999999974   37999999999888888999999999999999999999776665543

>PRK11083 DNA-binding response regulator CreB; Provisional

Probab=99.71  E-value=3.9e-16  Score=127.95  Aligned_cols=118  Identities=21%  Similarity=0.362  Sum_probs=104.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +++||||||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+.+|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvl~d~~~~~~~g~~   64 (228)
T PRK11083          3 QPTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQP------------------PDLVILDVGLPDISGFE   64 (228)
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHH
Confidence            468999999999999999999988999999999999999875433                  56999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+...+  .+|||++|+..+......+++.||++|+.||++..+|...+..+++
T Consensus        65 ~~~~l~~~~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~~  120 (228)
T PRK11083         65 LCRQLLAFHP--ALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILR  120 (228)
T ss_pred             HHHHHHhhCC--CCCEEEEEcCCcHHHHHHHhhcCCCeEEECCCCHHHHHHHHHHHHC
Confidence            9999998653  7999999999888888899999999999999999998776655443

>PRK10840 transcriptional regulator RcsB; Provisional

Probab=99.71  E-value=3.2e-16  Score=128.87  Aligned_cols=119  Identities=26%  Similarity=0.361  Sum_probs=103.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCC-E-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC---
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSY-Q-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG---   89 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~-~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~---   89 (241)
                      .++||||||++..+..+...|...++ . +..+.++.+++..+....                  ||+||+|+.||+   
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~~~------------------~DlvllD~~l~~~~~   64 (216)
T PRK10840          3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLD------------------AHVLITDLSMPGDKY   64 (216)
T ss_pred             ceEEEEECCcHHHHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHhCC------------------CCEEEEeCcCCCCCC
Confidence            47999999999999999999987664 4 557899999999885443                  559999999999   


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++|++++++|+...+  .+|||++|+..+......+++.|+++|+.||++.++|...+..+..+
T Consensus        65 ~~g~~~~~~l~~~~~--~~~iIvls~~~~~~~~~~a~~~Ga~~yl~K~~~~~~l~~ai~~v~~g  126 (216)
T PRK10840         65 GDGITLIKYIKRHFP--SLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKG  126 (216)
T ss_pred             CCHHHHHHHHHHHCC--CCcEEEEEecCCHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHHHCC
Confidence            599999999997644  79999999999999999999999999999999999998887777654

>PRK13856 two-component response regulator VirG; Provisional

Probab=99.70  E-value=5.2e-16  Score=129.40  Aligned_cols=116  Identities=25%  Similarity=0.420  Sum_probs=100.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...||.|..+.++.++++.+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~ILived~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvi~d~~l~~~~g~~l   63 (241)
T PRK13856          2 KHVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASET------------------VDVVVVDLNLGREDGLEI   63 (241)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhhCC------------------CCEEEEeCCCCCCCHHHH
Confidence            37999999999999999999999999999999999999885443                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccC-CChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~-~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...   .+|+|++|+. .+......+++.||++|+.||++..+|...+..+++
T Consensus        64 ~~~i~~~~---~~pii~lt~~~~~~~~~~~~l~~Ga~~yl~kP~~~~eL~~~i~~~l~  118 (241)
T PRK13856         64 VRSLATKS---DVPIIIISGDRLEEADKVVALELGATDFIAKPFGTREFLARIRVALR  118 (241)
T ss_pred             HHHHHhcC---CCcEEEEECCCCcHHHHHHHHhcCcCeEEeCCCCHHHHHHHHHHHHh
Confidence            99998742   6899999985 456667789999999999999999998766555543

>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional

Probab=99.70  E-value=5.3e-16  Score=127.78  Aligned_cols=115  Identities=25%  Similarity=0.450  Sum_probs=102.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...|+.+..+.++.+++..+..                   .||+||+|+.||+++|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-------------------~~d~vl~d~~~~~~~g~~~   62 (232)
T PRK10955          2 NKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDD-------------------SIDLLLLDVMMPKKNGIDT   62 (232)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHhhc-------------------CCCEEEEeCCCCCCcHHHH
Confidence            489999999999999999999889999999999999997742                   2569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.|+...   .+|||++|+..+......+++.|+++|+.||++.++|...+..+.+
T Consensus        63 ~~~l~~~~---~~~ii~lt~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~  116 (232)
T PRK10955         63 LKELRQTH---QTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILR  116 (232)
T ss_pred             HHHHHhcC---CCcEEEEECCCCHHHHHHHHHcCCCEEEcCCCCHHHHHHHHHHHHh
Confidence            99999754   3899999998888888999999999999999999999776665544

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=99.70  E-value=2.1e-16  Score=155.05  Aligned_cols=120  Identities=19%  Similarity=0.323  Sum_probs=107.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||||||++..+..+..+|...||.|..+.++.+|++.+...                 ..||+||+|+.||+++|+
T Consensus       680 ~~~~vLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~-----------------~~~Dlvl~D~~mp~~~G~  742 (914)
T PRK11466        680 DGLRLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNS-----------------EPFAAALVDFDLPDYDGI  742 (914)
T ss_pred             CCcceEEEeCCHHHHHHHHHHHHhcCCceEEeCCHHHHHHHHHcC-----------------CCCCEEEEeCCCCCCCHH
Confidence            357899999999999999999999999999999999999987421                 236799999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.|+...+  ++|||++|+........+++..|+++||.||++.++|...+.+++.
T Consensus       743 ~~~~~lr~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  799 (914)
T PRK11466        743 TLARQLAQQYP--SLVLIGFSAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQ  799 (914)
T ss_pred             HHHHHHHhhCC--CCCEEEEeCCCchhhHHHHHhcCcCCEEeCCCCHHHHHHHHHHHhh
Confidence            99999998644  8999999999998999999999999999999999999887777653

>PRK11517 transcriptional regulatory protein YedW; Provisional

Probab=99.70  E-value=5.6e-16  Score=126.85  Aligned_cols=115  Identities=22%  Similarity=0.466  Sum_probs=102.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||+|||++..+..+...|...|+.+..+.++.+++..+...                  .||+||+|+.||+++|+++
T Consensus         1 m~iliv~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~l~~~~~~------------------~~dlvi~d~~~~~~~g~~~   62 (223)
T PRK11517          1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKD------------------DYALIILDIMLPGMDGWQI   62 (223)
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC------------------CCCEEEEECCCCCCCHHHH
Confidence            4799999999999999999998999999999999999988543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++.++...   .+|||++|+..+......+++.||++|+.||++..+|...+..++
T Consensus        63 ~~~l~~~~---~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~kp~~~~~l~~~i~~~~  115 (223)
T PRK11517         63 LQTLRTAK---QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQL  115 (223)
T ss_pred             HHHHHcCC---CCCEEEEECCCCHHHHHHHHhcCCCEEEECCCCHHHHHHHHHHHH
Confidence            99999742   689999999999999999999999999999999999876665544

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.70  E-value=5.3e-16  Score=140.12  Aligned_cols=119  Identities=21%  Similarity=0.368  Sum_probs=104.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||+|||++..+..+..+|.. .+.+..+.++.+|+..+...                  .||+||+|+.||+++|+
T Consensus       154 ~~~~vlivdd~~~~~~~l~~~l~~-~~~~~~~~~~~~a~~~~~~~------------------~~d~vi~d~~~p~~~g~  214 (457)
T PRK09581        154 EDGRILLVDDDVSQAERIANILKE-EFRVVVVSDPSEALFNAAET------------------NYDLVIVSANFENYDPL  214 (457)
T ss_pred             cCceEEEEecccchHHHHHHHHhh-cceeeeecChHHHHHhcccC------------------CCCEEEecCCCCCchHh
Confidence            468899999999999999999964 57777899999999987544                  45699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.+++....+++|||++|+..+......|++.||+||+.||+++++|...+....
T Consensus       215 ~l~~~i~~~~~~~~~~ii~ls~~~~~~~~~~a~~~Ga~d~l~kp~~~~~l~~~i~~~~  272 (457)
T PRK09581        215 RLCSQLRSKERTRYVPILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQI  272 (457)
T ss_pred             HHHHHHHhccccCCCcEEEEeCCCChHHHHHHHHccchhhhhCCCcHHHHHHHHHHHH
Confidence            9999999765456899999999999999999999999999999999999976554433

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=99.69  E-value=3.8e-16  Score=153.13  Aligned_cols=119  Identities=31%  Similarity=0.496  Sum_probs=106.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .++||||||++..+..+...|...||.|..+.++.+|++.+...                  .||+||+|+.||+++|++
T Consensus       690 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~------------------~~dlil~D~~mp~~~G~~  751 (921)
T PRK15347        690 QLQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQH------------------RFDLVLMDIRMPGLDGLE  751 (921)
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCHHH
Confidence            47899999999999999999999999999999999999998544                  356999999999999999


Q ss_pred             HHHHHHhcC--CCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESS--SLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~--~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.||...  ..+.+|||++|+..+.....++++.|+++||.||++..+|...+..+.
T Consensus       752 ~~~~ir~~~~~~~~~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  810 (921)
T PRK15347        752 TTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA  810 (921)
T ss_pred             HHHHHHhchhhcCCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            999999742  124799999999999999999999999999999999999977666543

>PRK09958 DNA-binding transcriptional activator EvgA; Provisional

Probab=99.69  E-value=7.7e-16  Score=124.46  Aligned_cols=118  Identities=19%  Similarity=0.319  Sum_probs=104.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ++||+|||++..+..+...|+..|+.+. .+.++.+++..+....                  ||+||+|+.+|+++|++
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~~------------------~dlvi~d~~~~~~~g~~   62 (204)
T PRK09958          1 MNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLK------------------PDIVIIDVDIPGVNGIQ   62 (204)
T ss_pred             CcEEEECCcHHHHHHHHHHHhcCCCEEEEEeCCHHHHHHHHHccC------------------CCEEEEeCCCCCCCHHH
Confidence            4799999999999999999998899987 6899999999886443                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.++...+  ..|+|++|+..+......++..|+++|+.||++.++|...+..+..+
T Consensus        63 ~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~  119 (204)
T PRK09958         63 VLETLRKRQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG  119 (204)
T ss_pred             HHHHHHhhCC--CCeEEEEeCCCCHHHHHHHHHCCCCEEEecCCCHHHHHHHHHHHHcC
Confidence            9999998654  68999999998888999999999999999999999998877776543

>TIGR02875 spore_0_A sporulation transcription factor Spo0A

Probab=99.69  E-value=9.6e-16  Score=129.67  Aligned_cols=119  Identities=24%  Similarity=0.355  Sum_probs=102.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||+|||++..+..+...|... ++.+. .+.++.++++.+....                  ||+||+|+.||+++|
T Consensus         2 ~~~vLivdd~~~~~~~l~~~L~~~~~~~~~~~a~~~~eal~~l~~~~------------------~DlvllD~~mp~~dG   63 (262)
T TIGR02875         2 KIRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQ------------------PDVVVLDIIMPHLDG   63 (262)
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCeEEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCH
Confidence            579999999999999999999754 55554 7899999999986544                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.++.......+|||++|+.........+++.|+++|+.||++.++|...+..+.
T Consensus        64 ~~~l~~i~~~~~~~~~~iI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~~  122 (262)
T TIGR02875        64 IGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLA  122 (262)
T ss_pred             HHHHHHHHhhccccCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            99999999876534589999999998888899999999999999999999877665554

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.

>PRK15115 response regulator GlrR; Provisional

Probab=99.69  E-value=8.5e-16  Score=139.58  Aligned_cols=119  Identities=30%  Similarity=0.441  Sum_probs=106.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||||||++..+..+...|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+
T Consensus         4 ~~~~vLiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~eal~~l~~~~------------------~dlvilD~~lp~~~g~   65 (444)
T PRK15115          4 KPAHLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREK------------------VDLVISDLRMDEMDGM   65 (444)
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcCC------------------CCEEEEcCCCCCCCHH
Confidence            3589999999999999999999999999999999999999885443                  5699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.++...+  .+|||++|+..+......+++.|+++||.||++..+|...+..++.
T Consensus        66 ~ll~~l~~~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~l~~~~~  122 (444)
T PRK15115         66 QLFAEIQKVQP--GMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALE  122 (444)
T ss_pred             HHHHHHHhcCC--CCcEEEEECCCCHHHHHHHHhcChhhhccCCCCHHHHHHHHHHHHH
Confidence            99999997654  7999999999988889999999999999999999998776665543

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.69  E-value=1.1e-15  Score=138.64  Aligned_cols=120  Identities=29%  Similarity=0.473  Sum_probs=106.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...++||||||++..+..+...|...||.|..+.++.+++..+...                  .||+||+|+.||+++|
T Consensus         3 ~~~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~------------------~~DlvilD~~m~~~~G   64 (441)
T PRK10365          3 HDNIDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQ------------------VFDLVLCDVRMAEMDG   64 (441)
T ss_pred             CCcceEEEEECCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCH
Confidence            3468999999999999999999999999999999999999988543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.++...+  .+|||++|+..+......+++.|+.+||.||++.+.|...+...+.
T Consensus        65 ~~~~~~ir~~~~--~~~vi~lt~~~~~~~~~~a~~~ga~~~l~Kp~~~~~L~~~l~~~l~  122 (441)
T PRK10365         65 IATLKEIKALNP--AIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALA  122 (441)
T ss_pred             HHHHHHHHhhCC--CCeEEEEECCCCHHHHHHHHHhhhHHHhcCCCCHHHHHHHHHHHHH
Confidence            999999998654  8999999999888999999999999999999999998776665544

>PRK09483 response regulator; Provisional

Probab=99.68  E-value=1.3e-15  Score=124.31  Aligned_cols=119  Identities=21%  Similarity=0.363  Sum_probs=105.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+..+|... |+.+. .++++.+++..+....                  ||+||+|+.+|+++|
T Consensus         1 m~~ilivd~~~~~~~~l~~~L~~~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvi~d~~~~~~~g   62 (217)
T PRK09483          1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNA------------------VDVVLMDMNMPGIGG   62 (217)
T ss_pred             CeEEEEECCcHHHHHHHHHHHccCCCCEEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCH
Confidence            468999999999999999999874 78876 7899999999886443                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.++...+  .+|+|++|...+......++..|+++|+.||++.++|...+..+..+
T Consensus        63 ~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~k~~~~~~l~~~i~~~~~g  121 (217)
T PRK09483         63 LEATRKILRYTP--DVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSG  121 (217)
T ss_pred             HHHHHHHHHHCC--CCeEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            999999987654  79999999999888999999999999999999999998887777654

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=99.68  E-value=6.2e-16  Score=152.45  Aligned_cols=120  Identities=23%  Similarity=0.399  Sum_probs=107.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+..+|+..||.|..+.++.+|++.+...                  .||+||+|+.||+++|++
T Consensus       702 ~~~iLvvdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~------------------~~dlvl~D~~mp~~~g~~  763 (968)
T TIGR02956       702 PQRVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQH------------------AFDLALLDINLPDGDGVT  763 (968)
T ss_pred             ccceEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHCC------------------CCCEEEECCCCCCCCHHH
Confidence            46899999999999999999999999999999999999999643                  466999999999999999


Q ss_pred             HHHHHHhcCCCCC-CcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRD-IPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~-ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+....... +|||++|+....+....+++.|+++||.||++..+|...+..++.
T Consensus       764 ~~~~ir~~~~~~~~~pii~lta~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  822 (968)
T TIGR02956       764 LLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVILA  822 (968)
T ss_pred             HHHHHHhCccccCCCeEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            9999998655333 899999999999999999999999999999999999887776653

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

>TIGR01387 cztR_silR_copR heavy metal response regulator

Probab=99.68  E-value=1.5e-15  Score=123.67  Aligned_cols=115  Identities=24%  Similarity=0.501  Sum_probs=102.2

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLK   97 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~   97 (241)
                      ||++||++..+..+...|...|+.+..+.++.+++..+...                  .||+||+|+.||+++|+++++
T Consensus         1 iliidd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~dlvl~d~~~~~~~g~~~~~   62 (218)
T TIGR01387         1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKD------------------DYDLIILDVMLPGMDGWQILQ   62 (218)
T ss_pred             CEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCHHHHHH
Confidence            58999999999999999998999999999999999988543                  356999999999999999999


Q ss_pred             HHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           98 KIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        98 ~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      .++...+  ++|||++|+..+......++.+|+++|+.||++..+|...+..++.
T Consensus        63 ~l~~~~~--~~~iivls~~~~~~~~~~~~~~Ga~~~l~kp~~~~~l~~~i~~~~~  115 (218)
T TIGR01387        63 TLRRSGK--QTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLR  115 (218)
T ss_pred             HHHccCC--CCcEEEEEcCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHhc
Confidence            9997654  7899999999999999999999999999999999998766655543

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

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

Probab=99.67  E-value=2.4e-15  Score=137.62  Aligned_cols=119  Identities=29%  Similarity=0.440  Sum_probs=106.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+...|...||.|..+.++.+|+..+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~g~~v~~~~s~~~al~~l~~~------------------~~DlvllD~~lp~~dgl~   64 (469)
T PRK10923          3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASK------------------TPDVLLSDIRMPGMDGLA   64 (469)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC------------------CCCEEEECCCCCCCCHHH
Confidence            36899999999999999999999999999999999999998543                  356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+.+++..
T Consensus        65 ~l~~ir~~~~--~~pvIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~~  121 (469)
T PRK10923         65 LLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (469)
T ss_pred             HHHHHHhhCC--CCeEEEEECCCCHHHHHHHHhcCcceEEecCCcHHHHHHHHHHHHHH
Confidence            9999998654  78999999999999999999999999999999999998777666543

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=99.67  E-value=1.1e-15  Score=147.73  Aligned_cols=119  Identities=22%  Similarity=0.419  Sum_probs=103.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|+..||.|..+.++.+|++.+...                  .||+||+|+.||+++|+
T Consensus       524 ~~~~ILivdD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~------------------~~Dlvl~D~~mp~~~G~  585 (779)
T PRK11091        524 PALNILLVEDIELNVIVARSVLEKLGNSVDVAMTGKEALEMFDPD------------------EYDLVLLDIQLPDMTGL  585 (779)
T ss_pred             cccceEEEcCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhcC------------------CCCEEEEcCCCCCCCHH
Confidence            458999999999999999999999999999999999999998543                  36699999999999999


Q ss_pred             HHHHHHHhcCCCCC-CcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRD-IPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~-ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|+....... +|||++|+.... ....+++.|+++||.||++..+|...+.+++
T Consensus       586 e~~~~ir~~~~~~~~~~ii~~ta~~~~-~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  643 (779)
T PRK11091        586 DIARELRERYPREDLPPLVALTANVLK-DKKEYLDAGMDDVLSKPLSVPALTAMIKKFW  643 (779)
T ss_pred             HHHHHHHhccccCCCCcEEEEECCchH-hHHHHHHCCCCEEEECCCCHHHHHHHHHHHh
Confidence            99999998754345 488888887654 4578999999999999999999987776654

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.66  E-value=2.1e-15  Score=137.43  Aligned_cols=117  Identities=23%  Similarity=0.411  Sum_probs=105.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.||+++|++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlillD~~~p~~~g~~   65 (457)
T PRK11361          4 INRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIH------------------PDVVLMDIRMPEMDGIK   65 (457)
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHH
Confidence            578999999999999999999999999999999999999885443                  56999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.++...+  .+|||++|+..+......+++.|+++|+.||++.++|...+..++
T Consensus        66 ll~~i~~~~~--~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l  120 (457)
T PRK11361         66 ALKEMRSHET--RTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL  120 (457)
T ss_pred             HHHHHHhcCC--CCCEEEEeCCCCHHHHHHHHHCCccEEEecccCHHHHHHHHhhhc
Confidence            9999997654  899999999999999999999999999999999999877666554

>PRK14084 two-component response regulator; Provisional

Probab=99.65  E-value=4.2e-15  Score=124.40  Aligned_cols=114  Identities=18%  Similarity=0.339  Sum_probs=96.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCC-C-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSS-Y-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g-~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ++||||||++..+..+..+|...+ + .+..+.++.+++..+...                  .||+||+|+.||+++|+
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~~l~~~~~~------------------~~dlv~lDi~m~~~~G~   62 (246)
T PRK14084          1 MKALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLIN------------------QYDIIFLDINLMDESGI   62 (246)
T ss_pred             CEEEEECCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHHhc------------------CCCEEEEeCCCCCCCHH
Confidence            579999999999999999998765 4 466899999999988543                  35699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|+....  ..+||++|+..  ....++++.|+.+||.||++.++|...+..+.
T Consensus        63 ~~~~~i~~~~~--~~~iI~~t~~~--~~~~~~~~~~~~~yl~KP~~~~~l~~~l~~~~  116 (246)
T PRK14084         63 ELAAKIQKMKE--PPAIIFATAHD--QFAVKAFELNATDYILKPFEQKRIEQAVNKVR  116 (246)
T ss_pred             HHHHHHHhcCC--CCEEEEEecCh--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHH
Confidence            99999998654  66788888764  45678999999999999999999887776654

>PRK10360 DNA-binding transcriptional activator UhpA; Provisional

Probab=99.65  E-value=4.5e-15  Score=119.20  Aligned_cols=116  Identities=27%  Similarity=0.423  Sum_probs=100.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+...|... ++. +..++++.+++..+...                  .||+||+|+.+|+++|
T Consensus         1 m~~ilivd~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~l~~~~~~------------------~~dlvi~d~~~~~~~g   62 (196)
T PRK10360          1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGR------------------GVQVCICDISMPDISG   62 (196)
T ss_pred             CeEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHhcC------------------CCCEEEEeCCCCCCCH
Confidence            368999999999999999999754 565 45889999999988543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.++.     .+|||++|+.........+++.|+++|+.||++.++|...+..+..+
T Consensus        63 ~~~~~~l~~-----~~~vi~~s~~~~~~~~~~~~~~ga~~~i~kp~~~~~l~~~i~~~~~~  118 (196)
T PRK10360         63 LELLSQLPK-----GMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATG  118 (196)
T ss_pred             HHHHHHHcc-----CCCEEEEECCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcC
Confidence            999999863     57999999999899999999999999999999999998877776643

>PRK09935 transcriptional regulator FimZ; Provisional

Probab=99.64  E-value=7.6e-15  Score=118.79  Aligned_cols=119  Identities=27%  Similarity=0.399  Sum_probs=103.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+||||||++..+..+...|... ++.+. .+.++.+++..+....                  ||+||+|+.||+++|
T Consensus         3 ~~~iliv~d~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~dlvild~~l~~~~g   64 (210)
T PRK09935          3 PASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRP------------------VDLIIMDIDLPGTDG   64 (210)
T ss_pred             cceEEEECCcHHHHHHHHHHHhhCCCceEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCH
Confidence            478999999999999999999876 57775 6889999998875433                  569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.++...+  .+|||++|+.........++..|+++|+.||++..+|...+..++.+
T Consensus        65 ~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~l~~  123 (210)
T PRK09935         65 FTFLKRIKQIQS--TVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSG  123 (210)
T ss_pred             HHHHHHHHHhCC--CCcEEEEECCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHcC
Confidence            999999997643  78999999998888889999999999999999999998877766554

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.64  E-value=6.6e-15  Score=134.40  Aligned_cols=115  Identities=30%  Similarity=0.464  Sum_probs=103.4

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLK   97 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~   97 (241)
                      ||||||++..+..+...|...||.|..+.++.+|+..+...                  .||+||+|+.||+++|+++++
T Consensus         1 ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~------------------~~DlVllD~~~p~~~g~~ll~   62 (463)
T TIGR01818         1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARG------------------QPDLLITDVRMPGEDGLDLLP   62 (463)
T ss_pred             CEEEECCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcC------------------CCCEEEEcCCCCCCCHHHHHH
Confidence            68999999999999999999999999999999999988543                  356999999999999999999


Q ss_pred             HHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           98 KIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        98 ~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      .|+...+  .+|||++|+.........+++.|+++|+.||++.++|...+..++.
T Consensus        63 ~l~~~~~--~~~vIvlt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~l~  115 (463)
T TIGR01818        63 QIKKRHP--QLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAVTLVERALA  115 (463)
T ss_pred             HHHHhCC--CCeEEEEeCCCCHHHHHHHHHcCcceeecCCCCHHHHHHHHHHHHH
Confidence            9998654  7899999999988889999999999999999999999877766554

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.

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.64  E-value=7.6e-15  Score=133.40  Aligned_cols=113  Identities=19%  Similarity=0.357  Sum_probs=100.6

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-----CCH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-----MTG   92 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-----~~g   92 (241)
                      ||||||++..+..+...|  .||.|..+.++.+|++.+....                  +|+||+|+.||+     ++|
T Consensus         1 ILivddd~~~~~~l~~~l--~~~~v~~a~~~~~al~~l~~~~------------------~dlvllD~~mp~~~~~~~~g   60 (445)
T TIGR02915         1 LLIVEDDLGLQKQLKWSF--ADYELAVAADRESAIALVRRHE------------------PAVVTLDLGLPPDADGASEG   60 (445)
T ss_pred             CEEEECCHHHHHHHHHHh--CCCeEEEeCCHHHHHHHHhhCC------------------CCEEEEeCCCCCCcCCCCCH
Confidence            689999999999999888  7899999999999999986443                  569999999996     899


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.++...+  ++|||++|+..+.+....+++.||++||.||++.++|...+..++.
T Consensus        61 ~~~l~~i~~~~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~  118 (445)
T TIGR02915        61 LAALQQILAIAP--DTKVIVITGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFH  118 (445)
T ss_pred             HHHHHHHHhhCC--CCCEEEEecCCCHHHHHHHHHCCccEEEeCCCCHHHHHHHHhhhhh
Confidence            999999998654  8999999999999999999999999999999999999776665544

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).

>PRK15479 transcriptional regulatory protein TctD; Provisional

Probab=99.63  E-value=1.6e-14  Score=117.76  Aligned_cols=117  Identities=23%  Similarity=0.439  Sum_probs=103.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||++||++..+..+...|...|+.+..+.++.+++..+...                  .||+||+|+.+|+++|+++
T Consensus         1 ~~ilivd~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~d~vild~~~~~~~~~~~   62 (221)
T PRK15479          1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSE------------------MYALAVLDINMPGMDGLEV   62 (221)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhC------------------CCCEEEEeCCCCCCcHHHH
Confidence            4799999999999999999998899998999999998887543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  ++|+|++++..+......+++.|+++|+.||++..+|...+..++.
T Consensus        63 ~~~i~~~~~--~~~ii~lt~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  117 (221)
T PRK15479         63 LQRLRKRGQ--TLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLR  117 (221)
T ss_pred             HHHHHhcCC--CCCEEEEECCCCHHHHHHHHHcCCCeeEeCCCCHHHHHHHHHHHHh
Confidence            999998654  7899999999888888899999999999999999998776665543

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

Probab=99.63  E-value=9.2e-15  Score=121.55  Aligned_cols=114  Identities=22%  Similarity=0.340  Sum_probs=93.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC-CEE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS-YQV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g-~~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++|+||||++..+..+...|+..| +.+ ..+.++.+++..+...                  .||+||+|+.||+++|
T Consensus         1 m~~IlIvdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~------------------~~dlv~lDi~~~~~~G   62 (238)
T PRK11697          1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRL------------------KPDVVFLDIQMPRISG   62 (238)
T ss_pred             CcEEEEECCCHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHHhc------------------CCCEEEEeCCCCCCCH
Confidence            4799999999999999999998877 343 4688999999988543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.++...   ..+||++|+..  +....+++.|+.+||.||++.++|...+.++.
T Consensus        63 ~~~~~~l~~~~---~~~ii~vt~~~--~~~~~a~~~~~~~yl~KP~~~~~l~~~l~~~~  116 (238)
T PRK11697         63 LELVGMLDPEH---MPYIVFVTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARLR  116 (238)
T ss_pred             HHHHHHhcccC---CCEEEEEeccH--HHHHHHHhcCCcEEEECCCCHHHHHHHHHHHH
Confidence            99999986421   34677787764  46678999999999999999999987776654

>PRK09390 fixJ response regulator FixJ; Provisional

Probab=99.63  E-value=1.9e-14  Score=115.00  Aligned_cols=119  Identities=26%  Similarity=0.365  Sum_probs=104.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      .+.+||+|||++..+..+...|...||.+..+.++.+++..+...                  .+|+||+|+.+++++|+
T Consensus         2 ~~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~d~ii~d~~~~~~~~~   63 (202)
T PRK09390          2 DKGVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGL------------------RFGCVVTDVRMPGIDGI   63 (202)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCeEEEeCCHHHHHHHhccC------------------CCCEEEEeCCCCCCcHH
Confidence            357899999999999999999998899999999999999887543                  35699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.++...+  .+|+|++++..+......+++.|+.+|+.||+....|...+..+..
T Consensus        64 ~~~~~l~~~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~l~~p~~~~~l~~~l~~~~~  120 (202)
T PRK09390         64 ELLRRLKARGS--PLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA  120 (202)
T ss_pred             HHHHHHHhcCC--CCCEEEEECCCCHHHHHHHHHcChHHHhhCCCCHHHHHHHHHHHHH
Confidence            99999997653  8999999999888889999999999999999999888765555443

>PRK09581 pleD response regulator PleD; Reviewed

Probab=99.62  E-value=2e-14  Score=129.77  Aligned_cols=120  Identities=30%  Similarity=0.504  Sum_probs=106.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||+|||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+.+|+++
T Consensus         3 ~~ilii~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvi~d~~~~~~~g~~l   64 (457)
T PRK09581          3 ARILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICEREQ------------------PDIILLDVMMPGMDGFEV   64 (457)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHHhhcC------------------CCEEEEeCCCCCCCHHHH
Confidence            48999999999999999999888999999999999999986443                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+.....+.+|||++|+..+.....++++.|+++|+.||++.++|...+..+.+.
T Consensus        65 ~~~i~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~~~  122 (457)
T PRK09581         65 CRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTRL  122 (457)
T ss_pred             HHHHHcCcccCCCCEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            9999976544579999999999999999999999999999999999997766665543

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

Probab=99.62  E-value=6e-15  Score=148.54  Aligned_cols=117  Identities=27%  Similarity=0.483  Sum_probs=105.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|+..||.|..+.++.+|++.+...                  .||+||+|+.||+++|+
T Consensus       957 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~------------------~~dlil~D~~mp~~~g~ 1018 (1197)
T PRK09959        957 EKLSILIADDHPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQ------------------HYDLLITDVNMPNMDGF 1018 (1197)
T ss_pred             cCceEEEcCCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHhhcC------------------CCCEEEEeCCCCCCCHH
Confidence            357899999999999999999999999999999999999998543                  45699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++++.|+...+  .+|||++|+........++++.|+++||.||++.++|...+..+
T Consensus      1019 ~~~~~i~~~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~ 1073 (1197)
T PRK09959       1019 ELTRKLREQNS--SLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVLKTHLSQL 1073 (1197)
T ss_pred             HHHHHHHhcCC--CCCEEEEECCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHH
Confidence            99999998654  79999999999999999999999999999999999987666544

>PRK10710 DNA-binding transcriptional regulator BaeR; Provisional

Probab=99.62  E-value=2e-14  Score=118.93  Aligned_cols=117  Identities=23%  Similarity=0.408  Sum_probs=103.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||+|||++..+..+...|...|+.+..+.++.+++..+....                  ||+||+|+.||+++|++
T Consensus        10 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvl~d~~~~~~~g~~   71 (240)
T PRK10710         10 TPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQTP------------------PDLILLDLMLPGTDGLT   71 (240)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhCC------------------CCEEEEeCCCCCCCHHH
Confidence            458999999999999999999999999999999999999885433                  56999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+..   ..+|+|++++.........++..|+++|+.||++..+|...+..++.
T Consensus        72 ~~~~l~~~---~~~pii~l~~~~~~~~~~~~~~~ga~~~l~kp~~~~~L~~~i~~~~~  126 (240)
T PRK10710         72 LCREIRRF---SDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILR  126 (240)
T ss_pred             HHHHHHhc---CCCCEEEEEcCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHHHHh
Confidence            99999963   37899999998888888899999999999999999998776655543

>PRK12555 chemotaxis-specific methylesterase; Provisional

Probab=99.61  E-value=1.7e-14  Score=126.66  Aligned_cols=102  Identities=23%  Similarity=0.378  Sum_probs=88.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHh-hcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L-~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ++||||||++..+..+..+| ...++.+. .+.++.++++.+....                  ||+||+|+.||+++|+
T Consensus         1 ~~VLvVdd~~~~~~~l~~~L~~~~~~~vv~~a~~~~eal~~l~~~~------------------pDlVllD~~mp~~~G~   62 (337)
T PRK12555          1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQP------------------PDVILMDLEMPRMDGV   62 (337)
T ss_pred             CEEEEEeCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhccC------------------CCEEEEcCCCCCCCHH
Confidence            48999999999999999999 46688876 7899999999986544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCC--hHHHHHHHHhcccccccCCC
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENV--PSRISRCLEEGAEEFFLKPV  138 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~--~~~~~~~l~~Ga~~~l~KP~  138 (241)
                      ++++.|+...   .+|||++++...  .....++++.|+++||.||+
T Consensus        63 e~l~~l~~~~---~~pvivvs~~~~~~~~~~~~al~~Ga~d~l~KP~  106 (337)
T PRK12555         63 EATRRIMAER---PCPILIVTSLTERNASRVFEAMGAGALDAVDTPT  106 (337)
T ss_pred             HHHHHHHHHC---CCcEEEEeCCCCcCHHHHHHHHhcCceEEEECCC
Confidence            9999998743   589999998643  45667899999999999999

>PRK10610 chemotaxis regulatory protein CheY; Provisional

Probab=99.60  E-value=9.2e-14  Score=102.00  Aligned_cols=120  Identities=28%  Similarity=0.531  Sum_probs=102.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +.++|+++++++.....+...|...|+. +..+.++.+++..+...                  .+|++++|..+++++|
T Consensus         4 ~~~~il~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~------------------~~di~l~d~~~~~~~~   65 (129)
T PRK10610          4 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG------------------GFGFVISDWNMPNMDG   65 (129)
T ss_pred             ccceEEEEcCCHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHhhcc------------------CCCEEEEcCCCCCCCH
Confidence            4589999999999999999999988884 67889999999887543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.++.....+.+|+++++..........+++.|+++|+.||++..++...+..+.
T Consensus        66 ~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~i~~p~~~~~l~~~l~~~~  124 (129)
T PRK10610         66 LELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIF  124 (129)
T ss_pred             HHHHHHHHhCCCcCCCcEEEEECCCCHHHHHHHHHhCCCeEEECCCCHHHHHHHHHHHH
Confidence            99999999865445789999998888888889999999999999999999876665543

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

Probab=99.60  E-value=1.2e-14  Score=125.93  Aligned_cols=104  Identities=33%  Similarity=0.487  Sum_probs=91.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC-CE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS-YQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g-~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||+|||+...|..|+++|...| .. |.++.|+.+|++.+....||                  +|.+|+.||.|||
T Consensus         1 ~irVlvVddsal~R~~i~~~l~~~~~i~vv~~a~ng~~a~~~~~~~~PD------------------Vi~ld~emp~mdg   62 (350)
T COG2201           1 KIRVLVVDDSALMRKVISDILNSDPDIEVVGTARNGREAIDKVKKLKPD------------------VITLDVEMPVMDG   62 (350)
T ss_pred             CcEEEEEcCcHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHHHhcCCC------------------EEEEecccccccH
Confidence            4799999999999999999999888 44 55899999999999776665                  9999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccC--CChHHHHHHHHhcccccccCCCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSE--NVPSRISRCLEEGAEEFFLKPVR  139 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~--~~~~~~~~~l~~Ga~~~l~KP~~  139 (241)
                      +++++.|....   .+|||++|+-  ...+...++++.||.||+.||..
T Consensus        63 l~~l~~im~~~---p~pVimvsslt~~g~~~t~~al~~gAvD~i~kp~~  108 (350)
T COG2201          63 LEALRKIMRLR---PLPVIMVSSLTEEGAEATLEALELGAVDFIAKPSG  108 (350)
T ss_pred             HHHHHHHhcCC---CCcEEEEeccccccHHHHHHHHhcCcceeecCCCc
Confidence            99999998763   7999999873  33667789999999999999984

>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional

Probab=99.59  E-value=1.7e-14  Score=119.03  Aligned_cols=117  Identities=9%  Similarity=0.140  Sum_probs=95.3

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ....++++|||++..+..++.+|. .++.+ ..+.++.+++..+.                    .|||||+|+.||+++
T Consensus         8 ~~~~~~~~v~~~~l~~~~l~~~L~-~~~~v~~~~~~~~~~~~~~~--------------------~~DvvllDi~~p~~~   66 (216)
T PRK10100          8 SHGHTLLLITKPSLQATALLQHLK-QSLAITGKLHNIQRSLDDIS--------------------SGSIILLDMMEADKK   66 (216)
T ss_pred             ccCceEEEEeChHhhhHHHHHHHH-HhCCCeEEEcCHHHhhccCC--------------------CCCEEEEECCCCCcc
Confidence            456789999999999999999998 45554 47789999888652                    156999999999999


Q ss_pred             HHHHH-HHHHhcCCCCCCcEEEEccCCChHHHHHHHH--hcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           92 GYDLL-KKIKESSSLRDIPVVIMSSENVPSRISRCLE--EGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        92 g~~ll-~~ir~~~~~~~ipvIils~~~~~~~~~~~l~--~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |++++ +.|+...+  .++||++|+..+  ....++.  .||.+||.|+.+.++|.+.+..+..+.
T Consensus        67 G~~~~~~~i~~~~p--~~~vvvlt~~~~--~~~~~~~~~~Ga~G~l~K~~~~~~L~~aI~~v~~G~  128 (216)
T PRK10100         67 LIHYWQDTLSRKNN--NIKILLLNTPED--YPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGE  128 (216)
T ss_pred             HHHHHHHHHHHhCC--CCcEEEEECCch--hHHHHHHHhcCCeEEEECCCCHHHHHHHHHHHHcCC
Confidence            99997 56787654  899999999865  3445555  499999999999999998888877653

>PRK10403 transcriptional regulator NarP; Provisional

Probab=99.57  E-value=9.3e-14  Score=112.38  Aligned_cols=119  Identities=23%  Similarity=0.412  Sum_probs=102.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhc-CCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKT-SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ..++||+|||++..+..+...|.. .++.+. .+.++.+++..+...                  .||+||+|+.+|+++
T Consensus         5 ~~~~ilii~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~dlvi~d~~~~~~~   66 (215)
T PRK10403          5 TPFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRL------------------DPDVILLDLNMKGMS   66 (215)
T ss_pred             eeEEEEEEcCCHHHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHhc------------------CCCEEEEecCCCCCc
Confidence            358999999999999999999975 577765 688999999887543                  356999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |+++++.++...+  .+|+++++...+......+++.|+++|+.||++..+|...+..+..
T Consensus        67 ~~~~~~~l~~~~~--~~~ii~l~~~~~~~~~~~~~~~g~~~~i~kp~~~~~l~~~i~~~~~  125 (215)
T PRK10403         67 GLDTLNALRRDGV--TAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAK  125 (215)
T ss_pred             HHHHHHHHHHhCC--CCeEEEEeCCCChHHHHHHHHcCCCeEEecCCCHHHHHHHHHHHhC
Confidence            9999999998654  7899999988888888899999999999999999998877766543

>PRK13558 bacterio-opsin activator; Provisional

Probab=99.57  E-value=3.3e-14  Score=135.21  Aligned_cols=107  Identities=19%  Similarity=0.202  Sum_probs=96.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +.++||||||++..+..+..+|...||.|..+.++.+++..+....                  |||||+|+.||+++|+
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~al~~~~~~~------------------~Dlvl~d~~lp~~~g~   67 (665)
T PRK13558          6 PTRGVLFVGDDPEAGPVDCDLDEDGRLDVTQIRDFVAARDRVEAGE------------------IDCVVADHEPDGFDGL   67 (665)
T ss_pred             cceeEEEEccCcchHHHHHHHhhccCcceEeeCCHHHHHHHhhccC------------------CCEEEEeccCCCCcHH
Confidence            3589999999999999999999988999999999999999885433                  5699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRL  140 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~  140 (241)
                      +++++|+...+  ++|||++|+..+......++..|+.+|+.||...
T Consensus        68 ~~l~~l~~~~~--~~piI~lt~~~~~~~~~~al~~Ga~dyl~k~~~~  112 (665)
T PRK13558         68 ALLEAVRQTTA--VPPVVVVPTAGDEAVARRAVDADAAAYVPAVSDD  112 (665)
T ss_pred             HHHHHHHhcCC--CCCEEEEECCCCHHHHHHHHhcCcceEEeccchh
Confidence            99999998654  8999999999999999999999999999999753

>PRK10651 transcriptional regulator NarL; Provisional

Probab=99.56  E-value=1.5e-13  Score=111.44  Aligned_cols=121  Identities=25%  Similarity=0.414  Sum_probs=103.7

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ....+||+|||++..+..+..+|... ++.+. .+.++.+++..+....                  ||+||+|+.++++
T Consensus         4 ~~~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~dlvl~d~~l~~~   65 (216)
T PRK10651          4 QEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD------------------PDLILLDLNMPGM   65 (216)
T ss_pred             CcceEEEEECCCHHHHHHHHHHHccCCCcEEEEEeCCHHHHHHHHHhCC------------------CCEEEEeCCCCCC
Confidence            34589999999999999999999764 56554 6899999999885433                  5699999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +|+++++.++...+  .+|+|++++..+......++..|+++|+.||++..+|...+..++.+
T Consensus        66 ~~~~~~~~l~~~~~--~~~vi~l~~~~~~~~~~~~~~~g~~~~i~k~~~~~~l~~~i~~~~~~  126 (216)
T PRK10651         66 NGLETLDKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAG  126 (216)
T ss_pred             cHHHHHHHHHHhCC--CCcEEEEeCCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHCC
Confidence            99999999998654  78999999988888889999999999999999999998777766543

>PRK11475 DNA-binding transcriptional activator BglJ; Provisional

Probab=99.56  E-value=4.7e-14  Score=115.61  Aligned_cols=107  Identities=15%  Similarity=0.179  Sum_probs=87.7

Q ss_pred             HHHHHHHHhhc---CCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEE---EeCCCCCCCHHHHHHHHH
Q 026239           27 DRKLIERLLKT---SSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVI---TDYCMPGMTGYDLLKKIK  100 (241)
Q Consensus        27 ~~~~l~~~L~~---~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIi---lD~~mp~~~g~~ll~~ir  100 (241)
                      .|..++.+|..   .||.|..+.++.++++.+....                  ||++|   +|+.||+++|++++++|+
T Consensus         2 ~r~gi~~lL~~~~~~~~~v~~~~~~~~~l~~~~~~~------------------pd~vl~dl~d~~mp~~~Gl~~~~~l~   63 (207)
T PRK11475          2 SSIGIESLFRKFPGNPYKLHTFSSQSSFQDAMSRIS------------------FSAVIFSLSAMRSERREGLSCLTELA   63 (207)
T ss_pred             chHHHHHHHhcCCCCeeEEEEeCCHHHHHHHhccCC------------------CCEEEeeccccCCCCCCHHHHHHHHH
Confidence            36678888864   3566678999999999886444                  45998   688889999999999999


Q ss_pred             hcCCCCCCcEEEEccCCChHHHHHHH-HhcccccccCCCCHHHHHHhhHHHHHH
Q 026239          101 ESSSLRDIPVVIMSSENVPSRISRCL-EEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus       101 ~~~~~~~ipvIils~~~~~~~~~~~l-~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ...+  .+|||++|+..++..+..++ +.||++||.||++.++|...+..+..+
T Consensus        64 ~~~p--~~~iIvlt~~~~~~~~~~~~~~~Ga~gyl~K~~~~~eL~~aI~~v~~G  115 (207)
T PRK11475         64 IKFP--RMRRLVIADDDIEARLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG  115 (207)
T ss_pred             HHCC--CCCEEEEeCCCCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHCC
Confidence            8755  89999999987776666655 799999999999999998888877654

>PRK13435 response regulator; Provisional

Probab=99.55  E-value=1.2e-13  Score=106.17  Aligned_cols=113  Identities=19%  Similarity=0.253  Sum_probs=95.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-CCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-GMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~~~g   92 (241)
                      +++|||+|++......+...|+..|+.+. .++++.++++.+...                  .||+||+|+.++ +.+|
T Consensus         5 ~~~iliid~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~------------------~~dliivd~~~~~~~~~   66 (145)
T PRK13435          5 QLKVLIVEDEALIALELEKLVEEAGHEVVGIAMSSEQAIALGRRR------------------QPDVALVDVHLADGPTG   66 (145)
T ss_pred             cceEEEEcCcHHHHHHHHHHHHhcCCeEEEeeCCHHHHHHHhhhc------------------CCCEEEEeeecCCCCcH
Confidence            68999999999999999999998899877 789999999887543                  356999999998 5899


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.++..   ..+|+|++++..+   ...++..|+++|+.||++..+|...+.++.
T Consensus        67 ~~~~~~l~~~---~~~pii~ls~~~~---~~~~~~~ga~~~l~kp~~~~~l~~~i~~~~  119 (145)
T PRK13435         67 VEVARRLSAD---GGVEVVFMTGNPE---RVPHDFAGALGVIAKPYSPRGVARALSYLS  119 (145)
T ss_pred             HHHHHHHHhC---CCCCEEEEeCCHH---HHHHHhcCcceeEeCCCCHHHHHHHHHHHH
Confidence            9999999864   2789999987643   246778999999999999999877766654

>PRK00742 chemotaxis-specific methylesterase; Provisional

Probab=99.54  E-value=1.5e-13  Score=121.51  Aligned_cols=104  Identities=36%  Similarity=0.457  Sum_probs=89.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||+...+..+..+|... ++.+. .+.++.+++..+....                  ||+|++|+.||+++|
T Consensus         3 ~~~ILiVdd~~~~~~~L~~~L~~~~~~~vv~~a~~~~~al~~~~~~~------------------~DlVllD~~mp~~dg   64 (354)
T PRK00742          3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLN------------------PDVITLDVEMPVMDG   64 (354)
T ss_pred             ccEEEEECCCHHHHHHHHHHHhhCCCCEEEEEECCHHHHHHHHhhhC------------------CCEEEEeCCCCCCCh
Confidence            479999999999999999999876 78877 8899999999885443                  569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCC--ChHHHHHHHHhcccccccCCCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSEN--VPSRISRCLEEGAEEFFLKPVR  139 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~--~~~~~~~~l~~Ga~~~l~KP~~  139 (241)
                      +++++.|+...   .+|+|++|+..  ......++++.|+++||.||+.
T Consensus        65 le~l~~i~~~~---~~piIvls~~~~~~~~~~~~al~~Ga~d~l~kP~~  110 (354)
T PRK00742         65 LDALEKIMRLR---PTPVVMVSSLTERGAEITLRALELGAVDFVTKPFL  110 (354)
T ss_pred             HHHHHHHHHhC---CCCEEEEecCCCCCHHHHHHHHhCCCcEEEeCCcc
Confidence            99999999764   38999998753  3456678999999999999994

>PRK15369 two component system sensor kinase SsrB; Provisional

Probab=99.53  E-value=4.3e-13  Score=107.71  Aligned_cols=118  Identities=22%  Similarity=0.352  Sum_probs=101.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+||++||++..+..+...|... ++.+. .+.++.+++..+...                  .||+||+|+.+++++|
T Consensus         3 ~~~iliv~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~dlvl~d~~~~~~~~   64 (211)
T PRK15369          3 NYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQL------------------EPDIVILDLGLPGMNG   64 (211)
T ss_pred             ccEEEEECCcHHHHHHHHHHHccCCCcEEEEEECCHHHHHHHHHhc------------------CCCEEEEeCCCCCCCH
Confidence            478999999999999999999865 46654 788999999877543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.++...+  .+|+|++|+.........++..|+++|+.||++..+|...+..+..
T Consensus        65 ~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  122 (211)
T PRK15369         65 LDVIPQLHQRWP--AMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAV  122 (211)
T ss_pred             HHHHHHHHHHCC--CCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            999999998643  7899999999888889999999999999999999998777666543

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

Probab=99.52  E-value=2.8e-13  Score=111.11  Aligned_cols=117  Identities=9%  Similarity=0.066  Sum_probs=94.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCC--E-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC--CCCC
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSY--Q-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC--MPGM   90 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~--~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~--mp~~   90 (241)
                      +.||||||++..+..++.+|...++  . |..++++.+++..+....                  |||||+|+.  +++.
T Consensus         1 ~~~lIvDD~~~~~~gl~~~L~~~~~~~~vv~~~~~~~~~~~~~~~~~------------------pDlvLlDl~~~l~~~   62 (207)
T PRK15411          1 MSTIIMDLCSYTRLGLTGYLLSRGVKKREINDIETVDDLAIACDSLR------------------PSVVFINEDCFIHDA   62 (207)
T ss_pred             CCEEEEcCCHHHHHHHHHHHHhCCCcceEEEecCCHHHHHHHHhccC------------------CCEEEEeCcccCCCC
Confidence            4689999999999999999986553  3 447899999999885444                  459999966  8888


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccc-cccCCCCHHHHHHhhHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE-FFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~-~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +|+++++.|++..+  .++||++|+..+..... ++..|+.. |+.|+.++++|..++..+..+
T Consensus        63 ~g~~~i~~i~~~~p--~~~iivlt~~~~~~~~~-~~~~~~~~~~~~K~~~~~~L~~aI~~v~~g  123 (207)
T PRK15411         63 SNSQRIKQIINQHP--NTLFIVFMAIANIHFDE-YLLVRKNLLISSKSIKPESLDDLLGDILKK  123 (207)
T ss_pred             ChHHHHHHHHHHCC--CCeEEEEECCCchhHHH-HHHHHhhceeeeccCCHHHHHHHHHHHHcC
Confidence            99999999998765  79999999987665543 55556655 789999999998888777654

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

Probab=99.48  E-value=8.5e-13  Score=104.45  Aligned_cols=116  Identities=26%  Similarity=0.314  Sum_probs=94.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...+||++||....+..+...|...||.++ .+.++.++.+.+....||                  +||+|+.+|..|-
T Consensus         4 ~~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~~~pD------------------vVildie~p~rd~   65 (194)
T COG3707           4 MLLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCERLQPD------------------VVILDIEMPRRDI   65 (194)
T ss_pred             cccceeeccccccchhhHHHHHHHcCCeEeeeecccccchhHHHhcCCC------------------EEEEecCCCCccH
Confidence            358999999999999999999999999766 778888888888666655                  9999999999883


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      .+-+-+....   ...|||++|++++++.+..++++|+.+||.||++...|.-.+.-.
T Consensus        66 ~e~~~~~~~~---~~~piv~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA  120 (194)
T COG3707          66 IEALLLASEN---VARPIVALTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVA  120 (194)
T ss_pred             HHHHHHhhcC---CCCCEEEEEccCChHHHHHHHHcCCeEEEecCcchhhhhHHHHHH
Confidence            3333333322   267999999999999999999999999999999998886544433

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

Probab=99.46  E-value=1.1e-12  Score=127.79  Aligned_cols=116  Identities=13%  Similarity=0.131  Sum_probs=102.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+...|...||.++.+.++.++++.+....                ..||+||+  .||+++|++
T Consensus       697 ~~~ILvVddd~~~~~~l~~~L~~~G~~v~~~~s~~~al~~l~~~~----------------~~~DlVll--~~~~~~g~~  758 (828)
T PRK13837        697 GETVLLVEPDDATLERYEEKLAALGYEPVGFSTLAAAIAWISKGP----------------ERFDLVLV--DDRLLDEEQ  758 (828)
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC----------------CCceEEEE--CCCCCCHHH
Confidence            468999999999999999999999999999999999999885321                23679999  799999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.|+...+  .+|||++|+.........++..| ++||.||++..+|..++.+.+
T Consensus       759 l~~~l~~~~~--~ipIIvls~~~~~~~~~~~~~~G-~d~L~KP~~~~~L~~~l~~~l  812 (828)
T PRK13837        759 AAAALHAAAP--TLPIILGGNSKTMALSPDLLASV-AEILAKPISSRTLAYALRTAL  812 (828)
T ss_pred             HHHHHHhhCC--CCCEEEEeCCCchhhhhhHhhcc-CcEEeCCCCHHHHHHHHHHHH
Confidence            9999998654  89999999998888888999999 999999999999987776654

>PRK09191 two-component response regulator; Provisional

Probab=99.45  E-value=2.9e-12  Score=107.91  Aligned_cols=114  Identities=17%  Similarity=0.231  Sum_probs=95.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~g   92 (241)
                      ..+||++||++..+..+...|+..|+.+. .+.++.+++..+...                  .+|+||+|+.||+ ++|
T Consensus       137 ~~~~liidd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~l~~l~~~------------------~~dlvi~d~~~~~~~~g  198 (261)
T PRK09191        137 ATRVLIIEDEPIIAMDLEQLVESLGHRVTGIARTRAEAVALAKKT------------------RPGLILADIQLADGSSG  198 (261)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHhcCCCEEEEEECCHHHHHHHHhcc------------------CCCEEEEecCCCCCCCH
Confidence            46899999999999999999998899887 788999999988543                  3569999999995 899


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.++...   .+|||++|+..+....  +...|+.+|+.||++.++|...+..++
T Consensus       199 ~e~l~~l~~~~---~~pii~ls~~~~~~~~--~~~~~~~~~l~kP~~~~~l~~~i~~~~  252 (261)
T PRK09191        199 IDAVNDILKTF---DVPVIFITAFPERLLT--GERPEPAFLITKPFQPDTVKAAISQAL  252 (261)
T ss_pred             HHHHHHHHHhC---CCCEEEEeCCCcHHHH--HHhcccCceEECCCCHHHHHHHHHHHH
Confidence            99999998754   6899999987655433  345678899999999999987776654

>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=99.41  E-value=8.7e-12  Score=87.70  Aligned_cols=110  Identities=31%  Similarity=0.595  Sum_probs=95.1

Q ss_pred             EEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHH
Q 026239           19 LAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKK   98 (241)
Q Consensus        19 LiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~   98 (241)
                      +++++++..+..+...|...|+.+..+.+..+++..+...                  .+|++|+|+.+++.+|+++++.
T Consensus         1 l~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~ii~~~~~~~~~~~~~~~~   62 (113)
T cd00156           1 LIVDDDPLIRELLRRLLEKEGYEVVEAEDGEEALALLAEE------------------KPDLILLDIMMPGMDGLELLRR   62 (113)
T ss_pred             CeecCcHHHHHHHHHHHhhcCceEEEecCHHHHHHHHHhC------------------CCCEEEEecCCCCCchHHHHHH
Confidence            4789999999999999988899998999999999888543                  3569999999999999999999


Q ss_pred             HHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhH
Q 026239           99 IKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKP  148 (241)
Q Consensus        99 ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~  148 (241)
                      ++...  ..+|+++++..........++..|+.+|+.||++...|...+.
T Consensus        63 l~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~p~~~~~l~~~l~  110 (113)
T cd00156          63 IRKRG--PDIPIIFLTAHGDDEDAVEALKAGADDYLTKPFSPEELLARIR  110 (113)
T ss_pred             HHHhC--CCCCEEEEEecccHHHHHHHHHcChhhHccCCCCHHHHHHHHH
Confidence            99863  3789999988777777888999999999999999988866554

>PRK10693 response regulator of RpoS; Provisional

Probab=99.37  E-value=6.6e-12  Score=108.77  Aligned_cols=88  Identities=28%  Similarity=0.548  Sum_probs=75.4

Q ss_pred             EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHH
Q 026239           44 TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRIS  123 (241)
Q Consensus        44 ~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~  123 (241)
                      .+.++.+|++.+....                  ||+||+|+.||+++|+++++.++...+  .+|||++|+..+.+.+.
T Consensus         2 ~a~~g~~al~~l~~~~------------------pDlVL~D~~mp~~~Gle~~~~ir~~~~--~ipiI~lt~~~~~~~~~   61 (303)
T PRK10693          2 LAANGVDALELLGGFT------------------PDLIICDLAMPRMNGIEFVEHLRNRGD--QTPVLVISATENMADIA   61 (303)
T ss_pred             EeCCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHHHHHHHHhcCC--CCcEEEEECCCCHHHHH
Confidence            4678999999885443                  559999999999999999999998654  79999999999999999


Q ss_pred             HHHHhcccccccCCC-CHHHHHHhhHHHH
Q 026239          124 RCLEEGAEEFFLKPV-RLSDLNKLKPHLM  151 (241)
Q Consensus       124 ~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~  151 (241)
                      ++++.||+|||.||+ +.++|...+...+
T Consensus        62 ~al~~Ga~dyl~KP~~~~~~L~~~i~~~l   90 (303)
T PRK10693         62 KALRLGVQDVLLKPVKDLNRLREMVFACL   90 (303)
T ss_pred             HHHHCCCcEEEECCCCcHHHHHHHHHHHh
Confidence            999999999999999 4788876555444

>PRK13557 histidine kinase; Provisional

Probab=99.36  E-value=1.3e-11  Score=113.70  Aligned_cols=118  Identities=25%  Similarity=0.341  Sum_probs=102.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~g~   93 (241)
                      ..+||||||++..+..+...|+..||.+..+.++.+++..+...                 ..||+||+|+.+++ ++|+
T Consensus       415 ~~~iliv~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~-----------------~~~d~vi~d~~~~~~~~~~  477 (540)
T PRK13557        415 TETILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILDSH-----------------PEVDLLFTDLIMPGGMNGV  477 (540)
T ss_pred             CceEEEEcCcHHHHHHHHHHHHhcCCeEEEeCCHHHHHHHHhcC-----------------CCceEEEEeccCCCCCCHH
Confidence            46899999999999999999999999999999999999987432                 23669999999997 9999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|+...+  .+|||++++.........++..|+.+|+.||++.++|...+..++
T Consensus       478 ~~~~~l~~~~~--~~~ii~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~  533 (540)
T PRK13557        478 MLAREARRRQP--KIKVLLTTGYAEASIERTDAGGSEFDILNKPYRRAELARRVRMVL  533 (540)
T ss_pred             HHHHHHHHhCC--CCcEEEEcCCCchhhhhhhccccCCceeeCCCCHHHHHHHHHHHh
Confidence            99999998654  789999999888888888899999999999999999877665543

>PRK15029 arginine decarboxylase; Provisional

Probab=99.31  E-value=2.1e-11  Score=115.99  Aligned_cols=108  Identities=18%  Similarity=0.257  Sum_probs=87.4

Q ss_pred             ceEEEEeCCHH--------HHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           16 FHVLAVDDSII--------DRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        16 ~~ILiVdd~~~--------~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ++||||||+..        .++.|...|+..||+|..+.++.+|+..+...                 ..||+||+|+.|
T Consensus         1 MkILIVDDD~~~~~~~~~~i~~~L~~~Le~~G~eV~~a~s~~dAl~~l~~~-----------------~~~DlVLLD~~L   63 (755)
T PRK15029          1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSN-----------------EAIDCLMFSYQM   63 (755)
T ss_pred             CeEEEEeCCcccccchhHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhc-----------------CCCcEEEEECCC
Confidence            37999999995        68999999999999999999999999998531                 246799999999


Q ss_pred             CCCCHH----HHHHHHHhcCCCCCCcEEEEccCCC--hHHHHHHHHhcccccccCCCCHHHH
Q 026239           88 PGMTGY----DLLKKIKESSSLRDIPVVIMSSENV--PSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        88 p~~~g~----~ll~~ir~~~~~~~ipvIils~~~~--~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      |+++|+    ++|++||....  ++|||++|+..+  .......++ -+++||.+--+..++
T Consensus        64 Pd~dG~~~~~ell~~IR~~~~--~iPIIlLTar~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  122 (755)
T PRK15029         64 EHPDEHQNVRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLLE-LVDEFAWILEDTADF  122 (755)
T ss_pred             CCCccchhHHHHHHHHHhhCC--CCCEEEEEcCCcccccCCHHHHH-hhheEEEecCCCHHH
Confidence            999997    89999997644  899999999875  333333333 377888887765554

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

Probab=99.19  E-value=2.1e-10  Score=96.32  Aligned_cols=117  Identities=25%  Similarity=0.433  Sum_probs=96.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC-CEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS-YQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g-~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++|+++||++..+..+..++.... +.+. .+.++.++++.+...                  .+|++|+|+.||+++|
T Consensus         1 m~~i~i~dd~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~fldI~~~~~~G   62 (244)
T COG3279           1 MLKVLIVDDEPLAREELRRILNEIPDIEIVGEAENGEEALQLLQGL------------------RPDLVFLDIAMPDING   62 (244)
T ss_pred             CCcEEEecCCHHHHHHHHHHHHhhhhcCeeeeeccchhhHHHHhcc------------------CCCeEEEeeccCccch
Confidence            4789999999999999999998322 3332 688999999998654                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.+.|+...+  ..+|+++|+..  +....+++..|.||+.||++.+.|.+.+......
T Consensus        63 ~ela~~i~~~~~--~~~Ivfvt~~~--~~a~~afev~a~d~i~kp~~~~~l~~~l~~~~~~  119 (244)
T COG3279          63 IELAARIRKGDP--RPAIVFVTAHD--EYAVAAFEVEALDYLLKPISEERLAKTLERLRRY  119 (244)
T ss_pred             HHHHHHhcccCC--CCeEEEEEehH--HHHHHHHhHHHHhhhcCcchHHHHHHHHHHHHHH
Confidence            999999998644  67888899875  5667788999999999999999998877765544

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=98.68  E-value=2.7e-07  Score=90.82  Aligned_cols=112  Identities=12%  Similarity=0.071  Sum_probs=89.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+|+++||++..+..+..+|...|+.+..+.++.+    +..                  ..||++|+|+.||++++.
T Consensus       535 ~g~~ili~d~~~~~~~~l~~~L~~~g~~v~~~~~~~~----l~~------------------~~~d~il~~~~~~~~~~~  592 (919)
T PRK11107        535 AGKRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQ----LPE------------------AHYDILLLGLPVTFREPL  592 (919)
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEEcCCHHH----hcc------------------CCCCEEEecccCCCCCCH
Confidence            3578999999999999999999999999999888877    222                  236799999999987766


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhh
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLK  147 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~  147 (241)
                      ..+............++|++++.........+.+.|+++|+.||+...+|...+
T Consensus       593 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l  646 (919)
T PRK11107        593 TMLHERLAKAKSMTDFLILALPCHEQVLAEQLKQDGADACLSKPLSHTRLLPAL  646 (919)
T ss_pred             HHHHHHHHhhhhcCCcEEEEeCCcchhhHHHHhhCCCceEECCCCCHHHHHHHH
Confidence            555444333222345788888888888888999999999999999998875544

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

Probab=98.46  E-value=2.5e-07  Score=82.98  Aligned_cols=90  Identities=32%  Similarity=0.485  Sum_probs=74.3

Q ss_pred             CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCCh
Q 026239           40 YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVP  119 (241)
Q Consensus        40 ~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~  119 (241)
                      ++|.++.+|..++..+..+.+|                  .+++|+.||+++|+++|+.++....    +++++|....+
T Consensus        13 ~~v~~a~~g~~~l~~~~~~~~~------------------~~lld~~m~~~~~~~~~~~lk~~~~----~~v~~t~~~~~   70 (435)
T COG3706          13 KEVATAKKGLIALAILLDHKPD------------------YKLLDVMMPGMDGFELCRRLKAEPA----TVVMVTALDDS   70 (435)
T ss_pred             hhhhhccchHHHHHHHhcCCCC------------------eEEeecccCCcCchhHHHHHhcCCc----ceEEEEecCCC
Confidence            5677799999999998665554                  9999999999999999999998653    37888888888


Q ss_pred             HHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239          120 SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus       120 ~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ....+.+++|+++|++||+....+......+.
T Consensus        71 ~~~~~~~~~~~~~~l~~~~~~~~~~~r~~~l~  102 (435)
T COG3706          71 APRVRGLKAGADDFLTKPVNDSQLFLRAKSLV  102 (435)
T ss_pred             CcchhHHhhhhhhhccCCCChHHHHHhhhhhc
Confidence            88889999999999999998877754444443

>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=98.14  E-value=2.9e-05  Score=57.06  Aligned_cols=106  Identities=16%  Similarity=0.173  Sum_probs=72.6

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      ||||||||...+..+..+|+-.|+.+..+++..- .......                  ..+.+++...-.+ ...+++
T Consensus         1 kILvIddd~~R~~~L~~ILeFlGe~~~~~~~~~~-~~~~~~~------------------~~~~~~v~~g~~~-~~~~~l   60 (109)
T PF06490_consen    1 KILVIDDDAERRQRLSTILEFLGEQCEAVSSSDW-SQADWSS------------------PWEACAVILGSCS-KLAELL   60 (109)
T ss_pred             CEEEECCcHHHHHhhhhhhhhcCCCeEEecHHHH-HHhhhhc------------------CCcEEEEEecCch-hHHHHH
Confidence            6999999999999999999999999888776443 2222111                  1223333322222 556788


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      +.+.+..+  .+||+++.........     ..+-+-|..|++...|..++.+
T Consensus        61 ~~l~~~~~--~~Pvlllg~~~~~~~~-----~nvvg~Le~Pl~Y~qLt~~L~~  106 (109)
T PF06490_consen   61 KELLKWAP--HIPVLLLGEHDSPEEL-----PNVVGELEEPLNYPQLTDALHR  106 (109)
T ss_pred             HHHHhhCC--CCCEEEECCCCccccc-----cCeeEecCCCCCHHHHHHHHHH
Confidence            88877655  8999999887655111     1156678999999999776654

g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).

>smart00448 REC cheY-homologous receiver domain

Probab=97.85  E-value=0.00016  Score=43.05  Aligned_cols=55  Identities=35%  Similarity=0.598  Sum_probs=46.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP   88 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp   88 (241)
                      ++|+++++++..+..+...+...|+.+..+.++..++..+...                  .++++++|+.++
T Consensus         1 ~~i~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~vi~~~~~~   55 (55)
T smart00448        1 MRILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKEE------------------KPDLILLDIMMP   55 (55)
T ss_pred             CeEEEEcCCHHHHHHHHHHHhhcCcEEEEeCCHHHHHHHHHhc------------------CCCEEEEeccCC
Confidence            4799999999999999999998899988999999998887533                  355999998653

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=97.67  E-value=0.0017  Score=48.55  Aligned_cols=104  Identities=15%  Similarity=0.161  Sum_probs=74.0

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC--CHHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM--TGYDLL   96 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~--~g~~ll   96 (241)
                      |.+..-..++..+|+..||+|...   ...++.++.+....+                  |+|.+...+...  .--+++
T Consensus        10 d~H~lG~~~~~~~l~~~G~~vi~lG~~vp~e~~~~~a~~~~~------------------d~V~iS~~~~~~~~~~~~~~   71 (122)
T cd02071          10 DGHDRGAKVIARALRDAGFEVIYTGLRQTPEEIVEAAIQEDV------------------DVIGLSSLSGGHMTLFPEVI   71 (122)
T ss_pred             ChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEcccchhhHHHHHHHH
Confidence            566666677888899999999854   356778887765554                  488887776532  234667


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      +.+++... ++ +.|++.+....+...++.++|+++||..-.+.++...
T Consensus        72 ~~L~~~~~-~~-i~i~~GG~~~~~~~~~~~~~G~d~~~~~~~~~~~~~~  118 (122)
T cd02071          72 ELLRELGA-GD-ILVVGGGIIPPEDYELLKEMGVAEIFGPGTSIEEIID  118 (122)
T ss_pred             HHHHhcCC-CC-CEEEEECCCCHHHHHHHHHCCCCEEECCCCCHHHHHH
Confidence            77887643 23 4455665555666788889999999998888877654

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=97.56  E-value=0.00049  Score=51.01  Aligned_cols=95  Identities=17%  Similarity=0.259  Sum_probs=71.0

Q ss_pred             HHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC--CCHHHHHHHHHhcCCCC
Q 026239           29 KLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG--MTGYDLLKKIKESSSLR  106 (241)
Q Consensus        29 ~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~--~~g~~ll~~ir~~~~~~  106 (241)
                      ..|...|...|+.|+.+.+.++++..+..                 ...+++|++|+. ++  ....++++.|+..+.  
T Consensus         7 ~~l~~~L~~~~~~vv~~~~~dd~~~~i~~-----------------~~~i~avvi~~d-~~~~~~~~~ll~~i~~~~~--   66 (115)
T PF03709_consen    7 RELAEALEQRGREVVDADSTDDALAIIES-----------------FTDIAAVVISWD-GEEEDEAQELLDKIRERNF--   66 (115)
T ss_dssp             HHHHHHHHHTTTEEEEESSHHHHHHHHHC-----------------TTTEEEEEEECH-HHHHHHHHHHHHHHHHHST--
T ss_pred             HHHHHHHHHCCCEEEEeCChHHHHHHHHh-----------------CCCeeEEEEEcc-cccchhHHHHHHHHHHhCC--
Confidence            45666777789999999999999999963                 345789999997 21  235689999999876  


Q ss_pred             CCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239          107 DIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus       107 ~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      .+||.+++.....+.+....-..+++|+...-+..++
T Consensus        67 ~iPVFl~~~~~~~~~l~~~~l~~v~~~i~l~~~t~~f  103 (115)
T PF03709_consen   67 GIPVFLLAERDTTEDLPAEVLGEVDGFIWLFEDTAEF  103 (115)
T ss_dssp             T-EEEEEESCCHHHCCCHHHHCCESEEEETTTTTHHH
T ss_pred             CCCEEEEecCCCcccCCHHHHhhccEEEEecCCCHHH
Confidence            9999999986644444444455678898887665555

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=97.34  E-value=0.01  Score=45.36  Aligned_cols=115  Identities=13%  Similarity=0.091  Sum_probs=80.4

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ..+||+.    |.+..-...+..+|+..||+|+..   -+.++.++.+....                  +|+|.+...+
T Consensus         3 ~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~------------------~d~V~lS~~~   64 (137)
T PRK02261          3 KKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTSQEEFIDAAIETD------------------ADAILVSSLY   64 (137)
T ss_pred             CCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEcCcc
Confidence            4567777    777777788889999999999864   35778888876554                  4599998877


Q ss_pred             CCC--CHHHHHHHHHhcCCCCCCcEEEEccCC-----ChHHHHHHHHhcccccccCCCCHHHHHHhhH
Q 026239           88 PGM--TGYDLLKKIKESSSLRDIPVVIMSSEN-----VPSRISRCLEEGAEEFFLKPVRLSDLNKLKP  148 (241)
Q Consensus        88 p~~--~g~~ll~~ir~~~~~~~ipvIils~~~-----~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~  148 (241)
                      ...  ...++++.|++... ++++|++-..-.     ......++.+.|++.+|....+.+++...+.
T Consensus        65 ~~~~~~~~~~~~~L~~~~~-~~~~i~vGG~~~~~~~~~~~~~~~l~~~G~~~vf~~~~~~~~i~~~l~  131 (137)
T PRK02261         65 GHGEIDCRGLREKCIEAGL-GDILLYVGGNLVVGKHDFEEVEKKFKEMGFDRVFPPGTDPEEAIDDLK  131 (137)
T ss_pred             ccCHHHHHHHHHHHHhcCC-CCCeEEEECCCCCCccChHHHHHHHHHcCCCEEECcCCCHHHHHHHHH
Confidence            643  34577888887643 366555433221     2344567889999999998888887755443

>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain

Probab=97.26  E-value=0.0096  Score=45.24  Aligned_cols=106  Identities=17%  Similarity=0.150  Sum_probs=71.7

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CC-HHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MT-GYDLL   96 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~-g~~ll   96 (241)
                      |-+..-...+..+|+..||+|..   ..+.+++++......                  +|+|.+...+.. +. --+++
T Consensus        13 D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e~~v~aa~e~~------------------adii~iSsl~~~~~~~~~~~~   74 (132)
T TIGR00640        13 DGHDRGAKVIATAYADLGFDVDVGPLFQTPEEIARQAVEAD------------------VHVVGVSSLAGGHLTLVPALR   74 (132)
T ss_pred             CccHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEcCchhhhHHHHHHHH
Confidence            55566667888999999999984   346788888875544                  458877655532 21 23567


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhh
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLK  147 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~  147 (241)
                      +.|++... .+++ |++.+....+......++|+++||..-.+..+....+
T Consensus        75 ~~L~~~g~-~~i~-vivGG~~~~~~~~~l~~~Gvd~~~~~gt~~~~i~~~l  123 (132)
T TIGR00640        75 KELDKLGR-PDIL-VVVGGVIPPQDFDELKEMGVAEIFGPGTPIPESAIFL  123 (132)
T ss_pred             HHHHhcCC-CCCE-EEEeCCCChHhHHHHHHCCCCEEECCCCCHHHHHHHH
Confidence            77777653 2444 4455544556677889999999999877777765443

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=97.08  E-value=0.011  Score=43.83  Aligned_cols=96  Identities=17%  Similarity=0.268  Sum_probs=64.7

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC--CCHHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG--MTGYDLL   96 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~--~~g~~ll   96 (241)
                      |.+..-...+..+|+..||+|...   .+.++.++.+....|                  |+|.+...+..  ....+++
T Consensus        10 e~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~p------------------dvV~iS~~~~~~~~~~~~~i   71 (119)
T cd02067          10 DGHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEEDA------------------DAIGLSGLLTTHMTLMKEVI   71 (119)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEeccccccHHHHHHHH
Confidence            555666678889999999999754   356677777765544                  48888776554  2456788


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      +.+|+..+ .+++|+ +.+.........+.+.|+|.|+...
T Consensus        72 ~~l~~~~~-~~~~i~-vGG~~~~~~~~~~~~~G~D~~~~~~  110 (119)
T cd02067          72 EELKEAGL-DDIPVL-VGGAIVTRDFKFLKEIGVDAYFGPA  110 (119)
T ss_pred             HHHHHcCC-CCCeEE-EECCCCChhHHHHHHcCCeEEECCH
Confidence            88888643 255554 5554444444567889998877643

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=96.62  E-value=0.07  Score=40.60  Aligned_cols=107  Identities=9%  Similarity=0.067  Sum_probs=70.8

Q ss_pred             CHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC--HHHHHHH
Q 026239           24 SIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT--GYDLLKK   98 (241)
Q Consensus        24 ~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~--g~~ll~~   98 (241)
                      +..-...+..+|+..||+|+.   .-+.++.++....+.                  +|+|-+...|...-  --++.+.
T Consensus        14 HdiGk~iv~~~l~~~GfeVi~LG~~v~~e~~v~aa~~~~------------------adiVglS~l~~~~~~~~~~~~~~   75 (134)
T TIGR01501        14 HAVGNKILDHAFTNAGFNVVNLGVLSPQEEFIKAAIETK------------------ADAILVSSLYGHGEIDCKGLRQK   75 (134)
T ss_pred             hhHhHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEecccccCHHHHHHHHHH
Confidence            344456788899999999985   357788888876544                  45888887765322  3456777


Q ss_pred             HHhcCCCCCCcEEEEccCC--ChH----HHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           99 IKESSSLRDIPVVIMSSEN--VPS----RISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        99 ir~~~~~~~ipvIils~~~--~~~----~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      |++... .++ +|++.+..  ..+    ...++.+.|++..|...-.++++...+.+.
T Consensus        76 l~~~gl-~~~-~vivGG~~vi~~~d~~~~~~~l~~~Gv~~vF~pgt~~~~iv~~l~~~  131 (134)
T TIGR01501        76 CDEAGL-EGI-LLYVGGNLVVGKQDFPDVEKRFKEMGFDRVFAPGTPPEVVIADLKKD  131 (134)
T ss_pred             HHHCCC-CCC-EEEecCCcCcChhhhHHHHHHHHHcCCCEEECcCCCHHHHHHHHHHH
Confidence            777653 344 45566531  111    234678999999998888888876554443

This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.

>PRK15399 lysine decarboxylase LdcC; Provisional

Probab=96.53  E-value=0.04  Score=53.05  Aligned_cols=102  Identities=18%  Similarity=0.166  Sum_probs=69.3

Q ss_pred             ceEEEEeCCHH------HHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           16 FHVLAVDDSII------DRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        16 ~~ILiVdd~~~------~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ++|+||+++..      ....|...|+..||.|..+.+..+++.++.                 ....+++|++|+.-. 
T Consensus         1 ~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~-   62 (713)
T PRK15399          1 MNIIAIMGPHGVFYKDEPIKELESALQAQGFQTIWPQNSVDLLKFIE-----------------HNPRICGVIFDWDEY-   62 (713)
T ss_pred             CcEEEEecccccccccHHHHHHHHHHHHCCcEEEEecCHHHHHHHHh-----------------cccceeEEEEecccc-
Confidence            46788877731      134456667788999999999999999886                 233477999996432 


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCC
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVR  139 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~  139 (241)
                        ...+++.++....  ++||++++.......+....-.-+++|+..-.+
T Consensus        63 --~~~~~~~~~~~~~--~~Pv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (713)
T PRK15399         63 --SLDLCSDINQLNE--YLPLYAFINTHSTMDVSVQDMRMALWFFEYALG  108 (713)
T ss_pred             --hHHHHHHHHHhCC--CCCEEEEcCccccccCChhHhhhcceeeeeccC
Confidence              3568999998875  999999987543333222222335666664443

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

Probab=96.43  E-value=0.004  Score=61.69  Aligned_cols=50  Identities=22%  Similarity=0.110  Sum_probs=41.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ...+||||||++..+..+..+|+.+|+.|..++++.                        ....||+||+|+.+
T Consensus       688 ~g~~vLlvdD~~~~r~~l~~~L~~~G~~v~~a~~~~------------------------~~~~~Dlvl~D~~~  737 (894)
T PRK10618        688 DGVTVLLDITSEEVRKIVTRQLENWGATCITPDERL------------------------ISQEYDIFLTDNPS  737 (894)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEcCccc------------------------cCCCCCEEEECCCC
Confidence            357999999999999999999999999999887531                        12347899999883

>PRK15400 lysine decarboxylase CadA; Provisional

Probab=96.42  E-value=0.045  Score=52.67  Aligned_cols=100  Identities=15%  Similarity=0.196  Sum_probs=67.3

Q ss_pred             ceEEEEeCCHH------HHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           16 FHVLAVDDSII------DRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        16 ~~ILiVdd~~~------~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ++||+|+++..      -...|...|+..||.|..+.+..+++.++..                 ...+++|++|+.-  
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~--   61 (714)
T PRK15400          1 MNVIAILNHMGVYFKEEPIRELHRALERLNFQIVYPNDRDDLLKLIEN-----------------NARLCGVIFDWDK--   61 (714)
T ss_pred             CcEEEEccccccccccHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc-----------------ccceeEEEEecch--
Confidence            46788877621      1344566778889999999999999998862                 2346799999633  


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                       ....++..++.+..  ++||++++.......+....-.-+++|+..-
T Consensus        62 -~~~~~~~~~~~~~~--~~Pv~~~~~~~~~~~~~~~~l~~~~~~~~~~  106 (714)
T PRK15400         62 -YNLELCEEISKMNE--NLPLYAFANTYSTLDVSLNDLRLQVSFFEYA  106 (714)
T ss_pred             -hhHHHHHHHHHhCC--CCCEEEEccccccccCChHHhhhccceeeec
Confidence             23558999998775  9999999875433322222222355666543

>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins

Probab=96.32  E-value=0.078  Score=43.15  Aligned_cols=101  Identities=15%  Similarity=0.181  Sum_probs=70.6

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ..+||+.    |-+..=..++..+|+..||+|+...   +.++.++.+....|                  |+|-+...|
T Consensus        82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~~~p~~~l~~~~~~~~~------------------d~v~lS~~~  143 (201)
T cd02070          82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGRDVPPEEFVEAVKEHKP------------------DILGLSALM  143 (201)
T ss_pred             CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEeccc
Confidence            4677777    6777777889999999999998542   56778888765544                  599998877


Q ss_pred             CCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           88 PGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        88 p~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      ...  ...++++.+++.++..+++|++-...-..+   -+-..|||.|-.-
T Consensus       144 ~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~~~~---~~~~~GaD~~~~d  191 (201)
T cd02070         144 TTTMGGMKEVIEALKEAGLRDKVKVMVGGAPVNQE---FADEIGADGYAED  191 (201)
T ss_pred             cccHHHHHHHHHHHHHCCCCcCCeEEEECCcCCHH---HHHHcCCcEEECC
Confidence            653  355778888887544467776655444433   3556799888653

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.

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=96.07  E-value=0.027  Score=49.13  Aligned_cols=64  Identities=23%  Similarity=0.160  Sum_probs=43.9

Q ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEE-ccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           79 NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM-SSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        79 dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIil-s~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      .+|++|..+-.    .+   +....+ +...+|++ +...+.+....+++.|+.+||.+|++..+|...+..+
T Consensus        21 ~~v~~~~~~~~----~~---~~~~~p-~~~~vv~v~~~~~~~~~~~~a~~~Ga~~~l~~P~~~~~l~~~l~~~   85 (322)
T TIGR03815        21 PLVLVDADMAE----AC---AAAGLP-RRRRVVLVGGGEPGGALWRAAAAVGAEHVAVLPEAEGWLVELLADL   85 (322)
T ss_pred             CeEEECchhhh----HH---HhccCC-CCCCEEEEeCCCCCHHHHHHHHHhChhheeeCCCCHHHHHHHHHhh
Confidence            38999875411    11   122122 23345544 4466788899999999999999999999998777665

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.

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

Probab=95.91  E-value=0.33  Score=37.17  Aligned_cols=110  Identities=18%  Similarity=0.227  Sum_probs=73.5

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      .+.+||+.    |.+..-.+.+.++|...||+|..   ..+.++++...-.                  .++|+|.+...
T Consensus        11 ~rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp~e~v~aA~~------------------~dv~vIgvSsl   72 (143)
T COG2185          11 ARPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTPEEAVRAAVE------------------EDVDVIGVSSL   72 (143)
T ss_pred             CCceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCHHHHHHHHHh------------------cCCCEEEEEec
Confidence            45677664    67777788999999999999984   6789998887733                  23456666432


Q ss_pred             CCC-C-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239           87 MPG-M-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        87 mp~-~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      --+ + ..-.+.+.+++... .++. +++.+.-.++......+.|++.+|.--....+.
T Consensus        73 ~g~h~~l~~~lve~lre~G~-~~i~-v~~GGvip~~d~~~l~~~G~~~if~pgt~~~~~  129 (143)
T COG2185          73 DGGHLTLVPGLVEALREAGV-EDIL-VVVGGVIPPGDYQELKEMGVDRIFGPGTPIEEA  129 (143)
T ss_pred             cchHHHHHHHHHHHHHHhCC-cceE-EeecCccCchhHHHHHHhCcceeeCCCCCHHHH
Confidence            111 1 12345566676653 3444 355666666667777889999999876666654

>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase

Probab=95.79  E-value=0.12  Score=42.53  Aligned_cols=104  Identities=14%  Similarity=0.182  Sum_probs=70.5

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      ...+|++.    |.+..=..++..+|+..||+|+...   ..++.++.+....|                  |+|.+...
T Consensus        87 ~~~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~~v~~~~~~~~------------------~~V~lS~~  148 (213)
T cd02069          87 SKGKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGVMVPIEKILEAAKEHKA------------------DIIGLSGL  148 (213)
T ss_pred             CCCeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEccc
Confidence            34677777    6777777888889999999998653   57778888765554                  49999888


Q ss_pred             CCCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHH---HHHhcccccccCC
Q 026239           87 MPGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISR---CLEEGAEEFFLKP  137 (241)
Q Consensus        87 mp~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~---~l~~Ga~~~l~KP  137 (241)
                      |+..  .--++++.|++.+.  +++|++-....+.+....   +-..|||.|-.-.
T Consensus       149 ~~~~~~~~~~~i~~L~~~~~--~~~i~vGG~~~~~~~~~~~~~~~~~gad~y~~da  202 (213)
T cd02069         149 LVPSLDEMVEVAEEMNRRGI--KIPLLIGGAATSRKHTAVKIAPEYDGPVVYVKDA  202 (213)
T ss_pred             hhccHHHHHHHHHHHHhcCC--CCeEEEEChhcCHHHHhhhhccccCCCceEecCH
Confidence            7642  34567888887654  777776555444444322   1346998775433

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

>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=95.69  E-value=0.1  Score=43.55  Aligned_cols=40  Identities=30%  Similarity=0.472  Sum_probs=35.2

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .++++.|++..   ++|||+=.+-..++.+..+++.||++++.
T Consensus       164 ~~~I~~I~e~~---~vpVI~egGI~tpeda~~AmelGAdgVlV  203 (248)
T cd04728         164 PYNLRIIIERA---DVPVIVDAGIGTPSDAAQAMELGADAVLL  203 (248)
T ss_pred             HHHHHHHHHhC---CCcEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            68899998862   79999988889999999999999999854

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).

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

Probab=95.65  E-value=0.38  Score=36.26  Aligned_cols=102  Identities=11%  Similarity=0.131  Sum_probs=68.3

Q ss_pred             CHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CC-HHHHHHH
Q 026239           24 SIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MT-GYDLLKK   98 (241)
Q Consensus        24 ~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~-g~~ll~~   98 (241)
                      +..-...+..+|+..||+|+.   .-+.++.++....+.                  +|+|.+...|.. +. .-++++.
T Consensus        12 HdiGkniv~~~L~~~GfeVidLG~~v~~e~~v~aa~~~~------------------adiVglS~L~t~~~~~~~~~~~~   73 (128)
T cd02072          12 HAVGNKILDHAFTEAGFNVVNLGVLSPQEEFIDAAIETD------------------ADAILVSSLYGHGEIDCKGLREK   73 (128)
T ss_pred             hHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEeccccCCHHHHHHHHHH
Confidence            344456788899999999984   346778888775544                  458888776654 32 3467777


Q ss_pred             HHhcCCCCCCcEEEEccCC--C----hHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           99 IKESSSLRDIPVVIMSSEN--V----PSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        99 ir~~~~~~~ipvIils~~~--~----~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      +++... ++++|+ +.+..  .    .+...++.++|++.+|...-+++++..
T Consensus        74 l~~~gl-~~v~vi-vGG~~~i~~~d~~~~~~~L~~~Gv~~vf~pgt~~~~i~~  124 (128)
T cd02072          74 CDEAGL-KDILLY-VGGNLVVGKQDFEDVEKRFKEMGFDRVFAPGTPPEEAIA  124 (128)
T ss_pred             HHHCCC-CCCeEE-EECCCCCChhhhHHHHHHHHHcCCCEEECcCCCHHHHHH
Confidence            877653 465555 44431  1    334466889999999998777777643

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.

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

Probab=95.05  E-value=0.15  Score=37.61  Aligned_cols=103  Identities=14%  Similarity=0.191  Sum_probs=69.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+.+.|+.+.........+|...+.+|+.-.+..+.                      -...||.+++.+-.+-.+..
T Consensus        10 ~gk~LayiEpNstAA~~t~~iL~~tpleVtyr~t~~~l----------------------p~~hYD~~Ll~vavtfr~n~   67 (140)
T COG4999          10 AGKRLAYIEPNSTAAQCTLDILSETPLEVTYRPTFSAL----------------------PPAHYDMMLLGVAVTFRENL   67 (140)
T ss_pred             ccceeEEecCccHHHHHHHHHHhcCCceEEeccccccc----------------------ChhhhceeeecccccccCCc
Confidence            45788999999999888999999999999865443321                      12358899999877654433


Q ss_pred             H-----HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239           94 D-----LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        94 ~-----ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      .     +.+.+.    ..+.-|+.+-+ ..--.+......|+.++|+||++...|
T Consensus        68 tm~~~~l~~Al~----mtd~vilalPs-~~qv~AeqLkQ~g~~~CllKPls~~rL  117 (140)
T COG4999          68 TMQHERLAKALS----MTDFVILALPS-HAQVNAEQLKQDGAGACLLKPLSSTRL  117 (140)
T ss_pred             hHHHHHHHHHHh----hhcceEEecCc-HHHHhHHHHhhcchHhHhhCcchhhhh
Confidence            3     333332    22333433333 233345567789999999999987655

>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family

Probab=95.00  E-value=0.27  Score=39.88  Aligned_cols=100  Identities=13%  Similarity=0.131  Sum_probs=65.2

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ..+|++.    |.+..=...+..+|+..||+|+...   ..++.++.+....|                  |+|-+...|
T Consensus        84 ~~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~~vp~e~~v~~~~~~~p------------------d~v~lS~~~  145 (197)
T TIGR02370        84 LGKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGRDVPIDTVVEKVKKEKP------------------LMLTGSALM  145 (197)
T ss_pred             CCeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEcccc
Confidence            3455544    3445556778888999999998543   56778888865554                  499998877


Q ss_pred             CCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           88 PGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        88 p~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ...  .-.++++.+++.+...+++|++-...-.+.   -+.+.|||.|-.
T Consensus       146 ~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~~~~~~---~~~~~gad~~~~  192 (197)
T TIGR02370       146 TTTMYGQKDINDKLKEEGYRDSVKFMVGGAPVTQD---WADKIGADVYGE  192 (197)
T ss_pred             ccCHHHHHHHHHHHHHcCCCCCCEEEEEChhcCHH---HHHHhCCcEEeC
Confidence            642  235677888887543456666544443332   355779998854

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.

>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=94.90  E-value=0.39  Score=35.18  Aligned_cols=92  Identities=17%  Similarity=0.271  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC-CCCC-CHHHHHHH
Q 026239           24 SIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC-MPGM-TGYDLLKK   98 (241)
Q Consensus        24 ~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~-mp~~-~g~~ll~~   98 (241)
                      .+.-...+..+|+..||+|...+   +.++..+.+....                  ||+|.+... .+.. ...++++.
T Consensus        13 ~~lGl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~------------------pd~V~iS~~~~~~~~~~~~l~~~   74 (121)
T PF02310_consen   13 HPLGLLYLAAYLRKAGHEVDILDANVPPEELVEALRAER------------------PDVVGISVSMTPNLPEAKRLARA   74 (121)
T ss_dssp             TSHHHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTT------------------CSEEEEEESSSTHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCC------------------CcEEEEEccCcCcHHHHHHHHHH
Confidence            45667788999999999998763   3466667775554                  459999873 3333 35677888


Q ss_pred             HHhcCCCCCCcEEEEccCCChHHHHHHHH--hcccccccC
Q 026239           99 IKESSSLRDIPVVIMSSENVPSRISRCLE--EGAEEFFLK  136 (241)
Q Consensus        99 ir~~~~~~~ipvIils~~~~~~~~~~~l~--~Ga~~~l~K  136 (241)
                      +|+..+  +++||+ .+......-..+++  .|+|..+.-
T Consensus        75 ~k~~~p--~~~iv~-GG~~~t~~~~~~l~~~~~~D~vv~G  111 (121)
T PF02310_consen   75 IKERNP--NIPIVV-GGPHATADPEEILREYPGIDYVVRG  111 (121)
T ss_dssp             HHTTCT--TSEEEE-EESSSGHHHHHHHHHHHTSEEEEEE
T ss_pred             HHhcCC--CCEEEE-ECCchhcChHHHhccCcCcceecCC
Confidence            887654  666654 44443444445555  677765543

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 ....

>PRK00208 thiG thiazole synthase; Reviewed

Probab=94.88  E-value=0.35  Score=40.50  Aligned_cols=48  Identities=25%  Similarity=0.356  Sum_probs=38.8

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-----CCCCHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-----KPVRLSDL  143 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~L  143 (241)
                      .++++.|++..   ++|||+=.+-..++.+..+++.|+++++.     |.-++..+
T Consensus       164 ~~~i~~i~e~~---~vpVIveaGI~tpeda~~AmelGAdgVlV~SAItka~dP~~m  216 (250)
T PRK00208        164 PYNLRIIIEQA---DVPVIVDAGIGTPSDAAQAMELGADAVLLNTAIAVAGDPVAM  216 (250)
T ss_pred             HHHHHHHHHhc---CCeEEEeCCCCCHHHHHHHHHcCCCEEEEChHhhCCCCHHHH
Confidence            68899998862   78999999999999999999999999854     53345554

>PRK09426 methylmalonyl-CoA mutase; Reviewed

Probab=93.72  E-value=1.1  Score=43.63  Aligned_cols=112  Identities=18%  Similarity=0.170  Sum_probs=71.8

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      ...+|++.    |.+..-...+..+|...||+|..   ..+.+++.+......                  +|+|++-..
T Consensus       581 ~rpkV~LatlG~d~H~~ra~fv~~~l~~~GfeV~~~~~~~s~e~~v~aa~~~~------------------a~ivvlcs~  642 (714)
T PRK09426        581 RRPRILVAKMGQDGHDRGAKVIATAFADLGFDVDIGPLFQTPEEAARQAVEND------------------VHVVGVSSL  642 (714)
T ss_pred             CCceEEEEecCCcchhHhHHHHHHHHHhCCeeEecCCCCCCHHHHHHHHHHcC------------------CCEEEEecc
Confidence            34566543    34455556788899999999963   246778888775544                  447776444


Q ss_pred             CCC-C-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           87 MPG-M-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        87 mp~-~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      +.. + ..-.+++.|++.+. .+++|+ +.+...+.....+.+.|+++||..-.+..++..
T Consensus       643 d~~~~e~~~~l~~~Lk~~G~-~~v~vl-~GG~~~~~~~~~l~~aGvD~~i~~g~d~~~~L~  701 (714)
T PRK09426        643 AAGHKTLVPALIEALKKLGR-EDIMVV-VGGVIPPQDYDFLYEAGVAAIFGPGTVIADAAI  701 (714)
T ss_pred             chhhHHHHHHHHHHHHhcCC-CCcEEE-EeCCCChhhHHHHHhCCCCEEECCCCCHHHHHH
Confidence            432 2 24578888888652 234444 554433444566788999999998888776644

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

Probab=93.67  E-value=0.66  Score=38.56  Aligned_cols=108  Identities=17%  Similarity=0.206  Sum_probs=62.1

Q ss_pred             cceEEEEeCCHH----HHHH--HHHHhhcCCCEEEEE--CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           15 QFHVLAVDDSII----DRKL--IERLLKTSSYQVTTV--DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        15 ~~~ILiVdd~~~----~~~~--l~~~L~~~g~~v~~~--~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      -+++=|+.|+..    ..+.  -.+.|-..||.|..+  +|.--|-++.. ...                   .+++-+.
T Consensus        93 wIKLEVi~D~~~L~PD~~etl~Aae~Lv~eGF~VlPY~~~D~v~akrL~d-~Gc-------------------aavMPlg  152 (247)
T PF05690_consen   93 WIKLEVIGDDKTLLPDPIETLKAAEILVKEGFVVLPYCTDDPVLAKRLED-AGC-------------------AAVMPLG  152 (247)
T ss_dssp             EEEE--BS-TTT--B-HHHHHHHHHHHHHTT-EEEEEE-S-HHHHHHHHH-TT--------------------SEBEEBS
T ss_pred             eEEEEEeCCCCCcCCChhHHHHHHHHHHHCCCEEeecCCCCHHHHHHHHH-CCC-------------------CEEEecc
Confidence            356666666532    1222  234455679999833  44444443332 111                   4666777


Q ss_pred             CCCCCH-----HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC-----CCCHHHHHH
Q 026239           87 MPGMTG-----YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK-----PVRLSDLNK  145 (241)
Q Consensus        87 mp~~~g-----~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K-----P~~~~~L~~  145 (241)
                      -|-.+|     ...++.|++..   ++|||+=.+-..++.+..+++.|++++|.-     --++-.+.+
T Consensus       153 sPIGSg~Gi~n~~~l~~i~~~~---~vPvIvDAGiG~pSdaa~AMElG~daVLvNTAiA~A~dPv~MA~  218 (247)
T PF05690_consen  153 SPIGSGRGIQNPYNLRIIIERA---DVPVIVDAGIGTPSDAAQAMELGADAVLVNTAIAKAKDPVAMAR  218 (247)
T ss_dssp             SSTTT---SSTHHHHHHHHHHG---SSSBEEES---SHHHHHHHHHTT-SEEEESHHHHTSSSHHHHHH
T ss_pred             cccccCcCCCCHHHHHHHHHhc---CCcEEEeCCCCCHHHHHHHHHcCCceeehhhHHhccCCHHHHHH
Confidence            775554     35788888764   799999999999999999999999999764     345555543

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.

>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=93.59  E-value=0.89  Score=38.18  Aligned_cols=79  Identities=22%  Similarity=0.280  Sum_probs=55.9

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      .|.+.-.++.....+..+|...-|.+..++++.+.++++..+.                ..+|++|+....   .-..++
T Consensus         2 sI~~~v~s~~Laqsl~~~L~~dRY~l~~~~s~~ef~~~le~~~----------------e~iDCLvle~~~---~~~~~~   62 (283)
T PF07688_consen    2 SICLLVSSPALAQSLRQWLPGDRYELVQVDSPEEFLEFLEQHR----------------EQIDCLVLEQSP---LLPPLF   62 (283)
T ss_dssp             EEEEE-S-HHHHHHHHHHT-STTEEEEEESSCHHHHHHHCCTT----------------TT-SEEEEETTS---TTHHHH
T ss_pred             eEEEEeCCHHHHHHHHHHcccCceEEEEcCcHHHHHHHHHhch----------------hccCEEEEecCC---CcHHHH
Confidence            3555666778888899999888899999999999999997644                348899998754   446788


Q ss_pred             HHHHhcCCCCCCcEEEEccC
Q 026239           97 KKIKESSSLRDIPVVIMSSE  116 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~  116 (241)
                      ..+.+.+.  -+|+|++.+.
T Consensus        63 ~~L~e~g~--LLPaVil~~~   80 (283)
T PF07688_consen   63 NQLYEQGI--LLPAVILGSS   80 (283)
T ss_dssp             HHHHHCT------EEEES--
T ss_pred             HHHHHcCc--cccEEEEecC
Confidence            88988775  6899999764

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.

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

Probab=93.46  E-value=1.1  Score=36.78  Aligned_cols=43  Identities=26%  Similarity=0.450  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      .++++++.++...   ++||+...+-.+.+.+..+++.||++++.=
T Consensus       160 ~~~~~i~~i~~~~---~iPvia~GGI~t~~~~~~~l~~GadgV~iG  202 (221)
T PRK01130        160 PDFALLKELLKAV---GCPVIAEGRINTPEQAKKALELGAHAVVVG  202 (221)
T ss_pred             cCHHHHHHHHHhC---CCCEEEECCCCCHHHHHHHHHCCCCEEEEc
Confidence            3578899998753   689999888888999999999999988654

>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=93.12  E-value=1.5  Score=31.77  Aligned_cols=36  Identities=19%  Similarity=0.278  Sum_probs=27.8

Q ss_pred             CCChHHHHHHHHhcccccccCCC--CHHHHHHhhHHHH
Q 026239          116 ENVPSRISRCLEEGAEEFFLKPV--RLSDLNKLKPHLM  151 (241)
Q Consensus       116 ~~~~~~~~~~l~~Ga~~~l~KP~--~~~~L~~~~~~l~  151 (241)
                      ....+.+..+++.|.+=|+-||+  +.+++.+++....
T Consensus        73 ~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~  110 (120)
T PF01408_consen   73 SSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAK  110 (120)
T ss_dssp             GGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHH
Confidence            34567788999999999999998  6777777665543

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 ....

>PRK00043 thiE thiamine-phosphate pyrophosphorylase; Reviewed

Probab=93.04  E-value=2.8  Score=33.87  Aligned_cols=56  Identities=27%  Similarity=0.466  Sum_probs=42.1

Q ss_pred             cccEEEEeCCCCCC--------CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           77 GVNLVITDYCMPGM--------TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        77 ~~dlIilD~~mp~~--------~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+|.|.++-..|..        .|++.++++++...  ++||++..+- +.+.+..++..||+++..
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            46788877555533        35899999987542  5899988776 578888999999998864

>CHL00162 thiG thiamin biosynthesis protein G; Validated

Probab=92.96  E-value=4  Score=34.40  Aligned_cols=110  Identities=21%  Similarity=0.218  Sum_probs=70.6

Q ss_pred             ceEEEEeCC-------HHHHHHHHHHhhcCCCEEEEE--CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           16 FHVLAVDDS-------IIDRKLIERLLKTSSYQVTTV--DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        16 ~~ILiVdd~-------~~~~~~l~~~L~~~g~~v~~~--~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      +++=|+.|+       ....+.. +.|-..||.|..+  +|.--|-++... ..                   ..++-+.
T Consensus       108 IKLEVi~D~~~LlPD~~etl~Aa-e~Lv~eGF~VlPY~~~D~v~a~rLed~-Gc-------------------~aVMPlg  166 (267)
T CHL00162        108 VKLEVISDPKYLLPDPIGTLKAA-EFLVKKGFTVLPYINADPMLAKHLEDI-GC-------------------ATVMPLG  166 (267)
T ss_pred             EEEEEeCCCcccCCChHHHHHHH-HHHHHCCCEEeecCCCCHHHHHHHHHc-CC-------------------eEEeecc
Confidence            455566433       2333333 3455679999843  344444333321 11                   5667777


Q ss_pred             CCCCCH-----HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-----CCCCHHHHHHhhHH
Q 026239           87 MPGMTG-----YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-----KPVRLSDLNKLKPH  149 (241)
Q Consensus        87 mp~~~g-----~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~L~~~~~~  149 (241)
                      -|-.+|     -..++.|++..   ++|||+-.+-..++.+..+++.|+++.+.     |--++.++.+...+
T Consensus       167 sPIGSg~Gl~n~~~l~~i~e~~---~vpVivdAGIgt~sDa~~AmElGaDgVL~nSaIakA~dP~~mA~a~~~  236 (267)
T CHL00162        167 SPIGSGQGLQNLLNLQIIIENA---KIPVIIDAGIGTPSEASQAMELGASGVLLNTAVAQAKNPEQMAKAMKL  236 (267)
T ss_pred             CcccCCCCCCCHHHHHHHHHcC---CCcEEEeCCcCCHHHHHHHHHcCCCEEeecceeecCCCHHHHHHHHHH
Confidence            774443     35688888754   79999999999999999999999999854     55677666554433

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

Probab=92.95  E-value=1.1  Score=37.22  Aligned_cols=54  Identities=26%  Similarity=0.402  Sum_probs=44.6

Q ss_pred             EEEEeCCCCCCCHH-----HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           80 LVITDYCMPGMTGY-----DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        80 lIilD~~mp~~~g~-----~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      ..++-+.-|-.+|.     ..++.|++..   ++|||+=.+-..++.+..+++.|+|++|.-
T Consensus       153 aavMPl~aPIGSg~G~~n~~~l~iiie~a---~VPviVDAGiG~pSdAa~aMElG~DaVL~N  211 (262)
T COG2022         153 AAVMPLGAPIGSGLGLQNPYNLEIIIEEA---DVPVIVDAGIGTPSDAAQAMELGADAVLLN  211 (262)
T ss_pred             eEeccccccccCCcCcCCHHHHHHHHHhC---CCCEEEeCCCCChhHHHHHHhcccceeehh
Confidence            67778888865554     5677788754   899999999999999999999999999875

>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=92.64  E-value=1.6  Score=30.89  Aligned_cols=29  Identities=17%  Similarity=0.141  Sum_probs=25.4

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEE
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTV   45 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~   45 (241)
                      +||||.........++..++..|+.....
T Consensus         1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h   29 (97)
T PF10087_consen    1 SVLIVGGREDRERRYKRILEKYGGKLIHH   29 (97)
T ss_pred             CEEEEcCCcccHHHHHHHHHHcCCEEEEE
Confidence            48999998888888999999999988877

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

Probab=91.98  E-value=2.2  Score=36.16  Aligned_cols=71  Identities=15%  Similarity=0.165  Sum_probs=52.1

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKP  148 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~  148 (241)
                      .||.|++|+.-...+--++...++..... .++.++=....++..+.++++.|+++++.--+ +.++..+++.
T Consensus        40 G~D~v~iD~EHg~~~~~~~~~~i~a~~~~-g~~~lVRvp~~~~~~i~r~LD~Ga~giivP~v~tae~a~~~v~  111 (256)
T PRK10558         40 GFDWLVLDGEHAPNDVSTFIPQLMALKGS-ASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETAEEARRAVA  111 (256)
T ss_pred             CCCEEEEccccCCCCHHHHHHHHHHHhhc-CCCcEEECCCCCHHHHHHHhCCCCCeeeecCcCCHHHHHHHHH
Confidence            46799999999888888887777755432 45555555667889999999999999977544 4566655543

>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase

Probab=91.21  E-value=3.1  Score=35.06  Aligned_cols=70  Identities=16%  Similarity=0.163  Sum_probs=52.2

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhh
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLK  147 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~  147 (241)
                      .||.|++|+.-..++--++...++..... .++.++=....++..+.++++.|+++++.-=+ +.++..+++
T Consensus        33 G~D~v~iD~EHg~~~~~~~~~~~~a~~~~-g~~~~VRvp~~~~~~i~r~LD~Ga~gIivP~v~taeea~~~v  103 (249)
T TIGR03239        33 GFDWLLLDGEHAPNDVLTFIPQLMALKGS-ASAPVVRPPWNEPVIIKRLLDIGFYNFLIPFVESAEEAERAV  103 (249)
T ss_pred             CCCEEEEecccCCCCHHHHHHHHHHHhhc-CCCcEEECCCCCHHHHHHHhcCCCCEEEecCcCCHHHHHHHH
Confidence            36799999999988888887777765432 45555555667889999999999999977544 456665554

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

>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=91.18  E-value=2.8  Score=30.27  Aligned_cols=94  Identities=16%  Similarity=0.167  Sum_probs=57.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEEC-CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVD-SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...+|++||.++.....    +...|+.+...+ +-.+.|+.+...                  ..+.||+...- +...
T Consensus        20 ~~~~vvvid~d~~~~~~----~~~~~~~~i~gd~~~~~~l~~a~i~------------------~a~~vv~~~~~-d~~n   76 (116)
T PF02254_consen   20 GGIDVVVIDRDPERVEE----LREEGVEVIYGDATDPEVLERAGIE------------------KADAVVILTDD-DEEN   76 (116)
T ss_dssp             TTSEEEEEESSHHHHHH----HHHTTSEEEES-TTSHHHHHHTTGG------------------CESEEEEESSS-HHHH
T ss_pred             CCCEEEEEECCcHHHHH----HHhcccccccccchhhhHHhhcCcc------------------ccCEEEEccCC-HHHH
Confidence            34689999998776443    334567666544 334556655433                  24577776542 2445


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      +.++..+|+..+  ..+|++...  +......+..+|++..+
T Consensus        77 ~~~~~~~r~~~~--~~~ii~~~~--~~~~~~~l~~~g~d~vi  114 (116)
T PF02254_consen   77 LLIALLARELNP--DIRIIARVN--DPENAELLRQAGADHVI  114 (116)
T ss_dssp             HHHHHHHHHHTT--TSEEEEEES--SHHHHHHHHHTT-SEEE
T ss_pred             HHHHHHHHHHCC--CCeEEEEEC--CHHHHHHHHHCCcCEEE
Confidence            677788887654  677776664  34556666778997665

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 ....

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

Probab=91.10  E-value=3.1  Score=35.43  Aligned_cols=72  Identities=18%  Similarity=0.206  Sum_probs=51.7

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPH  149 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~  149 (241)
                      .||.|++|+.-...+--++...++..... .++.++=....+...+.++|+.||++++.--+ +.++..+++..
T Consensus        39 GfD~v~iD~EHg~~~~~~l~~~i~a~~~~-g~~~lVRvp~~~~~~i~r~LD~GA~GIivP~V~saeeA~~~V~a  111 (267)
T PRK10128         39 GYDWLLIDGEHAPNTIQDLYHQLQAIAPY-ASQPVIRPVEGSKPLIKQVLDIGAQTLLIPMVDTAEQARQVVSA  111 (267)
T ss_pred             CCCEEEEccccCCCCHHHHHHHHHHHHhc-CCCeEEECCCCCHHHHHHHhCCCCCeeEecCcCCHHHHHHHHHh
Confidence            36799999999888877777777654433 34445555667889999999999999988655 45555544433

>TIGR00693 thiE thiamine-phosphate pyrophosphorylase

Probab=91.06  E-value=2.5  Score=33.78  Aligned_cols=55  Identities=25%  Similarity=0.409  Sum_probs=40.2

Q ss_pred             cccEEEEeCCCCC--------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           77 GVNLVITDYCMPG--------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        77 ~~dlIilD~~mp~--------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      .+|.|.++-..+.        ..|++.++++....+  ++||+++.+- +.+.+..+++.|++++.
T Consensus       116 g~dyi~~~~v~~t~~k~~~~~~~g~~~l~~~~~~~~--~~pv~a~GGI-~~~~~~~~~~~G~~gva  178 (196)
T TIGR00693       116 GADYIGFGPIFPTPTKKDPAPPAGVELLREIAATSI--DIPIVAIGGI-TLENAAEVLAAGADGVA  178 (196)
T ss_pred             CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHhcC--CCCEEEECCc-CHHHHHHHHHcCCCEEE
Confidence            4678887665542        237899999986533  5898888665 57888889999998764

This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.

>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=91.03  E-value=2.2  Score=36.54  Aligned_cols=94  Identities=18%  Similarity=0.233  Sum_probs=60.5

Q ss_pred             EEEEeCCHHHHHHHHHHhhc---CC--CEE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           18 VLAVDDSIIDRKLIERLLKT---SS--YQV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~---~g--~~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      |||-|++.... .+...+..   ..  ..| +.+++.+++.+.+..                   .+|+|.+|-..| .+
T Consensus       157 vLikdnHi~~~-~i~~av~~~r~~~~~~kIeVEv~~leea~~a~~a-------------------gaDiI~LDn~~~-e~  215 (278)
T PRK08385        157 ILIKDNHLALV-PLEEAIRRAKEFSVYKVVEVEVESLEDALKAAKA-------------------GADIIMLDNMTP-EE  215 (278)
T ss_pred             EEEccCHHHHH-HHHHHHHHHHHhCCCCcEEEEeCCHHHHHHHHHc-------------------CcCEEEECCCCH-HH
Confidence            78888886555 45555432   21  233 378999999998842                   356999995433 23


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      --++++.++.... +.-..+..|+.-+.+.+....+.|+|.+
T Consensus       216 l~~~v~~l~~~~~-~~~~~leaSGGI~~~ni~~yA~tGvD~I  256 (278)
T PRK08385        216 IREVIEALKREGL-RERVKIEVSGGITPENIEEYAKLDVDVI  256 (278)
T ss_pred             HHHHHHHHHhcCc-CCCEEEEEECCCCHHHHHHHHHcCCCEE
Confidence            3344555554331 1234667788888899999999998755

>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II

Probab=90.71  E-value=2.5  Score=36.79  Aligned_cols=84  Identities=20%  Similarity=0.216  Sum_probs=57.4

Q ss_pred             HHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-----CCCHHHHHHHHHhcCC
Q 026239           31 IERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-----GMTGYDLLKKIKESSS  104 (241)
Q Consensus        31 l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-----~~~g~~ll~~ir~~~~  104 (241)
                      +...++..|..|. .+.+.++|..+..                   ..+|.|++.-.-.     ...-+.+++.+++.. 
T Consensus       101 ~i~~lk~~g~~v~~~v~s~~~a~~a~~-------------------~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~-  160 (307)
T TIGR03151       101 YIPRLKENGVKVIPVVASVALAKRMEK-------------------AGADAVIAEGMESGGHIGELTTMALVPQVVDAV-  160 (307)
T ss_pred             HHHHHHHcCCEEEEEcCCHHHHHHHHH-------------------cCCCEEEEECcccCCCCCCCcHHHHHHHHHHHh-
Confidence            3344555676554 5667777765543                   2456787743222     223588999998753 


Q ss_pred             CCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239          105 LRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus       105 ~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                        ++|||+-.+-.+...+..++..||+++..=
T Consensus       161 --~iPviaaGGI~~~~~~~~al~~GA~gV~iG  190 (307)
T TIGR03151       161 --SIPVIAAGGIADGRGMAAAFALGAEAVQMG  190 (307)
T ss_pred             --CCCEEEECCCCCHHHHHHHHHcCCCEeecc
Confidence              689999888888888999999999987543

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.

>cd00331 IGPS Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the release of carbon dioxide and water

Probab=90.71  E-value=6.6  Score=32.02  Aligned_cols=80  Identities=16%  Similarity=0.241  Sum_probs=51.6

Q ss_pred             hcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEe-CCCC-CCCHHHHHHHHHhcCCCCCCcEEE
Q 026239           36 KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITD-YCMP-GMTGYDLLKKIKESSSLRDIPVVI  112 (241)
Q Consensus        36 ~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD-~~mp-~~~g~~ll~~ir~~~~~~~ipvIi  112 (241)
                      ...|..+. .+.+.+++......                   .+|.+.+. .... ...++++++.++...+ .++|||.
T Consensus       118 ~~~g~~~~v~v~~~~e~~~~~~~-------------------g~~~i~~t~~~~~~~~~~~~~~~~l~~~~~-~~~pvia  177 (217)
T cd00331         118 RELGMEVLVEVHDEEELERALAL-------------------GAKIIGINNRDLKTFEVDLNTTERLAPLIP-KDVILVS  177 (217)
T ss_pred             HHcCCeEEEEECCHHHHHHHHHc-------------------CCCEEEEeCCCccccCcCHHHHHHHHHhCC-CCCEEEE
Confidence            44676654 55677776555532                   23355443 1111 1234678888876531 3689999


Q ss_pred             EccCCChHHHHHHHHhccccccc
Q 026239          113 MSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       113 ls~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ..+-...+.+.+++++||++++.
T Consensus       178 ~gGI~s~edi~~~~~~Ga~gviv  200 (217)
T cd00331         178 ESGISTPEDVKRLAEAGADAVLI  200 (217)
T ss_pred             EcCCCCHHHHHHHHHcCCCEEEE
Confidence            99988889999999999999854

IGPS is active as a separate monomer in most organisms, but is also found fused to other enzymes as part of a bifunctional or multifunctional enzyme involved in tryptophan biosynthesis.

>cd04729 NanE N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate

Probab=90.52  E-value=4.2  Score=33.32  Aligned_cols=43  Identities=28%  Similarity=0.559  Sum_probs=35.9

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      .++++++.++...   ++||+...+-.+.+.+.+++..||++++.-
T Consensus       164 ~~~~~l~~i~~~~---~ipvia~GGI~~~~~~~~~l~~GadgV~vG  206 (219)
T cd04729         164 PDFELLKELRKAL---GIPVIAEGRINSPEQAAKALELGADAVVVG  206 (219)
T ss_pred             CCHHHHHHHHHhc---CCCEEEeCCCCCHHHHHHHHHCCCCEEEEc
Confidence            4578999998753   699999888888999999999999988654

This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.

>PRK03958 tRNA 2'-O-methylase; Reviewed

Probab=90.39  E-value=6.1  Score=31.42  Aligned_cols=87  Identities=13%  Similarity=0.184  Sum_probs=58.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      --+++|+.+++..+..+++++..+|  |.|..+.+..++++-+...                ...+.|+..+....+  .
T Consensus        31 a~~~yiv~~~~~q~~~v~~I~~~WGg~fnv~~~~s~~~~i~~~k~~----------------G~vvhLtmyga~~~~--~   92 (176)
T PRK03958         31 ADKIILASNDEHVKESVEDIVERWGGPFEVEVTKSWKKEIREWKDG----------------GIVVHLTMYGENIQD--V   92 (176)
T ss_pred             CceEEEecCcHHHHHHHHHHHHhcCCceEEEEcCCHHHHHHHHHhC----------------CcEEEEEEecCCccc--h
Confidence            3578999999999999999999987  7788999999999988621                123557777777655  4


Q ss_pred             HHHHHHHHhcCCCCCCcEEE-EccCCChHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVI-MSSENVPSRIS  123 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIi-ls~~~~~~~~~  123 (241)
                      ++-++..-..    .-|+++ +.+...+..+.
T Consensus        93 ~~~ir~~~~~----~~p~LIvvGg~gvp~evy  120 (176)
T PRK03958         93 EPEIREAHRK----GEPLLIVVGAEKVPREVY  120 (176)
T ss_pred             HHHHHHhhcc----CCcEEEEEcCCCCCHHHH
Confidence            4444332211    224444 44555555443

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=90.16  E-value=1  Score=38.16  Aligned_cols=59  Identities=20%  Similarity=0.436  Sum_probs=44.4

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +.+++++.+|+...  ++|+++|+-.+.      ...+..+.++|+++++.-....++...++..+.
T Consensus        73 ~~~~~v~~ir~~~~--~~plv~m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~  137 (256)
T TIGR00262        73 KCFELLKKVRQKHP--NIPIGLLTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAK  137 (256)
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHH
Confidence            45777888886432  789888887765      667889999999999888777777766665554

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.

>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=90.10  E-value=0.87  Score=36.93  Aligned_cols=47  Identities=19%  Similarity=0.317  Sum_probs=38.0

Q ss_pred             CCcEEEEccC------CChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239          107 DIPVVIMSSE------NVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus       107 ~ipvIils~~------~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      .+|||+|+-+      .+...+..+.++||++||.-.+.+++-..+++...+.
T Consensus        95 t~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~~Rne~~k~  147 (268)
T KOG4175|consen   95 TCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAETLRNEARKH  147 (268)
T ss_pred             ccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHHHHHHHHhc
Confidence            6899999864      4566788899999999999999999887777666543

>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA)

Probab=89.92  E-value=1.2  Score=37.29  Aligned_cols=59  Identities=17%  Similarity=0.337  Sum_probs=43.2

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      .++++++.+|...   ++|+++|+-.+.      ...+..+.++|+++++.-....+++..++..+.+
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            4677888888653   689998887553      6668889999999998866666776666655543

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.

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

Probab=89.88  E-value=1.7  Score=35.02  Aligned_cols=78  Identities=15%  Similarity=0.214  Sum_probs=49.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC--CCCC-
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM--PGMT-   91 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m--p~~~-   91 (241)
                      +++||+||....+---|..+|...|+.|+++.+..-.+..+...                  .+|.|++.=.-  |... 
T Consensus         1 ~~~IL~IDNyDSFtyNLv~yl~~lg~~v~V~rnd~~~~~~~~~~------------------~pd~iviSPGPG~P~d~G   62 (191)
T COG0512           1 MMMILLIDNYDSFTYNLVQYLRELGAEVTVVRNDDISLELIEAL------------------KPDAIVISPGPGTPKDAG   62 (191)
T ss_pred             CceEEEEECccchHHHHHHHHHHcCCceEEEECCccCHHHHhhc------------------CCCEEEEcCCCCChHHcc
Confidence            36899999988888889999999998888766553333334332                  35588885321  2211 


Q ss_pred             -HHHHHHHHHhcCCCCCCcEEEEcc
Q 026239           92 -GYDLLKKIKESSSLRDIPVVIMSS  115 (241)
Q Consensus        92 -g~~ll~~ir~~~~~~~ipvIils~  115 (241)
                       ..++++++.     ..+||+-+.=
T Consensus        63 ~~~~~i~~~~-----~~~PiLGVCL   82 (191)
T COG0512          63 ISLELIRRFA-----GRIPILGVCL   82 (191)
T ss_pred             hHHHHHHHhc-----CCCCEEEECc
Confidence             244555442     2689987653

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

Probab=89.79  E-value=4.9  Score=33.82  Aligned_cols=73  Identities=12%  Similarity=0.124  Sum_probs=52.3

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-CCCCHHHHHHhhHHH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-KPVRLSDLNKLKPHL  150 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-KP~~~~~L~~~~~~l  150 (241)
                      .||.|++|+.-...+.-++...|+..... ...+++=....+...+.++++.|+++++. |--+.+++..++..+
T Consensus        33 g~D~v~iDlEH~~~~~~~~~~~~~a~~~~-g~~~~VRv~~~~~~~i~~~Ld~Ga~gIivP~v~s~e~a~~~v~~~  106 (249)
T TIGR02311        33 GFDWLLIDGEHAPNDVRTILSQLQALAPY-PSSPVVRPAIGDPVLIKQLLDIGAQTLLVPMIETAEQAEAAVAAT  106 (249)
T ss_pred             CCCEEEEeccCCCCCHHHHHHHHHHHHhc-CCCcEEECCCCCHHHHHHHhCCCCCEEEecCcCCHHHHHHHHHHc
Confidence            46799999998888888888877764322 23444445556777899999999999864 455777776665544

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.

>PRK13111 trpA tryptophan synthase subunit alpha; Provisional

Probab=89.57  E-value=1.2  Score=37.79  Aligned_cols=59  Identities=20%  Similarity=0.413  Sum_probs=43.9

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCC------ChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSEN------VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~------~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +.+++++++|+...  ++|+|+||-.+      .......|.++|++++|.-.+.+++...++..+.
T Consensus        75 ~~~~~~~~~r~~~~--~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~~  139 (258)
T PRK13111         75 DVFELVREIREKDP--TIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAAK  139 (258)
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHH
Confidence            45778888885433  78999998553      3456888999999999997788877766665554

>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed

Probab=89.46  E-value=10  Score=32.17  Aligned_cols=88  Identities=16%  Similarity=0.143  Sum_probs=55.0

Q ss_pred             HHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC-CC--CCCCHHHHHHHHHhc
Q 026239           27 DRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY-CM--PGMTGYDLLKKIKES  102 (241)
Q Consensus        27 ~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~-~m--p~~~g~~ll~~ir~~  102 (241)
                      ....+....+..|..+. .+.+.+++...... .                  +|+|-+.- ++  ...+ ++.+.++...
T Consensus       148 ~l~~li~~a~~lGl~~lvevh~~~E~~~A~~~-g------------------adiIgin~rdl~~~~~d-~~~~~~l~~~  207 (260)
T PRK00278        148 QLKELLDYAHSLGLDVLVEVHDEEELERALKL-G------------------APLIGINNRNLKTFEVD-LETTERLAPL  207 (260)
T ss_pred             HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHc-C------------------CCEEEECCCCcccccCC-HHHHHHHHHh
Confidence            33334444456787754 67888887665532 2                  34554431 11  1122 5666666654


Q ss_pred             CCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          103 SSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       103 ~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+ ...++|..++-.+++.+..+++.|+++++.
T Consensus       208 ~p-~~~~vIaegGI~t~ed~~~~~~~Gad~vlV  239 (260)
T PRK00278        208 IP-SDRLVVSESGIFTPEDLKRLAKAGADAVLV  239 (260)
T ss_pred             CC-CCCEEEEEeCCCCHHHHHHHHHcCCCEEEE
Confidence            32 246889999998999999999999999754

>PLN02591 tryptophan synthase

Probab=89.25  E-value=1.2  Score=37.61  Aligned_cols=58  Identities=16%  Similarity=0.275  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +.+++++++|..   .++|+|+||-.+.      .....+|.++|++++|.-.+..++...++..+.
T Consensus        65 ~~~~~~~~~r~~---~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~~  128 (250)
T PLN02591         65 SVISMLKEVAPQ---LSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEAA  128 (250)
T ss_pred             HHHHHHHHHhcC---CCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence            467888888853   2789999987553      445778899999999998888888776665554

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

Probab=89.20  E-value=10  Score=34.17  Aligned_cols=67  Identities=15%  Similarity=0.074  Sum_probs=36.1

Q ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           79 NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        79 dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |++++--.....-|..+++.+..     .+|||+.....+...+...+.  ..+++..|-+.++|...+..++.
T Consensus       321 Di~~v~~S~~e~~g~~~lEAma~-----G~PVI~g~~~~~~~e~~~~~~--~~g~~~~~~d~~~La~~l~~ll~  387 (425)
T PRK05749        321 DIAFVGGSLVKRGGHNPLEPAAF-----GVPVISGPHTFNFKEIFERLL--QAGAAIQVEDAEDLAKAVTYLLT  387 (425)
T ss_pred             CEEEECCCcCCCCCCCHHHHHHh-----CCCEEECCCccCHHHHHHHHH--HCCCeEEECCHHHHHHHHHHHhc
Confidence            57665333322235455555543     678886322222333333322  23567778888999877776654

>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF)

Probab=89.10  E-value=1.9  Score=35.82  Aligned_cols=53  Identities=21%  Similarity=0.332  Sum_probs=43.4

Q ss_pred             EEEEeCCCCCC-C--HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM-T--GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~--g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ++++|+..-++ .  .+++++.+.+..   .+||++-.+-.+.+.+..+++.|+++.+.
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            99999987653 2  367788888753   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

>cd00452 KDPG_aldolase KDPG and KHG aldolase

Probab=88.77  E-value=3.5  Score=33.03  Aligned_cols=69  Identities=13%  Similarity=0.104  Sum_probs=49.3

Q ss_pred             EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHH
Q 026239           44 TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRIS  123 (241)
Q Consensus        44 ~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~  123 (241)
                      -+.+.+++...+.                   ..+|.|-++- .+. .|.++++.++...  +++|++...+- +.+.+.
T Consensus       103 gv~t~~e~~~A~~-------------------~Gad~i~~~p-~~~-~g~~~~~~l~~~~--~~~p~~a~GGI-~~~n~~  158 (190)
T cd00452         103 GVATPTEIMQALE-------------------LGADIVKLFP-AEA-VGPAYIKALKGPF--PQVRFMPTGGV-SLDNAA  158 (190)
T ss_pred             CcCCHHHHHHHHH-------------------CCCCEEEEcC-Ccc-cCHHHHHHHHhhC--CCCeEEEeCCC-CHHHHH
Confidence            5668888877763                   2355777743 333 3899999998754  36888877665 788899


Q ss_pred             HHHHhcccccccC
Q 026239          124 RCLEEGAEEFFLK  136 (241)
Q Consensus       124 ~~l~~Ga~~~l~K  136 (241)
                      .+++.|++.+..-
T Consensus       159 ~~~~~G~~~v~v~  171 (190)
T cd00452         159 EWLAAGVVAVGGG  171 (190)
T ss_pred             HHHHCCCEEEEEc
Confidence            9999998877543

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.

>cd00564 TMP_TenI Thiamine monophosphate synthase (TMP synthase)/TenI

Probab=88.66  E-value=5.6  Score=31.34  Aligned_cols=55  Identities=29%  Similarity=0.459  Sum_probs=40.6

Q ss_pred             cccEEEEeCCCCC--------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           77 GVNLVITDYCMPG--------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        77 ~~dlIilD~~mp~--------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+|.|+++...|+        ..|++.++++++.   .++||++..+- ..+.+..++..|++++..
T Consensus       115 g~d~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~pv~a~GGi-~~~~i~~~~~~Ga~~i~~  177 (196)
T cd00564         115 GADYVGFGPVFPTPTKPGAGPPLGLELLREIAEL---VEIPVVAIGGI-TPENAAEVLAAGADGVAV  177 (196)
T ss_pred             CCCEEEECCccCCCCCCCCCCCCCHHHHHHHHHh---CCCCEEEECCC-CHHHHHHHHHcCCCEEEE
Confidence            3678888755442        3467888888875   26899988776 467888999999988744

TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl) thiazole phosphate to yield thiamine phosphate. TenI is a enzymatically inactive regulatory protein involved in the regulation of several extracellular enzymes. This superfamily also contains other enzymatically inactive proteins with unknown functions.

>PRK12704 phosphodiesterase; Provisional

Probab=88.44  E-value=1.8  Score=40.45  Aligned_cols=43  Identities=16%  Similarity=0.163  Sum_probs=34.0

Q ss_pred             cEEEEccCCChH--HHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239          109 PVVIMSSENVPS--RISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus       109 pvIils~~~~~~--~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      .+|++|+.+...  ....+++.|+.|+..||++.+++......-+
T Consensus       251 ~~v~ls~~~~~rre~a~~~l~~l~~dg~i~P~~iee~~~~~~~~~  295 (520)
T PRK12704        251 EAVILSGFDPIRREIARLALEKLVQDGRIHPARIEEMVEKARKEV  295 (520)
T ss_pred             CeEEEecCChhhHHHHHHHHHHHHhcCCcCCCCHHHHHHHHHHHH
Confidence            578889877655  7788999999999999999999865443333

>TIGR00007 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase

Probab=88.39  E-value=6.2  Score=32.46  Aligned_cols=53  Identities=15%  Similarity=0.313  Sum_probs=41.5

Q ss_pred             EEEEeCCCCCC-C--HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM-T--GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~--g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ++++|+.--++ .  .+++++.+++..   ++||++-.+-.+.+.+..+++.||++++.
T Consensus       162 ii~~~~~~~g~~~g~~~~~i~~i~~~~---~ipvia~GGi~~~~di~~~~~~Gadgv~i  217 (230)
T TIGR00007       162 IIYTDISRDGTLSGPNFELTKELVKAV---NVPVIASGGVSSIDDLIALKKLGVYGVIV  217 (230)
T ss_pred             EEEEeecCCCCcCCCCHHHHHHHHHhC---CCCEEEeCCCCCHHHHHHHHHCCCCEEEE
Confidence            77788765432 1  268888888752   78999988888999999999999998865

Examples of this enzyme in Actinobacteria have been found to be bifunctional, also possessing phosphoribosylanthranilate isomerase activity ; the trusted cutoff here has now been raised to 275.0 to exclude the bifunctional group, now represented by model TIGR01919. HisA from Lactococcus lactis was reported to be inactive (MEDLINE:93322317).

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

Probab=88.15  E-value=7.2  Score=36.28  Aligned_cols=107  Identities=20%  Similarity=0.170  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHhhcCC-CEEEEEC------CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC-CHHHH
Q 026239           24 SIIDRKLIERLLKTSS-YQVTTVD------SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM-TGYDL   95 (241)
Q Consensus        24 ~~~~~~~l~~~L~~~g-~~v~~~~------~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~-~g~~l   95 (241)
                      .|.-...|...|+..| ++|..++      +.++..+.+...                  .||+|.+....+.. ...++
T Consensus        21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~~~~~~~~~l~~~------------------~pdvVgis~~t~~~~~a~~~   82 (497)
T TIGR02026        21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPLTDEKLVERLRAH------------------CPDLVLITAITPAIYIACET   82 (497)
T ss_pred             CCHHHHHHHHHHHhcCCcceEEecccccCCCHHHHHHHHHhc------------------CcCEEEEecCcccHHHHHHH
Confidence            3556677888898889 6887764      223344445433                  35598887655543 35678


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHH-hcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLE-EGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~-~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++.+|+..+  +++||+=..+. .....+++. ....||+..--....+..++..+.
T Consensus        83 ~~~~k~~~P--~~~iV~GG~h~-t~~~~~~l~~~p~vD~Vv~GEGE~~~~~Ll~~l~  136 (497)
T TIGR02026        83 LKFARERLP--NAIIVLGGIHP-TFMFHQVLTEAPWIDFIVRGEGEETVVKLIAALE  136 (497)
T ss_pred             HHHHHHHCC--CCEEEEcCCCc-CcCHHHHHhcCCCccEEEeCCcHHHHHHHHHHHH
Confidence            888888754  66666543333 223344554 344577777655555666666553

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.

>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain

Probab=88.14  E-value=6.1  Score=29.22  Aligned_cols=103  Identities=18%  Similarity=0.168  Sum_probs=58.9

Q ss_pred             HHHHHHHhhcCCCEEEEEC--CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC-CHHHHHHHHHhcCC
Q 026239           28 RKLIERLLKTSSYQVTTVD--SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM-TGYDLLKKIKESSS  104 (241)
Q Consensus        28 ~~~l~~~L~~~g~~v~~~~--~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~-~g~~ll~~ir~~~~  104 (241)
                      ...+..+|...|+.+...+  ..+..++.+..                 ...||+|.+....... ....+++.+|+..+
T Consensus         5 l~~~aa~l~~~g~~v~~~~~~~~~~~~~~~~~-----------------~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p   67 (127)
T cd02068           5 LAYLAAVLEDAGFIVAEHDVLSADDIVEDIKE-----------------LLKPDVVGISLMTSAIYEALELAKIAKEVLP   67 (127)
T ss_pred             HHHHHHHHHHCCCeeeecCCCCHHHHHHHHHH-----------------hcCCCEEEEeeccccHHHHHHHHHHHHHHCC
Confidence            4567778888888776543  44555565543                 1345699988754443 46778999998764


Q ss_pred             CCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239          105 LRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus       105 ~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                        +++||+-..... .....++.....||+..---...+..++.++
T Consensus        68 --~~~iv~GG~~~t-~~p~~~~~~~~~D~vv~GEgE~~~~~l~~~l  110 (127)
T cd02068          68 --NVIVVVGGPHAT-FFPEEILEEPGVDFVVIGEGEETFLKLLEEL  110 (127)
T ss_pred             --CCEEEECCcchh-hCHHHHhcCCCCCEEEECCcHHHHHHHHHHH
Confidence              666665443322 2222223333446777654334445555443

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.

>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases

Probab=88.09  E-value=4.3  Score=33.16  Aligned_cols=71  Identities=8%  Similarity=0.066  Sum_probs=49.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC--EEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY--QVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      +.-+|.-||-++......+..++..|+  .|. ...++.+.+..+....              ....||+||+|..=  .
T Consensus        69 ~~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~--------------~~~~fD~VFiDa~K--~  132 (205)
T PF01596_consen   69 EDGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDG--------------EEGQFDFVFIDADK--R  132 (205)
T ss_dssp             TTSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTT--------------TTTSEEEEEEESTG--G
T ss_pred             ccceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhcc--------------CCCceeEEEEcccc--c
Confidence            357999999999999999999998886  455 5577778777664321              12469999999853  2


Q ss_pred             CHHHHHHHHH
Q 026239           91 TGYDLLKKIK  100 (241)
Q Consensus        91 ~g~~ll~~ir  100 (241)
                      +-.+.++.+.
T Consensus       133 ~y~~y~~~~~  142 (205)
T PF01596_consen  133 NYLEYFEKAL  142 (205)
T ss_dssp             GHHHHHHHHH
T ss_pred             chhhHHHHHh
Confidence            3444444443

The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....

>PRK13125 trpA tryptophan synthase subunit alpha; Provisional

Probab=88.08  E-value=7.1  Score=32.66  Aligned_cols=55  Identities=13%  Similarity=0.173  Sum_probs=36.4

Q ss_pred             EEEEeCCCCCC------CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           80 LVITDYCMPGM------TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        80 lIilD~~mp~~------~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      ++++ -..|+.      +-.+.++++|+...  +.||++=.+-.+.+.+..++++|||+++.-.
T Consensus       155 ~l~m-sv~~~~g~~~~~~~~~~i~~lr~~~~--~~~i~v~gGI~~~e~i~~~~~~gaD~vvvGS  215 (244)
T PRK13125        155 FIYY-GLRPATGVPLPVSVERNIKRVRNLVG--NKYLVVGFGLDSPEDARDALSAGADGVVVGT  215 (244)
T ss_pred             EEEE-EeCCCCCCCchHHHHHHHHHHHHhcC--CCCEEEeCCcCCHHHHHHHHHcCCCEEEECH
Confidence            6666 445542      22456777776543  4676654444478888888999999998764

>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2

Probab=88.00  E-value=0.85  Score=36.11  Aligned_cols=68  Identities=16%  Similarity=0.215  Sum_probs=46.9

Q ss_pred             EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHH
Q 026239           43 TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRI  122 (241)
Q Consensus        43 ~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~  122 (241)
                      +.+++.+++.+++..                   .+|+|.+|-.-| .+--++++.++...+  . ..|.+|+.-+.+.+
T Consensus        85 VEv~~~ee~~ea~~~-------------------g~d~I~lD~~~~-~~~~~~v~~l~~~~~--~-v~ie~SGGI~~~ni  141 (169)
T PF01729_consen   85 VEVENLEEAEEALEA-------------------GADIIMLDNMSP-EDLKEAVEELRELNP--R-VKIEASGGITLENI  141 (169)
T ss_dssp             EEESSHHHHHHHHHT-------------------T-SEEEEES-CH-HHHHHHHHHHHHHTT--T-SEEEEESSSSTTTH
T ss_pred             EEcCCHHHHHHHHHh-------------------CCCEEEecCcCH-HHHHHHHHHHhhcCC--c-EEEEEECCCCHHHH
Confidence            378899999998853                   367999996544 233345555555543  3 67778888888999


Q ss_pred             HHHHHhccccc
Q 026239          123 SRCLEEGAEEF  133 (241)
Q Consensus       123 ~~~l~~Ga~~~  133 (241)
                      .+..+.|+|.+
T Consensus       142 ~~ya~~gvD~i  152 (169)
T PF01729_consen  142 AEYAKTGVDVI  152 (169)
T ss_dssp             HHHHHTT-SEE
T ss_pred             HHHHhcCCCEE
Confidence            99999998765

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 ....

>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional

Probab=87.90  E-value=5.8  Score=34.71  Aligned_cols=51  Identities=14%  Similarity=0.240  Sum_probs=39.5

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-----CCCCHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-----KPVRLSDLNK  145 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~L~~  145 (241)
                      .-+.++.+.+..   ++|||+=.+-..++.+..+++.|+++.+.     |--++-.+.+
T Consensus       237 ~p~~i~~~~e~~---~vpVivdAGIg~~sda~~AmelGadgVL~nSaIa~a~dPv~Ma~  292 (326)
T PRK11840        237 NPYTIRLIVEGA---TVPVLVDAGVGTASDAAVAMELGCDGVLMNTAIAEAKNPVLMAR  292 (326)
T ss_pred             CHHHHHHHHHcC---CCcEEEeCCCCCHHHHHHHHHcCCCEEEEcceeccCCCHHHHHH
Confidence            356777777753   79999999999999999999999999865     4445555544

>cd04727 pdxS PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some metazoa

Probab=87.59  E-value=5.8  Score=33.95  Aligned_cols=42  Identities=24%  Similarity=0.472  Sum_probs=34.1

Q ss_pred             CHHHHHHHHHhcCCCCCCcEE--EEccCCChHHHHHHHHhccccccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVV--IMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvI--ils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .|+++++.+++..   .+|||  ...+-..++.+..+++.||++++.
T Consensus       181 ~d~elLk~l~~~~---~iPVV~iAeGGI~Tpena~~v~e~GAdgVaV  224 (283)
T cd04727         181 APYELVKETAKLG---RLPVVNFAAGGVATPADAALMMQLGADGVFV  224 (283)
T ss_pred             CCHHHHHHHHHhc---CCCeEEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            4788999998854   58997  556666899999999999998854

Together with PdxT, PdxS forms the PLP synthase, a heteromeric glutamine amidotransferase (GATase), whereby PdxT produces ammonia from glutamine and PdxS combines ammonia with five- and three-carbon phosphosugars to form PLP. PLP is the biologically active form of vitamin B6, an essential cofactor in many biochemical processes. PdxS subunits form two hexameric rings.

>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2

Probab=87.38  E-value=6.3  Score=31.22  Aligned_cols=80  Identities=26%  Similarity=0.324  Sum_probs=50.8

Q ss_pred             HHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC-------CHHHHHHHHHhcCC
Q 026239           32 ERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM-------TGYDLLKKIKESSS  104 (241)
Q Consensus        32 ~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~-------~g~~ll~~ir~~~~  104 (241)
                      +..+....+--..+.+.+++.+...                   ..+|.|++.-..|..       -|++.+++++... 
T Consensus        89 r~~~~~~~~ig~S~h~~~e~~~a~~-------------------~g~dYv~~gpvf~T~sk~~~~~~g~~~l~~~~~~~-  148 (180)
T PF02581_consen   89 RKLLGPDKIIGASCHSLEEAREAEE-------------------LGADYVFLGPVFPTSSKPGAPPLGLDGLREIARAS-  148 (180)
T ss_dssp             HHHHTTTSEEEEEESSHHHHHHHHH-------------------CTTSEEEEETSS--SSSSS-TTCHHHHHHHHHHHT-
T ss_pred             hhhcccceEEEeecCcHHHHHHhhh-------------------cCCCEEEECCccCCCCCccccccCHHHHHHHHHhC-
Confidence            3444333332336777777655542                   235688887765543       3899999998765 


Q ss_pred             CCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239          105 LRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus       105 ~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                        .+||+.+.+- +++.+..+.+.|++++-
T Consensus       149 --~~pv~AlGGI-~~~~i~~l~~~Ga~gvA  175 (180)
T PF02581_consen  149 --PIPVYALGGI-TPENIPELREAGADGVA  175 (180)
T ss_dssp             --SSCEEEESS---TTTHHHHHHTT-SEEE
T ss_pred             --CCCEEEEcCC-CHHHHHHHHHcCCCEEE
Confidence              5899999876 45667788999998863

5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway []. TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group [].; GO: 0004789 thiamine-phosphate diphosphorylase activity, 0009228 thiamine biosynthetic process; PDB: 3NL5_A 3NL2_A 3NM1_A 3NM3_C 3NL6_B 3NL3_A 3CEU_A 3O63_B 3QH2_C 1YAD_D ....

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

Probab=87.33  E-value=7.9  Score=31.79  Aligned_cols=90  Identities=13%  Similarity=0.275  Sum_probs=49.6

Q ss_pred             HHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEE
Q 026239           33 RLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVV  111 (241)
Q Consensus        33 ~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvI  111 (241)
                      ..|...+. -|....+.++++..++...               +..+++|  .+.+-.-++++.++.+++..+  ++ +|
T Consensus        10 ~~l~~~~~iaV~r~~~~~~a~~i~~al~---------------~~Gi~~i--Eitl~~~~~~~~I~~l~~~~p--~~-~I   69 (212)
T PRK05718         10 EILRAGPVVPVIVINKLEDAVPLAKALV---------------AGGLPVL--EVTLRTPAALEAIRLIAKEVP--EA-LI   69 (212)
T ss_pred             HHHHHCCEEEEEEcCCHHHHHHHHHHHH---------------HcCCCEE--EEecCCccHHHHHHHHHHHCC--CC-EE
Confidence            34444443 3445667777776664321               1123333  333444478888888887543  42 23


Q ss_pred             EEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239          112 IMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus       112 ils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      -...-.+.+....++++||+ |+.-|.-..++
T Consensus        70 GAGTVl~~~~a~~a~~aGA~-FivsP~~~~~v  100 (212)
T PRK05718         70 GAGTVLNPEQLAQAIEAGAQ-FIVSPGLTPPL  100 (212)
T ss_pred             EEeeccCHHHHHHHHHcCCC-EEECCCCCHHH
Confidence            23334456777888888884 66666433344

>cd04730 NPD_like 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites

Probab=87.11  E-value=12  Score=30.66  Aligned_cols=56  Identities=18%  Similarity=0.351  Sum_probs=40.4

Q ss_pred             ccEEEEeCCCCC-------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           78 VNLVITDYCMPG-------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        78 ~dlIilD~~mp~-------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      +|.|+++-.-++       ...+++++++++..   ++||++..+-...+.+.+++..|++++..-
T Consensus       123 ad~i~~~~~~~~G~~~~~~~~~~~~i~~i~~~~---~~Pvi~~GGI~~~~~v~~~l~~GadgV~vg  185 (236)
T cd04730         123 ADALVAQGAEAGGHRGTFDIGTFALVPEVRDAV---DIPVIAAGGIADGRGIAAALALGADGVQMG  185 (236)
T ss_pred             CCEEEEeCcCCCCCCCccccCHHHHHHHHHHHh---CCCEEEECCCCCHHHHHHHHHcCCcEEEEc
Confidence            457776542211       24577899888643   689998888777788999999999987654

NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.

>CHL00200 trpA tryptophan synthase alpha subunit; Provisional

Probab=86.39  E-value=2.2  Score=36.31  Aligned_cols=58  Identities=14%  Similarity=0.229  Sum_probs=43.9

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCC------ChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSEN------VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~------~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +.+++++++|..   .++|+|+||-.+      ....+.+|.++|+++++.-....++...+...+.
T Consensus        78 ~~~~~~~~~r~~---~~~p~vlm~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~~  141 (263)
T CHL00200         78 KILSILSEVNGE---IKAPIVIFTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVCN  141 (263)
T ss_pred             HHHHHHHHHhcC---CCCCEEEEecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHH
Confidence            457888888853   378999998764      3556888999999999998888777766655553

>PRK06774 para-aminobenzoate synthase component II; Provisional

Probab=86.37  E-value=1.4  Score=35.30  Aligned_cols=31  Identities=10%  Similarity=-0.020  Sum_probs=27.0

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSG   48 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~   48 (241)
                      ||+||....+-..|..+|+..|+.|.++.+.
T Consensus         2 il~id~~dsf~~nl~~~l~~~~~~~~v~~~~   32 (191)
T PRK06774          2 LLLIDNYDSFTYNLYQYFCELGTEVMVKRND   32 (191)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEeCC
Confidence            8999999989899999999999988877654

>PRK05567 inosine 5'-monophosphate dehydrogenase; Reviewed

Probab=86.36  E-value=12  Score=34.74  Aligned_cols=104  Identities=20%  Similarity=0.274  Sum_probs=60.8

Q ss_pred             hcCcceEEEEeCC----HHHHHHHHHHhhcC-CCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEe
Q 026239           12 AESQFHVLAVDDS----IIDRKLIERLLKTS-SYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITD   84 (241)
Q Consensus        12 ~~~~~~ILiVdd~----~~~~~~l~~~L~~~-g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD   84 (241)
                      .+....++++|..    ......+..+-... +..|.  .+.+.++|..+...                   .+|.|.+.
T Consensus       237 ~~agvdvivvD~a~g~~~~vl~~i~~i~~~~p~~~vi~g~v~t~e~a~~l~~a-------------------Gad~i~vg  297 (486)
T PRK05567        237 VEAGVDVLVVDTAHGHSEGVLDRVREIKAKYPDVQIIAGNVATAEAARALIEA-------------------GADAVKVG  297 (486)
T ss_pred             HHhCCCEEEEECCCCcchhHHHHHHHHHhhCCCCCEEEeccCCHHHHHHHHHc-------------------CCCEEEEC
Confidence            3456778888853    12333344333333 33322  45677777776642                   34566553


Q ss_pred             CCCCC------------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           85 YCMPG------------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        85 ~~mp~------------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +. |+            ..-++++..+........+|||.=.+-..+..+..|+.+||+.++.
T Consensus       298 ~g-~gs~~~~r~~~~~g~p~~~~~~~~~~~~~~~~~~viadGGi~~~~di~kAla~GA~~v~~  359 (486)
T PRK05567        298 IG-PGSICTTRIVAGVGVPQITAIADAAEAAKKYGIPVIADGGIRYSGDIAKALAAGASAVML  359 (486)
T ss_pred             CC-CCccccceeecCCCcCHHHHHHHHHHHhccCCCeEEEcCCCCCHHHHHHHHHhCCCEEEE
Confidence            31 21            1234566555543222368998888888999999999999987643

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

Probab=86.13  E-value=7.7  Score=37.02  Aligned_cols=117  Identities=10%  Similarity=0.121  Sum_probs=61.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCc---ccccccEEEEeCCCCCCCH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH---QEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~---~~~~~dlIilD~~mp~~~g   92 (241)
                      .||+|+.-...-+. +.+.|...|+.++..+...+.++.++.....-..+....+...   .-.+.+++|+-..-+ .+.
T Consensus       401 ~~vII~G~Gr~G~~-va~~L~~~g~~vvvID~d~~~v~~~~~~g~~v~~GDat~~~~L~~agi~~A~~vv~~~~d~-~~n  478 (601)
T PRK03659        401 PQVIIVGFGRFGQV-IGRLLMANKMRITVLERDISAVNLMRKYGYKVYYGDATQLELLRAAGAEKAEAIVITCNEP-EDT  478 (601)
T ss_pred             CCEEEecCchHHHH-HHHHHHhCCCCEEEEECCHHHHHHHHhCCCeEEEeeCCCHHHHHhcCCccCCEEEEEeCCH-HHH
Confidence            45666665555443 3444555566666655555555544321100000111111000   112345666644332 345


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV  138 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~  138 (241)
                      ..++..+|+..+  +++||+-+.  ++.......+.||+.++.--+
T Consensus       479 ~~i~~~~r~~~p--~~~IiaRa~--~~~~~~~L~~~Ga~~vv~e~~  520 (601)
T PRK03659        479 MKIVELCQQHFP--HLHILARAR--GRVEAHELLQAGVTQFSRETF  520 (601)
T ss_pred             HHHHHHHHHHCC--CCeEEEEeC--CHHHHHHHHhCCCCEEEccHH
Confidence            667778887654  778876554  456677888999998775544

>PRK05458 guanosine 5'-monophosphate oxidoreductase; Provisional

Probab=85.80  E-value=20  Score=31.57  Aligned_cols=97  Identities=14%  Similarity=0.150  Sum_probs=60.8

Q ss_pred             eEEEEeC----CHHHHHHHHHHhhcCC-CEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-
Q 026239           17 HVLAVDD----SIIDRKLIERLLKTSS-YQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-   88 (241)
Q Consensus        17 ~ILiVdd----~~~~~~~l~~~L~~~g-~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-   88 (241)
                      .+++||-    .....+.+..+-+.++ ..|.  .+.+.++|..+..                   ..+|+|.+.+.-. 
T Consensus       113 d~i~iD~a~gh~~~~~e~I~~ir~~~p~~~vi~g~V~t~e~a~~l~~-------------------aGad~i~vg~~~G~  173 (326)
T PRK05458        113 EYITIDIAHGHSDSVINMIQHIKKHLPETFVIAGNVGTPEAVRELEN-------------------AGADATKVGIGPGK  173 (326)
T ss_pred             CEEEEECCCCchHHHHHHHHHHHhhCCCCeEEEEecCCHHHHHHHHH-------------------cCcCEEEECCCCCc
Confidence            6777763    2333344444434443 3333  3678888877663                   2355766442111 


Q ss_pred             ----------CCC--HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           89 ----------GMT--GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        89 ----------~~~--g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                                +..  ++..+..+++..   ++|||.-.+-.....+.+|+.+||+.+..
T Consensus       174 ~~~t~~~~g~~~~~w~l~ai~~~~~~~---~ipVIAdGGI~~~~Di~KaLa~GA~aV~v  229 (326)
T PRK05458        174 VCITKIKTGFGTGGWQLAALRWCAKAA---RKPIIADGGIRTHGDIAKSIRFGATMVMI  229 (326)
T ss_pred             ccccccccCCCCCccHHHHHHHHHHHc---CCCEEEeCCCCCHHHHHHHHHhCCCEEEe
Confidence                      112  455688887643   68999998888999999999999987643

>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=85.52  E-value=4.3  Score=35.04  Aligned_cols=93  Identities=16%  Similarity=0.212  Sum_probs=54.3

Q ss_pred             EEEEeCCHHHHHHHHHHh----hcCC--CEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           18 VLAVDDSIIDRKLIERLL----KTSS--YQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L----~~~g--~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      |||-|.+....-.+...+    +..+  ..+. .+++.+++.+++.                   ..+|+|.+| .|...
T Consensus       169 ilikdNHi~~~g~i~~av~~~r~~~~~~~~I~VEv~tleea~eA~~-------------------~GaD~I~LD-n~~~e  228 (288)
T PRK07428        169 VMIKDNHIQAAGGIGEAITRIRQRIPYPLTIEVETETLEQVQEALE-------------------YGADIIMLD-NMPVD  228 (288)
T ss_pred             eeecHHHHHHhCCHHHHHHHHHHhCCCCCEEEEECCCHHHHHHHHH-------------------cCCCEEEEC-CCCHH
Confidence            666666544332233333    2334  2343 6789999999884                   235699999 33222


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      +--++++.++...  +++| +..++.-+.+.+......|+|.+
T Consensus       229 ~l~~av~~~~~~~--~~i~-leAsGGIt~~ni~~ya~tGvD~I  268 (288)
T PRK07428        229 LMQQAVQLIRQQN--PRVK-IEASGNITLETIRAVAETGVDYI  268 (288)
T ss_pred             HHHHHHHHHHhcC--CCeE-EEEECCCCHHHHHHHHHcCCCEE
Confidence            2222344444322  2555 44566677888889999999765

>PLN02591 tryptophan synthase

Probab=85.27  E-value=20  Score=30.20  Aligned_cols=101  Identities=12%  Similarity=0.173  Sum_probs=62.5

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEE-EE-C-CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC-CCCC---
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVT-TV-D-SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY-CMPG---   89 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~-~-~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~-~mp~---   89 (241)
                      -|+|.|-...-...+...++..|.... .+ . +..+-+..+....++                | +-++.. ...|   
T Consensus       109 GviipDLP~ee~~~~~~~~~~~gl~~I~lv~Ptt~~~ri~~ia~~~~g----------------F-IY~Vs~~GvTG~~~  171 (250)
T PLN02591        109 GLVVPDLPLEETEALRAEAAKNGIELVLLTTPTTPTERMKAIAEASEG----------------F-VYLVSSTGVTGARA  171 (250)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHcCCeEEEEeCCCCCHHHHHHHHHhCCC----------------c-EEEeeCCCCcCCCc
Confidence            456666665556667777777887554 33 2 334445555443332                0 222221 1111   


Q ss_pred             ---CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           90 ---MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        90 ---~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                         .+-.++++++|+.   .++||++=.+-.+.+.+..+++.|||+++.-.
T Consensus       172 ~~~~~~~~~i~~vk~~---~~~Pv~vGFGI~~~e~v~~~~~~GADGvIVGS  219 (250)
T PLN02591        172 SVSGRVESLLQELKEV---TDKPVAVGFGISKPEHAKQIAGWGADGVIVGS  219 (250)
T ss_pred             CCchhHHHHHHHHHhc---CCCceEEeCCCCCHHHHHHHHhcCCCEEEECH
Confidence               1234568888874   38999987777788999999999999998865

>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional

Probab=85.16  E-value=4.6  Score=33.63  Aligned_cols=54  Identities=19%  Similarity=0.357  Sum_probs=44.0

Q ss_pred             cEEEEeCCCCCC-CH--HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           79 NLVITDYCMPGM-TG--YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        79 dlIilD~~mp~~-~g--~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+|++|+..-|+ .|  +++++.+.+..   ++||++-.+-.+.+.+..+++.|+++.+.
T Consensus       164 ~ii~tdi~~dGt~~G~~~~li~~l~~~~---~ipvi~~GGi~s~edi~~l~~~G~~~viv  220 (234)
T PRK13587        164 GIIYTDIAKDGKMSGPNFELTGQLVKAT---TIPVIASGGIRHQQDIQRLASLNVHAAII  220 (234)
T ss_pred             EEEEecccCcCCCCccCHHHHHHHHHhC---CCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            399999987653 33  67788888753   78999998888999999999999998875

>TIGR00343 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1

Probab=84.97  E-value=2.9  Score=35.80  Aligned_cols=52  Identities=23%  Similarity=0.372  Sum_probs=39.8

Q ss_pred             CHHHHHHHHHhcCCCCCCcEE--EEccCCChHHHHHHHHhcccccc-----cCCCCHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVV--IMSSENVPSRISRCLEEGAEEFF-----LKPVRLSDLNK  145 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvI--ils~~~~~~~~~~~l~~Ga~~~l-----~KP~~~~~L~~  145 (241)
                      .|+++++.+++..   .+|||  ...+-.+++.+..++++||++++     .|.-++....+
T Consensus       184 ~~~elLkei~~~~---~iPVV~fAiGGI~TPedAa~~melGAdGVaVGSaI~ks~dP~~~ak  242 (287)
T TIGR00343       184 VPVELLLEVLKLG---KLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKLAK  242 (287)
T ss_pred             CCHHHHHHHHHhC---CCCEEEeccCCCCCHHHHHHHHHcCCCEEEEhHHhhcCCCHHHHHH
Confidence            5889999999854   68998  55666689999999999999984     45445655543

This protein had been believed to be a singlet oxygen resistance protein. Subsequent work showed that it is a protein of pyridoxine (vitamin B6) biosynthesis, and that pyridoxine quenches the highly toxic singlet form of oxygen produced by light in the presence of certain chemicals.

>PLN02775 Probable dihydrodipicolinate reductase

Probab=84.87  E-value=24  Score=30.38  Aligned_cols=106  Identities=15%  Similarity=0.155  Sum_probs=60.8

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEE-C-----------------------CHHHHHHHhcccCCCCCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTV-D-----------------------SGSKALEFLGLHEDDGQSSHSV   68 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~-~-----------------------~~~~al~~l~~~~~d~~~~~~~   68 (241)
                      .+.++|+|..-...+-..+.+.+...++.++-+ +                       +..++|..+.            
T Consensus         9 ~~~i~V~V~Ga~G~MG~~~~~av~~~~~~Lv~~~~~~~~~~~~~~~~~g~~v~~~~~~dl~~~l~~~~------------   76 (286)
T PLN02775          9 GSAIPIMVNGCTGKMGHAVAEAAVSAGLQLVPVSFTGPAGVGVTVEVCGVEVRLVGPSEREAVLSSVK------------   76 (286)
T ss_pred             CCCCeEEEECCCChHHHHHHHHHhcCCCEEEEEeccccccccccceeccceeeeecCccHHHHHHHhh------------
Confidence            445889988877777666666555477766532 2                       2222222211            


Q ss_pred             CCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHh-cccccccCCCCHH
Q 026239           69 YPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE-GAEEFFLKPVRLS  141 (241)
Q Consensus        69 ~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~-Ga~~~l~KP~~~~  141 (241)
                            ...+|+|++|+..|.. .++.++.....    .+|+|+-|...+.+......+. ++--++.-.|+..
T Consensus        77 ------~~~~~~VvIDFT~P~a-~~~~~~~~~~~----g~~~VvGTTG~~~e~l~~~~~~~~i~vv~apNfSiG  139 (286)
T PLN02775         77 ------AEYPNLIVVDYTLPDA-VNDNAELYCKN----GLPFVMGTTGGDRDRLLKDVEESGVYAVIAPQMGKQ  139 (286)
T ss_pred             ------ccCCCEEEEECCChHH-HHHHHHHHHHC----CCCEEEECCCCCHHHHHHHHhcCCccEEEECcccHH
Confidence                  1136799999999874 34555555543    5678877776666655444443 3333444446544

>PLN02274 inosine-5'-monophosphate dehydrogenase

Probab=84.67  E-value=17  Score=34.05  Aligned_cols=43  Identities=19%  Similarity=0.265  Sum_probs=33.7

Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+.+..+..+....   ++|||+-.+-.....+.+|+.+||+.++.
T Consensus       337 ~~~i~~~~~~~~~~---~vpVIadGGI~~~~di~kAla~GA~~V~v  379 (505)
T PLN02274        337 ATAVYKVASIAAQH---GVPVIADGGISNSGHIVKALTLGASTVMM  379 (505)
T ss_pred             ccHHHHHHHHHHhc---CCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            34555666666532   68999999999999999999999998754

>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=84.37  E-value=10  Score=32.62  Aligned_cols=91  Identities=14%  Similarity=0.142  Sum_probs=56.6

Q ss_pred             eEEEEeCCHHHH--------HHHHHHhhcCCC--EE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC
Q 026239           17 HVLAVDDSIIDR--------KLIERLLKTSSY--QV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY   85 (241)
Q Consensus        17 ~ILiVdd~~~~~--------~~l~~~L~~~g~--~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~   85 (241)
                      .|||-|.+....        ..+..+-+..++  .| +.+++.+++.+.+..                   .+|+|++|-
T Consensus       161 ~vLikdNHi~~~~~g~~~i~~av~~~r~~~~~~~kIeVEv~slee~~ea~~~-------------------gaDiImLDn  221 (281)
T PRK06543        161 AVMAKDNHLAALAAQGLDLTEALRHVRAQLGHTTHVEVEVDRLDQIEPVLAA-------------------GVDTIMLDN  221 (281)
T ss_pred             eEEEeHHHHHHHhCCchHHHHHHHHHHHhCCCCCcEEEEeCCHHHHHHHHhc-------------------CCCEEEECC
Confidence            377777775542        233333333443  34 478999999998842                   356999994


Q ss_pred             CCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           86 CMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        86 ~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                       |+..+--+.+..++      ...++-.|+.-+.+.+......|+|-.
T Consensus       222 -~s~e~l~~av~~~~------~~~~leaSGgI~~~ni~~yA~tGVD~I  262 (281)
T PRK06543        222 -FSLDDLREGVELVD------GRAIVEASGNVNLNTVGAIASTGVDVI  262 (281)
T ss_pred             -CCHHHHHHHHHHhC------CCeEEEEECCCCHHHHHHHHhcCCCEE
Confidence             33222233333333      223677888889999999889998643

>KOG2335 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]

Probab=84.34  E-value=8.9  Score=33.90  Aligned_cols=106  Identities=16%  Similarity=0.344  Sum_probs=73.4

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCC----EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSY----QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP   88 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~----~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp   88 (241)
                      ...+-..+.++-..+.+++..+=...+.    .+.+..|..+.++++...               .....+++.+--.-+
T Consensus       115 ~g~yGa~L~~~~eLv~e~V~~v~~~l~~pVs~KIRI~~d~~kTvd~ak~~---------------e~aG~~~ltVHGRtr  179 (358)
T KOG2335|consen  115 RGGYGAFLMDNPELVGEMVSAVRANLNVPVSVKIRIFVDLEKTVDYAKML---------------EDAGVSLLTVHGRTR  179 (358)
T ss_pred             cCCccceeccCHHHHHHHHHHHHhhcCCCeEEEEEecCcHHHHHHHHHHH---------------HhCCCcEEEEecccH
Confidence            3456778888888888877776655553    344677888888777532               233445666655554


Q ss_pred             CCCH-------HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHH-hccccccc
Q 026239           89 GMTG-------YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE-EGAEEFFL  135 (241)
Q Consensus        89 ~~~g-------~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~-~Ga~~~l~  135 (241)
                      ...|       ++.++.|++..+  ++|||+=.+-.....+.+|++ .|+++++.
T Consensus       180 ~~kg~~~~pad~~~i~~v~~~~~--~ipviaNGnI~~~~d~~~~~~~tG~dGVM~  232 (358)
T KOG2335|consen  180 EQKGLKTGPADWEAIKAVRENVP--DIPVIANGNILSLEDVERCLKYTGADGVMS  232 (358)
T ss_pred             HhcCCCCCCcCHHHHHHHHHhCc--CCcEEeeCCcCcHHHHHHHHHHhCCceEEe
Confidence            4433       789999998754  688887777777788899998 89888643

>PF03060 NMO: Nitronate monooxygenase; InterPro: IPR004136 2-Nitropropane dioxygenase (1

Probab=84.10  E-value=7.8  Score=34.00  Aligned_cols=82  Identities=20%  Similarity=0.273  Sum_probs=54.0

Q ss_pred             HHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEe-CCCC-----CC-CHHHHHHHHHhcC
Q 026239           32 ERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITD-YCMP-----GM-TGYDLLKKIKESS  103 (241)
Q Consensus        32 ~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD-~~mp-----~~-~g~~ll~~ir~~~  103 (241)
                      ...++..|..|. .+.+..+|..++..                   .+|.||+- ..-.     .. +-+.|+..++...
T Consensus       129 i~~l~~~gi~v~~~v~s~~~A~~a~~~-------------------G~D~iv~qG~eAGGH~g~~~~~~~~L~~~v~~~~  189 (330)
T PF03060_consen  129 IERLHAAGIKVIPQVTSVREARKAAKA-------------------GADAIVAQGPEAGGHRGFEVGSTFSLLPQVRDAV  189 (330)
T ss_dssp             HHHHHHTT-EEEEEESSHHHHHHHHHT-------------------T-SEEEEE-TTSSEE---SSG-HHHHHHHHHHH-
T ss_pred             HHHHHHcCCccccccCCHHHHHHhhhc-------------------CCCEEEEeccccCCCCCccccceeeHHHHHhhhc
Confidence            345777787665 78999999887643                   24576664 3221     12 3577888888754


Q ss_pred             CCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          104 SLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       104 ~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                         ++|||+-.+-.+...+..++.+||+++..
T Consensus       190 ---~iPViaAGGI~dg~~iaaal~lGA~gV~~  218 (330)
T PF03060_consen  190 ---DIPVIAAGGIADGRGIAAALALGADGVQM  218 (330)
T ss_dssp             ---SS-EEEESS--SHHHHHHHHHCT-SEEEE
T ss_pred             ---CCcEEEecCcCCHHHHHHHHHcCCCEeec
Confidence               69999988888888899999999998743

13.11.32 from EC) catalyses the oxidation of nitroalkanes into their corresponding carbonyl compounds and nitrite using eithr FAD or FMN as a cofactor []. This entry also includes fatty acid synthase subunit beta (2.3.1.86 from EC), which catalyses the formation of long- chain fatty acids from acetyl-CoA, malonyl-CoA and NADPH. The beta subunit contains domains for: [acyl-carrier protein] acetyltransferase and malonyltransferase, S-acyl fatty acid synthase thioesterase, enoyl-[acyl-carrier protein] reductase, and 3-hydroxypalmitoyl-[acyl-carrier protein] dehydratase. ; GO: 0018580 nitronate monooxygenase activity, 0055114 oxidation-reduction process; PDB: 2Z6I_B 2Z6J_B 3BW2_A 3BW3_A 3BW4_A 2GJL_A 2GJN_A 3BO9_A.

>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase

Probab=83.84  E-value=3.6  Score=32.97  Aligned_cols=30  Identities=13%  Similarity=0.014  Sum_probs=25.8

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECC
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDS   47 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~   47 (241)
                      ||+||....+-..+.++|...|+.+.+..+
T Consensus         2 il~id~~dsft~~~~~~l~~~g~~v~v~~~   31 (188)
T TIGR00566         2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRN   31 (188)
T ss_pred             EEEEECCcCHHHHHHHHHHHcCCceEEEEC
Confidence            899999988888899999988998876653

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.

>cd02065 B12-binding_like B12 binding domain (B12-BD)

Probab=83.65  E-value=10  Score=27.52  Aligned_cols=74  Identities=16%  Similarity=0.207  Sum_probs=49.0

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC-CHHHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM-TGYDLLK   97 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~-~g~~ll~   97 (241)
                      |.+..-...+..+|+..||.+....   +..+.++.+....                  ||+|.+...+... ..+..+.
T Consensus        10 ~~h~lg~~~~~~~l~~~G~~v~~l~~~~~~~~~~~~i~~~~------------------pdiV~iS~~~~~~~~~~~~~~   71 (125)
T cd02065          10 DVHDIGKNIVAIALRDNGFEVIDLGVDVPPEEIVEAAKEED------------------ADVVGLSALSTTHMEAMKLVI   71 (125)
T ss_pred             chhhHHHHHHHHHHHHCCCEEEEcCCCCCHHHHHHHHHHcC------------------CCEEEEecchHhHHHHHHHHH
Confidence            4556666778888999999988653   4566666665444                  5599998766543 3566677


Q ss_pred             HHHhcCCCCCCcEEEEc
Q 026239           98 KIKESSSLRDIPVVIMS  114 (241)
Q Consensus        98 ~ir~~~~~~~ipvIils  114 (241)
                      .+++..+ .+++|++-.
T Consensus        72 ~~~~~~p-~~~~ivvGG   87 (125)
T cd02065          72 EALKELG-IDIPVVVGG   87 (125)
T ss_pred             HHHHhcC-CCCeEEEeC
Confidence            7776543 156666544

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.

>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene []

Probab=83.60  E-value=9.4  Score=30.78  Aligned_cols=100  Identities=18%  Similarity=0.304  Sum_probs=58.4

Q ss_pred             CcceEEEEeCCH----HHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC---
Q 026239           14 SQFHVLAVDDSI----IDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY---   85 (241)
Q Consensus        14 ~~~~ILiVdd~~----~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~---   85 (241)
                      ....|+.+|--.    .....+-..++..+.-+. -+++.++++.....                   .+|+|=+-+   
T Consensus        63 aGadIIAlDaT~R~Rp~~l~~li~~i~~~~~l~MADist~ee~~~A~~~-------------------G~D~I~TTLsGY  123 (192)
T PF04131_consen   63 AGADIIALDATDRPRPETLEELIREIKEKYQLVMADISTLEEAINAAEL-------------------GFDIIGTTLSGY  123 (192)
T ss_dssp             CT-SEEEEE-SSSS-SS-HHHHHHHHHHCTSEEEEE-SSHHHHHHHHHT-------------------T-SEEE-TTTTS
T ss_pred             cCCCEEEEecCCCCCCcCHHHHHHHHHHhCcEEeeecCCHHHHHHHHHc-------------------CCCEEEcccccC
Confidence            456677777432    122233333444443222 56789999887643                   355554422   


Q ss_pred             ---CCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           86 ---CMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        86 ---~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                         .......++|++.|...    .+|||.=.....++.+.+++++||+..+.-
T Consensus       124 T~~t~~~~pD~~lv~~l~~~----~~pvIaEGri~tpe~a~~al~~GA~aVVVG  173 (192)
T PF04131_consen  124 TPYTKGDGPDFELVRELVQA----DVPVIAEGRIHTPEQAAKALELGAHAVVVG  173 (192)
T ss_dssp             STTSTTSSHHHHHHHHHHHT----TSEEEEESS--SHHHHHHHHHTT-SEEEE-
T ss_pred             CCCCCCCCCCHHHHHHHHhC----CCcEeecCCCCCHHHHHHHHhcCCeEEEEC
Confidence               11233468999999873    689888888889999999999999988653

; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.

>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein

Probab=83.53  E-value=20  Score=30.74  Aligned_cols=38  Identities=16%  Similarity=0.211  Sum_probs=31.2

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      ++.+..+++..   ++|||...+-.+.+.+.+++..||+.+
T Consensus       223 l~~v~~i~~~~---~ipvi~~GGI~s~~da~~~l~~GAd~V  260 (300)
T TIGR01037       223 LRMVYDVYKMV---DIPIIGVGGITSFEDALEFLMAGASAV  260 (300)
T ss_pred             HHHHHHHHhcC---CCCEEEECCCCCHHHHHHHHHcCCCce
Confidence            36777777643   689999999889999999999999863

This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.

>PRK06849 hypothetical protein; Provisional

Probab=83.31  E-value=16  Score=32.59  Aligned_cols=39  Identities=21%  Similarity=0.145  Sum_probs=30.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKAL   52 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al   52 (241)
                      .+.+|||.+.+....-.+.+.|...|+.|+.+++....+
T Consensus         3 ~~~~VLI~G~~~~~~l~iar~l~~~G~~Vi~~d~~~~~~   41 (389)
T PRK06849          3 TKKTVLITGARAPAALELARLFHNAGHTVILADSLKYPL   41 (389)
T ss_pred             CCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEEeCCchHH
Confidence            468999999888766777888888999999887655443

>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative

Probab=83.29  E-value=4.4  Score=33.76  Aligned_cols=58  Identities=24%  Similarity=0.256  Sum_probs=45.9

Q ss_pred             cccccEEEEeCCCCCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           75 EVGVNLVITDYCMPGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        75 ~~~~dlIilD~~mp~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      +...|.|.+|...++.  -.++.++.+++...  ++|||...+-.+.+.+.++++.||+++.
T Consensus       159 ~aGad~i~Vd~~~~g~~~a~~~~I~~i~~~~~--~ipIIgNGgI~s~eda~e~l~~GAd~Vm  218 (231)
T TIGR00736       159 DDGFDGIHVDAMYPGKPYADMDLLKILSEEFN--DKIIIGNNSIDDIESAKEMLKAGADFVS  218 (231)
T ss_pred             HcCCCEEEEeeCCCCCchhhHHHHHHHHHhcC--CCcEEEECCcCCHHHHHHHHHhCCCeEE
Confidence            3456788888776664  35889999998542  5899998888889999999999999874

Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.

>PRK07695 transcriptional regulator TenI; Provisional

Probab=83.06  E-value=18  Score=29.12  Aligned_cols=53  Identities=23%  Similarity=0.436  Sum_probs=38.3

Q ss_pred             cccEEEEeCCCCC-------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           77 GVNLVITDYCMPG-------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        77 ~~dlIilD~~mp~-------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      .+|.|+++...|.       ..|++.++.++...   ++||+++.+- +.+.+..++..|++++
T Consensus       115 Gadyi~~g~v~~t~~k~~~~~~g~~~l~~~~~~~---~ipvia~GGI-~~~~~~~~~~~Ga~gv  174 (201)
T PRK07695        115 GADYVVYGHVFPTDCKKGVPARGLEELSDIARAL---SIPVIAIGGI-TPENTRDVLAAGVSGI  174 (201)
T ss_pred             CCCEEEECCCCCCCCCCCCCCCCHHHHHHHHHhC---CCCEEEEcCC-CHHHHHHHHHcCCCEE
Confidence            3557776543322       23678888888643   6899988776 7888999999999876

>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional

Probab=83.02  E-value=20  Score=34.38  Aligned_cols=54  Identities=17%  Similarity=0.185  Sum_probs=35.2

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +.+++|+-..-+ .....++..+|+..+  +++|++-+  .+........+.||+..+.
T Consensus       464 ~A~~vvv~~~d~-~~n~~i~~~ar~~~p--~~~iiaRa--~d~~~~~~L~~~Gad~v~~  517 (621)
T PRK03562        464 KAEVLINAIDDP-QTSLQLVELVKEHFP--HLQIIARA--RDVDHYIRLRQAGVEKPER  517 (621)
T ss_pred             cCCEEEEEeCCH-HHHHHHHHHHHHhCC--CCeEEEEE--CCHHHHHHHHHCCCCEEeh
Confidence            345777755322 234667777887654  78887655  3456677788899987643

>PRK04180 pyridoxal biosynthesis lyase PdxS; Provisional

Probab=83.01  E-value=4.7  Score=34.68  Aligned_cols=52  Identities=23%  Similarity=0.406  Sum_probs=39.5

Q ss_pred             CHHHHHHHHHhcCCCCCCcEE--EEccCCChHHHHHHHHhccccccc-----CCCCHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVV--IMSSENVPSRISRCLEEGAEEFFL-----KPVRLSDLNK  145 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvI--ils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~L~~  145 (241)
                      .++++++.+++..   .+|||  ...+-..++.+..++++||++++.     |.-++....+
T Consensus       190 ~~~elL~ei~~~~---~iPVV~~AeGGI~TPedaa~vme~GAdgVaVGSaI~ks~dP~~~ak  248 (293)
T PRK04180        190 APYELVKEVAELG---RLPVVNFAAGGIATPADAALMMQLGADGVFVGSGIFKSGDPEKRAR  248 (293)
T ss_pred             CCHHHHHHHHHhC---CCCEEEEEeCCCCCHHHHHHHHHhCCCEEEEcHHhhcCCCHHHHHH
Confidence            4789999998854   68998  556666899999999999998843     4446655544

>KOG1601 consensus GATA-4/5/6 transcription factors [Transcription]

Probab=82.99  E-value=0.19  Score=42.32  Aligned_cols=75  Identities=29%  Similarity=0.452  Sum_probs=57.4

Q ss_pred             ccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           76 VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        76 ~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ..+|+++.++.||+++|+.++..+.......++|++++............+..|+.+|+.+|....++.....++
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~  136 (340)
T KOG1601|consen   62 FSIDLSVPSLDMPGLEGFSLFVSENNPNSLRHPPVPSMPSSNSSSSSSSSVSPSASLELTKPDRKNRLKRSRQHV  136 (340)
T ss_pred             ccccccccccccccccccccccccccCCCCCCCCcccccccccchhhhcccCCcccccccccccCCCcccCCccc
Confidence            457899999999999999999988875555677777777766666566777778999999998866655544444

>PRK06843 inosine 5-monophosphate dehydrogenase; Validated

Probab=82.72  E-value=19  Score=32.69  Aligned_cols=29  Identities=10%  Similarity=0.335  Sum_probs=25.8

Q ss_pred             CCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          107 DIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       107 ~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+|||+=.+-..+..+.+|+.+||+.++.
T Consensus       256 ~vpVIAdGGI~~~~Di~KALalGA~aVmv  284 (404)
T PRK06843        256 NICIIADGGIRFSGDVVKAIAAGADSVMI  284 (404)
T ss_pred             CCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            68999888888999999999999998754

>cd05014 SIS_Kpsf KpsF-like protein

Probab=82.64  E-value=7.7  Score=28.43  Aligned_cols=92  Identities=13%  Similarity=0.096  Sum_probs=51.0

Q ss_pred             EeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCccccccc-EEEEeCCCCCCCHHHHHHHH
Q 026239           21 VDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVN-LVITDYCMPGMTGYDLLKKI   99 (241)
Q Consensus        21 Vdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~d-lIilD~~mp~~~g~~ll~~i   99 (241)
                      ...+......+...|...|..+....+.......+....+                 -| +|++...=...+-.++++..
T Consensus         8 ~G~S~~~a~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~-----------------~d~vi~iS~sG~t~~~~~~~~~a   70 (128)
T cd05014           8 VGKSGHIARKIAATLSSTGTPAFFLHPTEALHGDLGMVTP-----------------GDVVIAISNSGETDELLNLLPHL   70 (128)
T ss_pred             CcHhHHHHHHHHHHhhcCCCceEEcccchhhccccCcCCC-----------------CCEEEEEeCCCCCHHHHHHHHHH
Confidence            3344555666777777778877766554322221111111                 12 34444332234456777777


Q ss_pred             HhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC
Q 026239          100 KESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV  138 (241)
Q Consensus       100 r~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~  138 (241)
                      |+.    ++|||.+|+..+.....     .++..|.-|.
T Consensus        71 ~~~----g~~vi~iT~~~~s~la~-----~ad~~l~~~~  100 (128)
T cd05014          71 KRR----GAPIIAITGNPNSTLAK-----LSDVVLDLPV  100 (128)
T ss_pred             HHC----CCeEEEEeCCCCCchhh-----hCCEEEECCC
Confidence            764    68999999977655432     3555555543

KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.

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

Probab=82.60  E-value=16  Score=30.07  Aligned_cols=62  Identities=16%  Similarity=0.201  Sum_probs=37.8

Q ss_pred             EEEEeCCCCCCCHHHHHHHHHhcCCCCCCc-EEE-EccCCChHHHHHHHHhcccccccCCCCHHHHH
Q 026239           80 LVITDYCMPGMTGYDLLKKIKESSSLRDIP-VVI-MSSENVPSRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        80 lIilD~~mp~~~g~~ll~~ir~~~~~~~ip-vIi-ls~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      +=++.+.|-.-++++.++.|++..+  +-| +++ ...--+.+.+..+.++||+ |+.-|.-..++.
T Consensus        39 i~~iEit~~~~~a~~~i~~l~~~~~--~~p~~~vGaGTV~~~~~~~~a~~aGA~-FivsP~~~~~v~  102 (213)
T PRK06552         39 IKAIEVTYTNPFASEVIKELVELYK--DDPEVLIGAGTVLDAVTARLAILAGAQ-FIVSPSFNRETA  102 (213)
T ss_pred             CCEEEEECCCccHHHHHHHHHHHcC--CCCCeEEeeeeCCCHHHHHHHHHcCCC-EEECCCCCHHHH
Confidence            3345555556668888888876532  212 322 2334567778888888884 777776555553

>cd04732 HisA HisA

Probab=82.39  E-value=6.8  Score=32.21  Aligned_cols=53  Identities=21%  Similarity=0.374  Sum_probs=40.2

Q ss_pred             EEEEeCCCCCC---CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM---TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~---~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ++++|...-++   ..+++++.+++..   ++||++-.+-.+.+.+..+++.|+++++.
T Consensus       163 iii~~~~~~g~~~g~~~~~i~~i~~~~---~ipvi~~GGi~~~~di~~~~~~Ga~gv~v  218 (234)
T cd04732         163 IIYTDISRDGTLSGPNFELYKELAAAT---GIPVIASGGVSSLDDIKALKELGVAGVIV  218 (234)
T ss_pred             EEEEeecCCCccCCCCHHHHHHHHHhc---CCCEEEecCCCCHHHHHHHHHCCCCEEEE
Confidence            66777644322   2368888888753   68999988888888899999999998654

Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (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.

>PRK05637 anthranilate synthase component II; Provisional

Probab=82.34  E-value=6.4  Score=32.16  Aligned_cols=33  Identities=15%  Similarity=0.146  Sum_probs=27.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSG   48 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~   48 (241)
                      .+||+||....+-..+.+.|+..|+.+.++...
T Consensus         2 ~~il~iD~~dsf~~nl~~~l~~~g~~~~v~~~~   34 (208)
T PRK05637          2 THVVLIDNHDSFVYNLVDAFAVAGYKCTVFRNT   34 (208)
T ss_pred             CEEEEEECCcCHHHHHHHHHHHCCCcEEEEeCC
Confidence            579999998888888999999999888776553

>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated

Probab=82.29  E-value=2.3  Score=34.32  Aligned_cols=31  Identities=10%  Similarity=0.048  Sum_probs=27.1

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSG   48 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~   48 (241)
                      |||||....+-..|...|++.|+.+.++...
T Consensus         2 il~idn~dsft~nl~~~l~~~g~~v~v~~~~   32 (195)
T PRK07649          2 ILMIDNYDSFTFNLVQFLGELGQELVVKRND   32 (195)
T ss_pred             EEEEeCCCccHHHHHHHHHHCCCcEEEEeCC
Confidence            8999999999999999999999988876654

>PRK04302 triosephosphate isomerase; Provisional

Probab=82.20  E-value=26  Score=28.71  Aligned_cols=43  Identities=21%  Similarity=0.316  Sum_probs=32.7

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      .++++.++...  .++|||.-.+-..++.+..++..|+++++.-.
T Consensus       161 ~~~~~~ir~~~--~~~pvi~GggI~~~e~~~~~~~~gadGvlVGs  203 (223)
T PRK04302        161 EDAVEAVKKVN--PDVKVLCGAGISTGEDVKAALELGADGVLLAS  203 (223)
T ss_pred             HHHHHHHHhcc--CCCEEEEECCCCCHHHHHHHHcCCCCEEEEeh
Confidence            35566677643  26899988888888899999999999987543

>TIGR01182 eda Entner-Doudoroff aldolase

Probab=82.11  E-value=12  Score=30.57  Aligned_cols=52  Identities=15%  Similarity=0.325  Sum_probs=29.7

Q ss_pred             CCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239           88 PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        88 p~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      -.-+.++.++++++..+  ++. |-...--+.+....+.++||+ |+.-|....++
T Consensus        42 ~t~~a~~~i~~l~~~~~--~~~-vGAGTVl~~~~a~~a~~aGA~-FivsP~~~~~v   93 (204)
T TIGR01182        42 RTPVALDAIRLLRKEVP--DAL-IGAGTVLNPEQLRQAVDAGAQ-FIVSPGLTPEL   93 (204)
T ss_pred             CCccHHHHHHHHHHHCC--CCE-EEEEeCCCHHHHHHHHHcCCC-EEECCCCCHHH
Confidence            33457777777776542  322 222333456677778888874 66666544444

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

>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=81.86  E-value=7.3  Score=33.61  Aligned_cols=91  Identities=15%  Similarity=0.119  Sum_probs=56.5

Q ss_pred             eEEEEeCCHHHHHHHHHHh----hcCCC--EEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           17 HVLAVDDSIIDRKLIERLL----KTSSY--QVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L----~~~g~--~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      .|||-|.+....-.+...+    +..++  .|. .+++.+++.+++..                   .+|+|++|-.-| 
T Consensus       169 ~iLIkdNHi~~~g~i~~av~~~r~~~~~~~kIeVEv~tleea~~a~~a-------------------gaDiImLDnmsp-  228 (290)
T PRK06559        169 AIMLKDNHIAAVGSVQKAIAQARAYAPFVKMVEVEVESLAAAEEAAAA-------------------GADIIMLDNMSL-  228 (290)
T ss_pred             eEEEcHHHHHhhccHHHHHHHHHHhCCCCCeEEEECCCHHHHHHHHHc-------------------CCCEEEECCCCH-
Confidence            3677777765553344433    23342  343 68999999998843                   367999994322 


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      .+--+.++.++      .-.++-.|+.-+.+.+......|+|-.
T Consensus       229 e~l~~av~~~~------~~~~leaSGGI~~~ni~~yA~tGVD~I  266 (290)
T PRK06559        229 EQIEQAITLIA------GRSRIECSGNIDMTTISRFRGLAIDYV  266 (290)
T ss_pred             HHHHHHHHHhc------CceEEEEECCCCHHHHHHHHhcCCCEE
Confidence            22223333332      124677788888999988889998643

>COG0313 Predicted methyltransferases [General function prediction only]

Probab=81.85  E-value=8.6  Score=32.82  Aligned_cols=94  Identities=21%  Similarity=0.299  Sum_probs=55.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC--C
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM--T   91 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~--~   91 (241)
                      ...+++++|....+.+|..+=-... -+. ...+..+.+..+...-..              ..-=.++.|..||..  .
T Consensus        30 ~~D~iaaEDTR~t~~LL~~~~I~~~-~is~h~hne~~~~~~li~~l~~--------------g~~valVSDAG~P~ISDP   94 (275)
T COG0313          30 EVDVIAAEDTRVTRKLLSHLGIKTP-LISYHEHNEKEKLPKLIPLLKK--------------GKSVALVSDAGTPLISDP   94 (275)
T ss_pred             hCCEEEEeccHHHHHHHHHhCCCCc-eecccCCcHHHHHHHHHHHHhc--------------CCeEEEEecCCCCcccCc
Confidence            4678999999988876655321111 111 122333333333221111              111278899999975  4


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG  129 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G  129 (241)
                      |+.|++..++.    +++|+.+.+.+.  .+.....+|
T Consensus        95 G~~LV~~a~~~----gi~V~~lPG~sA--~~tAL~~SG  126 (275)
T COG0313          95 GYELVRAAREA----GIRVVPLPGPSA--LITALSASG  126 (275)
T ss_pred             cHHHHHHHHHc----CCcEEecCCccH--HHHHHHHcC
Confidence            99999999985    689999987653  233334455

>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH

Probab=81.84  E-value=14  Score=29.47  Aligned_cols=86  Identities=16%  Similarity=0.149  Sum_probs=51.0

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCE--E-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQ--V-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP   88 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~--v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp   88 (241)
                      +...-+|..||-+......++.-++..+..  + +...+...++..+..                ....||+|++|=--.
T Consensus        62 SRGA~~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~----------------~~~~fDiIflDPPY~  125 (183)
T PF03602_consen   62 SRGAKSVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAK----------------KGEKFDIIFLDPPYA  125 (183)
T ss_dssp             HTT-SEEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHH----------------CTS-EEEEEE--STT
T ss_pred             hcCCCeEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcc----------------cCCCceEEEECCCcc
Confidence            344568999999999999999999877632  3 355677777765532                134588999993221


Q ss_pred             CCCH-HHHHHHHHhcCCCCCCcEEEE
Q 026239           89 GMTG-YDLLKKIKESSSLRDIPVVIM  113 (241)
Q Consensus        89 ~~~g-~~ll~~ir~~~~~~~ipvIil  113 (241)
                      .... .+++..|.+..-...--+|++
T Consensus       126 ~~~~~~~~l~~l~~~~~l~~~~~ii~  151 (183)
T PF03602_consen  126 KGLYYEELLELLAENNLLNEDGLIII  151 (183)
T ss_dssp             SCHHHHHHHHHHHHTTSEEEEEEEEE
T ss_pred             cchHHHHHHHHHHHCCCCCCCEEEEE
Confidence            2222 567888875443323334444

They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.

>cd05013 SIS_RpiR RpiR-like protein

Probab=81.83  E-value=18  Score=26.44  Aligned_cols=85  Identities=8%  Similarity=-0.010  Sum_probs=51.7

Q ss_pred             ceEEEEe--CCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVD--DSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVd--d~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      -+|+++.  ........+...|...|+.+..+.+............++                -=+|++...--..+..
T Consensus        14 ~~i~i~g~g~s~~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~i~iS~~g~~~~~~   77 (139)
T cd05013          14 RRIYIFGVGSSGLVAEYLAYKLLRLGKPVVLLSDPHLQLMSAANLTPG----------------DVVIAISFSGETKETV   77 (139)
T ss_pred             CEEEEEEcCchHHHHHHHHHHHHHcCCceEEecCHHHHHHHHHcCCCC----------------CEEEEEeCCCCCHHHH
Confidence            3455554  445555667777778888888777766655444322222                1155555543344556


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPS  120 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~  120 (241)
                      ++++.++..    .+++|++|+..+..
T Consensus        78 ~~~~~a~~~----g~~iv~iT~~~~~~  100 (139)
T cd05013          78 EAAEIAKER----GAKVIAITDSANSP  100 (139)
T ss_pred             HHHHHHHHc----CCeEEEEcCCCCCh
Confidence            777777764    57999999976543

RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.

>PTZ00314 inosine-5'-monophosphate dehydrogenase; Provisional

Probab=81.81  E-value=15  Score=34.23  Aligned_cols=29  Identities=21%  Similarity=0.348  Sum_probs=24.8

Q ss_pred             CCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          107 DIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       107 ~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ++|||.-.+-..+..+.+|+.+||+.+..
T Consensus       344 ~v~vIadGGi~~~~di~kAla~GA~~Vm~  372 (495)
T PTZ00314        344 GVPCIADGGIKNSGDICKALALGADCVML  372 (495)
T ss_pred             CCeEEecCCCCCHHHHHHHHHcCCCEEEE
Confidence            68988877888899999999999987754

>PLN02335 anthranilate synthase

Probab=81.70  E-value=4.2  Score=33.55  Aligned_cols=34  Identities=3%  Similarity=-0.049  Sum_probs=26.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDS   47 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~   47 (241)
                      ...+|||||....+-..|.+.|...|+.+.++..
T Consensus        17 ~~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~   50 (222)
T PLN02335         17 QNGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRN   50 (222)
T ss_pred             ccCcEEEEECCCCHHHHHHHHHHHCCCcEEEEEC
Confidence            3578999997666677788899989988876654

>PRK00748 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Validated

Probab=81.56  E-value=7.3  Score=32.03  Aligned_cols=53  Identities=19%  Similarity=0.313  Sum_probs=41.8

Q ss_pred             EEEEeCCCCCC-CH--HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc-cccccc
Q 026239           80 LVITDYCMPGM-TG--YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG-AEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~g--~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G-a~~~l~  135 (241)
                      ++++|...-++ .|  +++++.+++..   .+|||.-.+-.+.+.+..+++.| |++++.
T Consensus       163 ii~~~~~~~g~~~G~d~~~i~~l~~~~---~ipvia~GGi~~~~di~~~~~~g~~~gv~v  219 (233)
T PRK00748        163 IIYTDISRDGTLSGPNVEATRELAAAV---PIPVIASGGVSSLDDIKALKGLGAVEGVIV  219 (233)
T ss_pred             EEEeeecCcCCcCCCCHHHHHHHHHhC---CCCEEEeCCCCCHHHHHHHHHcCCccEEEE
Confidence            78887765432 34  78899998753   58999988888999999999988 988764

>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]

Probab=81.23  E-value=5.4  Score=33.92  Aligned_cols=57  Identities=18%  Similarity=0.363  Sum_probs=41.1

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      +-+++++.+|....  .+|+++|+-.+.      .....+|.+.|++++|.--+.+++-..+...
T Consensus        80 ~~lel~~~~r~~~~--~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~  142 (265)
T COG0159          80 DTLELVEEIRAKGV--KVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESDELLKA  142 (265)
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHHHHHHHHH
Confidence            34778888887654  899999997543      3446688999999999977766654444433

>PRK05670 anthranilate synthase component II; Provisional

Probab=81.21  E-value=4.3  Score=32.40  Aligned_cols=30  Identities=13%  Similarity=0.052  Sum_probs=25.7

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECC
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDS   47 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~   47 (241)
                      |||||-...+-..+.++|...|+.+..+..
T Consensus         2 iliid~~d~f~~~i~~~l~~~g~~~~v~~~   31 (189)
T PRK05670          2 ILLIDNYDSFTYNLVQYLGELGAEVVVYRN   31 (189)
T ss_pred             EEEEECCCchHHHHHHHHHHCCCcEEEEEC
Confidence            899999988888999999999988876643

>COG4122 Predicted O-methyltransferase [General function prediction only]

Probab=81.17  E-value=9.6  Score=31.48  Aligned_cols=59  Identities=12%  Similarity=0.117  Sum_probs=41.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      .-+|.-||-++...+..++.|+..|+  .|..... -+|++.+...               ....||+||+|..=+.
T Consensus        84 ~g~l~tiE~~~e~~~~A~~n~~~ag~~~~i~~~~~-gdal~~l~~~---------------~~~~fDliFIDadK~~  144 (219)
T COG4122          84 DGRLTTIERDEERAEIARENLAEAGVDDRIELLLG-GDALDVLSRL---------------LDGSFDLVFIDADKAD  144 (219)
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHcCCcceEEEEec-CcHHHHHHhc---------------cCCCccEEEEeCChhh
Confidence            45899999999999999999999886  3443332 3455555431               2346899999986543

>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional

Probab=81.05  E-value=9  Score=33.06  Aligned_cols=69  Identities=19%  Similarity=0.190  Sum_probs=46.1

Q ss_pred             EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHH
Q 026239           42 VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSR  121 (241)
Q Consensus        42 v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~  121 (241)
                      .+.+++.+++.+++..                   .+|+|.+| +|+..+--+.++.++...+  + ..+..|+.-+.+.
T Consensus       203 eVEv~tl~ea~eal~~-------------------gaDiI~LD-nm~~e~vk~av~~~~~~~~--~-v~ieaSGGI~~~n  259 (289)
T PRK07896        203 EVEVDSLEQLDEVLAE-------------------GAELVLLD-NFPVWQTQEAVQRRDARAP--T-VLLESSGGLTLDT  259 (289)
T ss_pred             EEEcCCHHHHHHHHHc-------------------CCCEEEeC-CCCHHHHHHHHHHHhccCC--C-EEEEEECCCCHHH
Confidence            3478899999998842                   35699999 4442222333444443322  3 3667788888999


Q ss_pred             HHHHHHhccccc
Q 026239          122 ISRCLEEGAEEF  133 (241)
Q Consensus       122 ~~~~l~~Ga~~~  133 (241)
                      +....+.|+|.+
T Consensus       260 i~~yA~tGvD~I  271 (289)
T PRK07896        260 AAAYAETGVDYL  271 (289)
T ss_pred             HHHHHhcCCCEE
Confidence            999999998754

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

Probab=80.80  E-value=17  Score=29.69  Aligned_cols=59  Identities=12%  Similarity=0.259  Sum_probs=37.2

Q ss_pred             EEeCCCCCCCHHHHHHHHHhcCCCCCCcEEE-EccCCChHHHHHHHHhcccccccCCCCHHHHH
Q 026239           82 ITDYCMPGMTGYDLLKKIKESSSLRDIPVVI-MSSENVPSRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        82 ilD~~mp~~~g~~ll~~ir~~~~~~~ipvIi-ls~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      ++.+.+-+-++.+.++.|+...+  . ++++ ...--+.+.+..++++||+ |+.-|....++.
T Consensus        38 ~iEvt~~~~~~~~~i~~l~~~~~--~-~~~iGaGTV~~~~~~~~a~~aGA~-fivsp~~~~~v~   97 (206)
T PRK09140         38 AIEIPLNSPDPFDSIAALVKALG--D-RALIGAGTVLSPEQVDRLADAGGR-LIVTPNTDPEVI   97 (206)
T ss_pred             EEEEeCCCccHHHHHHHHHHHcC--C-CcEEeEEecCCHHHHHHHHHcCCC-EEECCCCCHHHH
Confidence            55556666678888888887542  2 3332 2334467778889999994 666675544543

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

Probab=80.79  E-value=24  Score=30.71  Aligned_cols=64  Identities=11%  Similarity=0.181  Sum_probs=41.3

Q ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           79 NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        79 dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |++++-.. ...-|..+++.+..     .+|||+ |....   ..+.+..|..+++..|-+.++|...+..++.
T Consensus       274 di~v~pS~-~Eg~~~~~lEAma~-----G~Pvv~-s~~~g---~~e~i~~~~~g~~~~~~d~~~la~~i~~l~~  337 (374)
T TIGR03088       274 DLFVLPSL-AEGISNTILEAMAS-----GLPVIA-TAVGG---NPELVQHGVTGALVPPGDAVALARALQPYVS  337 (374)
T ss_pred             CEEEeccc-cccCchHHHHHHHc-----CCCEEE-cCCCC---cHHHhcCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            46654322 23346677777764     678876 33322   2345567888999999999999877766654

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.

>PRK09490 metH B12-dependent methionine synthase; Provisional

Probab=80.77  E-value=12  Score=38.66  Aligned_cols=103  Identities=14%  Similarity=0.217  Sum_probs=67.3

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ..+||+.    |-+.+=..++.-+|+..||+|+...   ..++.++.+....+                  |+|.+...|
T Consensus       751 ~gkvvlaTv~GDvHDIGkniV~~~L~~~GfeVIdLG~~vp~e~iv~aa~e~~~------------------diVgLS~L~  812 (1229)
T PRK09490        751 NGKILMATVKGDVHDIGKNIVGVVLQCNNYEVIDLGVMVPAEKILETAKEENA------------------DIIGLSGLI  812 (1229)
T ss_pred             CCeEEEEeCCCCcchHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHhCC------------------CEEEEcCcc
Confidence            4677777    6777777778888999999998643   56777787765544                  499888776


Q ss_pred             CC-CC-HHHHHHHHHhcCCCCCCcEEEEccCCChHH-HHHH-HH-hcccccccCC
Q 026239           88 PG-MT-GYDLLKKIKESSSLRDIPVVIMSSENVPSR-ISRC-LE-EGAEEFFLKP  137 (241)
Q Consensus        88 p~-~~-g~~ll~~ir~~~~~~~ipvIils~~~~~~~-~~~~-l~-~Ga~~~l~KP  137 (241)
                      .. +. -.++++.|++.+.  ++||++-.+..+... ...+ -. .|++.|..--
T Consensus       813 t~s~~~m~~~i~~L~~~g~--~v~v~vGGa~~s~~~ta~~i~~~y~gad~y~~DA  865 (1229)
T PRK09490        813 TPSLDEMVHVAKEMERQGF--TIPLLIGGATTSKAHTAVKIAPNYSGPVVYVTDA  865 (1229)
T ss_pred             hhhHHHHHHHHHHHHhcCC--CCeEEEEeeccchhhhhhhhhhcccCCcEEecCH
Confidence            53 32 3567888888754  788877655444322 1111 11 2887775533

>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]

Probab=80.72  E-value=21  Score=29.29  Aligned_cols=52  Identities=27%  Similarity=0.377  Sum_probs=39.8

Q ss_pred             ccEEEEeCCCC-------CCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           78 VNLVITDYCMP-------GMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        78 ~dlIilD~~mp-------~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      +|-|.+.-..|       ...|++.++++++..   .+|+|.+.+- +.+.+...++.||++.
T Consensus       125 ~DYv~~GpifpT~tK~~~~~~G~~~l~~~~~~~---~iP~vAIGGi-~~~nv~~v~~~Ga~gV  183 (211)
T COG0352         125 ADYVGLGPIFPTSTKPDAPPLGLEGLREIRELV---NIPVVAIGGI-NLENVPEVLEAGADGV  183 (211)
T ss_pred             CCEEEECCcCCCCCCCCCCccCHHHHHHHHHhC---CCCEEEEcCC-CHHHHHHHHHhCCCeE
Confidence            45677665444       346899999999865   4899988774 5778889999999876

>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]

Probab=80.64  E-value=22  Score=30.42  Aligned_cols=92  Identities=21%  Similarity=0.251  Sum_probs=57.4

Q ss_pred             EEEEeCCHHHHHHHHHHhh----cCCCEE--E-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           18 VLAVDDSIIDRKLIERLLK----TSSYQV--T-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~----~~g~~v--~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      |||=|++....-.++..++    ..+|.+  . .+++.+++.+++..                   .+|+|++|-.-| .
T Consensus       161 vliKDNHia~~g~i~~Av~~aR~~~~~~~kIEVEvesle~~~eAl~a-------------------gaDiImLDNm~~-e  220 (280)
T COG0157         161 VLIKDNHIAAAGSITEAVRRARAAAPFTKKIEVEVESLEEAEEALEA-------------------GADIIMLDNMSP-E  220 (280)
T ss_pred             EEehhhHHHHhccHHHHHHHHHHhCCCCceEEEEcCCHHHHHHHHHc-------------------CCCEEEecCCCH-H
Confidence            6677777665554555543    346533  3 68899999998853                   467999995333 2


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      .--+.++.+    ....-.++=.|+.-..+.+......|+|-+
T Consensus       221 ~~~~av~~l----~~~~~~~lEaSGgIt~~ni~~yA~tGVD~I  259 (280)
T COG0157         221 ELKEAVKLL----GLAGRALLEASGGITLENIREYAETGVDVI  259 (280)
T ss_pred             HHHHHHHHh----ccCCceEEEEeCCCCHHHHHHHhhcCCCEE
Confidence            222333333    112345666788888899988889998643

>TIGR00262 trpA tryptophan synthase, alpha subunit

Probab=80.59  E-value=18  Score=30.53  Aligned_cols=43  Identities=21%  Similarity=0.405  Sum_probs=32.3

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      -.+.++++|+..   +.||++=.+-.+++.+..+.+.|||+++.-.
T Consensus       186 ~~~~i~~lr~~~---~~pi~vgfGI~~~e~~~~~~~~GADgvVvGS  228 (256)
T TIGR00262       186 LNELVKRLKAYS---AKPVLVGFGISKPEQVKQAIDAGADGVIVGS  228 (256)
T ss_pred             HHHHHHHHHhhc---CCCEEEeCCCCCHHHHHHHHHcCCCEEEECH
Confidence            356777777643   5687765555568899999999999998765

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.

>COG3836 HpcH 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]

Probab=80.48  E-value=6.8  Score=32.70  Aligned_cols=64  Identities=20%  Similarity=0.253  Sum_probs=52.2

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLS  141 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~  141 (241)
                      .||-+++|..--..|.-.++..|+.....+..|||=.. ..++..+.++++.||..+|.-=++..
T Consensus        38 GfDwl~iD~EHapnd~~sl~~qL~a~~~~~~~pvVR~p-~g~~~~Ikq~LD~GAqtlliPmV~s~  101 (255)
T COG3836          38 GFDWLLIDGEHAPNDLQSLLHQLQAVAAYASPPVVRPP-VGDPVMIKQLLDIGAQTLLIPMVDTA  101 (255)
T ss_pred             CCCEEEecccccCccHHHHHHHHHHhhccCCCCeeeCC-CCCHHHHHHHHccccceeeeeccCCH
Confidence            46799999999999999999999987776677877554 45678899999999999988656543

>TIGR01334 modD putative molybdenum utilization protein ModD

Probab=80.37  E-value=12  Score=32.09  Aligned_cols=68  Identities=21%  Similarity=0.266  Sum_probs=47.5

Q ss_pred             EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHH
Q 026239           43 TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRI  122 (241)
Q Consensus        43 ~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~  122 (241)
                      +.+.+.++|.+++..                   .+|+|++| .|+..+-.+.++.++...   .-.+|..|+.-+.+.+
T Consensus       193 VEv~tleea~ea~~~-------------------GaDiI~lD-n~~~e~l~~~v~~l~~~~---~~~~leasGGI~~~ni  249 (277)
T TIGR01334       193 VEADTIEQALTVLQA-------------------SPDILQLD-KFTPQQLHHLHERLKFFD---HIPTLAAAGGINPENI  249 (277)
T ss_pred             EECCCHHHHHHHHHc-------------------CcCEEEEC-CCCHHHHHHHHHHHhccC---CCEEEEEECCCCHHHH
Confidence            467899999998842                   36799999 444444445555555322   2236777888889999


Q ss_pred             HHHHHhccccc
Q 026239          123 SRCLEEGAEEF  133 (241)
Q Consensus       123 ~~~l~~Ga~~~  133 (241)
                      ......|+|-+
T Consensus       250 ~~ya~~GvD~i  260 (277)
T TIGR01334       250 ADYIEAGIDLF  260 (277)
T ss_pred             HHHHhcCCCEE
Confidence            98889998754

The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.

>PRK08007 para-aminobenzoate synthase component II; Provisional

Probab=80.36  E-value=3.4  Score=33.08  Aligned_cols=31  Identities=10%  Similarity=-0.040  Sum_probs=26.4

Q ss_pred             EEEEeCCHHHHHHHHHHhhcCCCEEEEECCH
Q 026239           18 VLAVDDSIIDRKLIERLLKTSSYQVTTVDSG   48 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~   48 (241)
                      ||+||....+-..|..+|...|+.+.++.+.
T Consensus         2 il~idn~Dsft~nl~~~l~~~g~~v~v~~~~   32 (187)
T PRK08007          2 ILLIDNYDSFTWNLYQYFCELGADVLVKRND   32 (187)
T ss_pred             EEEEECCCccHHHHHHHHHHCCCcEEEEeCC
Confidence            8999999888888999999899888876554

>PRK04128 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional

Probab=80.36  E-value=6.9  Score=32.47  Aligned_cols=51  Identities=16%  Similarity=0.212  Sum_probs=40.0

Q ss_pred             EEEEeCCCCCC-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +|++|+.--|+ .|++   .+....  .++|||+-.+-.+.+.+.++.+.|+++.+.
T Consensus       159 ii~t~i~~dGt~~G~d---~l~~~~--~~~pviasGGv~~~~Dl~~l~~~g~~gviv  210 (228)
T PRK04128        159 FIYTSIERDGTLTGIE---EIERFW--GDEEFIYAGGVSSAEDVKKLAEIGFSGVII  210 (228)
T ss_pred             EEEEeccchhcccCHH---HHHHhc--CCCCEEEECCCCCHHHHHHHHHCCCCEEEE
Confidence            89999988774 7887   333321  278999998888999999999999998654

>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase

Probab=80.30  E-value=47  Score=30.33  Aligned_cols=64  Identities=16%  Similarity=0.320  Sum_probs=40.8

Q ss_pred             cEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHh---cccccccCCCCHHHHHHhhHHHHH
Q 026239           79 NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE---GAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        79 dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~---Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |++++-.. .+.-|+.+++.+..     .+|||.......    .+.+..   |-.+|+..|-+.++|...+..++.
T Consensus       333 Dv~V~pS~-~E~~g~~vlEAmA~-----G~PVI~s~~gg~----~eiv~~~~~~~~G~lv~~~d~~~la~~i~~ll~  399 (465)
T PLN02871        333 DVFVMPSE-SETLGFVVLEAMAS-----GVPVVAARAGGI----PDIIPPDQEGKTGFLYTPGDVDDCVEKLETLLA  399 (465)
T ss_pred             CEEEECCc-ccccCcHHHHHHHc-----CCCEEEcCCCCc----HhhhhcCCCCCceEEeCCCCHHHHHHHHHHHHh
Confidence            56665332 23335566666653     689985443322    233445   888999999999999877776664

>PRK15482 transcriptional regulator MurR; Provisional

Probab=80.11  E-value=29  Score=29.47  Aligned_cols=87  Identities=8%  Similarity=0.012  Sum_probs=53.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCccccccc-EEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVN-LVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~d-lIilD~~mp~~~g~   93 (241)
                      .+.|+-+..+......+...|...|+.+....+............++                 | +|++.+.--..+-.
T Consensus       137 ~I~i~G~G~S~~~A~~l~~~l~~~g~~~~~~~d~~~~~~~~~~~~~~-----------------Dv~i~iS~sg~t~~~~  199 (285)
T PRK15482        137 FIQITGLGGSALVGRDLSFKLMKIGYRVACEADTHVQATVSQALKKG-----------------DVQIAISYSGSKKEIV  199 (285)
T ss_pred             eeEEEEeChhHHHHHHHHHHHHhCCCeeEEeccHhHHHHHHhcCCCC-----------------CEEEEEeCCCCCHHHH
Confidence            34455556677777778888888898888766554433332221111                 2 44444433334566


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRI  122 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~  122 (241)
                      ++++..++.    .++||.+|+.......
T Consensus       200 ~~~~~a~~~----g~~iI~IT~~~~s~la  224 (285)
T PRK15482        200 LCAEAARKQ----GATVIAITSLADSPLR  224 (285)
T ss_pred             HHHHHHHHC----CCEEEEEeCCCCCchH
Confidence            777777764    5799999987765543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	241
3m6m_D	143	Crystal Structure Of Rpff Complexed With Rec Domain		9e-12
3gt7_A	154	Crystal Structure Of Signal Receiver Domain Of Sign		9e-11
3h1g_A	129	Crystal Structure Of Chey Mutant T84a Of Helicobact		2e-09
3gwg_A	129	Crystal Structure Of Chey Of Helicobacter Pylori Le		2e-09
3dge_C	122	Structure Of A Histidine Kinase-response Regulator		6e-09
3h1f_A	129	Crystal Structure Of Chey Mutant D53a Of Helicobact		2e-08
3to5_A	134	High Resolution Structure Of Chey3 From Vibrio Chol		2e-08
1ymv_A	129	Signal Transduction Protein Chey Mutant With Phe 14		3e-08
3gl9_A	122	The Structure Of A Histidine Kinase-Response Regula		4e-08
2ayz_A	133	Solution Structure Of The E.Coli Rcsc C-Terminus (R		5e-08
2ayx_A	254	Solution Structure Of The E.Coli Rcsc C-Terminus (R		5e-08
2wb4_A	459	Activated Diguanylate Cyclase Pled In Complex With		6e-08
2fka_A	129	Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Che		6e-08
1ymu_A	130	Signal Transduction Protein Chey Mutant With Met 17		7e-08
2che_A	128	Structure Of The Mg2+-Bound Form Of Chey And Mechan		7e-08
1w25_A	459	Response Regulator Pled In Complex With C-digmp Len		8e-08
3olx_A	129	Structural And Functional Effects Of Substitution A		8e-08
3heb_A	152	Crystal Structure Of Response Regulator Receiver Do		8e-08
1ab6_A	125	Structure Of Chey Mutant F14n, V86t Length = 125		1e-07
2chy_A	128	Three-Dimensional Structure Of Chey, The Response R		1e-07
1udr_A	129	Chey Mutant With Lys 91 Replaced By Asp, Lys 92 Rep		1e-07
1cey_A	128	Assignments, Secondary Structure, Global Fold, And		1e-07
5chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		1e-07
1djm_A	129	Solution Structure Of Bef3-Activated Chey From Esch		1e-07
1eay_A	128	Chey-Binding (P2) Domain Of Chea In Complex With Ch		1e-07
1cye_A	129	Three Dimensional Structure Of Chemotactic Che Y Pr		1e-07
3olw_A	129	Structural And Functional Effects Of Substitution A		2e-07
1jbe_A	128	1.08 A Structure Of Apo-Chey Reveals Meta-Active Co		2e-07
3myy_A	128	Structure Of E. Coli Chey Mutant A113p Bound To Ber		2e-07
1mih_A	129	A Role For Chey Glu 89 In Chez-Mediated Dephosphory		2e-07
1ab5_A	125	Structure Of Chey Mutant F14n, V21t Length = 125		2e-07
3oo0_A	129	Structure Of Apo Chey A113p Length = 129		2e-07
1d4z_A	128	Crystal Structure Of Chey-95iv, A Hyperactive Chey		2e-07
3fgz_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		3e-07
3oly_A	129	Structural And Functional Effects Of Substitution A		4e-07
1k66_A	149	Crystal Structure Of The Cyanobacterial Phytochrome		4e-07
3olv_A	129	Structural And Functional Effects Of Substitution A		4e-07
6chy_A	128	Structure Of Chemotaxis Protein Chey Length = 128		4e-07
3rvj_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		4e-07
3fft_A	128	Crystal Structure Of Chey Double Mutant F14e, E89r		4e-07
1vlz_A	128	Uncoupled Phosphorylation And Activation In Bacteri		4e-07
3ffx_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59r,		6e-07
3rvp_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		6e-07
3f7n_A	128	Crystal Structure Of Chey Triple Mutant F14e, N59m,		7e-07
3ffw_A	128	Crystal Structure Of Chey Triple Mutant F14q, N59k,		7e-07
3rvl_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		8e-07
1ehc_A	128	Structure Of Signal Transduction Protein Chey Lengt		1e-06
1zdm_A	129	Crystal Structure Of Activated Chey Bound To Xe Len		1e-06
1c4w_A	128	1.9 A Structure Of A-Thiophosphonate Modified Chey		1e-06
1jlk_A	147	Crystal Structure Of The Mn(2+)-Bound Form Of Respo		1e-06
1e6m_A	128	Two-Component Signal Transduction System D57a Mutan		1e-06
1e6l_A	127	Two-Component Signal Transduction System D13a Mutan		1e-06
1e6k_A	130	Two-Component Signal Transduction System D12a Mutan		1e-06
3rvn_A	132	Structure Of The Chey-Bef3 Complex With Substitutio		1e-06
1hey_A	128	Investigating The Structural Determinants Of The P2		1e-06
3eod_A	130	Crystal Structure Of N-Terminal Domain Of E. Coli R		2e-06
1zes_A	125	Bef3- Activated Phob Receiver Domain Length = 125		2e-06
1b00_A	127	Phob Receiver Domain From Escherichia Coli Length =		2e-06
2id7_A	128	1.75 A Structure Of T87i Phosphono-Chey Length = 12		3e-06
3t6k_A	136	Crystal Structure Of A Hypothetical Response Regula		3e-06
2id9_A	128	1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length		3e-06
1i3c_A	149	Response Regulator For Cyanobacterial Phytochrome,		4e-06
2jb9_A	127	Phob Response Regulator Receiver Domain Constitutiv		1e-05
1krw_A	124	Solution Structure And Backbone Dynamics Of Beryllo		1e-05
1dc7_A	124	Structure Of A Transiently Phosphorylated "switch"		2e-05
1j56_A	124	Minimized Average Structure Of Beryllofluoride-Acti		2e-05
1yio_A	208	Crystallographic Structure Of Response Regulator St		2e-05
3cnb_A	143	Crystal Structure Of Signal Receiver Domain Of Dna		3e-05
3bre_A	358	Crystal Structure Of P.Aeruginosa Pa3702 Length = 3		5e-05
3nhz_A	125	Structure Of N-Terminal Domain Of Mtra Length = 125		5e-05
1u8t_A	128	Crystal Structure Of Chey D13k Y106w Alone And In C		8e-05
3cfy_A	137	Crystal Structure Of Signal Receiver Domain Of Puta		9e-05
2jba_B	127	Phob Response Regulator Receiver Domain Constitutiv		9e-05
3eq2_A	394	Structure Of Hexagonal Crystal Form Of Pseudomonas		1e-04
1dc8_A	124	Structure Of A Transiently Phosphorylated "switch"		1e-04
3f7a_A	394	Structure Of Orthorhombic Crystal Form Of Pseudomon		1e-04
1m5t_A	124	Crystal Structure Of The Response Regulator Divk Le		1e-04
2oqr_A	230	The Structure Of The Response Regulator Regx3 From		1e-04
1l5y_A	155	Crystal Structure Of Mg2+ / Bef3-bound Receiver Dom		2e-04
3cg4_A	142	Crystal Structure Of Response Regulator Receiver Do		2e-04
1qkk_A	155	Crystal Structure Of The Receiver Domain And Linker		2e-04
2jba_A	127	Phob Response Regulator Receiver Domain Constitutiv		2e-04
3i5a_A	334	Crystal Structure Of Full-Length Wpsr From Pseudomo		2e-04
3mm4_A	206	Crystal Structure Of The Receiver Domain Of The His		3e-04
1s8n_A	205	Crystal Structure Of Rv1626 From Mycobacterium Tube		4e-04
3jte_A	143	Crystal Structure Of Response Regulator Receiver Do		4e-04
3hzh_A	157	Crystal Structure Of The Chex-Chey-Bef3-Mg+2 Comple		5e-04
1dcf_A	136	Crystal Structure Of The Receiver Domain Of The Eth		6e-04
1xhe_A	123	Crystal Structure Of The Receiver Domain Of Redox R		9e-04

>pdb|3M6M|D Chain D, Crystal Structure Of Rpff Complexed With Rec Domain Of Rpfc Length = 143

Iteration: 1
 Score = 67.0 bits (162), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 37/125 (29%), Positives = 63/125 (50%), Gaps = 20/125 (16%)
Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
             +L  DD   +R +++RLL+ + ++V  V+   + L+ +   + D              
Sbjct: 15  MRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEEDYDA------------- 61
Query: 76  VGVNLVITDYCMPGMTGYDLLKKIK--ESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
                VI D  MPGM G D+LK+++  ++S +R  PVV++S++  P  I  C + GA  F
Sbjct: 62  -----VIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAF 116
Query: 134 FLKPV 138
             KPV
Sbjct: 117 LAKPV 121

>pdb|3GT7|A Chain A, Crystal Structure Of Signal Receiver Domain Of Signal Transduction Histidine Kinase From Syntrophus Aciditrophicus Length = 154

Iteration: 1
 Score = 63.5 bits (153), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 62/122 (50%), Gaps = 18/122 (14%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L V+DS    + ++ +L+ + YQ   V +G +A+ FL L   D                
Sbjct: 10  ILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTRPD---------------- 53
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L+I+D  MP M GY L + +K    LR IPV++++  + P  + R LE GA++F  KP
Sbjct: 54  --LIISDVLMPEMDGYALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKP 111
Query: 138 VR 139
            +
Sbjct: 112 CK 113

>pdb|3H1G|A Chain A, Crystal Structure Of Chey Mutant T84a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/144 (25%), Positives = 68/144 (47%), Gaps = 26/144 (18%)
Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
               +L VDDS   R++I+  L    Y+ V   + G +A E L  + D            
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANAD------------ 51
Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  ++ITD+ MP M G DL+KK++  S  ++IP++++++E   + +   L+ G   
Sbjct: 52  -----TKVLITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNN 106
Query: 133 FFLKPVRLSDLNKLKPHLMKTKIK 156
           + +KP          P ++K K++
Sbjct: 107 YIVKP--------FTPQVLKEKLE 122

>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 = 37/144 (25%), Positives = 68/144 (47%), Gaps = 26/144 (18%)
Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
               +L VDDS   R++I+  L    Y+ V   + G +A E L  + D            
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANAD------------ 51
Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  ++ITD+ MP M G DL+KK++  S  ++IP++++++E   + +   L+ G   
Sbjct: 52  -----TKVLITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNN 106
Query: 133 FFLKPVRLSDLNKLKPHLMKTKIK 156
           + +KP          P ++K K++
Sbjct: 107 YIVKP--------FTPQVLKEKLE 122

>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 = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 18/134 (13%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL VDDS + RK++   LK   Y+V   ++G  ALE L                   E  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLS------------------EFT 46
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L++ D  MP M G+ +LKK++E    + IPV++++++      S  L  GA +   KP
Sbjct: 47  PDLIVLDIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKP 106
Query: 138 VRLSDLNKLKPHLM 151
              S   +   HL+
Sbjct: 107 FSPSQFIEEVKHLL 120

>pdb|3H1F|A Chain A, Crystal Structure Of Chey Mutant D53a Of Helicobacter Pylori Length = 129

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/144 (25%), Positives = 67/144 (46%), Gaps = 26/144 (18%)
Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
               +L VDDS   R++I+  L    Y+ V   + G +A E L  + D            
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDANAD------------ 51
Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  ++IT + MP M G DL+KK++  S  ++IP++++++E   + +   L+ G   
Sbjct: 52  -----TKVLITAWNMPEMNGLDLVKKVRSDSRFKEIPIIMITTEGGKAEVITALKAGVNN 106
Query: 133 FFLKPVRLSDLNKLKPHLMKTKIK 156
           + +KP          P ++K K++
Sbjct: 107 YIVKP--------FTPQVLKEKLE 122

>pdb|3TO5|A Chain A, High Resolution Structure Of Chey3 From Vibrio Cholerae Length = 134

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 35/126 (27%), Positives = 62/126 (49%), Gaps = 17/126 (13%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD    R++++ LL+   +  T                DDG ++    P M ++  
Sbjct: 15  ILIVDDFSTMRRIVKNLLRDLGFNNTQ-------------EADDGLTA---LP-MLKKGD 57
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            + V+TD+ MPGM G DLLK I+    L+ +PV+++++E    +I    + G   + +KP
Sbjct: 58  FDFVVTDWNMPGMQGIDLLKNIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKP 117
Query: 138 VRLSDL 143
              + L
Sbjct: 118 FTAATL 123

>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 = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDGGTGRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>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 = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 39/134 (29%), Positives = 62/134 (46%), Gaps = 18/134 (13%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL VDDS + RK++   LK   Y+V   ++G  ALE L                   E  
Sbjct: 5   VLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLS------------------EFT 46
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L++    MP M G+ +LKK++E    + IPV++++++      S  L  GA +   KP
Sbjct: 47  PDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKP 106
Query: 138 VRLSDLNKLKPHLM 151
              S   +   HL+
Sbjct: 107 FSPSQFIEEVKHLL 120

>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 = 54.7 bits (130), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 58/123 (47%), Gaps = 20/123 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD  I+R+L+   L +  YQ  T + G  AL  L  +                   
Sbjct: 11  ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH------------------ 52
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
           +++V++D  MP M GY L ++I++      +PV+ +++  +     RCLE G +    KP
Sbjct: 53  IDIVLSDVNMPNMDGYRLTQRIRQLGLT--LPVIGVTANALAEEKQRCLESGMDSCLSKP 110
Query: 138 VRL 140
           V L
Sbjct: 111 VTL 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 = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 58/123 (47%), Gaps = 20/123 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD  I+R+L+   L +  YQ  T + G  AL  L  +                   
Sbjct: 132 ILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH------------------ 173
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
           +++V++D  MP M GY L ++I++      +PV+ +++  +     RCLE G +    KP
Sbjct: 174 IDIVLSDVNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEKQRCLESGMDSCLSKP 231
Query: 138 VRL 140
           V L
Sbjct: 232 VTL 234

>pdb|2WB4|A Chain A, Activated Diguanylate Cyclase Pled In Complex With C-Di-Gmp Length = 459

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 57/121 (47%), Gaps = 18/121 (14%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD   + +L+E  L    Y+V+T   G  AL        D                
Sbjct: 5   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD---------------- 48
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             +++ D  MPGM G+ + +K+K+  + R IPVV++++ +      + LE GA +F  KP
Sbjct: 49  --IILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKP 106
Query: 138 V 138
           +
Sbjct: 107 I 107

>pdb|2FKA|A Chain A, Crystal Structure Of Mg(2+) And Bef(3)(-)-Bound Chey In Complex With Chez(200-214) Solved From A F432 Crystal Grown In Caps (Ph 10.5) Length = 129

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   +I+D+ MP M G +LLK I+  S++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGFGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1YMU|A Chain A, Signal Transduction Protein Chey Mutant With Met 17 Replaced By Gly (M17g) Length = 130

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 4   DKELKFLVVDDFSTGRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 45
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 46  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 105
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 106 GYVVKPFTAATL 117

>pdb|2CHE|A Chain A, Structure Of The Mg2+-Bound Form Of Chey And Mechanism Of Phosphoryl Transfer In Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 54.3 bits (129), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   +I+D+ MP M G +LLK I+  S++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGFGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|1W25|A Chain A, Response Regulator Pled In Complex With C-digmp Length = 459

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 57/122 (46%), Gaps = 18/122 (14%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD   + +L+E  L    Y+V+T   G  AL        D               
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD--------------- 47
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +++ D  MPGM G+ + +K+K+  + R IPVV++++ +      + LE GA +F  K
Sbjct: 48  ---IILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTK 104
Query: 137 PV 138
           P+
Sbjct: 105 PI 106

>pdb|3OLX|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88s-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV++++SE     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTSEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|3HEB|A Chain A, Crystal Structure Of Response Regulator Receiver Domain From Rhodospirillum Rubrum Length = 152

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 61/123 (49%), Gaps = 11/123 (8%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           ++ ++D +   +LIE+ ++ +    ++     G+ AL +L   +  G+ S          
Sbjct: 7   IVXIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAG-------- 58
Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               LV+ D  +P  TG D+LK +KE+   R  PVVI+++ +    I RC + GA  +  
Sbjct: 59  -RAQLVLLDLNLPDXTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYIT 117
Query: 136 KPV 138
           KPV
Sbjct: 118 KPV 120

>pdb|1AB6|A Chain A, Structure Of Chey Mutant F14n, V86t Length = 125

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 57/130 (43%), Gaps = 19/130 (14%)
Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           +   L VDD+   R+++  LLK   +  V   + G  AL                  N  
Sbjct: 1   ELKFLVVDDNSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------NKL 42
Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
           Q  G   VI+D+ MP M G +LLK I+   ++  +PV++ ++E     I    + GA  +
Sbjct: 43  QAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMTTAEAKKENIIAAAQAGASGY 102
Query: 134 FLKPVRLSDL 143
            +KP   + L
Sbjct: 103 VVKPFTAATL 112

>pdb|2CHY|A Chain A, Three-Dimensional Structure Of Chey, The Response Regulator Of Bacterial Chemotaxis Length = 128

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   +I D+ MP M G +LLK I+  S++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGFGFIICDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>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 = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEADAENIKALAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>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 = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|5CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GWVVKPFTAATL 115

>pdb|1DJM|A Chain A, Solution Structure Of Bef3-Activated Chey From Escherichia Coli Length = 129

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1EAY|A Chain A, Chey-Binding (P2) Domain Of Chea In Complex With Chey From Escherichia Coli Length = 128

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>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 = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|3OLW|A Chain A, Structural And Functional Effects Of Substitution At Position T+1 In Chey: Cheya88t-Bef3-Mn Complex Length = 129

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTTEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1JBE|A Chain A, 1.08 A Structure Of Apo-Chey Reveals Meta-Active Conformation Length = 128

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3MYY|A Chain A, Structure Of E. Coli Chey Mutant A113p Bound To Beryllium Fluoride Length = 128

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/126 (26%), Positives = 56/126 (44%), Gaps = 19/126 (15%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKP 137
            + +KP
Sbjct: 104 GYVVKP 109

>pdb|1MIH|A Chain A, A Role For Chey Glu 89 In Chez-Mediated Dephosphorylation Of The E. Coli Chemotaxis Response Regulator Chey Length = 129

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1AB5|A Chain A, Structure Of Chey Mutant F14n, V21t Length = 125

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 57/130 (43%), Gaps = 19/130 (14%)
Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           +   L VDD+   R++   LLK   +  V   + G  AL                  N  
Sbjct: 1   ELKFLVVDDNSTMRRITRNLLKELGFNNVEEAEDGVDAL------------------NKL 42
Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
           Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA  +
Sbjct: 43  QAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGY 102
Query: 134 FLKPVRLSDL 143
            +KP   + L
Sbjct: 103 VVKPFTAATL 112

>pdb|3OO0|A Chain A, Structure Of Apo Chey A113p Length = 129

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/126 (26%), Positives = 56/126 (44%), Gaps = 19/126 (15%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKP 137
            + +KP
Sbjct: 105 GYVVKP 110

>pdb|1D4Z|A Chain A, Crystal Structure Of Chey-95iv, A Hyperactive Chey Mutant Length = 128

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     +    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENVIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3FGZ|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 44  KLQAGGYGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV++++ E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTMEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1K66|A Chain A, Crystal Structure Of The Cyanobacterial Phytochrome Response Regulator, Rcpb Length = 149

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/140 (27%), Positives = 67/140 (47%), Gaps = 16/140 (11%)
Query: 18  VLAVDDSIIDRKLIERLLKTSS-----YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           +L V+DS  D    +RLL+        Y+  T   G +AL+FL       Q+     P++
Sbjct: 9   LLVVEDSDEDFSTFQRLLQREGVVNPIYRCIT---GDQALDFLY------QTGSYCNPDI 59
Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                V  ++ D  +PG  G ++L++IK+   L+ IPVVIM++ + P  I  C       
Sbjct: 60  APRPAV--ILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISS 117
Query: 133 FFLKPVRLSDLNKLKPHLMK 152
           + +KP+ +  L +     +K
Sbjct: 118 YIVKPLEIDRLTETVQTFIK 137

>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 = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV++++ E     I    + GA 
Sbjct: 45  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTVEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|6CHY|A Chain A, Structure Of Chemotaxis Protein Chey Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++ +E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GWVVKPFTAATL 115

>pdb|3RVJ|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89q Length = 132

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 6   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 47
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV++++++     I    + GA 
Sbjct: 48  KLQAGGYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAQAKKENIIAAAQAGAS 107
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 108 GYVVKPFTAATL 119

>pdb|3FFT|A Chain A, Crystal Structure Of Chey Double Mutant F14e, E89r Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>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 = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++ +E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3FFX|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59r, E89h Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 51.2 bits (121), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 44  KLQAGGYGFVISDWRMPNMDGLELLKTIRADGAMSALPVLMVTAHAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3RVP|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89k Length = 132

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 58/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 6   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 47
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV++++++     I    + GA 
Sbjct: 48  KLQAGGYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAKAKKENIIAAAQAGAS 107
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 108 GYVVKPFTAATL 119

>pdb|3F7N|A Chain A, Crystal Structure Of Chey Triple Mutant F14e, N59m, E89l Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDESTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 44  KLQAGGYGFVISDWMMPNMDGLELLKTIRADGAMSALPVLMVTALAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3FFW|A Chain A, Crystal Structure Of Chey Triple Mutant F14q, N59k, E89y Complexed With Bef3- And Mn2+ Length = 128

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDQSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 44  KLQAGGYGFVISDWKMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3RVL|A Chain A, Structure Of The Chey-Bef3 Complex With Substitutions At 59 And 89: N59d And E89r Length = 132

Iteration: 1
 Score = 50.4 bits (119), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 6   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 47
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 48  KLQAGGYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTARAKKENIIAAAQAGAS 107
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 108 GYVVKPFTAATL 119

>pdb|1EHC|A Chain A, Structure Of Signal Transduction Protein Chey Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VD     R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|1ZDM|A Chain A, Crystal Structure Of Activated Chey Bound To Xe Length = 129

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 3   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 44
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+ + MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 45  KLQAGGYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 104
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 105 GYVVKPFTAATL 116

>pdb|1C4W|A Chain A, 1.9 A Structure Of A-Thiophosphonate Modified Chey D57c Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+ + MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|1JLK|A Chain A, Crystal Structure Of The Mn(2+)-Bound Form Of Response Regulator Rcp1 Length = 147

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 68/131 (51%), Gaps = 13/131 (9%)
Query: 18  VLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           +L V+DS  D +L++ +LKTS+  +++  +  G  A+ FL   +  G+  +S  PN    
Sbjct: 11  ILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL---QQQGEYENSPRPN---- 63
Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               L++ D  +P   G ++L +IK++  L+ IPVV++++ +    +    E     +  
Sbjct: 64  ----LILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLT 119
Query: 136 KPVRLSDLNKL 146
           K   L DL K+
Sbjct: 120 KSRNLKDLFKM 130

>pdb|1E6M|A Chain A, Two-Component Signal Transduction System D57a Mutant Of Chey Length = 128

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+ + MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISAWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|1E6L|A Chain A, Two-Component Signal Transduction System D13a Mutant Of Chey Length = 127

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VD     R+++  LLK   +  V   + G  AL                  N
Sbjct: 1   DKELKFLVVDAFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 42
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 43  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 102
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 103 GYVVKPFTAATL 114

>pdb|1E6K|A Chain A, Two-Component Signal Transduction System D12a Mutant Of Chey Length = 130

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L V D    R+++  LLK   +  V   + G  AL                  N
Sbjct: 4   DKELKFLVVADFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 45
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA 
Sbjct: 46  KLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGAS 105
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 106 GYVVKPFTAATL 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 = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 6   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 47
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++      I    + GA 
Sbjct: 48  KLQAGGYGFVISDWDMPNMDGLELLKTIRADGAMSALPVLMVTAYAKKENIIAAAQAGAS 107
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 108 GYVVKPFTAATL 119

>pdb|1HEY|A Chain A, Investigating The Structural Determinants Of The P21-Like Triphosphate And Mg2+ Binding Site Length = 128

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 39/73 (53%)
Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
           N  Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA
Sbjct: 43  NKLQAGGYGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGA 102
Query: 131 EEFFLKPVRLSDL 143
             + +KP   + L
Sbjct: 103 SGYVVKPFTAATL 115

>pdb|3EOD|A Chain A, Crystal Structure Of N-Terminal Domain Of E. Coli Rssb Length = 130

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 57/131 (43%), Gaps = 22/131 (16%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D  + R L++    +          G  ALE LG    D               
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPD--------------- 53
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              L+I D  MP M G  LL+ I+        PV+++S+    + I++ L  G E+  LK
Sbjct: 54  ---LMICDIAMPRMNGLKLLEHIRNRGD--QTPVLVISATENMADIAKALRLGVEDVLLK 108
Query: 137 PVRLSDLNKLK 147
           PV+  DLN+L+
Sbjct: 109 PVK--DLNRLR 117

>pdb|1ZES|A Chain A, Bef3- Activated Phob Receiver Domain Length = 125

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/121 (24%), Positives = 56/121 (46%), Gaps = 18/121 (14%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D    R+++  +L+ + +Q    +    A+                  N   E 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV------------------NQLNEP 45
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++ D+ +PG +G   +K +K  S  RDIPVV++++        R LE GA+++  K
Sbjct: 46  WPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITK 105
Query: 137 P 137
           P
Sbjct: 106 P 106

>pdb|1B00|A Chain A, Phob Receiver Domain From Escherichia Coli Length = 127

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/121 (24%), Positives = 56/121 (46%), Gaps = 18/121 (14%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D    R+++  +L+ + +Q    +    A+                  N   E 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV------------------NQLNEP 45
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++ D+ +PG +G   +K +K  S  RDIPVV++++        R LE GA+++  K
Sbjct: 46  WPDLILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITK 105
Query: 137 P 137
           P
Sbjct: 106 P 106

>pdb|2ID7|A Chain A, 1.75 A Structure Of T87i Phosphono-Chey Length = 128

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 56/132 (42%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+ + MP M G +LLK I+   ++  +PV+++ +E     I    + GA 
Sbjct: 44  KLQAGGYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GYVVKPFTAATL 115

>pdb|3T6K|A Chain A, Crystal Structure Of A Hypothetical Response Regulator (Caur_3799) From Chloroflexus Aurantiacus J-10-Fl At 1.86 A Resolution Length = 136

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/140 (24%), Positives = 68/140 (48%), Gaps = 19/140 (13%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD     + +E +L+ + Y+V    SG +AL+              +Y N+     
Sbjct: 7   LLIVDDDDTVAEXLELVLRGAGYEVRRAASGEEALQ-------------QIYKNLP---- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            + +I D  +PG+ GY L K++++    + +P++ ++++   S      E GA ++  KP
Sbjct: 50  -DALICDVLLPGIDGYTLCKRVRQHPLTKTLPILXLTAQGDISAKIAGFEAGANDYLAKP 108
Query: 138 VRLSDL-NKLKPHLMKTKIK 156
               +L  ++K  L +T I+
Sbjct: 109 FEPQELVYRVKNILARTTIE 128

>pdb|2ID9|A Chain A, 1.85 A Structure Of T87iY106W PHOSPHONO-Chey Length = 128

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/132 (25%), Positives = 56/132 (42%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VDD    R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+ + MP M G +LLK I+   ++  +PV+++ +E     I    + GA 
Sbjct: 44  KLQAGGYGFVISXWNMPNMDGLELLKTIRADGAMSALPVLMVIAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GWVVKPFTAATL 115

>pdb|1I3C|A Chain A, Response Regulator For Cyanobacterial Phytochrome, Rcp1 Length = 149

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 36/130 (27%), Positives = 66/130 (50%), Gaps = 13/130 (10%)
Query: 18  VLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           +L V+DS  D +L++ +LKTS+  +++  +  G  A  FL   +  G+  +S  PN    
Sbjct: 11  ILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAXAFL---QQQGEYENSPRPN---- 63
Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               L++ D  +P   G ++L +IK++  L+ IPVV++++ +    +    E     +  
Sbjct: 64  ----LILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLT 119
Query: 136 KPVRLSDLNK 145
           K   L DL K
Sbjct: 120 KSRNLKDLFK 129

>pdb|2JB9|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D10a And D53e. Length = 127

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 38/67 (56%)
Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
           N   E   +L++ ++ +PG +G   +K +K  S  RDIPVV++++        R LE GA
Sbjct: 40  NQLNEPWPDLILLEWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGA 99
Query: 131 EEFFLKP 137
           +++  KP
Sbjct: 100 DDYITKP 106

>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of Beryllofluoride- Activated Ntrc Receiver Domain Length = 124

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 56/120 (46%), Gaps = 20/120 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++ER L  +    TT ++G++ L  L     D                
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD---------------- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++++D  MPGM G  LLK+IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 50  --VLLSDIRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 56/120 (46%), Gaps = 20/120 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++ER L  +    TT ++G++ L  L     D                
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD---------------- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++++D  MPGM G  LLK+IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 50  --VLLSDIRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>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 = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 56/120 (46%), Gaps = 20/120 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++ER L  +    TT ++G++ L  L     D                
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD---------------- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++++D  MPGM G  LLK+IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 50  --VLLSDIRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|1YIO|A Chain A, Crystallographic Structure Of Response Regulator Styr From Pseudomonas Fluorescens Length = 208

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/120 (28%), Positives = 55/120 (45%), Gaps = 20/120 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD +  R+ +  LL+++ ++V T D  S  LE    H           P  H    
Sbjct: 7   VFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLE----HR---------RPEQH---- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
              ++ D  MPGM+G +L +++   S    IP+V +++        R ++ GA EF  KP
Sbjct: 50  -GCLVLDMRMPGMSGIELQEQLTAISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKP 106

>pdb|3CNB|A Chain A, Crystal Structure Of Signal Receiver Domain Of Dna Binding Response Regulator Protein (Merr) From Colwellia Psychrerythraea 34h Length = 143

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 8/95 (8%)
Query: 60  DDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVP 119
           D G   H+V P+        +V+ D  M GM G+ +  +IK + +  +I V+ M+     
Sbjct: 45  DAGDLLHTVKPD--------VVMLDLMMVGMDGFSICHRIKSTPATANIIVIAMTGALTD 96
Query: 120 SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK 154
             +SR +  GAE  F KP+  + L K    L++ K
Sbjct: 97  DNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQK 131

>pdb|3BRE|A Chain A, Crystal Structure Of P.Aeruginosa Pa3702 Length = 358

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 34/58 (58%)
Query: 79  NLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
            +++ D  MPG+ G  LL   + + + RDIP++++S++  P+  S     GA ++ +K
Sbjct: 65  TVILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVK 122

>pdb|3NHZ|A Chain A, Structure Of N-Terminal Domain Of Mtra Length = 125

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 26/123 (21%), Positives = 59/123 (47%), Gaps = 21/123 (17%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD     +++  +L+   +    +  G++AL  +                  +E+
Sbjct: 7   RILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAV------------------REL 48
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +LV+ D  +PGM G D+ + ++  S    +P+V+++++     +   LE GA+++ +K
Sbjct: 49  RPDLVLLDLMLPGMNGIDVCRVLRADSG---VPIVMLTAKTDTVDVVLGLESGADDYIMK 105
Query: 137 PVR 139
           P +
Sbjct: 106 PFK 108

>pdb|1U8T|A Chain A, Crystal Structure Of Chey D13k Y106w Alone And In Complex With A Flim Peptide Length = 128

Iteration: 1
 Score = 43.9 bits (102), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 32/132 (24%), Positives = 53/132 (40%), Gaps = 19/132 (14%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           + +   L VD     R+++  LLK   +  V   + G  AL                  N
Sbjct: 2   DKELKFLVVDKFSTXRRIVRNLLKELGFNNVEEAEDGVDAL------------------N 43
Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
             Q  G   VI+D+  P   G +LLK I+   +   +PV+ +++E     I    + GA 
Sbjct: 44  KLQAGGYGFVISDWNXPNXDGLELLKTIRADGAXSALPVLXVTAEAKKENIIAAAQAGAS 103
Query: 132 EFFLKPVRLSDL 143
            + +KP   + L
Sbjct: 104 GWVVKPFTAATL 115

>pdb|3CFY|A Chain A, Crystal Structure Of Signal Receiver Domain Of Putative Luxo Repressor Protein From Vibrio Parahaemolyticus Length = 137

Iteration: 1
 Score = 43.9 bits (102), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 37/146 (25%), Positives = 68/146 (46%), Gaps = 25/146 (17%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+DS     L ++ +K   Y +  V++G  A++F+                  +   
Sbjct: 7   VLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI------------------ERSK 48
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIP--VVIMSSENVPSRISRCLEEGAEEFFL 135
             L+I D  +P M+G D+L  I ++    DIP  V+I ++          +++GAE+F  
Sbjct: 49  PQLIILDLKLPDMSGEDVLDWINQN----DIPTSVIIATAHGSVDLAVNLIQKGAEDFLE 104
Query: 136 KPVRLSDL-NKLKPHLMKTKIKDQIK 160
           KP+    L   +  HL + K++D ++
Sbjct: 105 KPINADRLKTSVALHLKRAKLEDLVE 130

>pdb|2JBA|B Chain B, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 29/121 (23%), Positives = 54/121 (44%), Gaps = 18/121 (14%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D    R+++  +L+ + +Q    +    A+                  N   E 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV------------------NQLNEP 45
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++  + +PG +G   +K +K  S  RDIPVV++++        R LE GA++   K
Sbjct: 46  WPDLILLAWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITK 105
Query: 137 P 137
           P
Sbjct: 106 P 106

>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/130 (24%), Positives = 63/130 (48%), Gaps = 22/130 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L +DD  + R+ +   L+ S+++V    +G + L+     + D                
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQPD---------------- 51
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             LVI D   P + G +L+++I++++S  + P++++S   V S     L  GA ++ +KP
Sbjct: 52  --LVICDLRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVXSDAVEALRLGAADYLIKP 107
Query: 138 VRLSDLNKLK 147
             L DL  L+
Sbjct: 108 --LEDLAVLE 115

>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In Bacterial Signal Transduction Length = 124

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/120 (26%), Positives = 55/120 (45%), Gaps = 20/120 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  VDD    R ++ER L  +    TT ++G++ L  L     D                
Sbjct: 6   VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD---------------- 49
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++++   MPGM G  LLK+IK+   +  +PV+IM++ +         ++GA ++  KP
Sbjct: 50  --VLLSXIRMPGMDGLALLKQIKQRHPM--LPVIIMTAHSDLDAAVSAYQQGAFDYLPKP 105

>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas Aeruginosa Rssb Length = 394

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/130 (24%), Positives = 63/130 (48%), Gaps = 22/130 (16%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L +DD  + R+ +   L+ S+++V    +G + L+     + D                
Sbjct: 8   LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQPD---------------- 51
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             LVI D   P + G +L+++I++++S  + P++++S   V S     L  GA ++ +KP
Sbjct: 52  --LVICDLRXPQIDGLELIRRIRQTAS--ETPIIVLSGAGVMSDAVEALRLGAADYLIKP 107
Query: 138 VRLSDLNKLK 147
             L DL  L+
Sbjct: 108 --LEDLAVLE 115

>pdb|1M5T|A Chain A, Crystal Structure Of The Response Regulator Divk Length = 124

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 18/121 (14%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D+ ++ KL   LL+   Y+      G  AL                  ++ +E  
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSAL------------------SIARENK 45
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +L++ D  +P ++G ++ K +KE   L  IPVV +++  +     R  E G E +  KP
Sbjct: 46  PDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKP 105
Query: 138 V 138
           +
Sbjct: 106 I 106

>pdb|2OQR|A Chain A, The Structure Of The Response Regulator Regx3 From Mycobacterium Tuberculosis Length = 230

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 53/107 (49%), Gaps = 27/107 (25%)
Query: 34  LLKTSSYQVTTVDSGSKAL-EFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG 92
           LL+   ++ T V  G  AL EF                      G ++V+ D  +PGM+G
Sbjct: 23  LLRKEGFEATVVTDGPAALAEF-------------------DRAGADIVLLDLMLPGMSG 63
Query: 93  YDLLKKIKESSSLRDIPVVIMSSENVPSRISRC--LEEGAEEFFLKP 137
            D+ K+++  SS   +PV+++++ +  S I +   LE GA+++  KP
Sbjct: 64  TDVCKQLRARSS---VPVIMVTARD--SEIDKVVGLELGADDYVTKP 105

>pdb|1L5Y|A Chain A, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of Sinorhizobium Meliloti Dctd Length = 155

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 60/121 (49%), Gaps = 22/121 (18%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  +DD    RK +++ L+ + + V++  S ++AL   GL  D                 
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALA--GLSAD----------------F 47
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFLK 136
             +VI+D  MPGM G  L +KI       D+P+++++   ++P  + + +++GA +F  K
Sbjct: 48  AGIVISDIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAV-QAIQDGAYDFIAK 104
Query: 137 P 137
           P
Sbjct: 105 P 105

>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 = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/131 (22%), Positives = 58/131 (44%), Gaps = 18/131 (13%)
Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           E +  V  VDD    R  ++ +L  + + + + DSG + ++ L       +   S     
Sbjct: 5   EHKGDVXIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLL-------KKGFS----- 52
Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  +V+ D   PG  G+D ++ I ++S  + I +V ++++N P      L+E   +
Sbjct: 53  ------GVVLLDIXXPGXDGWDTIRAILDNSLEQGIAIVXLTAKNAPDAKXIGLQEYVVD 106
Query: 133 FFLKPVRLSDL 143
           +  KP    DL
Sbjct: 107 YITKPFDNEDL 117

>pdb|1QKK|A Chain A, Crystal Structure Of The Receiver Domain And Linker Region Of Dctd From Sinorhizobium Meliloti Length = 155

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 32/121 (26%), Positives = 60/121 (49%), Gaps = 22/121 (18%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           V  +DD    RK +++ L+ + + V++  S ++AL   GL  D                 
Sbjct: 6   VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALA--GLSAD----------------F 47
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFLK 136
             +VI+D  MPGM G  L +KI       D+P+++++   ++P  + + +++GA +F  K
Sbjct: 48  AGIVISDIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAV-QAIQDGAYDFIAK 104
Query: 137 P 137
           P
Sbjct: 105 P 105

>pdb|2JBA|A Chain A, Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53a And Y102c Length = 127

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 18/121 (14%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D    R+++  +L+ + +Q    +    A+                  N   E 
Sbjct: 4   RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAV------------------NQLNEP 45
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++  + +PG +G   +K ++  S  RDIPVV++++        R LE GA++   K
Sbjct: 46  WPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITK 105
Query: 137 P 137
           P
Sbjct: 106 P 106

>pdb|3I5A|A Chain A, Crystal Structure Of Full-Length Wpsr From Pseudomonas Syringae Length = 334

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 34/57 (59%)
Query: 80  LVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
           +++ D  MPG+ G  L+++ + +   RDIP++++S++  P   S     GA ++ +K
Sbjct: 64  VILQDLVMPGLDGLTLVREYRSNPLTRDIPIIVLSTKEDPLIKSAAFAAGANDYLVK 120

>pdb|3MM4|A Chain A, Crystal Structure Of The Receiver Domain Of The Histidine Kinase Cki1 From Arabidopsis Thaliana Length = 206

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/127 (29%), Positives = 62/127 (48%), Gaps = 15/127 (11%)
Query: 17  HVLAVDDSIIDRKLIE-RLLKTSSYQVTTVDSGSKALEFL--GLHEDDGQSSHSVYPNMH 73
            VL VDD+ I RK+   +L K    +V   DSG +AL  +  GL + + Q S    P   
Sbjct: 63  RVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREEQGSVDKLP--- 119
Query: 74  QEVGVNLVITDYCMPGMTGYDL---LKKIKESSSLRDIPVVIMSSENVPSRISR-CLEEG 129
                + +  D  MP M GY+    ++K+++S  +R  P++ +S  +  S  +R  ++ G
Sbjct: 120 ----FDYIFMDCQMPEMDGYEATREIRKVEKSYGVR-TPIIAVSGHDPGSEEARETIQAG 174
Query: 130 AEEFFLK 136
            + F  K
Sbjct: 175 MDAFLDK 181

>pdb|1S8N|A Chain A, Crystal Structure Of Rv1626 From Mycobacterium Tuberculosis Length = 205

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 33/128 (25%), Positives = 56/128 (43%), Gaps = 22/128 (17%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            VL  +D  + R  +  +L+   Y++      G +A+E   LH+ D              
Sbjct: 15  RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPD-------------- 60
Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               LVI D  MP   G D   +I   +S R  P+V++++ +    + R  + GA  + +
Sbjct: 61  ----LVIMDVKMPRRDGIDAASEI---ASKRIAPIVVLTAFSQRDLVERARDAGAMAYLV 113
Query: 136 KPVRLSDL 143
           KP  +SDL
Sbjct: 114 KPFSISDL 121

>pdb|3JTE|A Chain A, Crystal Structure Of Response Regulator Receiver Domain Protein From Clostridium Thermocellum Length = 143

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 33/127 (25%), Positives = 62/127 (48%), Gaps = 18/127 (14%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L +DD     + I+ LL+    +V T  S ++ L          ++ +S+         
Sbjct: 6   ILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFT------ENCNSI--------- 50
Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            ++VITD  MP ++G D+L++IK+ +    + V+I++           ++EGA E+  KP
Sbjct: 51  -DVVITDMKMPKLSGMDILREIKKITP--HMAVIILTGHGDLDNAILAMKEGAFEYLRKP 107
Query: 138 VRLSDLN 144
           V   DL+
Sbjct: 108 VTAQDLS 114

>pdb|3HZH|A Chain A, Crystal Structure Of The Chex-Chey-Bef3-Mg+2 Complex From Borrelia Burgdorferi Length = 157

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 59/124 (47%), Gaps = 19/124 (15%)
Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           F+VL VDDS+   K + ++  +  + +  +D+ +           DG+ +   Y N +  
Sbjct: 37  FNVLIVDDSVFTVKQLTQIFTSEGFNI--IDTAA-----------DGEEAVIKYKNHYPN 83
Query: 76  VG-VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
           +  V L IT   MP M G   L  I E    ++  V+++S+      +  CL +GA+ F 
Sbjct: 84  IDIVTLXIT---MPKMDGITCLSNIMEFD--KNARVIMISALGKEQLVKDCLIKGAKTFI 138
Query: 135 LKPV 138
           +KP+
Sbjct: 139 VKPL 142

>pdb|1DCF|A Chain A, Crystal Structure Of The Receiver Domain Of The Ethylene Receptor Of Arabidopsis Thaliana Length = 136

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 37/141 (26%), Positives = 63/141 (44%), Gaps = 22/141 (15%)
Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL +D++ + R + + LL     +VTTV S  + L  +  HE      H V         
Sbjct: 10  VLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVS-HE------HKV--------- 53
Query: 78  VNLVITDYCMPGMTGYDLLKKIKE--SSSLRDIPVVIMSSENV-PSRISRCLEEGAEEFF 134
              V  D CMPG+  Y +  +I E  +      P+++  S N   S   +C+  G +   
Sbjct: 54  ---VFMDVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVL 110
Query: 135 LKPVRLSDLNKLKPHLMKTKI 155
           LKPV L ++  +   L++ ++
Sbjct: 111 LKPVSLDNIRDVLSDLLEPRV 131

>pdb|1XHE|A Chain A, Crystal Structure Of The Receiver Domain Of Redox Response Regulator Arca Length = 123

Iteration: 1
 Score = 40.4 bits (93), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 27/121 (22%), Positives = 53/121 (43%), Gaps = 21/121 (17%)
Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H+L V+D ++ R  ++ + +   Y V                  DG   H +      E 
Sbjct: 5   HILIVEDELVTRNTLKSIFEAEGYDV--------------FEATDGAEMHQIL----SEY 46
Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
            +NLVI D  +PG  G  L ++++E +   ++ ++ ++  +        LE GA+++  K
Sbjct: 47  DINLVIMDINLPGKNGLLLARELREQA---NVALMFLTGRDNEVDKILGLEIGADDYITK 103
Query: 137 P 137
           P
Sbjct: 104 P 104

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	241
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	3e-28
1w25_A	459	Stalked-cell differentiation controlling protein;	3e-26
1w25_A	459	Stalked-cell differentiation controlling protein;	7e-20
3luf_A	259	Two-component system response regulator/ggdef doma	3e-26
3luf_A	259	Two-component system response regulator/ggdef doma	8e-20
3bre_A	358	Probable two-component response regulator; protein	9e-26
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	7e-25
3eq2_A	394	Probable two-component response regulator; adaptor	8e-25
3heb_A	152	Response regulator receiver domain protein (CHEY);	1e-24
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	2e-24
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	7e-22
3cfy_A	137	Putative LUXO repressor protein; structural genomi	7e-22
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	3e-21
3hdg_A	137	Uncharacterized protein; two-component sensor acti	8e-21
1srr_A	124	SPO0F, sporulation response regulatory protein; as	1e-20
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	1e-20
3jte_A	143	Response regulator receiver protein; structural ge	3e-20
3cnb_A	143	DNA-binding response regulator, MERR family; signa	4e-20
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	4e-20
3i42_A	127	Response regulator receiver domain protein (CHEY-	6e-20
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	6e-20
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	1e-19
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	1e-19
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	2e-19
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	2e-19
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	1e-18
2rjn_A	154	Response regulator receiver:metal-dependent phosph	1e-18
2qxy_A	142	Response regulator; regulation of transcription, N	1e-18
3nhm_A	133	Response regulator; protein structure initiative I	1e-17
3gt7_A	154	Sensor protein; structural genomics, signal receiv	2e-17
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	3e-17
3lua_A	140	Response regulator receiver protein; two-component	3e-17
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	3e-17
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	1e-16
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	2e-16
3grc_A	140	Sensor protein, kinase; protein structure initiati	2e-16
1mb3_A	124	Cell division response regulator DIVK; signal tran	3e-16
3n53_A	140	Response regulator receiver modulated diguanylate;	6e-16
3eqz_A	135	Response regulator; structural genomics, unknown f	9e-16
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	1e-15
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	1e-15
1yio_A	208	Response regulatory protein; transcription regulat	3e-15
4dad_A	146	Putative pilus assembly-related protein; response	4e-15
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	5e-15
2zay_A	147	Response regulator receiver protein; structural ge	5e-15
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	8e-15
2qr3_A	140	Two-component system response regulator; structura	1e-14
2rdm_A	132	Response regulator receiver protein; structural ge	1e-14
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	1e-14
3crn_A	132	Response regulator receiver domain protein, CHEY-;	4e-14
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	5e-14
3rqi_A	184	Response regulator protein; structural genomics, s	6e-14
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	8e-14
3c3m_A	138	Response regulator receiver protein; structural ge	9e-14
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	9e-14
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	1e-13
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	2e-13
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	2e-13
3cg0_A	140	Response regulator receiver modulated diguanylate	8e-13
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	2e-12
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	3e-12
1xhf_A	123	DYE resistance, aerobic respiration control protei	4e-12
3kto_A	136	Response regulator receiver protein; PSI-II,struct	4e-12
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	8e-12
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	1e-11
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	2e-11
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	2e-11
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	5e-11
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	7e-11
2gkg_A	127	Response regulator homolog; social motility, recei	8e-11
3r0j_A	250	Possible two component system response transcript	9e-11
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	1e-10
1zgz_A	122	Torcad operon transcriptional regulatory protein;	1e-10
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	1e-10
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	1e-10
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	2e-10
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	4e-10
2oqr_A	230	Sensory transduction protein REGX3; response regul	6e-10
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	7e-10
3lte_A	132	Response regulator; structural genomics, PSI, prot	7e-10
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	9e-10
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	1e-09
2gwr_A	238	DNA-binding response regulator MTRA; two-component	2e-09
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	2e-09
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	3e-08
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	4e-08
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	4e-08
1ys7_A	233	Transcriptional regulatory protein PRRA; response	3e-07
2qv0_A	143	Protein MRKE; structural genomics, transcription,	5e-07
3q9s_A	249	DNA-binding response regulator; DNA binding protei	5e-07
3c97_A	140	Signal transduction histidine kinase; structural g	8e-07
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	2e-06
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	2e-06
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	2e-05
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	3e-05
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	4e-05
2hqr_A	223	Putative transcriptional regulator; phosporylation	4e-05
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	6e-05
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	8e-05
2qdz_A	554	TPSB transporter FHAC; beta barrel, potra domain,	1e-04
2qdz_A	554	TPSB transporter FHAC; beta barrel, potra domain,	2e-04
3f6c_A	134	Positive transcription regulator EVGA; structural	2e-04
1m2v_B	926	SEC24, protein transport protein SEC24, SEC24P, SE	8e-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 =  103 bits (260), Expect = 3e-28
 Identities = 36/136 (26%), Positives = 63/136 (46%), Gaps = 10/136 (7%)

Query: 10  AVAESQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHS 67
           AV  +   +L V+DS  D    +RLL+       +    +G +AL+FL           +
Sbjct: 1   AVGNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIA 60

Query: 68  VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE 127
             P         +++ D  +PG  G ++L++IK+   L+ IPVVIM++ + P  I  C  
Sbjct: 61  PRPA--------VILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYS 112

Query: 128 EGAEEFFLKPVRLSDL 143
                + +KP+ +  L
Sbjct: 113 YSISSYIVKPLEIDRL 128

>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 =  104 bits (262), Expect = 3e-26
 Identities = 37/170 (21%), Positives = 70/170 (41%), Gaps = 19/170 (11%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD   + +L+E  L    Y+V+T   G  AL        D                
Sbjct: 4   ILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD---------------- 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             +++ D  MPGM G+ + +K+K+  + R IPVV++++ +      + LE GA +F  KP
Sbjct: 48  --IILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKP 105

Query: 138 VRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQP 186
           +    L  +++       + D+++Q+    +                 + 
Sbjct: 106 IDDVMLFARVRSLTRFKLVIDELRQREASGRRMGVIAGAAARLDGLGGRV 155

>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 = 86.8 bits (215), Expect = 7e-20
 Identities = 26/155 (16%), Positives = 53/155 (34%), Gaps = 21/155 (13%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
              VL VDD+    + +   L      V  ++S  +  +       D             
Sbjct: 152 GGRVLIVDDNERQAQRVAAELGVEHRPV--IESDPEKAKISAGGPVD------------- 196

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                LVI +       G      ++     R +PV+ M   +   R+ + LE G  +  
Sbjct: 197 -----LVIVNAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDIL 251

Query: 135 LKPVRLSDLN-KLKPHLMKTKIKDQIKQQSQQQQE 168
            +P+   +L+ ++K  + + +  D ++       E
Sbjct: 252 SRPIDPQELSARVKTQIQRKRYTDYLRNNLDHSLE 286

>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 =  101 bits (254), Expect = 3e-26
 Identities = 35/154 (22%), Positives = 60/154 (38%), Gaps = 19/154 (12%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           Q  VL VDDS   R      L+    QV       +AL  L  H                
Sbjct: 124 QIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHPA-------------- 169

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
              + LV+ DY MP + G  L++ ++E  S + + ++ +S  +     +R L++GA +F 
Sbjct: 170 ---IRLVLVDYYMPEIDGISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFL 226

Query: 135 LKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQE 168
            +P    +L     H ++    +Q   +      
Sbjct: 227 NQPFEPEELQCRVSHNLEA--LEQFNSEGHHHHH 258

>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 = 84.3 bits (209), Expect = 8e-20
 Identities = 21/127 (16%), Positives = 46/127 (36%), Gaps = 22/127 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+DS+  R+++ + +   +          +                       Q  
Sbjct: 6   KILIVEDSMTIRRMLIQAIAQQTGLEIDAFDTLEGARHC------------------QGD 47

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              + + D  +P     + +K + E    R +PVVI++++    +    LE G  ++ +K
Sbjct: 48  EYVVALVDLTLPDAPSGEAVKVLLE----RGLPVVILTADISEDKREAWLEAGVLDYVMK 103

Query: 137 PVRLSDL 143
             R S  
Sbjct: 104 DSRHSLQ 110

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A* Length = 358

 Score =  102 bits (255), Expect = 9e-26
 Identities = 33/184 (17%), Positives = 69/184 (37%), Gaps = 27/184 (14%)

Query: 9   AAVAESQFHVLAVDDSIIDRKLIERLLKT-SSYQVTTVDSGSKALEFLGLHEDDGQSSHS 67
            A  +    VL VDD  +  + + R L + +           +A+      +        
Sbjct: 12  GAPLDGAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQIKPT------ 65

Query: 68  VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE 127
                       +++ D  MPG+ G  LL   + + + RDIP++++S++  P+  S    
Sbjct: 66  ------------VILQDLVMPGVDGLTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFA 113

Query: 128 EGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQ 187
            GA ++ +K     +L          +I+   +     QQ +E+  +  +S     +   
Sbjct: 114 AGANDYLVKLPDAIEL--------VARIRYHSRSYIALQQRDEAYRALRESQQQLLETNL 165

Query: 188 ESQQ 191
             Q+
Sbjct: 166 VLQR 169

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A Length = 149

 Score = 95.0 bits (237), Expect = 7e-25
 Identities = 35/134 (26%), Positives = 66/134 (49%), Gaps = 13/134 (9%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSVY 69
           +     +L V+DS  D +L++ +LKTS   +++  +  G  A+ FL   +  G+  +S  
Sbjct: 5   SNPPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFL---QQQGEYENSPR 61

Query: 70  PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
           PN        L++ D  +P   G ++L +IK++  L+ IPVV++++ +    +    E  
Sbjct: 62  PN--------LILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELH 113

Query: 130 AEEFFLKPVRLSDL 143
              +  K   L DL
Sbjct: 114 VNCYLTKSRNLKDL 127

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A Length = 394

 Score =   99 bits (249), Expect = 8e-25
 Identities = 33/187 (17%), Positives = 78/187 (41%), Gaps = 20/187 (10%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L +DD  + R+ +   L+ S+++V    +G + L+                    +  
Sbjct: 7   TLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIF------------------ESE 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +LVI D  MP + G +L+++I++++   + P++++S   V S     L  GA ++ +K
Sbjct: 49  QPDLVICDLRMPQIDGLELIRRIRQTA--SETPIIVLSGAGVMSDAVEALRLGAADYLIK 106

Query: 137 PVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQ 196
           P+    + +        +   +++ Q  + + E ++     S +  Q+     +Q Q   
Sbjct: 107 PLEDLAVLEHSVRRALDRAYLRVENQRYRDKLEAANRELQASLNLLQEDQNAGRQVQMNM 166

Query: 197 QQQQQQQ 203
                  
Sbjct: 167 LPVTPWS 173

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} Length = 152

 Score = 94.7 bits (236), Expect = 1e-24
 Identities = 34/129 (26%), Positives = 62/129 (48%), Gaps = 11/129 (8%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            ++ ++D +   +LIE+ ++ +    ++     G+ AL +L   +D      +       
Sbjct: 6   TIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYL-FGDDKSGRVSAGRAQ--- 61

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                LV+ D  +P MTG D+LK +KE+   R  PVVI+++ +    I RC + GA  + 
Sbjct: 62  -----LVLLDLNLPDMTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYI 116

Query: 135 LKPVRLSDL 143
            KPV   + 
Sbjct: 117 TKPVNYENF 125

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp} Length = 143

 Score = 93.8 bits (234), Expect = 2e-24
 Identities = 25/135 (18%), Positives = 57/135 (42%), Gaps = 14/135 (10%)

Query: 11  VAESQFHVLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSV 68
           +A  +  +L ++D  +D + +ER+        ++    SG++AL+ L     +       
Sbjct: 3   LAADKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKE------- 55

Query: 69  YPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE 128
                 ++   L++ D  +P M G + LK++++ SS  DI V ++++             
Sbjct: 56  -----NKIHPKLILLDINIPKMNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESL 110

Query: 129 GAEEFFLKPVRLSDL 143
                 +KP+   + 
Sbjct: 111 NIRGHLIKPLDYGEA 125

>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 = 86.5 bits (215), Expect = 7e-22
 Identities = 35/127 (27%), Positives = 57/127 (44%), Gaps = 19/127 (14%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYP 70
           A+ +   L VDD    R+++  LLK   +  V   + G  AL  L               
Sbjct: 1   ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKL--------------- 45

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
              Q  G   VI+D+ MP M G +LLK I+   ++  +PV+++++E     I    + GA
Sbjct: 46  ---QAGGYGFVISDWNMPNMDGLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGA 102

Query: 131 EEFFLKP 137
             + +KP
Sbjct: 103 SGYVVKP 109

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Length = 137

 Score = 86.8 bits (216), Expect = 7e-22
 Identities = 35/153 (22%), Positives = 69/153 (45%), Gaps = 23/153 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL V+DS     L ++ +K   Y +  V++G  A++F+                  +  
Sbjct: 6   RVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFI------------------ERS 47

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
              L+I D  +P M+G D+L  I ++       V+I ++  +V   ++  +++GAE+F  
Sbjct: 48  KPQLIILDLKLPDMSGEDVLDWINQNDI--PTSVIIATAHGSVDLAVN-LIQKGAEDFLE 104

Query: 136 KPVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQ 167
           KP+    L   +  HL + K++D ++       
Sbjct: 105 KPINADRLKTSVALHLKRAKLEDLVEGHHHHHH 137

>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 = 85.0 bits (211), Expect = 3e-21
 Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 28/144 (19%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           M + AA           VL VDD+ ++R+ +   LK+        D   +A  +L     
Sbjct: 1   MSLVAARP--------LVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYL----- 47

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVP 119
                       H +  + L+ITD  M   +G DL++ I+ S     + ++++S   +V 
Sbjct: 48  ------------HYQKRIGLMITDLRMQPESGLDLIRTIRASERA-ALSIIVVSGDTDVE 94

Query: 120 SRISRCLEEGAEEFFLKPVRLSDL 143
             +   +  G  +F LKPV L  L
Sbjct: 95  EAV-DVMHLGVVDFLLKPVDLGKL 117

>3hdg_A Uncharacterized protein; two-component sensor activity, response regulator, PSI-II, 11227F, NYSGXRC, structural genomics; 2.27A {Wolinella succinogenes} Length = 137

 Score = 84.1 bits (209), Expect = 8e-21
 Identities = 29/153 (18%), Positives = 56/153 (36%), Gaps = 20/153 (13%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           E    +L V+D    R+ +  ++     +V +   G +     GLH  D           
Sbjct: 5   EVALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHAPD----------- 53

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  ++ITD  MP + G ++L +IK   +     V+++S+ +      + +E G   
Sbjct: 54  -------VIITDIRMPKLGGLEMLDRIKAGGA--KPYVIVISAFSEMKYFIKAIELGVHL 104

Query: 133 FFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQ 165
           F  KP+    L +        K+  +       
Sbjct: 105 FLPKPIEPGRLMETLEDFRHIKLAKEGHHHHHH 137

>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 = 83.3 bits (207), Expect = 1e-20
 Identities = 31/131 (23%), Positives = 54/131 (41%), Gaps = 22/131 (16%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
               +L VDD    R L+  +     YQ     +G +AL+ +                  
Sbjct: 2   MNEKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIV------------------ 43

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEE 132
            +   +LV+ D  +PGM G ++LK++K      +I V+IM++   +        E GA  
Sbjct: 44  TKERPDLVLLDMKIPGMDGIEILKRMKVIDE--NIRVIIMTAYGELDMIQE-SKELGALT 100

Query: 133 FFLKPVRLSDL 143
            F KP  + ++
Sbjct: 101 HFAKPFDIDEI 111

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii} Length = 146

 Score = 83.6 bits (207), Expect = 1e-20
 Identities = 27/156 (17%), Positives = 57/156 (36%), Gaps = 26/156 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            VL +DD  I   L   +++ +    ++ +V SG+ A+  L      G+     +P+   
Sbjct: 11  SVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYAAGR-----WPS--- 62

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESS--SLRDIPVVIMSSENVPSRISRCLEE-GAE 131
                ++  D  MPG+ G++L+   K+          V ++SS   P   ++       +
Sbjct: 63  -----IICIDINMPGINGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVD 117

Query: 132 EFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQ 167
            +  KP+  + L               + +      
Sbjct: 118 YYVSKPLTANAL--------NNLYNKVLNEGHHHHH 145

>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 = 82.6 bits (205), Expect = 3e-20
 Identities = 34/131 (25%), Positives = 62/131 (47%), Gaps = 20/131 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S   +L +DD     + I+ LL+    +V T  S ++ L                     
Sbjct: 2   SLAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFT----------------E 45

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEE 132
               +++VITD  MP ++G D+L++IK+ +    + V+I++   ++ + I   ++EGA E
Sbjct: 46  NCNSIDVVITDMKMPKLSGMDILREIKKITP--HMAVIILTGHGDLDNAIL-AMKEGAFE 102

Query: 133 FFLKPVRLSDL 143
           +  KPV   DL
Sbjct: 103 YLRKPVTAQDL 113

>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 = 82.6 bits (205), Expect = 4e-20
 Identities = 29/157 (18%), Positives = 61/157 (38%), Gaps = 21/157 (13%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKT--SSYQVTTVDSGSKALEFLGLHEDDGQSSHSVY 69
            ++ F +L ++D      ++ + L+      ++    +   A + L              
Sbjct: 5   VKNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLL-------------- 50

Query: 70  PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
                 V  ++V+ D  M GM G+ +  +IK + +  +I V+ M+       +SR +  G
Sbjct: 51  ----HTVKPDVVMLDLMMVGMDGFSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALG 106

Query: 130 AEEFFLKPVRLSDLN-KLKPHLMKTKIKDQIKQQSQQ 165
           AE  F KP+  + L   +K  + + K   +       
Sbjct: 107 AETCFGKPLNFTLLEKTIKQLVEQKKATSEGHHHHHH 143

>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 = 81.8 bits (203), Expect = 4e-20
 Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 26/133 (19%)

Query: 14  SQFHVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
            +  V  VDD  SI  R ++ER L  +    TT ++G++ L  L     D          
Sbjct: 2   QRGIVWVVDDDSSI--RWVLERALAGAGLTCTTFENGNEVLAALASKTPD---------- 49

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGA 130
                   ++++D  MPGM G  LLK+IK+      +PV+IM++  ++ + +S   ++GA
Sbjct: 50  --------VLLSDIRMPGMDGLALLKQIKQRHP--MLPVIIMTAHSDLDAAVS-AYQQGA 98

Query: 131 EEFFLKPVRLSDL 143
            ++  KP  + + 
Sbjct: 99  FDYLPKPFDIDEA 111

>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT} Length = 127

 Score = 81.4 bits (202), Expect = 6e-20
 Identities = 24/127 (18%), Positives = 45/127 (35%), Gaps = 19/127 (14%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
             L V+D     +  + LL+   +Q   V SG+ AL  +     D               
Sbjct: 5   QALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRGYD--------------- 49

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
               V  D  +P  +G  L+K+++     +    V +S         +   E  + +  K
Sbjct: 50  ---AVFIDLNLPDTSGLALVKQLRALPMEKTSKFVAVSGFAKNDLG-KEACELFDFYLEK 105

Query: 137 PVRLSDL 143
           P+ ++ L
Sbjct: 106 PIDIASL 112

>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 = 86.4 bits (215), Expect = 6e-20
 Identities = 35/167 (20%), Positives = 78/167 (46%), Gaps = 28/167 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           +VL ++D  + R L+E  L     +V + + G +A + L                   E 
Sbjct: 2   NVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLL------------------SEK 43

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
             N+V+ D  +P + G ++LK IKE S   +  V++++    + + +   ++ GA +F  
Sbjct: 44  HFNVVLLDLLLPDVNGLEILKWIKERSP--ETEVIVITGHGTIKTAV-EAMKMGAYDFLT 100

Query: 136 KPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESD---FQSP 179
           KP     L +++  + K     +++++++  + E+  + +   F+SP
Sbjct: 101 KPC---MLEEIELTINKAIEHRKLRKENELLRREKDLKEEEYVFESP 144

>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 = 81.5 bits (201), Expect = 1e-19
 Identities = 32/128 (25%), Positives = 61/128 (47%), Gaps = 13/128 (10%)

Query: 18  VLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           +  V+D+  D +LI+  L  S   ++V TV  G +A+ +L     +G+ +++  P+    
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYL---RQEGEYANASRPD---- 57

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               L++    +P   G ++L +IK   +L+ IPVV++S+      I    +     +  
Sbjct: 58  ----LILLXLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYIT 113

Query: 136 KPVRLSDL 143
           K   LS L
Sbjct: 114 KSANLSQL 121

>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} Length = 153

 Score = 81.1 bits (201), Expect = 1e-19
 Identities = 28/144 (19%), Positives = 55/144 (38%), Gaps = 22/144 (15%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHED 60
           M +     A     +  +L VD   +  + +++LL    Y +      ++AL+ L   E 
Sbjct: 1   MSLGELNVAT-VTRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE- 58

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPS 120
                            V+LVI+   +P M G  LL +I +         ++++ +    
Sbjct: 59  -----------------VDLVISAAHLPQMDGPTLLARIHQQYP--STTRILLTGDPDLK 99

Query: 121 RISRCLEEGAE-EFFLKPVRLSDL 143
            I++ + EG    +  KP    +L
Sbjct: 100 LIAKAINEGEIYRYLSKPWDDQEL 123

>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 = 80.2 bits (199), Expect = 2e-19
 Identities = 26/127 (20%), Positives = 54/127 (42%), Gaps = 19/127 (14%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYP 70
              +  VL VDD +  R L+   L+   + Q+T    G + ++ +               
Sbjct: 3   LAEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIM--------------- 47

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGA 130
               +   +LVI+D+ MP M G  LL+ ++ + + +    +I++++   + + +    GA
Sbjct: 48  ---AQNPHHLVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGA 104

Query: 131 EEFFLKP 137
                KP
Sbjct: 105 NNVLAKP 111

>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 = 84.8 bits (211), Expect = 2e-19
 Identities = 33/164 (20%), Positives = 66/164 (40%), Gaps = 30/164 (18%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL VDD       +  +L+   Y   T  +  +A + +                  +E+ 
Sbjct: 3   VLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKI------------------KELF 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFLK 136
             +++ D  MP   G + +  IKE+S   D  V++++   +V + +   +++GA EF  K
Sbjct: 45  FPVIVLDVWMPDGDGVNFIDFIKENSP--DSVVIVITGHGSVDTAVK-AIKKGAYEFLEK 101

Query: 137 PVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPS 180
           P     + +         IK   ++ S++   +E  E   + P 
Sbjct: 102 PF---SVERF-----LLTIKHAFEEYSKKAPPQEEIEFVGEHPK 137

>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 = 78.3 bits (194), Expect = 1e-18
 Identities = 33/125 (26%), Positives = 59/125 (47%), Gaps = 18/125 (14%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
               +L VDDS   R++I+  L    Y+ V   + G +A E L                 
Sbjct: 4   GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKL----------------- 46

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                  ++ITD+ MP M G DL+KK++  S  ++IP++++++E   + +   L+ G   
Sbjct: 47  DANADTKVLITDWNMPEMNGLDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNN 106

Query: 133 FFLKP 137
           + +KP
Sbjct: 107 YIVKP 111

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis} Length = 154

 Score = 78.8 bits (195), Expect = 1e-18
 Identities = 34/132 (25%), Positives = 49/132 (37%), Gaps = 21/132 (15%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
              + V+ VDD       ++RL+K     + T  S   ALE L                 
Sbjct: 5   YKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTS------------- 51

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                V LVI+D  MP M G   L+++ +S    DI  V++S           +  G   
Sbjct: 52  -----VQLVISDMRMPEMGGEVFLEQVAKSYP--DIERVVISGYADAQATIDAVNRGKIS 104

Query: 133 FFL-KPVRLSDL 143
            FL KP    D+
Sbjct: 105 RFLLKPWEDEDV 116

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Length = 142

 Score = 78.4 bits (194), Expect = 1e-18
 Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 23/128 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            V+ VD+S I    ++  L+   + V    +  +A  FL   + D               
Sbjct: 6   TVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREKID--------------- 50

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
              LV  D    G    +L+++I+E     D  V ++S+  +    I   ++ GA ++ L
Sbjct: 51  ---LVFVDV-FEGEESLNLIRRIREEFP--DTKVAVLSAYVDKDLII-NSVKAGAVDYIL 103

Query: 136 KPVRLSDL 143
           KP RL  L
Sbjct: 104 KPFRLDYL 111

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus} Length = 133

 Score = 75.7 bits (187), Expect = 1e-17
 Identities = 29/153 (18%), Positives = 57/153 (37%), Gaps = 28/153 (18%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V++S   R+ +  LL    +  TT   G+  L+                        
Sbjct: 7   VLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQ------------------QALAHP 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
            +++I+D  M GM GY L    +   +L+ IPV+ +S     +      +   + + +KP
Sbjct: 48  PDVLISDVNMDGMDGYALCGHFRSEPTLKHIPVIFVSGYAPRTEG-PADQPVPDAYLVKP 106

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEE 170
           V        KP ++  ++   + +   +     
Sbjct: 107 V--------KPPVLIAQLHALLARAEAEGHHHH 131

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB} Length = 154

 Score = 75.4 bits (186), Expect = 2e-17
 Identities = 37/168 (22%), Positives = 72/168 (42%), Gaps = 28/168 (16%)

Query: 11  VAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYP 70
           ++     +L V+DS    + ++ +L+ + YQ   V +G +A+ FL               
Sbjct: 3   LSNRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFL--------------- 47

Query: 71  NMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSEN-VPSRISRCLEEG 129
                   +L+I+D  MP M GY L + +K    LR IPV++++  +     + R LE G
Sbjct: 48  ---SLTRPDLIISDVLMPEMDGYALCRWLKGQPDLRTIPVILLTILSDPRDVV-RSLECG 103

Query: 130 AEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQ 177
           A++F  KP         K  ++ + +K  +    + ++    +     
Sbjct: 104 ADDFITKPC--------KDVVLASHVKRLLSGVKRTEERYSRESITLA 143

>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 = 74.4 bits (184), Expect = 3e-17
 Identities = 28/131 (21%), Positives = 54/131 (41%), Gaps = 22/131 (16%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
             + V  VDD    RK +  +L  + + V    S    L F     +             
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNG------------ 49

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEE 132
                 +++TD  MP M+G +LL+ + +     +IP ++++   +VP  +   ++ GA +
Sbjct: 50  ------VLVTDLRMPDMSGVELLRNLGDLKI--NIPSIVITGHGDVPMAV-EAMKAGAVD 100

Query: 133 FFLKPVRLSDL 143
           F  KP   + +
Sbjct: 101 FIEKPFEDTVI 111

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum} Length = 140

 Score = 74.6 bits (184), Expect = 3e-17
 Identities = 26/151 (17%), Positives = 51/151 (33%), Gaps = 20/151 (13%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           VL +D    +R+  + +      Y    V++  K        +                 
Sbjct: 7   VLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDS---------------- 50

Query: 77  GVNLVITDYCMP-GMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
            + L+I D   P    G ++L  I+ +S   + PV+I +  + P      L+    ++ L
Sbjct: 51  -ITLIIMDIAFPVEKEGLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYIL 109

Query: 136 KPVRLSDL-NKLKPHLMKTKIKDQIKQQSQQ 165
           KP     L N ++  L   +   +       
Sbjct: 110 KPYPTKRLENSVRSVLKICQRFREGHHHHHH 140

>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A Length = 155

 Score = 74.9 bits (185), Expect = 3e-17
 Identities = 31/128 (24%), Positives = 58/128 (45%), Gaps = 22/128 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            V  +DD    RK +++ L+ + + V++  S ++AL  L                     
Sbjct: 5   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAG--------------- 49

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEEFFL 135
              +VI+D  MPGM G  L +KI       D+P+++++   ++P  +   +++GA +F  
Sbjct: 50  ---IVISDIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAVQ-AIQDGAYDFIA 103

Query: 136 KPVRLSDL 143
           KP     L
Sbjct: 104 KPFAADRL 111

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg} Length = 141

 Score = 73.3 bits (181), Expect = 1e-16
 Identities = 30/160 (18%), Positives = 55/160 (34%), Gaps = 36/160 (22%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           +L VDD  + R  +   +   +     +   D G  A++                     
Sbjct: 5   ILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIA------------------L 46

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS----ENVPSRISRCLEEGA 130
           +   N+++TD  MP M G +L+  I +     D  V+ MS     E +       ++  A
Sbjct: 47  KHPPNVLLTDVRMPRMDGIELVDNILK--LYPDCSVIFMSGYSDKEYL----KAAIKFRA 100

Query: 131 EEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEE 170
             +  KP+  S++          +    + Q   QQ  E 
Sbjct: 101 IRYVEKPIDPSEIMD-----ALKQSIQTVLQHQAQQDSEG 135

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV} Length = 143

 Score = 73.0 bits (180), Expect = 2e-16
 Identities = 40/144 (27%), Positives = 68/144 (47%), Gaps = 21/144 (14%)

Query: 3   MAAAAAAAVAESQ-FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDD 61
           M+       A  +   +L  DD   +R +++RLL+ + ++V  V+   + L+ +   + D
Sbjct: 1   MSNPFLRHRARVRSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEEDYD 60

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKI--KESSSLRDIPVVIMSSENVP 119
                              VI D  MPGM G D+LK++   ++S +R  PVV++S++  P
Sbjct: 61  ------------------AVIVDLHMPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTP 102

Query: 120 SRISRCLEEGAEEFFLKPVRLSDL 143
             I  C + GA  F  KPV  + L
Sbjct: 103 EAIRACEQAGARAFLAKPVVAAKL 126

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP} Length = 140

 Score = 72.2 bits (178), Expect = 2e-16
 Identities = 23/143 (16%), Positives = 48/143 (33%), Gaps = 28/143 (19%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDG 62
           M+ A           +L  +D     +L+  +L+   +    V S ++ALE +       
Sbjct: 1   MSLAPRP-------RILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVARRPYA- 52

Query: 63  QSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPS 120
                             +  D  +P   G  L++ ++  S  RD+ +V++S  +     
Sbjct: 53  -----------------AMTVDLNLPDQDGVSLIRALRRDSRTRDLAIVVVSANAREGEL 95

Query: 121 RISRCLEEGAEEFFLKPVRLSDL 143
                       +  KP+  + L
Sbjct: 96  EF-NSQPLAVSTWLEKPIDENLL 117

>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 = 71.4 bits (176), Expect = 3e-16
 Identities = 31/126 (24%), Positives = 54/126 (42%), Gaps = 18/126 (14%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D+ ++ KL   LL+   Y+      G  AL     ++ D                
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENKPD---------------- 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L++ D  +P ++G ++ K +KE   L  IPVV +++  +     R  E G E +  KP
Sbjct: 48  --LILMDIQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKP 105

Query: 138 VRLSDL 143
           + +   
Sbjct: 106 ISVVHF 111

>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 = 71.1 bits (175), Expect = 6e-16
 Identities = 35/157 (22%), Positives = 65/157 (41%), Gaps = 22/157 (14%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S   +L +D     R  ++  L  S Y V    +  +ALE +  H  D            
Sbjct: 2   SLKKILIIDQQDFSRIELKNFLD-SEYLVIESKNEKEALEQIDHHHPD------------ 48

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEE 132
                 LVI D  + G    +L  K+K S  L+++P++++ S E+  + +   L  GA++
Sbjct: 49  ------LVILDMDIIGENSPNLCLKLKRSKGLKNVPLILLFSSEHKEAIV-NGLHSGADD 101

Query: 133 FFLKPVRLSDLN-KLKPHLMKTKIKDQIKQQSQQQQE 168
           +  KP   +DL  +++ HL        +++       
Sbjct: 102 YLTKPFNRNDLLSRIEIHLRTQNYYSDLRKNEGHHHH 138

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} Length = 135

 Score = 70.7 bits (174), Expect = 9e-16
 Identities = 26/162 (16%), Positives = 51/162 (31%), Gaps = 34/162 (20%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S   V  VDD  +   L++ +++     V       +A   L L++ D            
Sbjct: 2   SLNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQ-HPRAFLTLSLNKQD------------ 48

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRIS---RCLEE 128
                 ++I D  MP M G ++++ + E  S     ++++S     V             
Sbjct: 49  ------IIILDLMMPDMDGIEVIRHLAEHKS--PASLILISGYDSGVLHSAETLALSCGL 100

Query: 129 GAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEE 170
                F KP+    L           +     +Q++      
Sbjct: 101 NVINTFTKPINTEVL--------TCFLTSLSNRQAEGHHHHH 134

>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HU; nucleotide-binding, transcription regulation; 2.10A {Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B Length = 139

 Score = 70.2 bits (173), Expect = 1e-15
 Identities = 21/97 (21%), Positives = 36/97 (37%), Gaps = 21/97 (21%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD       ++  L+   + V T      A+  L                      
Sbjct: 4   ILLVDDEPHSLAAMKLALE-DDFDVLTAQGAEAAIAILEEEW------------------ 44

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS 114
           V ++I D  MPG TG D L +++E     +   +I++
Sbjct: 45  VQVIICDQRMPGRTGVDFLTEVRERWP--ETVRIIIT 79

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica} Length = 151

 Score = 70.3 bits (173), Expect = 1e-15
 Identities = 31/163 (19%), Positives = 68/163 (41%), Gaps = 27/163 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD       ++R L    ++VTT +SG +AL  +   +                 
Sbjct: 6   RILLVDDDYSLLNTLKRNLS-FDFEVTTCESGPEALACIKKSDP---------------- 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG-AEEFFL 135
             ++++ D  MPGM G ++++K +  S   +   ++++     +     + EG    F  
Sbjct: 49  -FSVIMVDMRMPGMEGTEVIQKARLISP--NSVYLMLTGNQDLTTAMEAVNEGQVFRFLN 105

Query: 136 KPVRLSDL-----NKLKPHLMKTKIKDQIKQQSQQQQEEESDE 173
           KP ++SD+       +K + + T  + ++ +++      E   
Sbjct: 106 KPCQMSDIKAAINAGIKQYDLVTSKE-ELLKKTFAGAISEGHH 147

>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 = 70.8 bits (174), Expect = 3e-15
 Identities = 32/130 (24%), Positives = 56/130 (43%), Gaps = 20/130 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           ++  V  VDD +  R+ +  LL+++ ++V T D  S  LE     +              
Sbjct: 3   AKPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHG------------ 50

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
                  ++ D  MPGM+G +L +++   S    IP+V +++        R ++ GA EF
Sbjct: 51  ------CLVLDMRMPGMSGIELQEQLTAISD--GIPIVFITAHGDIPMTVRAMKAGAIEF 102

Query: 134 FLKPVRLSDL 143
             KP     L
Sbjct: 103 LPKPFEEQAL 112

>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 = 69.4 bits (170), Expect = 4e-15
 Identities = 12/127 (9%), Positives = 36/127 (28%), Gaps = 17/127 (13%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           ++L   +       + RL+  +     T   G  A         D               
Sbjct: 22  NILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTDGLDA-------------- 67

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             ++++ D           ++K+        +  ++++++     +   +  G  +    
Sbjct: 68  -FDILMIDGAALDTAELAAIEKLSRLHP--GLTCLLVTTDASSQTLLDAMRAGVRDVLRW 124

Query: 137 PVRLSDL 143
           P+    L
Sbjct: 125 PLEPRAL 131

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901} Length = 140

 Score = 68.8 bits (169), Expect = 5e-15
 Identities = 26/156 (16%), Positives = 52/156 (33%), Gaps = 22/156 (14%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
               +L V+DS    K I  +L    Y V    +G  A+E +                  
Sbjct: 4   KDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKV-----------------S 46

Query: 74  QEVGVNLVITDYCMPG-MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                +L++ D  +   M G      I++ S   ++PVV +++   P+ + +     A  
Sbjct: 47  GGWYPDLILMDIELGEGMDGVQTALAIQQIS---ELPVVFLTAHTEPAVVEKIRSVTAYG 103

Query: 133 FFLKPVRLSDLN-KLKPHLMKTKIKDQIKQQSQQQQ 167
           + +K      L   ++  L   +      +      
Sbjct: 104 YVMKSATEQVLITIVEMALRLYEANVHANEGHHHHH 139

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans} Length = 147

 Score = 68.8 bits (169), Expect = 5e-15
 Identities = 27/162 (16%), Positives = 56/162 (34%), Gaps = 30/162 (18%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           ++ VD  +         L    + +    +  +A+                   +  +  
Sbjct: 11  IMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVP------------------VAVKTH 52

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRISRCLEEGAEEFFL 135
            +L+IT+  MP ++G DL   +K++     IPV+ +S  +        + L+ G  +F  
Sbjct: 53  PHLIITEANMPKISGMDLFNSLKKNPQTASIPVIALSGRAT-AKEEA-QLLDMGFIDFIA 110

Query: 136 KPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQ 177
           KPV            +  +IK  +K   +      + E    
Sbjct: 111 KPV--------NAIRLSARIKRVLKLLYEDLSAPPAREGHHH 144

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus} Length = 119

 Score = 67.5 bits (166), Expect = 8e-15
 Identities = 21/121 (17%), Positives = 46/121 (38%), Gaps = 21/121 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H+L +++      ++  +L  + ++V  +  GS AL+ L L +                 
Sbjct: 3   HILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDLLQPI--------------- 47

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +++  +  P  +   LL+ ++E  +    P+V+   E     +   L   A     K
Sbjct: 48  ---VILMAWPPPDQSCLLLLQHLREHQADPHPPLVLFLGE---PPVDPLLTAQASAILSK 101

Query: 137 P 137
           P
Sbjct: 102 P 102

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis} Length = 140

 Score = 68.0 bits (167), Expect = 1e-14
 Identities = 33/164 (20%), Positives = 59/164 (35%), Gaps = 35/164 (21%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S   ++ VDD+      ++ LLK    +V T+ S       L     +            
Sbjct: 2   SLGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREENPE------------ 49

Query: 74  QEVGVNLVITDYCMP-----GMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLE 127
                 +V+ D         G  G   L +IK      D+PVV+ ++  ++   +   ++
Sbjct: 50  ------VVLLDMNFTSGINNGNEGLFWLHEIKRQYR--DLPVVLFTAYADIDLAVR-GIK 100

Query: 128 EGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEES 171
           EGA +F +KP    D  KL        + +   Q    ++E   
Sbjct: 101 EGASDFVVKPW---DNQKL-----LETLLNAASQAKDGKKEGHH 136

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae} Length = 132

 Score = 67.6 bits (166), Expect = 1e-14
 Identities = 27/137 (19%), Positives = 50/137 (36%), Gaps = 28/137 (20%)

Query: 11  VAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYP 70
           ++     +L  DD  I     E  L  + + VT V SG+KA+E L               
Sbjct: 1   MSLEAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGAA---------- 50

Query: 71  NMHQEVGVNLVITDYCMP-GMTGYDLLKKIKESSSLR-DIPVVIMS--SENVPSRISRCL 126
                  ++ V+TD        G+ + +  +E   +  ++P+V +S  +       S  +
Sbjct: 51  -------IDGVVTDIRFCQPPDGWQVARVARE---IDPNMPIVYISGHAAL--EWASNGV 98

Query: 127 EEGAEEFFLKPVRLSDL 143
            +       KP   + L
Sbjct: 99  PDSI--ILEKPFTSAQL 113

>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 = 69.8 bits (171), Expect = 1e-14
 Identities = 37/141 (26%), Positives = 61/141 (43%), Gaps = 20/141 (14%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDG 62
           + +   A        +L VDD  I+R+L+   L +  YQ  T + G  AL  L  +  D 
Sbjct: 117 LPSTDKAVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHID- 175

Query: 63  QSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRI 122
                            +V++D  MP M GY L ++I++      +PV+ +++  +    
Sbjct: 176 -----------------IVLSDVNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEK 216

Query: 123 SRCLEEGAEEFFLKPVRLSDL 143
            RCLE G +    KPV L  +
Sbjct: 217 QRCLESGMDSCLSKPVTLDVI 237

>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 = 66.3 bits (162), Expect = 4e-14
 Identities = 25/130 (19%), Positives = 48/130 (36%), Gaps = 20/130 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S   +L VDD        +++L+   Y+V    +  + L  +                  
Sbjct: 2   SLKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKI------------------ 43

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
           +    NL +    +P M G +LL+K  +      +  ++++           L  GA+ +
Sbjct: 44  ENEFFNLALFXIKLPDMEGTELLEKAHKLRP--GMKKIMVTGYASLENSVFSLNAGADAY 101

Query: 134 FLKPVRLSDL 143
            +KPV   DL
Sbjct: 102 IMKPVNPRDL 111

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12} Length = 130

 Score = 65.6 bits (161), Expect = 5e-14
 Identities = 38/131 (29%), Positives = 55/131 (41%), Gaps = 24/131 (18%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+D  + R L++    +          G  ALE LG    D               
Sbjct: 9   QILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPD--------------- 53

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEFFL 135
              L+I D  MP M G  LL+ I+        PV+++S+ EN+     + L  G E+  L
Sbjct: 54  ---LMICDIAMPRMNGLKLLEHIRNRGD--QTPVLVISATENMADIA-KALRLGVEDVLL 107

Query: 136 KPVRLSDLNKL 146
           KPV   DLN+L
Sbjct: 108 KPV--KDLNRL 116

>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 = 66.9 bits (164), Expect = 6e-14
 Identities = 18/131 (13%), Positives = 52/131 (39%), Gaps = 22/131 (16%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S  + L +DD+ +    + R L+   Y V    +  +AL+  G  + +            
Sbjct: 6   SDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAEKFE------------ 53

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEE 132
                  +     +   +G  L+  + +     D  +++++   ++ + + + +++GA+ 
Sbjct: 54  ------FITVXLHLGNDSGLSLIAPLCDLQP--DARILVLTGYASIATAV-QAVKDGADN 104

Query: 133 FFLKPVRLSDL 143
           +  KP  +  +
Sbjct: 105 YLAKPANVESI 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 = 64.8 bits (159), Expect = 8e-14
 Identities = 28/127 (22%), Positives = 61/127 (48%), Gaps = 21/127 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           VL VDD+   R +++ ++  + Y+V     +G +A+E                   ++E+
Sbjct: 5   VLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVE------------------KYKEL 46

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             ++V  D  MP M G D +K+I +     +  +++ S+    + +   ++ GA++F +K
Sbjct: 47  KPDIVTMDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVK 104

Query: 137 PVRLSDL 143
           P + S +
Sbjct: 105 PFQPSRV 111

>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 = 65.3 bits (160), Expect = 9e-14
 Identities = 36/160 (22%), Positives = 63/160 (39%), Gaps = 30/160 (18%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           S + +L VDDS +   +   +L+   Y+  T  SG + LE L                  
Sbjct: 2   SLYTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEAL------------------ 43

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRISRCLEEGAE 131
                +LV+ D  M  M G++ L++IK   + RDIPV++++      P           E
Sbjct: 44  NATPPDLVLLDIMMEPMDGWETLERIKTDPATRDIPVLMLTAKPL-TPEEA-NEYGSYIE 101

Query: 132 EFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEES 171
           ++ LKP           H +   I+  + ++     +E  
Sbjct: 102 DYILKPT--------THHQLYEAIEHVLARRHSIAADEGH 133

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti} Length = 135

 Score = 65.4 bits (160), Expect = 9e-14
 Identities = 18/143 (12%), Positives = 41/143 (28%), Gaps = 21/143 (14%)

Query: 2   GMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSS-YQVTTVDSGSKALEFLGLHED 60
           GM A         +  V         ++ +   L   + Y V   ++             
Sbjct: 1   GMNAINTKVTPTKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADTRP 60

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPS 120
                              +VI D     + G   + + +   +   +P++ +S E    
Sbjct: 61  G------------------IVILDLGGGDLLGKPGIVEARALWA--TVPLIAVSDELTSE 100

Query: 121 RISRCLEEGAEEFFLKPVRLSDL 143
           +    +   A ++  KP+   +L
Sbjct: 101 QTRVLVRMNASDWLHKPLDGKEL 123

>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 = 64.4 bits (157), Expect = 1e-13
 Identities = 37/127 (29%), Positives = 58/127 (45%), Gaps = 18/127 (14%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL VDDS + RK++   LK   Y+V   ++G  ALE L                   E 
Sbjct: 4   KVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKL------------------SEF 45

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++    MP M G+ +LKK++E    + IPV++++++      S  L  GA +   K
Sbjct: 46  TPDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRK 105

Query: 137 PVRLSDL 143
           P   S  
Sbjct: 106 PFSPSQF 112

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1} Length = 142

 Score = 64.5 bits (158), Expect = 2e-13
 Identities = 28/128 (21%), Positives = 61/128 (47%), Gaps = 22/128 (17%)

Query: 12  AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           AE +  V+ VDD    R  ++ +L  + + + + DSG + ++ L                
Sbjct: 4   AEHKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLL---------------- 47

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRISRCLEEG 129
             ++    +V+ D  MPGM G+D ++ I ++S  + I +V+++  +    +++   L+E 
Sbjct: 48  --KKGFSGVVLLDIMMPGMDGWDTIRAILDNSLEQGIAIVMLTAKNAPD-AKM-IGLQEY 103

Query: 130 AEEFFLKP 137
             ++  KP
Sbjct: 104 VVDYITKP 111

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2 Length = 136

 Score = 64.1 bits (157), Expect = 2e-13
 Identities = 31/130 (23%), Positives = 52/130 (40%), Gaps = 22/130 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL +D++ + R + + LL     +VTTV S  + L  +                     
Sbjct: 9   KVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHEHK---------------- 52

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKE---SSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
              +V  D CMPG+  Y +  +I E       +   +V +S     S   +C+  G +  
Sbjct: 53  ---VVFMDVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGV 109

Query: 134 FLKPVRLSDL 143
            LKPV L ++
Sbjct: 110 LLKPVSLDNI 119

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp} Length = 140

 Score = 63.0 bits (154), Expect = 8e-13
 Identities = 25/167 (14%), Positives = 56/167 (33%), Gaps = 30/167 (17%)

Query: 1   MGMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHE 59
           M + A+           VL V+D  +    +   L++  Y V    D+G +A+       
Sbjct: 1   MSLTASDDLP------GVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLR 54

Query: 60  DDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MTGYDLLKKIKESSSLRDIPVVIMSSENV 118
            D                  + + D  + G + G +   ++       ++P++ ++S   
Sbjct: 55  PD------------------IALVDIMLCGALDGVETAARLAAGC---NLPIIFITSSQD 93

Query: 119 PSRISRCLEEGAEEFFLKPVRLSDLN-KLKPHLMKTKIKDQIKQQSQ 164
                R        +  KPV    L+  ++  + K K+++       
Sbjct: 94  VETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKKKLEEGHHHHHH 140

>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 = 61.8 bits (151), Expect = 2e-12
 Identities = 33/163 (20%), Positives = 60/163 (36%), Gaps = 32/163 (19%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHED 60
           M  +       S ++V+ VDD+ + R  I   +     ++V     +G +AL+       
Sbjct: 1   MRGSHHHHHHGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDK------ 54

Query: 61  DGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS---EN 117
                      +  +  V+L++ D  MP M G + L+  K         + ++SS     
Sbjct: 55  -----------LAAQPNVDLILLDIEMPVMDGMEFLRHAKL---KTRAKICMLSSVAVSG 100

Query: 118 VPSRIS-RCLEEGAEEFFLKP---VRLSDLNKLKPHLMKTKIK 156
             S  + R  E GA+    KP   V      K    L +  ++
Sbjct: 101 --SPHAARARELGADGVVAKPSGTVSHDLEEKTGGELAR-TMR 140

>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 = 3e-12
 Identities = 30/140 (21%), Positives = 56/140 (40%), Gaps = 22/140 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            VL V+D+  D  LI R+L       Q+  VD+G+KAL  +   + D             
Sbjct: 7   RVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQAKYD------------- 53

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                L+I D  +P   G++++  +++  + +  P+VI++      R  +C+  GA    
Sbjct: 54  -----LIILDIGLPIANGFEVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVV 108

Query: 135 LKPVRLSD--LNKLKPHLMK 152
            K          ++      
Sbjct: 109 DKSSNNVTDFYGRIYAIFSY 128

>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A Length = 123

 Score = 60.5 bits (148), Expect = 4e-12
 Identities = 20/100 (20%), Positives = 42/100 (42%), Gaps = 22/100 (22%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
              H+L V+D ++ R  ++ + +   Y V     G++  + L                  
Sbjct: 2   QTPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQIL------------------ 43

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
            E  +NLVI D  +PG  G  L ++++E +   ++  ++ 
Sbjct: 44  SEYDINLVIMDINLPGKNGLLLARELREQA---NVA-LMF 79

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} Length = 136

 Score = 60.7 bits (148), Expect = 4e-12
 Identities = 23/131 (17%), Positives = 46/131 (35%), Gaps = 28/131 (21%)

Query: 18  VLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           +  VD       R  + +LL      +    S   A  F+     D              
Sbjct: 9   IYLVDHQKDA--RAALSKLLSPLDVTIQCFAS---AESFMRQQISDDAI----------- 52

Query: 76  VGVNLVITDYCMPGM--TGYDLLKKIKESSSLRDIPVVIMSSE-NVPSRISRCLEEGAEE 132
                +I +  +     +G +LL+ + +      +P ++M+S  ++P+ + R +   A +
Sbjct: 53  ----GMIIEAHLEDKKDSGIELLETLVKRGF--HLPTIVMASSSDIPTAV-RAMRASAAD 105

Query: 133 FFLKPVRLSDL 143
           F  KP     L
Sbjct: 106 FIEKPFIEHVL 116

>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 = 62.9 bits (154), Expect = 8e-12
 Identities = 38/148 (25%), Positives = 63/148 (42%), Gaps = 34/148 (22%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           VL+VDDS + R+++  ++   S  ++  T      A + +     D              
Sbjct: 6   VLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFNPD-------------- 51

Query: 76  VGVNLVIT-DYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS---ENVPSRIS-RCLEEGA 130
                V+T D  MP M G D L+K+     LR +PVV++SS   +   S ++ R LE GA
Sbjct: 52  -----VLTLDVEMPRMDGLDFLEKLMR---LRPMPVVMVSSLTGKG--SEVTLRALELGA 101

Query: 131 EEFFLKPVRLS--DLNKLKPHLMKTKIK 156
            +F  KP       +      +   K++
Sbjct: 102 IDFVTKPQLGIREGMLAYSEMIA-EKVR 128

>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 = 60.9 bits (148), Expect = 1e-11
 Identities = 35/142 (24%), Positives = 57/142 (40%), Gaps = 22/142 (15%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDD 61
           M      A A     VL  +D  + R  +  +L+   Y++      G +A+E   LH+ D
Sbjct: 1   MTGPTTDADAAVPRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPD 60

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSR 121
                             LVI D  MP   G D   +I      R  P+V++++ +    
Sbjct: 61  ------------------LVIMDVKMPRRDGIDAASEIASK---RIAPIVVLTAFSQRDL 99

Query: 122 ISRCLEEGAEEFFLKPVRLSDL 143
           + R  + GA  + +KP  +SDL
Sbjct: 100 VERARDAGAMAYLVKPFSISDL 121

>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 = 59.5 bits (144), Expect = 2e-11
 Identities = 28/127 (22%), Positives = 53/127 (41%), Gaps = 19/127 (14%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           VL VDDS+   K + ++  +  + +  T   G +A+     H  +               
Sbjct: 39  VLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYPN--------------- 83

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
            +++V     MP M G   L  I E     +  V+++S+      +  CL +GA+ F +K
Sbjct: 84  -IDIVTLXITMPKMDGITCLSNIMEFDK--NARVIMISALGKEQLVKDCLIKGAKTFIVK 140

Query: 137 PVRLSDL 143
           P+  + +
Sbjct: 141 PLDRAKV 147

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima} Length = 164

 Score = 59.2 bits (144), Expect = 2e-11
 Identities = 37/147 (25%), Positives = 58/147 (39%), Gaps = 32/147 (21%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           VL VDDS   R +++ ++      +V      G +A+E     + D              
Sbjct: 28  VLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIELKPD-------------- 73

Query: 76  VGVNLVIT-DYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS---ENVPSRISRCLEEGAE 131
                VIT D  MP + G + LK I +        V+++SS   E     I   L  GA 
Sbjct: 74  -----VITMDIEMPNLNGIEALKLIMK---KAPTRVIMVSSLTEEGAAITI-EALRNGAV 124

Query: 132 EFFLKP--VRLSDLNKLKPHLMKTKIK 156
           +F  KP         ++ P L++ KI+
Sbjct: 125 DFITKPHGSISLTFRQVAPELLE-KIR 150

>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 = 60.2 bits (146), Expect = 5e-11
 Identities = 30/143 (20%), Positives = 52/143 (36%), Gaps = 25/143 (17%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDD 61
           +  A A   AE    VL ++D  +    IE L++   + VT    +  +ALE +      
Sbjct: 148 IGDAQAEIDAELATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRTPG 207

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMP-GMTGYDLLKKIKESSSLRDIPVVIMSSENVPS 120
                             LV+ D  +  G +G D +K I       D+PV+ +++   P 
Sbjct: 208 ------------------LVLADIQLADGSSGIDAVKDILGRM---DVPVIFITAF--PE 244

Query: 121 RISRCLEEGAEEFFLKPVRLSDL 143
           R+             KP +   +
Sbjct: 245 RLLTGERPEPTFLITKPFQPETV 267

>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 = 57.0 bits (139), Expect = 7e-11
 Identities = 21/99 (21%), Positives = 45/99 (45%), Gaps = 26/99 (26%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L VDD   I    ++E  L+   Y+V     G++A+E +                  +
Sbjct: 4   KILVVDDEKPI--ADILEFNLRKEGYEVHCAHDGNEAVEMV------------------E 43

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
           E+  +L++ D  +P   G ++ +++++     D+P +IM
Sbjct: 44  ELQPDLILLDIMLPNKDGVEVCREVRKKY---DMP-IIM 78

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A Length = 127

 Score = 57.1 bits (139), Expect = 8e-11
 Identities = 23/122 (18%), Positives = 49/122 (40%), Gaps = 20/122 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L V+        +   L+   + V     G  ++E                    +  
Sbjct: 7   KILIVESDTALSATLRSALEGRGFTVDETTDGKGSVE------------------QIRRD 48

Query: 77  GVNLVITDYCM-PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
             +LV+    +  G  GY +  K+K+   L+++P+VI+ + +  ++  R L+  A+E+  
Sbjct: 49  RPDLVVLAVDLSAGQNGYLICGKLKKDDDLKNVPIVIIGNPDGFAQH-RKLKAHADEYVA 107

Query: 136 KP 137
           KP
Sbjct: 108 KP 109

>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 = 59.3 bits (143), Expect = 9e-11
 Identities = 31/141 (21%), Positives = 57/141 (40%), Gaps = 20/141 (14%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDG 62
           + A         +  VL VDD     +L+   LK   ++V T  +G++AL+       D 
Sbjct: 11  VTAGTPGENTTPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETRPD- 69

Query: 63  QSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRI 122
                             VI D  MPGM G+ +L++++      D P + +++ +     
Sbjct: 70  -----------------AVILDVXMPGMDGFGVLRRLRADGI--DAPALFLTARDSLQDK 110

Query: 123 SRCLEEGAEEFFLKPVRLSDL 143
              L  G +++  KP  L ++
Sbjct: 111 IAGLTLGGDDYVTKPFSLEEV 131

>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 = 56.7 bits (138), Expect = 1e-10
 Identities = 31/127 (24%), Positives = 55/127 (43%), Gaps = 30/127 (23%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L V+D   I  R+++  +L+ + +Q    +    A+  L                   
Sbjct: 4   RILVVEDEAPI--REMVCFVLEQNGFQPVEAEDYDSAVNQL------------------N 43

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM----SSENVPSRISRCLEEGA 130
           E   +L++  + +PG +G   +K ++  S  RDIP V+M      E    R+ R LE GA
Sbjct: 44  EPWPDLILLAWMLPGGSGIQFIKHLRRESMTRDIP-VVMLTARGEEE--DRV-RGLETGA 99

Query: 131 EEFFLKP 137
           ++   KP
Sbjct: 100 DDCITKP 106

>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 = 56.3 bits (137), Expect = 1e-10
 Identities = 18/97 (18%), Positives = 38/97 (39%), Gaps = 22/97 (22%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H++ V+D  + +  ++       Y V+   SG+   E +                  Q  
Sbjct: 4   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM------------------QNQ 45

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
            V+L++ D  +P   G  L + ++E S    +  +I+
Sbjct: 46  SVDLILLDINLPDENGLMLTRALRERS---TVG-IIL 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 = 56.3 bits (137), Expect = 1e-10
 Identities = 22/99 (22%), Positives = 43/99 (43%), Gaps = 26/99 (26%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L VDD   I    +I+  +    Y+V T  +G +ALE                    +
Sbjct: 3   KILIVDDEKPI--SDIIKFNMTKEGYEVVTAFNGREALEQF------------------E 42

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
               +++I D  +P + G ++ K I+++S    +P ++M
Sbjct: 43  AEQPDIIILDLMLPEIDGLEVAKTIRKTS---SVP-ILM 77

>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 = 56.4 bits (137), Expect = 1e-10
 Identities = 30/140 (21%), Positives = 59/140 (42%), Gaps = 36/140 (25%)

Query: 2   GMAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDD 61
           GM              +L VDD     +++E +L+ + Y+V    SG +AL+ +      
Sbjct: 1   GMKPH----------TLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQI------ 44

Query: 62  GQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM----SSEN 117
                        +   + +I D  +PG+ GY L K++++    + +P ++M       +
Sbjct: 45  ------------YKNLPDALICDVLLPGIDGYTLCKRVRQHPLTKTLP-ILMLTAQGDIS 91

Query: 118 VPSRISRCLEEGAEEFFLKP 137
             ++I    E GA ++  KP
Sbjct: 92  --AKI-AGFEAGANDYLAKP 108

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A* Length = 116

 Score = 55.5 bits (135), Expect = 2e-10
 Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 25/99 (25%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L VDD  +I  R+L++  L+   Y++ T ++G +AL+                     
Sbjct: 3   RILVVDDEPNI--RELLKEELQEEGYEIDTAENGEEALKKF------------------F 42

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
               +LVI D  MPG++G ++  +I++     D   +I+
Sbjct: 43  SGNYDLVILDIEMPGISGLEVAGEIRKKKK--DAK-IIL 78

>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 = 55.3 bits (134), Expect = 4e-10
 Identities = 20/100 (20%), Positives = 35/100 (35%), Gaps = 19/100 (19%)

Query: 15  QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            F V  V+D      LI+  L     +VT   SGS   +                     
Sbjct: 15  PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLST-------------- 60

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS 114
               +L+I    +  ++ + LL  +KE +      V+I++
Sbjct: 61  ---CDLLIVSDQLVDLSIFSLLDIVKEQTK--QPSVLILT 95

>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 = 56.4 bits (137), Expect = 6e-10
 Identities = 26/99 (26%), Positives = 42/99 (42%), Gaps = 26/99 (26%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            VL V+D  S+     +  LL+   ++ T V  G  AL                      
Sbjct: 6   SVLIVEDEESL--ADPLAFLLRKEGFEATVVTDGPAALA------------------EFD 45

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
             G ++V+ D  +PGM+G D+ K+++  S    +P VIM
Sbjct: 46  RAGADIVLLDLMLPGMSGTDVCKQLRARS---SVP-VIM 80

>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 = 54.4 bits (132), Expect = 7e-10
 Identities = 25/124 (20%), Positives = 54/124 (43%), Gaps = 27/124 (21%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           +VL V+D  +I  R+ +   L+    +V   ++  + L      + D             
Sbjct: 3   NVLIVEDEQAI--RRFLRTALEGDGMRVFEAETLQRGLLEAATRKPD------------- 47

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEF 133
                L+I D  +P   G + ++ +++ S    +PV+++S+      +I   L+ GA+++
Sbjct: 48  -----LIILDLGLPDGDGIEFIRDLRQWS---AVPVIVLSARSEESDKI-AALDAGADDY 98

Query: 134 FLKP 137
             KP
Sbjct: 99  LSKP 102

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri} Length = 132

 Score = 54.5 bits (132), Expect = 7e-10
 Identities = 27/122 (22%), Positives = 51/122 (41%), Gaps = 21/122 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD       IER+LK   +QV    +G  A   L   E                 
Sbjct: 8   RILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTFEPA--------------- 52

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEFFL 135
              ++  D  MP + G D+++ ++++    + P +++ S  +      + + EGA+++  
Sbjct: 53  ---IMTLDLSMPKLDGLDVIRSLRQNKV-ANQPKILVVSGLDKAKLQ-QAVTEGADDYLE 107

Query: 136 KP 137
           KP
Sbjct: 108 KP 109

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile} Length = 136

 Score = 54.4 bits (132), Expect = 9e-10
 Identities = 19/123 (15%), Positives = 47/123 (38%), Gaps = 25/123 (20%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L +D    + + ++  L+     +    +  +A+  +                     
Sbjct: 6   KILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKI------------------FSN 47

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRISRCLEEGAEEFF 134
             +L+  +  +    G+ L KKI+  +     P+V M+  +E+  S +   L  G +++ 
Sbjct: 48  KYDLIFLEIILSDGDGWTLCKKIRNVT---TCPIVYMTYINEDQ-SIL-NALNSGGDDYL 102

Query: 135 LKP 137
           +KP
Sbjct: 103 IKP 105

>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 = 53.7 bits (130), Expect = 1e-09
 Identities = 29/131 (22%), Positives = 57/131 (43%), Gaps = 15/131 (11%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           +   +L V+D+ +++++I+R+L     + +     G +A + +      G++    Y   
Sbjct: 1   TSVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGEN----Y--- 53

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE 132
                 N++  D  MP + G    K I+        P+V +++    S I  CLE G   
Sbjct: 54  ------NMIFMDVQMPKVDGLLSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNG 106

Query: 133 FFLKPVRLSDL 143
           F  KP++   L
Sbjct: 107 FLSKPIKRPKL 117

>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 = 55.2 bits (134), Expect = 2e-09
 Identities = 21/99 (21%), Positives = 44/99 (44%), Gaps = 26/99 (26%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L VDD  S+   +++  +L+   +    +  G++AL                     +
Sbjct: 7   RILVVDDDASL--AEMLTIVLRGEGFDTAVIGDGTQALT------------------AVR 46

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
           E+  +LV+ D  +PGM G D+ + ++  S    +P ++M
Sbjct: 47  ELRPDLVLLDLMLPGMNGIDVCRVLRADS---GVP-IVM 81

>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 = 53.3 bits (129), Expect = 2e-09
 Identities = 22/99 (22%), Positives = 42/99 (42%), Gaps = 25/99 (25%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L VDD  SI    L++  L+ S Y V T   G +AL+                    +
Sbjct: 5   KILVVDDEESI--VTLLQYNLERSGYDVITASDGEEALK------------------KAE 44

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIM 113
               +L++ D  +P + G ++ K++++       P ++M
Sbjct: 45  TEKPDLIVLDVMLPKLDGIEVCKQLRQQKL--MFP-ILM 80

>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 = 51.3 bits (123), Expect = 3e-08
 Identities = 36/167 (21%), Positives = 63/167 (37%), Gaps = 14/167 (8%)

Query: 4   AAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDG 62
            +  +         VL VDD+ I RK+    LK     +V   DSG +AL  +       
Sbjct: 50  TSKPSDDEFLRGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQR 109

Query: 63  QSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKI--KESSSLRDIPVVIMSSENVPS 120
           +   SV          + +  D  MP M GY+  ++I   E S     P++ +S  +  S
Sbjct: 110 EEQGSVDKL-----PFDYIFMDCQMPEMDGYEATREIRKVEKSYGVRTPIIAVSGHDPGS 164

Query: 121 -RISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQ 166
                 ++ G + F  K +     N+L   + + + K  ++      
Sbjct: 165 EEARETIQAGMDAFLDKSL-----NQLANVIREIESKRHLEHHHHHH 206

>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 = 51.3 bits (124), Expect = 4e-08
 Identities = 27/125 (21%), Positives = 53/125 (42%), Gaps = 31/125 (24%)

Query: 17  HVLAVDD--SIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +  VDD  +I   K +   L+     V T  +G   L                      
Sbjct: 4   KIAVVDDDKNI--LKKVSEKLQQLGR-VKTFLTGEDFLN--------------------D 40

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMS--SENVPSRISRCLEEGAEE 132
           E   ++V+ D  +P  +GY++ + IKE+    +  V++++  S++  S + +  E GA++
Sbjct: 41  EEAFHVVVLDVMLPDYSGYEICRMIKETRP--ETWVILLTLLSDDE-SVL-KGFEAGADD 96

Query: 133 FFLKP 137
           +  KP
Sbjct: 97  YVTKP 101

>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 = 49.4 bits (119), Expect = 4e-08
 Identities = 23/128 (17%), Positives = 58/128 (45%), Gaps = 22/128 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL V+D+ + R  ++  ++ + +QV   +   +A  +L  H  D               
Sbjct: 2   RVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPD--------------- 46

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEFFL 135
              + I D  +P   G  L+++ + +     +P++++++ E+   ++   L  GA+++  
Sbjct: 47  ---IAIVDLGLPDEDGLSLIRRWRSND--VSLPILVLTARESWQDKV-EVLSAGADDYVT 100

Query: 136 KPVRLSDL 143
           KP  + ++
Sbjct: 101 KPFHIEEV 108

>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 = 49.0 bits (118), Expect = 3e-07
 Identities = 33/128 (25%), Positives = 60/128 (46%), Gaps = 22/128 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL VDD       +ER L+ S ++V T   G++AL     +  D               
Sbjct: 9   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENRPD--------------- 53

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEFFL 135
               ++ D  MP + G  ++  ++   +  D+PV ++S+  +V  R+   LE GA+++ +
Sbjct: 54  ---AIVLDINMPVLDGVSVVTALRAMDN--DVPVCVLSARSSVDDRV-AGLEAGADDYLV 107

Query: 136 KPVRLSDL 143
           KP  L++L
Sbjct: 108 KPFVLAEL 115

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae} Length = 143

 Score = 46.8 bits (112), Expect = 5e-07
 Identities = 28/162 (17%), Positives = 58/162 (35%), Gaps = 43/162 (26%)

Query: 18  VLAVDDSIIDRKLIERLL-KTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           V+ V+D  + ++ +  L+   S  ++  + D G   L+FL  ++                
Sbjct: 12  VIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQHNK---------------- 55

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRIS-------RCLEE 128
             V+ +  D  +P + G  L + I +       P ++         I+          E 
Sbjct: 56  --VDAIFLDINIPSLDGVLLAQNISQ---FAHKPFIVF--------ITAWKEHAVEAFEL 102

Query: 129 GAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEE 170
            A ++ LKP + S +       M  K+    +QQ+   +   
Sbjct: 103 EAFDYILKPYQESRIIN-----MLQKLTTAWEQQNNAAEGHH 139

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} Length = 249

 Score = 48.3 bits (116), Expect = 5e-07
 Identities = 23/125 (18%), Positives = 56/125 (44%), Gaps = 23/125 (18%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
           ++  +L ++D      ++   L  + Y V   DS    L        D            
Sbjct: 36  NEQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKAREDHPD------------ 83

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEE 132
                 L++ D  +P   G D++++++++S    +P++++++ + V  ++ R L  GA++
Sbjct: 84  ------LILLDLGLPDFDGGDVVQRLRKNS---ALPIIVLTARDTVEEKV-RLLGLGADD 133

Query: 133 FFLKP 137
           + +KP
Sbjct: 134 YLIKP 138

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40} Length = 140

 Score = 46.0 bits (110), Expect = 8e-07
 Identities = 19/100 (19%), Positives = 42/100 (42%), Gaps = 21/100 (21%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL  +D+ I R +  + L+  +  +T V +G +AL+     + D               
Sbjct: 12  SVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNRQFD--------------- 56

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKE---SSSLRDIPVVIM 113
              ++I D  MP M G + + +I+    + + +   ++ +
Sbjct: 57  ---VIIMDIQMPVMDGLEAVSEIRNYERTHNTKRASIIAI 93

>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 = 46.3 bits (111), Expect = 2e-06
 Identities = 30/125 (24%), Positives = 54/125 (43%), Gaps = 28/125 (22%)

Query: 17  HVLAVDDSIIDRKL---IERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
            VL V+D   +R L   I   LK   + V     G + +        D            
Sbjct: 4   RVLVVED---ERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEPFD------------ 48

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEE 132
                 +VI D  +P   G+++LK ++ES    + PV+++++  +V  R+ + L  GA++
Sbjct: 49  ------VVILDIMLPVHDGWEILKSMRESG--VNTPVLMLTALSDVEYRV-KGLNMGADD 99

Query: 133 FFLKP 137
           +  KP
Sbjct: 100 YLPKP 104

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3} Length = 154

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 32/128 (25%), Positives = 48/128 (37%), Gaps = 21/128 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           VL VDD  + R   + LL+ +    +V   ++ S AL FL                    
Sbjct: 6   VLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADNT--------------- 50

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
             V+L++ D  +P     D L ++K         V ++S E     I   LE GA+ F  
Sbjct: 51  --VDLILLDVNLPDAEAIDGLVRLKRFDP--SNAVALISGETDHELIRAALEAGADGFIP 106

Query: 136 KPVRLSDL 143
           K      L
Sbjct: 107 KSADPQVL 114

>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 = 42.9 bits (102), Expect = 1e-05
 Identities = 25/128 (19%), Positives = 59/128 (46%), Gaps = 22/128 (17%)

Query: 18  VLAVDDSIIDRKLIERLLKT-SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           ++  +D  + R+ + +L+K    +++    D+G  A++ +  +  +              
Sbjct: 6   LIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEEYNPN-------------- 51

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               +VI D  MPGMTG ++L +I++     +I V+I+++   P    + +    + + L
Sbjct: 52  ----VVILDIEMPGMTGLEVLAEIRKKHL--NIKVIIVTTFKRPGYFEKAVVNDVDAYVL 105

Query: 136 KPVRLSDL 143
           K   + +L
Sbjct: 106 KERSIEEL 113

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.5 bits (104), Expect = 2e-05
 Identities = 32/250 (12%), Positives = 71/250 (28%), Gaps = 68/250 (27%)

Query: 19  LAVDDSIIDRKLIE------RLLKTSSY-QVTTVDSGSKALEF------LGLHEDDGQSS 65
           L + + + + K         ++L T+ + QVT   S +           + L  D+ +S 
Sbjct: 248 LVLLN-VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 66  HSVYPNM------HQEVGVN-LVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENV 118
              Y +        + +  N   +       +             S+RD           
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRL------SIIA----------ESIRDGL--------- 341

Query: 119 PSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK------------TKIKDQIKQ---QS 163
            +          ++  L  +  S LN L+P   +              I   +       
Sbjct: 342 -ATWDNWKHVNCDK--LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398

Query: 164 QQQQEEESDESDFQSPSPPQQQPQESQQS----QQQQQQQQQQQQQQQQQQQQSNNNKRK 219
             + +     +     S  ++QP+ES  S      + + + + +    +      N  + 
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458

Query: 220 ALEEGLSPER 229
              + L P  
Sbjct: 459 FDSDDLIPPY 468

>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 = 2e-05
 Identities = 15/134 (11%), Positives = 34/134 (25%), Gaps = 22/134 (16%)

Query: 13  ESQFHVLAVDDSIIDRKLIERLLKTS---SYQVTTVDSGSKALEFLGLHEDDGQSSHSVY 69
           E++ +V  + D  +  +L++  L++    + ++T                          
Sbjct: 5   ENKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPESRSIQ-------- 56

Query: 70  PNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG 129
                     +++ DY              K   S  D   VI++               
Sbjct: 57  ----------MLVIDYSRISDDVLTDYSSFKH-ISCPDAKEVIINCPQDIEHKLLFKWNN 105

Query: 130 AEEFFLKPVRLSDL 143
               F     +  L
Sbjct: 106 LAGVFYIDDDMDTL 119

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C Length = 411

 Score = 43.3 bits (102), Expect = 3e-05
 Identities = 16/100 (16%), Positives = 35/100 (35%), Gaps = 3/100 (3%)

Query: 137 PVRLSDLNKLKPHL--MKTKIKDQIKQ-QSQQQQEEESDESDFQSPSPPQQQPQESQQSQ 193
              L  L  +   +    +++K  IK  Q     +E S  +   + +   ++  E     
Sbjct: 37  DKDLQSLEDILHQVENKTSEVKQLIKAIQLTYNPDESSKPNMIDAATLKSRKMLEEIMKY 96

Query: 194 QQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPR 233
           +          +  Q+   SNN K   L+E ++    + +
Sbjct: 97  EASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQCQ 136

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A Length = 137

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 21/124 (16%), Positives = 40/124 (32%), Gaps = 32/124 (25%)

Query: 18  VLAVDDSIIDRKL---IERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
           VL ++    +  L   IE+ L    +     +S       + +   D             
Sbjct: 21  VLLIEK---NSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRNYD------------- 64

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEEF 133
                LV+    +        + +IKE      I V++ S        +    E+GA+++
Sbjct: 65  -----LVM----VSDKNALSFVSRIKEKH--SSIVVLVSSDNPTSEEEV-HAFEQGADDY 112

Query: 134 FLKP 137
             KP
Sbjct: 113 IAKP 116

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori} Length = 223

 Score = 42.4 bits (101), Expect = 4e-05
 Identities = 21/125 (16%), Positives = 40/125 (32%), Gaps = 32/125 (25%)

Query: 17  HVLAVDDSIIDRKL---IERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
            VL ++    +  L   IE+ L    +     +S       + +   D            
Sbjct: 2   RVLLIEK---NSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRNYD------------ 46

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSS-ENVPSRISRCLEEGAEE 132
                 LV+    +        + +IKE      I V++ S        +    E+GA++
Sbjct: 47  ------LVM----VSDKNALSFVSRIKEKH--SSIVVLVSSDNPTSEEEV-HAFEQGADD 93

Query: 133 FFLKP 137
           +  KP
Sbjct: 94  YIAKP 98

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa} Length = 400

 Score = 42.3 bits (100), Expect = 6e-05
 Identities = 30/165 (18%), Positives = 51/165 (30%), Gaps = 26/165 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNM 72
           +  +VL ++D    R +    LK      +     G    E + + E  G          
Sbjct: 2   NDLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGK---EAVAILESCGH--------- 49

Query: 73  HQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSE-----NVPSRISRCLE 127
                V++ I D  M GM G   L+    S  +    V++ S            +  CL 
Sbjct: 50  -----VDIAICDLQMSGMDGLAFLRHASLSGKVH--SVILSSEVDPILRQATISMIECLG 102

Query: 128 EGAEEFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESD 172
                   KP  L  +  L       + +D  +Q    +    +D
Sbjct: 103 LNFLGDLGKPFSLERITALLTR-YNARRQDLPRQIEVAELPSVAD 146

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3 Length = 196

 Score = 41.2 bits (96), Expect = 8e-05
 Identities = 13/127 (10%), Positives = 30/127 (23%), Gaps = 25/127 (19%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL ++        +   L      V       +A +       D               
Sbjct: 14  QVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD----VPVD--------------- 54

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +V T                  ++      +V +     P+ +S+ +E        +
Sbjct: 55  ---VVFTSIFQNRH---HDEIAALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQ 108

Query: 137 PVRLSDL 143
           P+    +
Sbjct: 109 PLDAHRV 115

>2qdz_A TPSB transporter FHAC; beta barrel, potra domain, membrane, protein transport; 3.15A {Bordetella pertussis} PDB: 3njt_A Length = 554

 Score = 42.1 bits (98), Expect = 1e-04
 Identities = 8/52 (15%), Positives = 21/52 (40%)

Query: 177 QSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPE 228
           Q+   P  +       +Q+++Q Q+  ++   +     N + +A      P+
Sbjct: 1   QAQLLPGARDLNRIDDRQRKEQLQRDIERALTRPPVELNPQSEAAAPARKPD 52

>2qdz_A TPSB transporter FHAC; beta barrel, potra domain, membrane, protein transport; 3.15A {Bordetella pertussis} PDB: 3njt_A Length = 554

 Score = 40.9 bits (95), Expect = 2e-04
 Identities = 6/57 (10%), Positives = 16/57 (28%)

Query: 177 QSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKALEEGLSPERTRPR 233
               P  +        Q+++Q Q+  ++   +   + N     A         +   
Sbjct: 2   AQLLPGARDLNRIDDRQRKEQLQRDIERALTRPPVELNPQSEAAAPARKPDATSGHT 58

>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 = 39.4 bits (93), Expect = 2e-04
 Identities = 23/127 (18%), Positives = 52/127 (40%), Gaps = 21/127 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            + +DD  +    I  LL  +  ++   +  G  A++ +   + D               
Sbjct: 4   AIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPD--------------- 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +VI D  +PG+ G  +L+ +++        ++I+S++N       C + GA  F  K
Sbjct: 49  ---IVIIDVDIPGVNGIQVLETLRKRQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSK 103

Query: 137 PVRLSDL 143
              ++++
Sbjct: 104 KEGMNNI 110

>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926

 Score = 39.4 bits (91), Expect = 8e-04
 Identities = 16/67 (23%), Positives = 24/67 (35%)

Query: 161 QQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNNKRKA 220
           Q  QQ  +  +  +D    + P   P    Q Q   Q     QQQQQ     +      A
Sbjct: 68  QLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAA 127

Query: 221 LEEGLSP 227
           + + + P
Sbjct: 128 MGQNMRP 134

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	241
3to5_A	134	CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, p	99.96
3gl9_A	122	Response regulator; beta-sheet, surrounded by alph	99.93
2lpm_A	123	Two-component response regulator; transcription re	99.92
3t6k_A	136	Response regulator receiver; flavodoxin-like, stru	99.92
3h1g_A	129	Chemotaxis protein CHEY homolog; sulfate-bound CHE	99.9
3rqi_A	184	Response regulator protein; structural genomics, s	99.9
3f6p_A	120	Transcriptional regulatory protein YYCF; unphospho	99.9
3gt7_A	154	Sensor protein; structural genomics, signal receiv	99.9
3hv2_A	153	Response regulator/HD domain protein; PSI-2, NYSGX	99.9
2r25_B	133	Osmosensing histidine protein kinase SLN1; alpha5-	99.9
3m6m_D	143	Sensory/regulatory protein RPFC; RPFF, REC, enoyl-	99.9
3crn_A	132	Response regulator receiver domain protein, CHEY-;	99.89
3kht_A	144	Response regulator; PSI-II, 11023K, structural gen	99.89
1i3c_A	149	Response regulator RCP1; phytochrome, signaling pr	99.89
3kto_A	136	Response regulator receiver protein; PSI-II,struct	99.89
1jbe_A	128	Chemotaxis protein CHEY; signaling protein; 1.08A	99.89
2pl1_A	121	Transcriptional regulatory protein PHOP; CHEY-like	99.89
3snk_A	135	Response regulator CHEY-like protein; P-loop conta	99.89
1dbw_A	126	Transcriptional regulatory protein FIXJ; doubly wo	99.89
3hdg_A	137	Uncharacterized protein; two-component sensor acti	99.89
3grc_A	140	Sensor protein, kinase; protein structure initiati	99.89
1p6q_A	129	CHEY2; chemotaxis, signal transduction, response r	99.89
3r0j_A	250	Possible two component system response transcript	99.88
3heb_A	152	Response regulator receiver domain protein (CHEY);	99.88
1mb3_A	124	Cell division response regulator DIVK; signal tran	99.88
1srr_A	124	SPO0F, sporulation response regulatory protein; as	99.88
3jte_A	143	Response regulator receiver protein; structural ge	99.88
3lua_A	140	Response regulator receiver protein; two-component	99.88
3eod_A	130	Protein HNR; response regulator, phosphoprotein, t	99.88
3i42_A	127	Response regulator receiver domain protein (CHEY-	99.88
3cfy_A	137	Putative LUXO repressor protein; structural genomi	99.88
1k68_A	140	Phytochrome response regulator RCPA; phosphorylate	99.88
3luf_A	259	Two-component system response regulator/ggdef doma	99.88
1tmy_A	120	CHEY protein, TMY; chemotaxis, phosphoryl transfer	99.88
3nhm_A	133	Response regulator; protein structure initiative I	99.88
1xhf_A	123	DYE resistance, aerobic respiration control protei	99.88
4e7p_A	150	Response regulator; DNA binding, cytosol, transcri	99.88
1k66_A	149	Phytochrome response regulator RCPB; CHEY homologu	99.88
1zgz_A	122	Torcad operon transcriptional regulatory protein;	99.88
2qzj_A	136	Two-component response regulator; 11017X, PSI-II,	99.88
3lte_A	132	Response regulator; structural genomics, PSI, prot	99.88
3hdv_A	136	Response regulator; PSI-II, structural genomics, P	99.88
3b2n_A	133	Uncharacterized protein Q99UF4; structural genomic	99.88
3cnb_A	143	DNA-binding response regulator, MERR family; signa	99.88
2a9o_A	120	Response regulator; essential protein, YYCF/YYCG h	99.87
2zay_A	147	Response regulator receiver protein; structural ge	99.87
3kcn_A	151	Adenylate cyclase homolog; SGX, PSI 2, structural	99.87
3ilh_A	146	Two component response regulator; NYSGXRC, PSI-II,	99.87
3h5i_A	140	Response regulator/sensory box protein/ggdef domai	99.87
3c3m_A	138	Response regulator receiver protein; structural ge	99.87
3mm4_A	206	Histidine kinase homolog; receiver domain, CKI1, c	99.87
3f6c_A	134	Positive transcription regulator EVGA; structural	99.87
1qkk_A	155	DCTD, C4-dicarboxylate transport transcriptional r	99.87
3n0r_A	286	Response regulator; sigma factor, receiver, two-co	99.87
3eq2_A	394	Probable two-component response regulator; adaptor	99.87
1yio_A	208	Response regulatory protein; transcription regulat	99.87
1zh2_A	121	KDP operon transcriptional regulatory protein KDPE	99.87
3hzh_A	157	Chemotaxis response regulator (CHEY-3); phosphatas	99.87
2qxy_A	142	Response regulator; regulation of transcription, N	99.86
1dz3_A	130	Stage 0 sporulation protein A; response regulator,	99.86
3q9s_A	249	DNA-binding response regulator; DNA binding protei	99.86
3cu5_A	141	Two component transcriptional regulator, ARAC FAM;	99.86
2jba_A	127	Phosphate regulon transcriptional regulatory PROT;	99.86
1mvo_A	136	PHOP response regulator; phosphate regulon, transc	99.86
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	99.86
2rjn_A	154	Response regulator receiver:metal-dependent phosph	99.86
3cg4_A	142	Response regulator receiver domain protein (CHEY-;	99.86
4dad_A	146	Putative pilus assembly-related protein; response	99.86
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.86
1dcf_A	136	ETR1 protein; beta-alpha five sandwich, transferas	99.86
1s8n_A	205	Putative antiterminator; RV1626, structural genomi	99.86
3n53_A	140	Response regulator receiver modulated diguanylate;	99.86
1a04_A	215	Nitrate/nitrite response regulator protein NARL; s	99.86
3eul_A	152	Possible nitrate/nitrite response transcriptional	99.86
3cg0_A	140	Response regulator receiver modulated diguanylate	99.86
2jk1_A	139	HUPR, hydrogenase transcriptional regulatory prote	99.86
3cz5_A	153	Two-component response regulator, LUXR family; str	99.85
3a10_A	116	Response regulator; phosphoacceptor, signaling pro	99.85
1kgs_A	225	DRRD, DNA binding response regulator D; DNA-bindin	99.85
1w25_A	459	Stalked-cell differentiation controlling protein;	99.85
2qr3_A	140	Two-component system response regulator; structura	99.85
2qvg_A	143	Two component response regulator; NYSGXRC, PSI-2,	99.84
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.84
1ys7_A	233	Transcriptional regulatory protein PRRA; response	99.84
3bre_A	358	Probable two-component response regulator; protein	99.84
2gkg_A	127	Response regulator homolog; social motility, recei	99.83
3eqz_A	135	Response regulator; structural genomics, unknown f	99.83
2qv0_A	143	Protein MRKE; structural genomics, transcription,	99.83
3kyj_B	145	CHEY6 protein, putative histidine protein kinase;	99.83
3c3w_A	225	Two component transcriptional regulatory protein;	99.83
2qsj_A	154	DNA-binding response regulator, LUXR family; struc	99.83
2oqr_A	230	Sensory transduction protein REGX3; response regul	99.83
2rdm_A	132	Response regulator receiver protein; structural ge	99.82
1p2f_A	220	Response regulator; DRRB, OMPR/PHOB, transcription	99.82
2j48_A	119	Two-component sensor kinase; pseudo-receiver, circ	99.82
2gwr_A	238	DNA-binding response regulator MTRA; two-component	99.82
3t8y_A	164	CHEB, chemotaxis response regulator protein-glutam	99.81
3klo_A	225	Transcriptional regulator VPST; REC domain, HTH do	99.81
2pln_A	137	HP1043, response regulator; signaling protein; 1.8	99.81
1dc7_A	124	NTRC, nitrogen regulation protein; receiver domain	99.81
1qo0_D	196	AMIR; binding protein, gene regulator, receptor; 2	99.81
3c97_A	140	Signal transduction histidine kinase; structural g	99.8
3sy8_A	400	ROCR; TIM barrel phosphodiesterase-A, transcriptio	99.8
2b4a_A	138	BH3024; flavodoxin-like fold, structural genomics,	99.78
2hqr_A	223	Putative transcriptional regulator; phosporylation	99.77
1a2o_A	349	CHEB methylesterase; bacterial chemotaxis, adaptat	99.74
3luf_A	259	Two-component system response regulator/ggdef doma	99.73
2vyc_A	755	Biodegradative arginine decarboxylase; pyridoxal p	99.7
1w25_A	459	Stalked-cell differentiation controlling protein;	99.28
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	99.23
3q7r_A	121	Transcriptional regulatory protein; CHXR, receiver	97.89
3n75_A	715	LDC, lysine decarboxylase, inducible; pyridoxal-5'	97.85
2ayx_A	254	Sensor kinase protein RCSC; two independent struct	97.57
2yxb_A	161	Coenzyme B12-dependent mutase; alpha/beta, structu	97.54
3cwo_X	237	Beta/alpha-barrel protein based on 1THF and 1TMY;	96.85
1wv2_A	265	Thiazole moeity, thiazole biosynthesis protein THI	95.88
1ccw_A	137	Protein (glutamate mutase); coenzyme B12, radical	95.72
3q58_A	229	N-acetylmannosamine-6-phosphate 2-epimerase; TIM b	95.4
3ezx_A	215	MMCP 1, monomethylamine corrinoid protein 1; N ter	95.39
1y80_A	210	Predicted cobalamin binding protein; corrinoid, fa	95.39
2i2x_B	258	MTAC, methyltransferase 1; TIM barrel and helix bu	94.82
1r8j_A	289	KAIA; circadian clock protein; 2.03A {Synechococcu	94.82
3igs_A	232	N-acetylmannosamine-6-phosphate 2-epimerase 2; ene	94.81
1xrs_B	262	D-lysine 5,6-aminomutase beta subunit; TIM barrel,	94.15
2htm_A	268	Thiazole biosynthesis protein THIG; thiamin biosyn	94.09
2xij_A	762	Methylmalonyl-COA mutase, mitochondrial; isomerase	93.41
3kp1_A	763	D-ornithine aminomutase E component; 5 aminomutase	93.36
3qja_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	92.91
1req_A	727	Methylmalonyl-COA mutase; isomerase, intramolecula	92.52
1yad_A	221	Regulatory protein TENI; TIM barrel, transcription	92.37
2ekc_A	262	AQ_1548, tryptophan synthase alpha chain; structur	91.88
3o63_A	243	Probable thiamine-phosphate pyrophosphorylase; thi	91.51
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	91.45
3ffs_A	400	Inosine-5-monophosphate dehydrogenase; beta-alpha	91.11
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	89.39
3lab_A	217	Putative KDPG (2-keto-3-deoxy-6-phosphogluconate)	89.32
1xi3_A	215	Thiamine phosphate pyrophosphorylase; structural g	88.73
3vnd_A	267	TSA, tryptophan synthase alpha chain; psychrophili	88.59
2gjl_A	328	Hypothetical protein PA1024; 2-nitropropane dioxyg	88.43
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	88.26
3bul_A	579	Methionine synthase; transferase, reactivation con	88.04
4fo4_A	366	Inosine 5'-monophosphate dehydrogenase; structural	87.86
3tsm_A	272	IGPS, indole-3-glycerol phosphate synthase; struct	87.53
1geq_A	248	Tryptophan synthase alpha-subunit; hyperthermophIl	87.36
3bo9_A	326	Putative nitroalkan dioxygenase; TM0800, structura	87.33
2w6r_A	266	Imidazole glycerol phosphate synthase subunit HISF	86.88
3usb_A	511	Inosine-5'-monophosphate dehydrogenase; structural	86.75
3nav_A	271	Tryptophan synthase alpha chain; alpha subunit, st	86.66
1qop_A	268	Tryptophan synthase alpha chain; lyase, carbon-oxy	86.26
1ka9_F	252	Imidazole glycerol phosphtate synthase; riken stru	86.26
1xm3_A	264	Thiazole biosynthesis protein THIG; structural gen	86.1
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	85.91
2w6r_A	266	Imidazole glycerol phosphate synthase subunit HISF	85.71
2tps_A	227	Protein (thiamin phosphate synthase); thiamin bios	85.5
2z6i_A	332	Trans-2-enoyl-ACP reductase II; fatty acid synthes	85.38
3khj_A	361	Inosine-5-monophosphate dehydrogenase; enzyme-inhi	85.08
2gek_A	406	Phosphatidylinositol mannosyltransferase (PIMA); G	84.86
3bw2_A	369	2-nitropropane dioxygenase; TIM barrel, oxidoreduc	84.61
3f4w_A	211	Putative hexulose 6 phosphate synthase; humps, mal	84.42
2v5j_A	287	2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; l	84.13
1eep_A	404	Inosine 5'-monophosphate dehydrogenase; alpha-beta	84.12
1rd5_A	262	Tryptophan synthase alpha chain, chloroplast; hydr	83.82
4avf_A	490	Inosine-5'-monophosphate dehydrogenase; oxidoreduc	83.68
2v82_A	212	2-dehydro-3-deoxy-6-phosphogalactonate aldolase; l	83.1
1y0e_A	223	Putative N-acetylmannosamine-6-phosphate 2-epimer;	83.05
2c6q_A	351	GMP reductase 2; TIM barrel, metal-binding, NADP,	82.76
3r2g_A	361	Inosine 5'-monophosphate dehydrogenase; structural	82.72
3l9w_A	413	Glutathione-regulated potassium-efflux system Pro	82.57
1ujp_A	271	Tryptophan synthase alpha chain; riken structural	82.15
3qz6_A	261	HPCH/HPAI aldolase; structural genomics, PSI-biolo	82.04
3rht_A	259	(gatase1)-like protein; structural genomics, PSI-b	80.85
2bfw_A	200	GLGA glycogen synthase; glycosyltransferase family	80.77
3ovp_A	228	Ribulose-phosphate 3-epimerase; iron binding, isom	80.23
1ka9_F	252	Imidazole glycerol phosphtate synthase; riken stru	80.15
2lci_A	134	Protein OR36; structural genomics, northeast struc	80.14
3ceu_A	210	Thiamine phosphate pyrophosphorylase; TIM barrel-l	80.09
2vws_A	267	YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escher	80.07
3tdn_A	247	FLR symmetric alpha-beta TIM barrel; symmetric sup	80.04

>3to5_A CHEY homolog; alpha(5)beta(5), chemotaxis, FLIM, phosphorylation, motor AC signaling protein; 1.65A {Vibrio cholerae}

Probab=99.96  E-value=2.7e-29  Score=191.20  Aligned_cols=122  Identities=28%  Similarity=0.557  Sum_probs=110.5

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ....+|||||||++..|..+..+|+..||. |..+.+|.+|++.+....                  ||+||+|+.||+|
T Consensus         9 m~k~~rILiVDD~~~~r~~l~~~L~~~G~~~v~~a~~g~~al~~~~~~~------------------~DlillD~~MP~m   70 (134)
T 3to5_A            9 LNKNMKILIVDDFSTMRRIVKNLLRDLGFNNTQEADDGLTALPMLKKGD------------------FDFVVTDWNMPGM   70 (134)
T ss_dssp             CCTTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSS
T ss_pred             hCCCCEEEEEeCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHHhCC------------------CCEEEEcCCCCCC
Confidence            345689999999999999999999999996 668999999999996544                  5699999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ||++++++||.....+++|||++|+..+.+...+++++||++||.|||+.++|...+.+++
T Consensus        71 dG~el~~~ir~~~~~~~ipvI~lTa~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l  131 (134)
T 3to5_A           71 QGIDLLKNIRADEELKHLPVLMITAEAKREQIIEAAQAGVNGYIVKPFTAATLKEKLDKIF  131 (134)
T ss_dssp             CHHHHHHHHHHSTTTTTCCEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHhCCCCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            9999999999877677999999999999999999999999999999999999987776654

>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=2.3e-24  Score=160.18  Aligned_cols=118  Identities=32%  Similarity=0.480  Sum_probs=107.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~ILivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~al~~l~~~~------------------~dlvllD~~~p~~~g~~~   64 (122)
T 3gl9_A            3 KKVLLVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFT------------------PDLIVLXIMMPVMDGFTV   64 (122)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTBC------------------CSEEEECSCCSSSCHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhcC------------------CCEEEEeccCCCCcHHHH
Confidence            58999999999999999999999999999999999999996544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++|+.....+++|||++|+..+.....++++.||++||.||++.++|...+.+++
T Consensus        65 ~~~l~~~~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l  120 (122)
T 3gl9_A           65 LKKLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHLL  120 (122)
T ss_dssp             HHHHHTSTTTTTSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHhcccccCCCEEEEecCCchHHHHHHHhcChhhhccCCCCHHHHHHHHHHHh
Confidence            99999876556899999999999999999999999999999999999987766654

>2lpm_A Two-component response regulator; transcription regulator; NMR {Sinorhizobium meliloti}

Probab=99.92  E-value=7.5e-27  Score=174.99  Aligned_cols=114  Identities=20%  Similarity=0.271  Sum_probs=99.6

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ++.++|||||||++..+..+..+|+..||.|+ ++.+|.+|++.+....                  ||+||+|+.||+|
T Consensus         5 ~~r~~rILiVdD~~~~~~~l~~~L~~~G~~v~~~a~~g~eAl~~~~~~~------------------~DlvllDi~mP~~   66 (123)
T 2lpm_A            5 TERRLRVLVVEDESMIAMLIEDTLCELGHEVAATASRMQEALDIARKGQ------------------FDIAIIDVNLDGE   66 (123)
T ss_dssp             CCCCCCEEEESSSTTTSHHHHHHHHHHCCCCCBCSCCHHHHHHHHHHCC------------------SSEEEECSSSSSC
T ss_pred             CCCCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHhCC------------------CCEEEEecCCCCC
Confidence            56679999999999999999999999999986 7899999999996554                  5599999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ||+++++.||+.    ++|||++|++.+...   +.++|+++||.|||+.++|...+.++
T Consensus        67 ~G~el~~~lr~~----~ipvI~lTa~~~~~~---~~~~g~~~yl~KP~~~~~L~~~l~~~  119 (123)
T 2lpm_A           67 PSYPVADILAER----NVPFIFATGYGSKGL---DTRYSNIPLLTKPFLDSELEAVLVQI  119 (123)
T ss_dssp             CSHHHHHHHHHT----CCSSCCBCTTCTTSC---CSSSCSCSCBCSSSSHHHHHHHHSTT
T ss_pred             CHHHHHHHHHcC----CCCEEEEecCccHHH---HHhCCCCcEEECCCCHHHHHHHHHHH
Confidence            999999999973    689999999876543   34679999999999999997766544

>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=4.6e-24  Score=161.44  Aligned_cols=121  Identities=23%  Similarity=0.437  Sum_probs=109.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         4 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvl~D~~lp~~~g~~   65 (136)
T 3t6k_A            4 PHTLLIVDDDDTVAEMLELVLRGAGYEVRRAASGEEALQQIYKNL------------------PDALICDVLLPGIDGYT   65 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCHHH
Confidence            579999999999999999999999999999999999999996544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++++|+.....+.+|||++|+..+.....++++.||++||.||++.++|...+..++.+
T Consensus        66 ~~~~lr~~~~~~~~pii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~l~~  124 (136)
T 3t6k_A           66 LCKRVRQHPLTKTLPILMLTAQGDISAKIAGFEAGANDYLAKPFEPQELVYRVKNILAR  124 (136)
T ss_dssp             HHHHHHHSGGGTTCCEEEEECTTCHHHHHHHHHHTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCCcCCccEEEEecCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHhc
Confidence            99999986444589999999999999999999999999999999999998777766543

>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm, flagellar rotatio magnesium, metal-binding, phosphoprotein; 1.70A {Helicobacter pylori} SCOP: c.23.1.1 PDB: 3gwg_A 3h1e_A 3h1f_A

Probab=99.90  E-value=4.7e-23  Score=154.22  Aligned_cols=121  Identities=28%  Similarity=0.538  Sum_probs=106.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..++||||||++..+..+..+|+..||. |..+.++.+|++.+...                 ..||+||+|+.||+++|
T Consensus         4 ~~~~iLivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~-----------------~~~dlvi~D~~~p~~~g   66 (129)
T 3h1g_A            4 GSMKLLVVDDSSTMRRIIKNTLSRLGYEDVLEAEHGVEAWEKLDAN-----------------ADTKVLITDWNMPEMNG   66 (129)
T ss_dssp             --CCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHC-----------------TTCCEEEECSCCSSSCH
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCcEEEEeCCHHHHHHHHHhC-----------------CCCCEEEEeCCCCCCCH
Confidence            3589999999999999999999999995 88999999999988532                 23569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++++|+.....+.+|||++|+..+.....++++.||++||.||++.++|...+..++
T Consensus        67 ~~~~~~lr~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~l~~~l  125 (129)
T 3h1g_A           67 LDLVKKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVL  125 (129)
T ss_dssp             HHHHHHHHTSTTCTTCCEEEEESCCSHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCeEEEEeCCCChHHHHHHHHcCccEEEeCCCCHHHHHHHHHHHh
Confidence            99999999866556899999999999999999999999999999999999987776654

>3rqi_A Response regulator protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: PHD CIT; 1.70A {Burkholderia pseudomallei}

Probab=99.90  E-value=2e-23  Score=166.14  Aligned_cols=121  Identities=15%  Similarity=0.291  Sum_probs=109.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      .+.+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvl~D~~lp~~~g~   67 (184)
T 3rqi_A            6 SDKNFLVIDDNEVFAGTLARGLERRGYAVRQAHNKDEALKLAGAEK------------------FEFITVXLHLGNDSGL   67 (184)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHTTSC------------------CSEEEECSEETTEESH
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhhCC------------------CCEEEEeccCCCccHH
Confidence            4689999999999999999999999999999999999999996544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++.|+...+  ++|||++|+..+.+....+++.||++||.||++.++|...+..++...
T Consensus        68 ~~~~~l~~~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~~~~~~  126 (184)
T 3rqi_A           68 SLIAPLCDLQP--DARILVLTGYASIATAVQAVKDGADNYLAKPANVESILAALQTNASEV  126 (184)
T ss_dssp             HHHHHHHHHCT--TCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHTSTTHHHH
T ss_pred             HHHHHHHhcCC--CCCEEEEeCCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHHHHh
Confidence            99999998754  899999999999999999999999999999999999988777665543

>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=99.90  E-value=5e-23  Score=152.29  Aligned_cols=115  Identities=21%  Similarity=0.404  Sum_probs=104.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlii~D~~~p~~~g~~~   64 (120)
T 3f6p_A            3 KKILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQ------------------PDLILLDIMLPNKDGVEV   64 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTC------------------CSEEEEETTSTTTHHHHH
T ss_pred             CeEEEEECCHHHHHHHHHHHHhCCEEEEEeCCHHHHHHHHhhCC------------------CCEEEEeCCCCCCCHHHH
Confidence            58999999999999999999999999999999999999996544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++|+...   ++|||++|+..+......+++.||++||.||++.++|...+..++
T Consensus        65 ~~~lr~~~---~~~ii~~t~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~l  117 (120)
T 3f6p_A           65 CREVRKKY---DMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANL  117 (120)
T ss_dssp             HHHHHTTC---CSCEEEEEESSCHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHH
T ss_pred             HHHHHhcC---CCCEEEEECCCChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHH
Confidence            99999742   789999999999999999999999999999999999977665544

>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}

Probab=99.90  E-value=1.3e-22  Score=156.65  Aligned_cols=123  Identities=32%  Similarity=0.539  Sum_probs=110.6

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ....+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         5 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlii~D~~l~~~~g   66 (154)
T 3gt7_A            5 NRAGEILIVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTR------------------PDLIISDVLMPEMDG   66 (154)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHTTCC------------------CSEEEEESCCSSSCH
T ss_pred             cCCCcEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCH
Confidence            45689999999999999999999999999999999999999996543                  569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..++..
T Consensus        67 ~~~~~~lr~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~  127 (154)
T 3gt7_A           67 YALCRWLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSG  127 (154)
T ss_dssp             HHHHHHHHHSTTTTTSCEEEEECCCSHHHHHHHHHHCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcCCCCEEEEECCCChHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            9999999987655689999999999999999999999999999999999998877776644

>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=1.4e-22  Score=156.06  Aligned_cols=123  Identities=21%  Similarity=0.347  Sum_probs=111.4

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ...+.+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++
T Consensus        11 ~~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvi~D~~l~~~~   72 (153)
T 3hv2_A           11 VTRRPEILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASRE------------------VDLVISAAHLPQMD   72 (153)
T ss_dssp             CCSCCEEEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSC
T ss_pred             ccCCceEEEECCCHHHHHHHHHHhcccCcEEEEECCHHHHHHHHHcCC------------------CCEEEEeCCCCcCc
Confidence            345689999999999999999999999999999999999999996544                  55999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc-ccccccCCCCHHHHHHhhHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG-AEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G-a~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |+++++.|+...+  .+|||++|+..+......++..| +++||.||++.++|...+..++..+
T Consensus        73 g~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~l~~~i~~~l~~~  134 (153)
T 3hv2_A           73 GPTLLARIHQQYP--STTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQ  134 (153)
T ss_dssp             HHHHHHHHHHHCT--TSEEEEECCCCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHCC--CCeEEEEECCCCHHHHHHHHhCCCcceEEeCCCCHHHHHHHHHHHHHHh
Confidence            9999999998654  89999999999999999999999 9999999999999988877776544

>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=99.90  E-value=8.9e-23  Score=153.74  Aligned_cols=123  Identities=22%  Similarity=0.405  Sum_probs=104.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      .++||||||++..+..+..+|+..|| .|..+.++.+|++.+....+             ....||+||+|+.||+++|+
T Consensus         2 ~~~ILivdD~~~~~~~l~~~L~~~g~~~v~~~~~~~~al~~~~~~~~-------------~~~~~dlvllD~~mp~~~G~   68 (133)
T 2r25_B            2 SVKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTS-------------KGENYNMIFMDVQMPKVDGL   68 (133)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHH-------------HTCCCSEEEECSCCSSSCHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHHHHh-------------cCCCCCEEEEeCCCCCCChH
Confidence            47899999999999999999998897 47889999999998864110             01246799999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|+.... ..+|||++|+..+.....++++.||++||.||++.++|...+..++
T Consensus        69 ~~~~~lr~~~~-~~~~ii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~  125 (133)
T 2r25_B           69 LSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFC  125 (133)
T ss_dssp             HHHHHHHHHSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC
T ss_pred             HHHHHHHhhcC-CCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHH
Confidence            99999997432 3689999999999999999999999999999999999987766553

>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}

Probab=99.90  E-value=1.2e-22  Score=155.08  Aligned_cols=120  Identities=32%  Similarity=0.558  Sum_probs=104.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus        13 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvl~D~~mp~~~g~   74 (143)
T 3m6m_D           13 RSMRMLVADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEED------------------YDAVIVDLHMPGMNGL   74 (143)
T ss_dssp             --CEEEEECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHH
T ss_pred             ccceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHH
Confidence            4589999999999999999999999999999999999999986544                  5599999999999999


Q ss_pred             HHHHHHHhc--CCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKES--SSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~--~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++||..  ...+.+|||++|+..+......+++.||++||.||++.++|...+..+.
T Consensus        75 ~~~~~lr~~~~~~~~~~pii~~s~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~l~~~~  134 (143)
T 3m6m_D           75 DMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLLDTLADLA  134 (143)
T ss_dssp             HHHHHHHHHHHTTCCCCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC
T ss_pred             HHHHHHHhchhccCCCCeEEEEeCCCCHHHHHHHHHcChhheeeCCCCHHHHHHHHHHHH
Confidence            999999853  2235789999999999999999999999999999999999987776654

>3crn_A Response regulator receiver domain protein, CHEY-; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}

Probab=99.89  E-value=3e-22  Score=150.39  Aligned_cols=119  Identities=20%  Similarity=0.296  Sum_probs=107.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..+..+|+..||.|..+.++.++++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvl~D~~l~~~~g~~   64 (132)
T 3crn_A            3 LKRILIVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENEF------------------FNLALFXIKLPDMEGTE   64 (132)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSBCSSSBHHH
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhcCC------------------CCEEEEecCCCCCchHH
Confidence            478999999999999999999999999999999999999986544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.|++..+  .+|||++|+..+......+++.||++||.||++.++|...+..++..
T Consensus        65 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  121 (132)
T 3crn_A           65 LLEKAHKLRP--GMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDE  121 (132)
T ss_dssp             HHHHHHHHCT--TSEEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCC--CCcEEEEeccccHHHHHHHHhccchhhccCCCCHHHHHHHHHHHHhc
Confidence            9999998654  89999999999999999999999999999999999998877776544

>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=99.89  E-value=3.1e-22  Score=152.22  Aligned_cols=124  Identities=23%  Similarity=0.396  Sum_probs=111.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCE--EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~--v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      .+++||||||++..+..+..+|...|+.  |..+.++.+|++.+....                  ||+||+|+.||+++
T Consensus         4 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~------------------~dlii~D~~l~~~~   65 (144)
T 3kht_A            4 RSKRVLVVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQAK------------------YDLIILDIGLPIAN   65 (144)
T ss_dssp             -CEEEEEECCCHHHHHHHHHHHHHTTCCEEEEEESSHHHHHHHHTTCC------------------CSEEEECTTCGGGC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhcCCCeeEEEECCHHHHHHHhhcCC------------------CCEEEEeCCCCCCC
Confidence            4689999999999999999999999987  889999999999996544                  56999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~~~~~  155 (241)
                      |+++++.|+.....+.+|||++|+..+.....++++.|+++||.||+ +.++|...+..+++.+.
T Consensus        66 g~~~~~~lr~~~~~~~~pii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~~l~~~i~~~l~~~~  130 (144)
T 3kht_A           66 GFEVMSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSYWL  130 (144)
T ss_dssp             HHHHHHHHHSSSTTTTCCEEEEETTCCHHHHHHHHHTTCSEEEECCTTSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCcHHHHHHHHHHHHHHHH
Confidence            99999999985445689999999999999999999999999999999 99999888887776553

>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A

Probab=99.89  E-value=5.8e-22  Score=151.98  Aligned_cols=130  Identities=25%  Similarity=0.398  Sum_probs=109.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ..++||||||++..+..+..+|+..|+  .|..+.++.+|++.+......           .....||+||+|+.||+++
T Consensus         7 ~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~~~-----------~~~~~~dlillD~~lp~~~   75 (149)
T 1i3c_A            7 PPKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY-----------ENSPRPNLILLDLNLPKKD   75 (149)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG-----------TTCCCCSEEEECSCCSSSC
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHhcCCCccEEEeCCHHHHHHHHHhcccc-----------ccCCCCCEEEEeCCCCCCc
Confidence            458999999999999999999998887  788999999999998642100           0013477999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |+++++.|++....+.+|||++|+..+...+.++++.||++||.||++.++|...+..+.+.+
T Consensus        76 g~~l~~~l~~~~~~~~~piiils~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  138 (149)
T 1i3c_A           76 GREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESFW  138 (149)
T ss_dssp             HHHHHHHHHHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCcCCCeEEEEECCCChHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHHH
Confidence            999999999865445899999999999899999999999999999999999988777765433

>3kto_A Response regulator receiver protein; PSI-II,structural genomics, protein structure initiative; 1.98A {Pseudoalteromonas atlantica T6C} SCOP: c.23.1.0

Probab=99.89  E-value=9e-23  Score=154.05  Aligned_cols=121  Identities=16%  Similarity=0.180  Sum_probs=109.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC--CC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG--MT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~--~~   91 (241)
                      ...+||||||++..+..+..+|+..||.|..+.++.+|++.+..                  ..||+||+|+.||+  ++
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~------------------~~~dlvi~D~~l~~~~~~   66 (136)
T 3kto_A            5 HHPIIYLVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQIS------------------DDAIGMIIEAHLEDKKDS   66 (136)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHTTSSSEEEEESSHHHHTTSCCC------------------TTEEEEEEETTGGGBTTH
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhc------------------cCCCEEEEeCcCCCCCcc
Confidence            46899999999999999999999999999999999999988753                  34679999999999  99


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |+++++.|+...+  ++|||++|+..+.....++++.|+++||.||++.++|...+.++....
T Consensus        67 g~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~~~  127 (136)
T 3kto_A           67 GIELLETLVKRGF--HLPTIVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIINGA  127 (136)
T ss_dssp             HHHHHHHHHHTTC--CCCEEEEESSCCHHHHHHHHHTTCSEEEESSBCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC--CCCEEEEEcCCCHHHHHHHHHcChHHheeCCCCHHHHHHHHHHHHhcc
Confidence            9999999998764  899999999999999999999999999999999999988887776554

>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=5.4e-22  Score=147.64  Aligned_cols=121  Identities=28%  Similarity=0.528  Sum_probs=106.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..++||||||++..+..+..+|...|| .|..+.++.++++.+...                  .||+||+|+.||+++|
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~l~~~~~~~v~~~~~~~~a~~~~~~~------------------~~dlvi~D~~l~~~~g   64 (128)
T 1jbe_A            3 KELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAG------------------GYGFVISDWNMPNMDG   64 (128)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHTTC------------------CCCEEEEESCCSSSCH
T ss_pred             CccEEEEECCCHHHHHHHHHHHHHcCCcEEEeeCCHHHHHHHHHhc------------------CCCEEEEeCCCCCCCH
Confidence            457899999999999999999999999 788999999999998543                  3569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.|+.....+.+|||++|+..+......+++.|+++|+.||++.++|...+..++.
T Consensus        65 ~~l~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  124 (128)
T 1jbe_A           65 LELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE  124 (128)
T ss_dssp             HHHHHHHHC--CCTTCCEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccCCCcEEEEecCccHHHHHHHHHhCcCceeecCCCHHHHHHHHHHHHH
Confidence            999999998544458999999999999999999999999999999999999877766653

>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=99.89  E-value=5.4e-22  Score=146.07  Aligned_cols=117  Identities=20%  Similarity=0.415  Sum_probs=106.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+...|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+++
T Consensus         1 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~~------------------~dlil~D~~l~~~~g~~~   62 (121)
T 2pl1_A            1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI------------------PDIAIVDLGLPDEDGLSL   62 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSCCSSSCHHHH
T ss_pred             CeEEEEeCcHHHHHHHHHHHhhcCCEEEEeCCHHHHHHHHhccC------------------CCEEEEecCCCCCCHHHH
Confidence            47999999999999999999999999999999999999986544                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++...+  .+|||++|+..+......+++.|+++|+.||++.++|...+..+++
T Consensus        63 ~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  117 (121)
T 2pl1_A           63 IRRWRSNDV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR  117 (121)
T ss_dssp             HHHHHHTTC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCCEEEEecCCCHHHHHHHHHcCccceEECCCCHHHHHHHHHHHHH
Confidence            999998654  7999999999999999999999999999999999999877766654

>3snk_A Response regulator CHEY-like protein; P-loop containing nucleoside triphosphate hydrolases, struct genomics; 2.02A {Mesorhizobium loti}

Probab=99.89  E-value=1.1e-23  Score=158.74  Aligned_cols=121  Identities=12%  Similarity=0.096  Sum_probs=107.8

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCC-CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSS-YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g-~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ...+.+||||||++..+..+..+|+..| |.|..+.++.+|++.+...                  .||+||+|+.||++
T Consensus        11 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~l~~~------------------~~dlvi~D~~l~~~   72 (135)
T 3snk_A           11 PTKRKQVALFSSDPNFKRDVATRLDALAIYDVRVSETDDFLKGPPADT------------------RPGIVILDLGGGDL   72 (135)
T ss_dssp             --CCEEEEEECSCHHHHHHHHHHHHHTSSEEEEEECGGGGGGCCCTTC------------------CCSEEEEEEETTGG
T ss_pred             CCCCcEEEEEcCCHHHHHHHHHHHhhcCCeEEEEeccHHHHHHHHhcc------------------CCCEEEEeCCCCCc
Confidence            4456899999999999999999999999 9999999999999887543                  45699999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +|+++++.|+...+  .+|||++|+..+.....++++.|+++||.||++.++|...+..++.
T Consensus        73 ~g~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  132 (135)
T 3snk_A           73 LGKPGIVEARALWA--TVPLIAVSDELTSEQTRVLVRMNASDWLHKPLDGKELLNAVTFHDT  132 (135)
T ss_dssp             GGSTTHHHHHGGGT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHTC-
T ss_pred             hHHHHHHHHHhhCC--CCcEEEEeCCCCHHHHHHHHHcCcHhhccCCCCHHHHHHHHHHHhc
Confidence            99999999998765  8999999999999999999999999999999999999877766543

>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixatio regulation; HET: 15P; 1.60A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A* 1dcm_A 1d5w_A*

Probab=99.89  E-value=4.2e-22  Score=148.15  Aligned_cols=117  Identities=22%  Similarity=0.337  Sum_probs=106.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+..+|...||.|..+.++.++++.+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~dlvi~D~~l~~~~g~~   64 (126)
T 1dbw_A            3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDV------------------RNGVLVTDLRMPDMSGVE   64 (126)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGGC------------------CSEEEEEECCSTTSCHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhcC------------------CCCEEEEECCCCCCCHHH
Confidence            47899999999999999999999999999999999999988544                  356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++|+...+  .+|||++|+..+.....++++.||++||.||++.++|...+..+.
T Consensus        65 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~  119 (126)
T 1dbw_A           65 LLRNLGDLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERAS  119 (126)
T ss_dssp             HHHHHHHTTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCC--CCCEEEEECCCCHHHHHHHHHhCHHHheeCCCCHHHHHHHHHHHH
Confidence            9999998654  899999999999999999999999999999999999987766654

>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=99.89  E-value=4.2e-22  Score=150.13  Aligned_cols=123  Identities=23%  Similarity=0.400  Sum_probs=111.0

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +.+++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~~l~~~~g   66 (137)
T 3hdg_A            5 EVALKILIVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHA------------------PDVIITDIRMPKLGG   66 (137)
T ss_dssp             --CCCEEEECSCHHHHHHHHHHHHTTCSCEEEESSHHHHHHHHHHHC------------------CSEEEECSSCSSSCH
T ss_pred             ccccEEEEEeCCHHHHHHHHHHHHhcCcEEEEECCHHHHHHHHhccC------------------CCEEEEeCCCCCCCH
Confidence            45689999999999999999999999999999999999999996554                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~  155 (241)
                      +++++.|+...+  .+|||++|+..+.+....+++.|+++||.||++.++|...+..+++.+.
T Consensus        67 ~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~~  127 (137)
T 3hdg_A           67 LEMLDRIKAGGA--KPYVIVISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHIKL  127 (137)
T ss_dssp             HHHHHHHHHTTC--CCEEEECCCCCCHHHHHHHHHHCCSEECCSSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC--CCcEEEEecCcChHHHHHHHhCCcceeEcCCCCHHHHHHHHHHHHHHHh
Confidence            999999998764  8999999999999999999999999999999999999988888776543

>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II), NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas SP}

Probab=99.89  E-value=1e-22  Score=154.03  Aligned_cols=124  Identities=17%  Similarity=0.282  Sum_probs=109.1

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+.+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         4 ~~~~~iLivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~~l~~~~g   65 (140)
T 3grc_A            4 APRPRILICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVARRP------------------YAAMTVDLNLPDQDG   65 (140)
T ss_dssp             -CCSEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHSC------------------CSEEEECSCCSSSCH
T ss_pred             CCCCCEEEEcCCHHHHHHHHHHHHHCCCeEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCH
Confidence            35689999999999999999999999999999999999999996554                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHH-HHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRIS-RCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~-~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++++.|+.....+++|||++|+..+..... .+++.|+++||.||++.++|...+..++++.
T Consensus        66 ~~~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~l~~~  128 (140)
T 3grc_A           66 VSLIRALRRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDNM  128 (140)
T ss_dssp             HHHHHHHHTSGGGTTCEEEEECTTHHHHHHHHCCTTTCCCEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccCCCCEEEEecCCChHHHHHHhhhcCCCEEEeCCCCHHHHHHHHHHHHHhc
Confidence            9999999984334589999999987777766 8899999999999999999988877776554

>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=99.89  E-value=3e-22  Score=149.22  Aligned_cols=120  Identities=22%  Similarity=0.469  Sum_probs=107.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      .+++||||||++..+..+..+|...|| .|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         5 ~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~l~~~~g   66 (129)
T 1p6q_A            5 EKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNP------------------HHLVISDFNMPKMDG   66 (129)
T ss_dssp             SCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHTSC------------------CSEEEECSSSCSSCH
T ss_pred             ccCeEEEEcCCHHHHHHHHHHHHHCCCcEEEecCCHHHHHHHHHcCC------------------CCEEEEeCCCCCCCH
Confidence            458999999999999999999998899 7889999999999986543                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.|++....+.+|||++|+..+......+++.|+++|+.||++.++|...+..++
T Consensus        67 ~~~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  125 (129)
T 1p6q_A           67 LGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVF  125 (129)
T ss_dssp             HHHHHHHTTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCccccCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHH
Confidence            99999999865446899999999999999999999999999999999999987776654

>3r0j_A Possible two component system response transcript positive regulator PHOP; beta-alpha fold, winged helix-turn-helix; 2.50A {Mycobacterium tuberculosis}

Probab=99.88  E-value=4.6e-22  Score=165.65  Aligned_cols=121  Identities=24%  Similarity=0.414  Sum_probs=110.4

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus        21 ~~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvllD~~lp~~~g   82 (250)
T 3r0j_A           21 TPEARVLVVDDEANIVELLSVSLKFQGFEVYTATNGAQALDRARETR------------------PDAVILDVXMPGMDG   82 (250)
T ss_dssp             CSSCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCH
T ss_pred             CCCceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCH
Confidence            34689999999999999999999999999999999999999996544                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+...+  ++|||++|+..+......++++||++||.||++.++|...+..++++
T Consensus        83 ~~~~~~lr~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~Kp~~~~~L~~~i~~~~~~  141 (250)
T 3r0j_A           83 FGVLRRLRADGI--DAPALFLTARDSLQDKIAGLTLGGDDYVTKPFSLEEVVARLRVILRR  141 (250)
T ss_dssp             HHHHHHHHHTTC--CCCEEEEECSTTHHHHHHHHTSTTCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCC--CCCEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            999999998754  89999999999999999999999999999999999998877777654

>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, structure initiative, structural genomics; 2.40A {Rhodospirillum rubrum} SCOP: c.23.1.0

Probab=99.88  E-value=8.2e-22  Score=151.37  Aligned_cols=129  Identities=27%  Similarity=0.487  Sum_probs=110.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      .++||||||++..+..+..+|...|+  .|..+.++.+|++.+......+         ......||+||+|+.||+++|
T Consensus         4 ~~~ILivddd~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~---------~~~~~~~dliilD~~l~~~~g   74 (152)
T 3heb_A            4 SVTIVMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSG---------RVSAGRAQLVLLDLNLPDMTG   74 (152)
T ss_dssp             -CEEEEECCCHHHHHHHHHHHHHTTCCCCEEEESSHHHHHHHHHCTTSSS---------GGGTTCBEEEEECSBCSSSBH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCCcceEEEeCCHHHHHHHHhcccccc---------ccccCCCCEEEEeCCCCCCcH
Confidence            48999999999999999999999998  8999999999999985321100         001345889999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..+..
T Consensus        75 ~~~~~~lr~~~~~~~~pii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  134 (152)
T 3heb_A           75 IDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENFANAIRQLGL  134 (152)
T ss_dssp             HHHHHHHHHSTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccCCCEEEEecCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHH
Confidence            999999998554568999999999999999999999999999999999999888777644

>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=99.88  E-value=6.5e-22  Score=146.26  Aligned_cols=118  Identities=26%  Similarity=0.440  Sum_probs=100.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|+..||.+..+.++.+|+..+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~a~~~~~~~~------------------~dlvi~D~~l~~~~g~~~   63 (124)
T 1mb3_A            2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK------------------PDLILMDIQLPEISGLEV   63 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC------------------CSEEEEESBCSSSBHHHH
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHHH
Confidence            47999999999999999999999999999999999999886544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++.|++....+.+|||++|+.........+++.|+++||.||++.++|...+..++
T Consensus        64 ~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (124)
T 1mb3_A           64 TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLL  119 (124)
T ss_dssp             HHHHHHSTTTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHH
T ss_pred             HHHHHcCccccCCcEEEEECCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHH
Confidence            99999865456899999999888888889999999999999999999977666554

>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=99.88  E-value=1.1e-21  Score=145.34  Aligned_cols=116  Identities=28%  Similarity=0.440  Sum_probs=105.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+++
T Consensus         4 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~l~~~~g~~~   65 (124)
T 1srr_A            4 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER------------------PDLVLLDMKIPGMDGIEI   65 (124)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCTTCCHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHhccC------------------CCEEEEecCCCCCCHHHH
Confidence            58999999999999999999999999999999999999986544                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++
T Consensus        66 ~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~  119 (124)
T 1srr_A           66 LKRMKVIDE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL  119 (124)
T ss_dssp             HHHHHHHCT--TCEEEEEESSCCHHHHHHHHHHTCCCEEESSCCHHHHHHHHHHHS
T ss_pred             HHHHHHhCC--CCCEEEEEccCchHHHHHHHhcChHhhccCCCCHHHHHHHHHHHh
Confidence            999998754  899999999999989999999999999999999999977666543

>3jte_A Response regulator receiver protein; structural genomics, nysgrc, response regulator receiver DOM target 11226E, PSI-2; 1.90A {Clostridium thermocellum atcc 27405}

Probab=99.88  E-value=1.4e-21  Score=148.23  Aligned_cols=122  Identities=27%  Similarity=0.405  Sum_probs=109.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +++||||||++..+..+..+|...||.|..+.++.+|+..+...                ...||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~----------------~~~~dlvi~d~~l~~~~g~~   66 (143)
T 3jte_A            3 LAKILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTEN----------------CNSIDVVITDMKMPKLSGMD   66 (143)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHT----------------TTTCCEEEEESCCSSSCHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHHhC----------------CCCCCEEEEeCCCCCCcHHH
Confidence            58999999999999999999999999999999999999998621                23466999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..+++.+
T Consensus        67 ~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~~~  124 (143)
T 3jte_A           67 ILREIKKITP--HMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRK  124 (143)
T ss_dssp             HHHHHHHHCT--TCEEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCC--CCeEEEEECCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHHHHHH
Confidence            9999998754  899999999999999999999999999999999999988777776543

>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}

Probab=99.88  E-value=1.4e-22  Score=153.52  Aligned_cols=124  Identities=20%  Similarity=0.307  Sum_probs=109.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhc-CCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-CCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKT-SSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-GMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~~~   91 (241)
                      .+.+||||||++..+..+..+|.. .||.|..+.++.+|++.+...                 ..||+||+|+.|| +++
T Consensus         3 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~a~~~l~~~-----------------~~~dlvi~D~~l~~~~~   65 (140)
T 3lua_A            3 LDGTVLLIDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDL-----------------DSITLIIMDIAFPVEKE   65 (140)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTTC-----------------CCCSEEEECSCSSSHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhccCccEEEECCHHHHHHHHhcC-----------------CCCcEEEEeCCCCCCCc
Confidence            468999999999999999999999 899999999999999988540                 3456999999999 999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |+++++.|+.....+.+|||++|+..+.....++++.|+++||.||++.++|...+..++++.
T Consensus        66 g~~~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  128 (140)
T 3lua_A           66 GLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVLKIC  128 (140)
T ss_dssp             HHHHHHHHHHSGGGTTCCEEEEESCCCHHHHHHHHHSCCSEEEESSCCTTHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHhCcccCCCCEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHhc
Confidence            999999999833345899999999999999999999999999999999999988777766443

>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}

Probab=99.88  E-value=5.4e-22  Score=148.16  Aligned_cols=120  Identities=28%  Similarity=0.470  Sum_probs=101.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||||||++..+..+..+|...||.+..+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~~l~~~~g~   67 (130)
T 3eod_A            6 VGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFT------------------PDLMICDIAMPRMNGL   67 (130)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTTCC------------------CSEEEECCC-----CH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCceEEEeCCHHHHHHHHhcCC------------------CCEEEEecCCCCCCHH
Confidence            4589999999999999999999999999999999999999996544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHLMKT  153 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~~~  153 (241)
                      ++++.|+...+  .+|||++|+..+......+++.|+++||.||+ +.++|...+..++..
T Consensus        68 ~~~~~l~~~~~--~~~ii~~t~~~~~~~~~~~~~~g~~~~l~KP~~~~~~l~~~i~~~l~~  126 (130)
T 3eod_A           68 KLLEHIRNRGD--QTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYP  126 (130)
T ss_dssp             HHHHHHHHTTC--CCCEEEEECCCCHHHHHHHHHHCCSEEEESCC---CHHHHHHHHHHC-
T ss_pred             HHHHHHHhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCcHHHHHHHHHHHhch
Confidence            99999998754  89999999999999999999999999999999 889998877776654

>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=99.88  E-value=3e-22  Score=149.02  Aligned_cols=119  Identities=19%  Similarity=0.253  Sum_probs=105.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlii~D~~l~~~~g~~   64 (127)
T 3i42_A            3 LQQALIVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRG------------------YDAVFIDLNLPDTSGLA   64 (127)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHSC------------------CSEEEEESBCSSSBHHH
T ss_pred             cceEEEEcCCHHHHHHHHHHHHHcCCCEEEECCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCHHH
Confidence            579999999999999999999999999999999999999996544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+.....+.+|||++|+..+... ..++..|+++||.||++.++|...+.+...
T Consensus        65 ~~~~l~~~~~~~~~~ii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~L~~~i~~~~~  121 (127)
T 3i42_A           65 LVKQLRALPMEKTSKFVAVSGFAKNDL-GKEACELFDFYLEKPIDIASLEPILQSIEG  121 (127)
T ss_dssp             HHHHHHHSCCSSCCEEEEEECC-CTTC-CHHHHHHCSEEEESSCCHHHHHHHHHHHC-
T ss_pred             HHHHHHhhhccCCCCEEEEECCcchhH-HHHHHHhhHHheeCCCCHHHHHHHHHHhhc
Confidence            999999975456899999999888777 889999999999999999999877666543

>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}

Probab=99.88  E-value=1.2e-21  Score=148.31  Aligned_cols=118  Identities=26%  Similarity=0.425  Sum_probs=106.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         5 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvllD~~l~~~~g~~l   66 (137)
T 3cfy_A            5 PRVLLVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERSK------------------PQLIILDLKLPDMSGEDV   66 (137)
T ss_dssp             CEEEEECSCTTHHHHHHHHTTTSSSEEEEESSHHHHHHHHHHHC------------------CSEEEECSBCSSSBHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhcCceEEEeCCHHHHHHHHHhcC------------------CCEEEEecCCCCCCHHHH
Confidence            48999999999999999999988999999999999999986544                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.+
T Consensus        67 ~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  122 (137)
T 3cfy_A           67 LDWINQNDI--PTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKR  122 (137)
T ss_dssp             HHHHHHTTC--CCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCCEEEEEecCcHHHHHHHHHCCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            999998654  89999999999999999999999999999999999998777666543

>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=1.8e-21  Score=146.29  Aligned_cols=129  Identities=23%  Similarity=0.362  Sum_probs=110.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +.+||||||++..+..+...|...|+  .|..+.++.+|++.+......           .....||+||+|+.||+++|
T Consensus         2 ~~~ilivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~~~-----------~~~~~~dlvi~d~~~~~~~g   70 (140)
T 1k68_A            2 HKKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEY-----------ANASRPDLILLXLNLPKKDG   70 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGG-----------GSCCCCSEEEECSSCSSSCH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHccccc-----------ccCCCCcEEEEecCCCcccH
Confidence            57999999999999999999999998  899999999999999641100           00134679999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..++..+
T Consensus        71 ~~~~~~l~~~~~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  132 (140)
T 1k68_A           71 REVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEFW  132 (140)
T ss_dssp             HHHHHHHHHSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcccccccEEEEecCCcHHHHHHHHHhchhheecCCCCHHHHHHHHHHHHHHH
Confidence            99999999875335899999999999999999999999999999999999988887776544

>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=99.88  E-value=5.7e-22  Score=166.57  Aligned_cols=122  Identities=28%  Similarity=0.439  Sum_probs=109.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+...|...||.|..+.++.+|++.+....                 .||+||+|+.||+++|+
T Consensus       123 ~~~~ILivDD~~~~~~~l~~~L~~~~~~v~~a~~~~eal~~l~~~~-----------------~~dlvllD~~mP~~dG~  185 (259)
T 3luf_A          123 QQIEVLVVDDSRTSRHRTMAQLRKQLLQVHEASHAREALATLEQHP-----------------AIRLVLVDYYMPEIDGI  185 (259)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHCT-----------------TEEEEEECSCCSSSCHH
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHhcCC-----------------CCCEEEEcCCCCCCCHH
Confidence            4689999999999999999999999999999999999999985421                 36799999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++||+..+...+|||++|+..+.....+++++||++||.||++.++|...+.++++
T Consensus       186 ~l~~~lr~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~  244 (259)
T 3luf_A          186 SLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLE  244 (259)
T ss_dssp             HHHHHHHHHCCTTTSEEEEEECSSSSSHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCeEEEEEccCCHHHHHHHHhcChhheEcCCCCHHHHHHHHHHHHH
Confidence            99999998766567999999999999999999999999999999999999876666654

>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=99.88  E-value=7.8e-22  Score=145.13  Aligned_cols=115  Identities=23%  Similarity=0.412  Sum_probs=103.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ++||||||++..+..+...|+..||. +..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~vv~~~~~~~~a~~~~~~~~------------------~dlil~D~~l~~~~g~~   64 (120)
T 1tmy_A            3 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELK------------------PDIVTMDITMPEMNGID   64 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC------------------CSEEEEECSCGGGCHHH
T ss_pred             ceEEEEcCcHHHHHHHHHHHhhcCcEEEEEECCHHHHHHHHHhcC------------------CCEEEEeCCCCCCcHHH
Confidence            68999999999999999999999999 458999999999986544                  45999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +++.|++..+  .+|||++|+..+......+++.|+++|+.||++.++|...+..+
T Consensus        65 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~  118 (120)
T 1tmy_A           65 AIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  118 (120)
T ss_dssp             HHHHHHHHCT--TCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             HHHHHHhhCC--CCeEEEEeCCCCHHHHHHHHHhCcceeEeCCCCHHHHHHHHHHH
Confidence            9999998754  89999999999999999999999999999999999997766554

>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}

Probab=99.88  E-value=7.3e-22  Score=147.87  Aligned_cols=120  Identities=25%  Similarity=0.388  Sum_probs=103.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +++||||||++..+..+..+|. .||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         4 ~~~ilivdd~~~~~~~l~~~l~-~~~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~~l~~~~g~~   64 (133)
T 3nhm_A            4 KPKVLIVENSWTMRETLRLLLS-GEFDCTTAADGASGLQQALAHP------------------PDVLISDVNMDGMDGYA   64 (133)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHT-TTSEEEEESSHHHHHHHHHHSC------------------CSEEEECSSCSSSCHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHh-CCcEEEEECCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHH
Confidence            5899999999999999999999 8999999999999999996544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++.|+.....+.+|||++|+..+... ..++..|+++||.||++.++|...+..++...
T Consensus        65 ~~~~l~~~~~~~~~pii~~s~~~~~~~-~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~  123 (133)
T 3nhm_A           65 LCGHFRSEPTLKHIPVIFVSGYAPRTE-GPADQPVPDAYLVKPVKPPVLIAQLHALLARA  123 (133)
T ss_dssp             HHHHHHHSTTTTTCCEEEEESCCC------TTSCCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCccCCCCEEEEeCCCcHhH-HHHhhcCCceEEeccCCHHHHHHHHHHHHhhh
Confidence            999999976556899999999887777 88999999999999999999988888777654

>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=99.88  E-value=2.1e-21  Score=143.41  Aligned_cols=117  Identities=23%  Similarity=0.472  Sum_probs=105.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+...|...||.|..+.++.++++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~------------------~dlvi~D~~l~~~~g~~   64 (123)
T 1xhf_A            3 TPHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYD------------------INLVIMDINLPGKNGLL   64 (123)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSSCSSSCHHH
T ss_pred             CceEEEEeCCHHHHHHHHHHHhhCCcEEEEeCCHHHHHHHHhcCC------------------CCEEEEcCCCCCCCHHH
Confidence            468999999999999999999989999999999999999986544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+.. +  .+|||++|+..+......+++.|+++||.||++.++|...+..+++
T Consensus        65 ~~~~l~~~-~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  119 (123)
T 1xhf_A           65 LARELREQ-A--NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLS  119 (123)
T ss_dssp             HHHHHHHH-C--CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-C--CCcEEEEECCCChHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHH
Confidence            99999986 3  7899999999988889999999999999999999999877766554

>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A

Probab=99.88  E-value=1.1e-21  Score=150.37  Aligned_cols=121  Identities=23%  Similarity=0.384  Sum_probs=107.8

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ...+++||||||++..+..+..+|...|  +.|..+.++.+|++.+....                  ||+||+|+.||+
T Consensus        17 ~~~m~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~------------------~dlii~D~~l~~   78 (150)
T 4e7p_A           17 RGSHMKVLVAEDQSMLRDAMCQLLTLQPDVESVLQAKNGQEAIQLLEKES------------------VDIAILDVEMPV   78 (150)
T ss_dssp             ---CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHTTSC------------------CSEEEECSSCSS
T ss_pred             CCCccEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHhhccC------------------CCEEEEeCCCCC
Confidence            4457899999999999999999999877  78889999999999996544                  559999999999


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++|+++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        79 ~~g~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  139 (150)
T 4e7p_A           79 KTGLEVLEWIRSEKL--ETKVVVVTTFKRAGYFERAVKAGVDAYVLKERSIADLMQTLHTVLE  139 (150)
T ss_dssp             SCHHHHHHHHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHhCC--CCeEEEEeCCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHc
Confidence            999999999998754  8999999999999999999999999999999999999887777654

>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=1.2e-21  Score=149.06  Aligned_cols=133  Identities=26%  Similarity=0.439  Sum_probs=113.3

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCccc--ccccEEEEeCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE--VGVNLVITDYCM   87 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~--~~~dlIilD~~m   87 (241)
                      ....++||||||++..+..+..+|...||  .|..+.++.+|++.+.....++.          ..  ..||+||+|+.|
T Consensus         3 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~al~~l~~~~~~~~----------~~~~~~~dlvi~D~~l   72 (149)
T 1k66_A            3 GNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCN----------PDIAPRPAVILLDLNL   72 (149)
T ss_dssp             SCTTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSC----------GGGCCCCSEEEECSCC
T ss_pred             CCCCccEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHHHHHHHHhcccccC----------cccCCCCcEEEEECCC
Confidence            34578999999999999999999999998  89999999999999975221100          01  357799999999


Q ss_pred             CCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           88 PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        88 p~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      |+++|+++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..+++.+
T Consensus        73 ~~~~g~~~~~~l~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  139 (149)
T 1k66_A           73 PGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYW  139 (149)
T ss_dssp             SSSCHHHHHHHHTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhCcccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999875335899999999999999999999999999999999999988887776544

>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=99.88  E-value=2.7e-21  Score=142.62  Aligned_cols=116  Identities=21%  Similarity=0.396  Sum_probs=104.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvi~d~~l~~~~g~~~   64 (122)
T 1zgz_A            3 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQS------------------VDLILLDINLPDENGLML   64 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHHH
T ss_pred             cEEEEEECCHHHHHHHHHHHHHCCCeEEEecCHHHHHHHHhcCC------------------CCEEEEeCCCCCCChHHH
Confidence            58999999999999999999999999999999999999886544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.+++ .  +.+|||++|+..+......+++.|+++|+.||++.++|...+..+++
T Consensus        65 ~~~l~~-~--~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~  118 (122)
T 1zgz_A           65 TRALRE-R--STVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLW  118 (122)
T ss_dssp             HHHHHT-T--CCCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHh-c--CCCCEEEEECCCChhhHHHHHHhCHHHHccCCCCHHHHHHHHHHHHH
Confidence            999998 3  37999999999999889999999999999999999999877766553

>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics; 2.89A {Clostridium difficile}

Probab=99.88  E-value=1e-21  Score=148.46  Aligned_cols=118  Identities=19%  Similarity=0.333  Sum_probs=106.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         4 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvllD~~l~~~~g~~   65 (136)
T 2qzj_A            4 QTKILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSNK------------------YDLIFLEIILSDGDGWT   65 (136)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHCC------------------CSEEEEESEETTEEHHH
T ss_pred             CCeEEEEcCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCHHH
Confidence            579999999999999999999988999999999999999986544                  45999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.|+...   .+|||++|+..+......+++.|+++||.||++.++|...+..++.+
T Consensus        66 l~~~l~~~~---~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~~~  121 (136)
T 2qzj_A           66 LCKKIRNVT---TCPIVYMTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRR  121 (136)
T ss_dssp             HHHHHHTTC---CCCEEEEESCCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCC---CCCEEEEEcCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHH
Confidence            999999753   78999999999999999999999999999999999998777666543

>3lte_A Response regulator; structural genomics, PSI, protein structure initiative, NYSG YORK structural genomix research consortium, nysgxrc; 2.00A {Bermanella marisrubri}

Probab=99.88  E-value=1.6e-21  Score=145.79  Aligned_cols=122  Identities=23%  Similarity=0.386  Sum_probs=102.5

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ....+||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         4 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlii~d~~l~~~~g   65 (132)
T 3lte_A            4 KQSKRILVVDDDQAMAAAIERVLKRDHWQVEIAHNGFDAGIKLSTFE------------------PAIMTLDLSMPKLDG   65 (132)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHTC------------------CSEEEEESCBTTBCH
T ss_pred             CCCccEEEEECCHHHHHHHHHHHHHCCcEEEEeCCHHHHHHHHHhcC------------------CCEEEEecCCCCCCH
Confidence            45689999999999999999999999999999999999999996554                  459999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+.....+.++||++++.... ....+++.|+++||.||++.++|...+......
T Consensus        66 ~~~~~~l~~~~~~~~~~ii~~~~~~~~-~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  125 (132)
T 3lte_A           66 LDVIRSLRQNKVANQPKILVVSGLDKA-KLQQAVTEGADDYLEKPFDNDALLDRIHDLVNE  125 (132)
T ss_dssp             HHHHHHHHTTTCSSCCEEEEECCSCSH-HHHHHHHHTCCEEECSSCCHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHhcCccCCCeEEEEeCCChH-HHHHHHHhChHHHhhCCCCHHHHHHHHHHHcCC
Confidence            999999998764345666666665554 788999999999999999999998777665543

>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=99.88  E-value=1.2e-21  Score=147.38  Aligned_cols=124  Identities=26%  Similarity=0.412  Sum_probs=108.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+.+||||||++..+..+..+|...||.|..+.++.+++..+....                 .||+||+|+.||+++|
T Consensus         5 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~-----------------~~dlvi~D~~l~~~~g   67 (136)
T 3hdv_A            5 AARPLVLVVDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQK-----------------RIGLMITDLRMQPESG   67 (136)
T ss_dssp             --CCEEEEECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHCT-----------------TEEEEEECSCCSSSCH
T ss_pred             CCCCeEEEECCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHHhCC-----------------CCcEEEEeccCCCCCH
Confidence            34689999999999999999999999999999999999999885432                 2679999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++++.|+... .+.+|||++|+..+.....++++.|+++||.||++.++|...+..+..+.
T Consensus        68 ~~~~~~l~~~~-~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  128 (136)
T 3hdv_A           68 LDLIRTIRASE-RAALSIIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKIG  128 (136)
T ss_dssp             HHHHHHHHTST-TTTCEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHhcC-CCCCCEEEEeCCCChHHHHHHHhCCcceEEeCCCCHHHHHHHHHHHhcCc
Confidence            99999999873 35899999999999999999999999999999999999988777766543

>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics; 2.04A {Staphylococcus aureus}

Probab=99.88  E-value=1.1e-21  Score=147.45  Aligned_cols=119  Identities=22%  Similarity=0.381  Sum_probs=105.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+..+|+..|  +.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         3 ~~~Ilivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~al~~~~~~~------------------~dlvilD~~lp~~~g   64 (133)
T 3b2n_A            3 LTSLIIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEEYN------------------PNVVILDIEMPGMTG   64 (133)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHSSEEEEEEESCHHHHHHHHHHHC------------------CSEEEECSSCSSSCH
T ss_pred             ceEEEEECCCHHHHHHHHHHHhhCCCcEEEEEcCCHHHHHHHHhhcC------------------CCEEEEecCCCCCCH
Confidence            4789999999999999999998776  55678999999999986544                  459999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+...+  .+|||++|+..+.....++++.|+++||.||++.++|...+..++.+
T Consensus        65 ~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  123 (133)
T 3b2n_A           65 LEVLAEIRKKHL--NIKVIIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNNG  123 (133)
T ss_dssp             HHHHHHHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTSCHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHCC--CCcEEEEecCCCHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHcC
Confidence            999999998643  89999999999999999999999999999999999998877766543

>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structu initiative, PSI-2; 2.00A {Colwellia psychrerythraea}

Probab=99.88  E-value=2e-21  Score=146.97  Aligned_cols=123  Identities=24%  Similarity=0.398  Sum_probs=108.5

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhc-CCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKT-SSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~-~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ..+++||||||++..+..+..+|.. .||. |..+.++.+|+..+....                  ||+||+|+.||++
T Consensus         6 ~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~------------------~dlii~d~~l~~~   67 (143)
T 3cnb_A            6 KNDFSILIIEDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHTVK------------------PDVVMLDLMMVGM   67 (143)
T ss_dssp             ---CEEEEECSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHHHTC------------------CSEEEEETTCTTS
T ss_pred             cCCceEEEEECCHHHHHHHHHHHHhccCccEEEEECCHHHHHHHHHhcC------------------CCEEEEecccCCC
Confidence            4568999999999999999999998 8999 889999999999996544                  5599999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +|+++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..++++
T Consensus        68 ~g~~~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~  130 (143)
T 3cnb_A           68 DGFSICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQ  130 (143)
T ss_dssp             CHHHHHHHHHTSTTTTTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHhCccccCCcEEEEeCCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            999999999985444589999999999999999999999999999999999998877776643

>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=99.87  E-value=1.9e-21  Score=142.70  Aligned_cols=115  Identities=24%  Similarity=0.422  Sum_probs=104.0

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~l~~~~g~~~   63 (120)
T 2a9o_A            2 KKILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQ------------------PDIIILDLMLPEIDGLEV   63 (120)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEECSSCSSSCHHHH
T ss_pred             ceEEEEcCCHHHHHHHHHHHHhcCcEEEEecCHHHHHHHHHhCC------------------CCEEEEeccCCCCCHHHH
Confidence            58999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++.|++.   +.+|||++|+..+......+++.|+++||.||++.++|...+..++
T Consensus        64 ~~~l~~~---~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~  116 (120)
T 2a9o_A           64 AKTIRKT---SSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALL  116 (120)
T ss_dssp             HHHHHHH---CCCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHhC---CCCCEEEEecCCchHHHHHHHhCCHhheEeCCCCHHHHHHHHHHHH
Confidence            9999974   3799999999998888899999999999999999999987766554

>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, protein structure initiative; 2.00A {Desulfuromonas acetoxidans}

Probab=99.87  E-value=1.3e-21  Score=149.11  Aligned_cols=124  Identities=20%  Similarity=0.326  Sum_probs=109.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...++||||||++..+..+...|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|
T Consensus         6 ~~~~~iLivd~~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlii~d~~l~~~~g   67 (147)
T 2zay_A            6 GKWWRIMLVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVKTH------------------PHLIITEANMPKISG   67 (147)
T ss_dssp             --CEEEEEECTTGGGGHHHHHHHHHHTEEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCH
T ss_pred             CCCceEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHHcCC------------------CCEEEEcCCCCCCCH
Confidence            34689999999999999999999999999999999999999996544                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..++...
T Consensus        68 ~~~~~~l~~~~~~~~~pii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~~~  129 (147)
T 2zay_A           68 MDLFNSLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLL  129 (147)
T ss_dssp             HHHHHHHHTSTTTTTSCEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcccCCCCEEEEeCCCCHHHHHHHHhCCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999999843345899999999999999999999999999999999999988777766543

>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein structure initiative; 2.45A {Rhodopirellula baltica}

Probab=99.87  E-value=5.6e-21  Score=146.63  Aligned_cols=121  Identities=24%  Similarity=0.370  Sum_probs=108.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..+..+|+. ||.|..+.++.+|++.+....                 +||+||+|+.||+++|++
T Consensus         4 ~~~ILivdd~~~~~~~l~~~L~~-~~~v~~~~~~~~a~~~l~~~~-----------------~~dlvi~D~~l~~~~g~~   65 (151)
T 3kcn_A            4 NERILLVDDDYSLLNTLKRNLSF-DFEVTTCESGPEALACIKKSD-----------------PFSVIMVDMRMPGMEGTE   65 (151)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTT-TSEEEEESSHHHHHHHHHHSC-----------------CCSEEEEESCCSSSCHHH
T ss_pred             CCeEEEEeCCHHHHHHHHHHhcc-CceEEEeCCHHHHHHHHHcCC-----------------CCCEEEEeCCCCCCcHHH
Confidence            58999999999999999999975 999999999999999996443                 246999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc-ccccccCCCCHHHHHHhhHHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG-AEEFFLKPVRLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G-a~~~l~KP~~~~~L~~~~~~l~~~~~  155 (241)
                      +++.|+...+  .+|||++|+..+......++..| +++||.||++.++|...+..+++.+.
T Consensus        66 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~l~~~~  125 (151)
T 3kcn_A           66 VIQKARLISP--NSVYLMLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQYD  125 (151)
T ss_dssp             HHHHHHHHCS--SCEEEEEECGGGHHHHHHHHHHTCCSEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCC--CcEEEEEECCCCHHHHHHHHHcCCeeEEEcCCCCHHHHHHHHHHHHHHHH
Confidence            9999998764  89999999999999999999999 99999999999999888877776544

>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein S initiative, structural genomics; 2.59A {Cytophaga hutchinsonii}

Probab=99.87  E-value=3.7e-21  Score=145.98  Aligned_cols=127  Identities=21%  Similarity=0.300  Sum_probs=109.6

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ..+++||||||++..+..+..+|...|+  .|..+.++.+|++.+.....             ....||+||+|+.||++
T Consensus         7 ~~~~~iLivdd~~~~~~~l~~~l~~~~~~~~v~~~~~~~~a~~~l~~~~~-------------~~~~~dlvi~D~~l~~~   73 (146)
T 3ilh_A            7 RKIDSVLLIDDDDIVNFLNTTIIRMTHRVEEIQSVTSGNAAINKLNELYA-------------AGRWPSIICIDINMPGI   73 (146)
T ss_dssp             CCEEEEEEECSCHHHHHHHHHHHHTTCCEEEEEEESSHHHHHHHHHHHHT-------------SSCCCSEEEEESSCSSS
T ss_pred             CccceEEEEeCCHHHHHHHHHHHHhcCCCeeeeecCCHHHHHHHHHHhhc-------------cCCCCCEEEEcCCCCCC
Confidence            4568999999999999999999999998  88899999999999965110             01346699999999999


Q ss_pred             CHHHHHHHHHhcC--CCCCCcEEEEccCCChHHHHHHHHhc-ccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESS--SLRDIPVVIMSSENVPSRISRCLEEG-AEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~--~~~~ipvIils~~~~~~~~~~~l~~G-a~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +|+++++.|+...  ..+.+|||++|+..+......++..| +++||.||++.++|...+.+...
T Consensus        74 ~g~~~~~~l~~~~~~~~~~~~ii~~t~~~~~~~~~~~~~~g~~~~~l~KP~~~~~L~~~i~~~~~  138 (146)
T 3ilh_A           74 NGWELIDLFKQHFQPMKNKSIVCLLSSSLDPRDQAKAEASDWVDYYVSKPLTANALNNLYNKVLN  138 (146)
T ss_dssp             CHHHHHHHHHHHCGGGTTTCEEEEECSSCCHHHHHHHHHCSSCCEEECSSCCHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHhhhhccCCCeEEEEeCCCChHHHHHHHhcCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            9999999999842  23489999999999999999999999 99999999999999887766653

>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}

Probab=99.87  E-value=8e-22  Score=149.52  Aligned_cols=121  Identities=20%  Similarity=0.274  Sum_probs=106.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~g   92 (241)
                      ...+||||||++..+..+..+|...||.|..+.++.+|++.+..                 ...||+||+|+.||+ ++|
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~-----------------~~~~dlvi~D~~l~~~~~g   66 (140)
T 3h5i_A            4 KDKKILIVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSG-----------------GWYPDLILMDIELGEGMDG   66 (140)
T ss_dssp             --CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHT-----------------TCCCSEEEEESSCSSSCCH
T ss_pred             CCcEEEEEeCCHHHHHHHHHHHHHcCCEEEEecChHHHHHHHhc-----------------CCCCCEEEEeccCCCCCCH
Confidence            45899999999999999999999999999999999999999864                 124569999999995 999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++++.|+..   +.+|||++|+..+......+++.|+++||.||++.++|...+..+++.+
T Consensus        67 ~~~~~~l~~~---~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~l~~~  125 (140)
T 3h5i_A           67 VQTALAIQQI---SELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLY  125 (140)
T ss_dssp             HHHHHHHHHH---CCCCEEEEESSSSCCCCGGGGGSCEEEEEETTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC---CCCCEEEEECCCCHHHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHHH
Confidence            9999999985   3899999999988888888999999999999999999988887776544

>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}

Probab=99.87  E-value=2e-21  Score=146.93  Aligned_cols=119  Identities=28%  Similarity=0.458  Sum_probs=103.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +++||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlvi~D~~l~~~~g~~   64 (138)
T 3c3m_A            3 LYTILVVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNATP------------------PDLVLLDIMMEPMDGWE   64 (138)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHH
T ss_pred             cceEEEEeCCHHHHHHHHHHHHHcCceEEEeCCHHHHHHHHhccC------------------CCEEEEeCCCCCCCHHH
Confidence            479999999999999999999999999999999999999986544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.|+.....+.+|||++|+.........++..|+++||.||++.++|...+..++
T Consensus        65 ~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~~  121 (138)
T 3c3m_A           65 TLERIKTDPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVL  121 (138)
T ss_dssp             HHHHHHHSTTTTTSCEEEEESSCCCHHHHHHTTTTCSEEEECCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCcccCCCCEEEEECCCChHHHHHHhhcCHhheEeCCCCHHHHHHHHHHHH
Confidence            999999865446899999999876655556666778999999999999987766654

>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=1.3e-21  Score=158.66  Aligned_cols=133  Identities=22%  Similarity=0.363  Sum_probs=104.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...+||||||++..+..+..+|+..|| .|..+.++.+|++.+.........     ........|||||+|+.||+++|
T Consensus        60 ~~~~ILiVdDd~~~~~~l~~~L~~~g~~~v~~a~~~~eal~~l~~~~~~~~~-----~~~~~~~~~dlillD~~lp~~~G  134 (206)
T 3mm4_A           60 RGKRVLVVDDNFISRKVATGKLKKMGVSEVEQCDSGKEALRLVTEGLTQREE-----QGSVDKLPFDYIFMDCQMPEMDG  134 (206)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCSEEEEESSHHHHHHHHHHHHHHHHH-----HTCSSCCSCSEEEEESCCSSSCH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCCeeeeeCCHHHHHHHHHhhcccccc-----cccccCCCCCEEEEcCCCCCCCH
Confidence            457999999999999999999999998 899999999999998643000000     00000124779999999999999


Q ss_pred             HHHHHHHHhcCC--CCCCcEEEEccCC-ChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSS--LRDIPVVIMSSEN-VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~--~~~ipvIils~~~-~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+....  .+++|||++|+.. +.....++++.|+++||.||++  +|...+..++..
T Consensus       135 ~el~~~lr~~~~~~~~~~piI~ls~~~~~~~~~~~~~~~Ga~~~l~KP~~--~L~~~i~~~l~~  196 (206)
T 3mm4_A          135 YEATREIRKVEKSYGVRTPIIAVSGHDPGSEEARETIQAGMDAFLDKSLN--QLANVIREIESK  196 (206)
T ss_dssp             HHHHHHHHHHHHTTTCCCCEEEEESSCCCHHHHHHHHHHTCSEEEETTCT--THHHHHHHHC--
T ss_pred             HHHHHHHHhhhhhcCCCCcEEEEECCCCcHHHHHHHHhCCCCEEEcCcHH--HHHHHHHHHHhh
Confidence            999999997521  1489999999987 7788889999999999999998  776666666544

>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}

Probab=99.87  E-value=5.8e-22  Score=148.61  Aligned_cols=118  Identities=19%  Similarity=0.324  Sum_probs=104.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +++||||||++..+..+..+|+..||.+. .+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus         1 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~~~------------------~dlii~d~~l~~~~g~   62 (134)
T 3f6c_A            1 SLNAIIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLK------------------PDIVIIDVDIPGVNGI   62 (134)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHTTEEEEEEESSSTTHHHHHHHHC------------------CSEEEEETTCSSSCHH
T ss_pred             CeEEEEEcCCHHHHHHHHHHHhhCCcEEEEEcCCHHHHHHHHHhcC------------------CCEEEEecCCCCCChH
Confidence            37999999999999999999999999988 8999999999996554                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        63 ~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  119 (134)
T 3f6c_A           63 QVLETLRKRQY--SGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKN  119 (134)
T ss_dssp             HHHHHHHHTTC--CSEEEEEECC---CTHHHHHHTTCSEEEEGGGCTHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCC--CCeEEEEeCCCChHHHHHHHHhCCCEEEeCCCCHHHHHHHHHHHHC
Confidence            99999998764  8999999999988889999999999999999999999887776653

>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=7.2e-21  Score=146.51  Aligned_cols=121  Identities=25%  Similarity=0.395  Sum_probs=108.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .++||||||++..+..+..+|...||.|..+.++.+|+..+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~------------------~~dliild~~l~~~~g~~   64 (155)
T 1qkk_A            3 APSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD------------------FAGIVISDIRMPGMDGLA   64 (155)
T ss_dssp             -CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCTT------------------CCSEEEEESCCSSSCHHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHcCcEEEEECCHHHHHHHHHhC------------------CCCEEEEeCCCCCCCHHH
Confidence            57999999999999999999999999999999999999988543                  356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~  155 (241)
                      +++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++..+.
T Consensus        65 ~~~~l~~~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~i~~~~~~~~  123 (155)
T 1qkk_A           65 LFRKILALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRR  123 (155)
T ss_dssp             HHHHHHHHCT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCC--CCCEEEEECCCChHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHHHHHH
Confidence            9999998754  8999999999888899999999999999999999999887777765543

>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A

Probab=99.87  E-value=2.7e-22  Score=171.09  Aligned_cols=117  Identities=21%  Similarity=0.264  Sum_probs=104.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-CCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-GMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~~~   91 (241)
                      ...+||+|||++..+..+..+|+..||.|. .+.+|.+|++.+....                  |||||+|+.|| +||
T Consensus       159 l~~rILvVdD~~~~~~~l~~~L~~~g~~v~~~a~~g~eAl~~~~~~~------------------~dlvl~D~~MPd~md  220 (286)
T 3n0r_A          159 LATEVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRT------------------PGLVLADIQLADGSS  220 (286)
T ss_dssp             CCCEEEEECCSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHCC------------------CSEEEEESCCTTSCC
T ss_pred             CCCcEEEEcCCHHHHHHHHHHhhccCceEEEEeCCHHHHHHHHHhCC------------------CCEEEEcCCCCCCCC
Confidence            346899999999999999999999999999 9999999999997554                  55999999999 899


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      |+++++.||...   ++|||++|+..  +...+++++|+++||.||++.++|...+..++..
T Consensus       221 G~e~~~~ir~~~---~~piI~lT~~~--~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~~  277 (286)
T 3n0r_A          221 GIDAVKDILGRM---DVPVIFITAFP--ERLLTGERPEPTFLITKPFQPETVKAAIGQALFF  277 (286)
T ss_dssp             TTTTTHHHHHHT---TCCEEEEESCG--GGGCCSSSCCCSSEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC---CCCEEEEeCCH--HHHHHHHhCCCcEEEeCCCCHHHHHHHHHHHHHh
Confidence            999999999875   89999999975  3466789999999999999999998877776644

>3eq2_A Probable two-component response regulator; adaptor sigmas, signaling protein; 3.40A {Pseudomonas aeruginosa} PDB: 3f7a_A

Probab=99.87  E-value=2.6e-21  Score=171.53  Aligned_cols=121  Identities=25%  Similarity=0.490  Sum_probs=105.0

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ....+||||||++..+..+..+|+..||.|..+.++.+|++.+....                  |||||+|+.||+++|
T Consensus         3 ~~~~~iLivdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~------------------~dlvllD~~mp~~~G   64 (394)
T 3eq2_A            3 KVSATLLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQ------------------PDLVICDLRMPQIDG   64 (394)
T ss_dssp             -CEEEEEEECSCHHHHHHHHHHHHHTTEEEEECSSHHHHHHHHHHSC------------------CSEEEECCCSSSSCT
T ss_pred             CCCCEEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhhCC------------------CCEEEEcCCCCCCCH
Confidence            34689999999999999999999999999999999999999996544                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~~~  153 (241)
                      ++++++||+..+  ++|||++|+..+.+.+.++++.||++||.||+ +.+.|...+..++..
T Consensus        65 ~~~~~~lr~~~~--~~pii~lt~~~~~~~~~~a~~~ga~~yl~KP~~~~~~l~~~i~~~~~~  124 (394)
T 3eq2_A           65 LELIRRIRQTAS--ETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALDR  124 (394)
T ss_dssp             HHHHHHHHHTTC--CCCEEEC---CHHHHHHHHHHHTCSEECCSSCSCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCC--CCcEEEEEcCCCHHHHHHHHhcChhhEEECCCChHHHHHHHHHHHHhh
Confidence            999999998754  89999999999999999999999999999999 678887766666544

>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=99.87  E-value=2.7e-21  Score=156.15  Aligned_cols=120  Identities=27%  Similarity=0.406  Sum_probs=108.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+..+|...||.|..+.++.+|++.+...                  .||+||+|+.||+++|++
T Consensus         4 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~------------------~~dlvl~D~~lp~~~g~~   65 (208)
T 1yio_A            4 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPE------------------QHGCLVLDMRMPGMSGIE   65 (208)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCTT------------------SCEEEEEESCCSSSCHHH
T ss_pred             CCEEEEEcCCHHHHHHHHHHHHhCCceEEEcCCHHHHHHhhhcc------------------CCCEEEEeCCCCCCCHHH
Confidence            47899999999999999999999999999999999999988543                  466999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++.|+...+  ++|||++|+..+......+++.||++||.||++.++|...+..++...
T Consensus        66 ~~~~l~~~~~--~~~ii~ls~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~~  123 (208)
T 1yio_A           66 LQEQLTAISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQLN  123 (208)
T ss_dssp             HHHHHHHTTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCC--CCCEEEEeCCCCHHHHHHHHHCCCcEEEeCCCCHHHHHHHHHHHHhhh
Confidence            9999998754  899999999988888899999999999999999999988777776543

>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=99.87  E-value=4.4e-21  Score=140.98  Aligned_cols=116  Identities=20%  Similarity=0.391  Sum_probs=104.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+...|...||.+..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~------------------~dlvi~D~~l~~~~g~~~   63 (121)
T 1zh2_A            2 TNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK------------------PDLIILDLGLPDGDGIEF   63 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESEETTEEHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHhcCC------------------CCEEEEeCCCCCCcHHHH
Confidence            68999999999999999999999999999999999999886443                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.++. .  +.+|||++|+..+......+++.|+++||.||++.++|...+..+++
T Consensus        64 ~~~l~~-~--~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~  117 (121)
T 1zh2_A           64 IRDLRQ-W--SAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR  117 (121)
T ss_dssp             HHHHHT-T--CCCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHh-C--CCCcEEEEECCCCHHHHHHHHhcCCCeEEeCCcCHHHHHHHHHHHHH
Confidence            999995 2  37999999999999889999999999999999999999877766544

>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex, response regulator, receiver domain, two-component signal transduction; HET: BFD; 1.96A {Borrelia burgdorferi}

Probab=99.87  E-value=2.8e-21  Score=149.57  Aligned_cols=118  Identities=25%  Similarity=0.427  Sum_probs=106.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +++||||||++..+..+..+|+..||.+. .+.++.+|++.+....+                .|||||+|+.||+++|+
T Consensus        36 ~~~Ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~l~~~~~----------------~~dliilD~~l~~~~g~   99 (157)
T 3hzh_A           36 PFNVLIVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNHYP----------------NIDIVTLXITMPKMDGI   99 (157)
T ss_dssp             ECEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHGG----------------GCCEEEECSSCSSSCHH
T ss_pred             ceEEEEEeCCHHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHhcCC----------------CCCEEEEeccCCCccHH
Confidence            57999999999999999999999999998 99999999999965411                35699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..+
T Consensus       100 ~~~~~lr~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~  154 (157)
T 3hzh_A          100 TCLSNIMEFDK--NARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSV  154 (157)
T ss_dssp             HHHHHHHHHCT--TCCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHT
T ss_pred             HHHHHHHhhCC--CCcEEEEeccCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHH
Confidence            99999998764  89999999999999999999999999999999999998766654

>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}

Probab=99.86  E-value=4.3e-21  Score=145.38  Aligned_cols=120  Identities=24%  Similarity=0.386  Sum_probs=108.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      .+++||||||++..+..+...|...||.|..+.++.+|++.+....                  ||+||+|+ ||+++|+
T Consensus         3 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~-~~~~~g~   63 (142)
T 2qxy_A            3 LTPTVMVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREK------------------IDLVFVDV-FEGEESL   63 (142)
T ss_dssp             CCCEEEEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTSC------------------CSEEEEEC-TTTHHHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhccC------------------CCEEEEeC-CCCCcHH
Confidence            3579999999999999999999999999999999999999996543                  56999999 9999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++.|+...+  ++|||++|+..+......+++.|+++||.||++.++|...+..++...
T Consensus        64 ~~~~~l~~~~~--~~pii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~l~~~i~~~~~~~  122 (142)
T 2qxy_A           64 NLIRRIREEFP--DTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISST  122 (142)
T ss_dssp             HHHHHHHHHCT--TCEEEEEESCCCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHCC--CCCEEEEECCCCHHHHHHHHHCCcceeEeCCCCHHHHHHHHHHHHhhc
Confidence            99999998754  899999999999999999999999999999999999988777776543

>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping; 1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB: 1qmp_A*

Probab=99.86  E-value=3.7e-21  Score=143.72  Aligned_cols=118  Identities=20%  Similarity=0.354  Sum_probs=103.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ++||||||++..+..+..+|... ||.+. .+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~~~~~~~~~~~~~~~a~~~~~~~~------------------~dlvllD~~l~~~~g~   64 (130)
T 1dz3_A            3 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKR------------------PDILLLDIIMPHLDGL   64 (130)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCHH
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHhcCC------------------CCEEEEecCCCCCCHH
Confidence            68999999999999999999887 88876 7999999999986544                  4599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.|++.. .+.+|||++|+..+.....++++.||++||.||++.++|...+..+.+
T Consensus        65 ~~~~~l~~~~-~~~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~~i~~~~~  122 (130)
T 1dz3_A           65 AVLERIRAGF-EHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYG  122 (130)
T ss_dssp             HHHHHHHHHC-SSCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCCcEEEEecCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHhc
Confidence            9999999852 237899999999999999999999999999999999999877766543

>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans}

Probab=99.86  E-value=2.4e-21  Score=161.67  Aligned_cols=118  Identities=18%  Similarity=0.375  Sum_probs=106.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus        36 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~DlvllD~~lp~~~G~   97 (249)
T 3q9s_A           36 NEQRILVIEDDHDIANVLRMDLTDAGYVVDHADSAMNGLIKAREDH------------------PDLILLDLGLPDFDGG   97 (249)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEECCSCHHHHH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcCC------------------CCEEEEcCCCCCCCHH
Confidence            3579999999999999999999999999999999999999986544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.|+..   +.+|||++|+..+...+.+++++||++||.||++.++|...+..+++
T Consensus        98 ~l~~~lr~~---~~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~~l~  153 (249)
T 3q9s_A           98 DVVQRLRKN---SALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDELLARVKVQLR  153 (249)
T ss_dssp             HHHHHHHTT---CCCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHC
T ss_pred             HHHHHHHcC---CCCCEEEEECCCCHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHh
Confidence            999999973   37999999999999999999999999999999999999877766654

>3cu5_A Two component transcriptional regulator, ARAC FAM; structural genomics, protein structure initiative; 2.60A {Clostridium phytofermentans isdg}

Probab=99.86  E-value=3.7e-21  Score=146.23  Aligned_cols=118  Identities=24%  Similarity=0.335  Sum_probs=98.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhc--CCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKT--SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~--~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ++||||||++..+..+...|..  .||.+. .+.++.+++..+....                  ||+||+|+.||+++|
T Consensus         3 ~~ILivdd~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~al~~~~~~~------------------~dlvllD~~lp~~~g   64 (141)
T 3cu5_A            3 LRILIVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALKHP------------------PNVLLTDVRMPRMDG   64 (141)
T ss_dssp             CEEEEECSCHHHHHHHHHHCCGGGSCCSEEEEESSHHHHHHHHTTSC------------------CSEEEEESCCSSSCH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHccCCcEEeeecccHHHHHHHHhcCC------------------CCEEEEeCCCCCCCH
Confidence            6899999999999999999973  588777 8999999999986443                  569999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|++..+  .+|||++|+..+......+++.|+++||.||++.++|...+..++..
T Consensus        65 ~~l~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~  123 (141)
T 3cu5_A           65 IELVDNILKLYP--DCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQT  123 (141)
T ss_dssp             HHHHHHHHHHCT--TCEEEEECCSTTTCCC------CCCEEECSSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCC--CCcEEEEeCCCcHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            999999998654  89999999988888888999999999999999999998777766543

>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=99.86  E-value=7.6e-22  Score=146.48  Aligned_cols=118  Identities=25%  Similarity=0.403  Sum_probs=105.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.++++.+...                  .||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~l~~~g~~v~~~~~~~~a~~~~~~~------------------~~dlvi~D~~l~~~~g~~~   64 (127)
T 2jba_A            3 RRILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP------------------WPDLILLAWMLPGGSGIQF   64 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTCSSS------------------CCSEEEEESEETTEEHHHH
T ss_pred             cEEEEEcCCHHHHHHHHHHHHHCCceEEEeCCHHHHHHHHhcc------------------CCCEEEEecCCCCCCHHHH
Confidence            5899999999999999999999999999999999999887543                  3569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++|++....+.+|||++|+..+......+++.|+++||.||++.++|...+..++
T Consensus        65 ~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~  120 (127)
T 2jba_A           65 IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVM  120 (127)
T ss_dssp             HHHHHTSTTTTTSCEEEEEETTHHHHHHTTCCCSCSEEEEESCCHHHHHHHHHHHH
T ss_pred             HHHHHhCcccCCCCEEEEeCCCCHHHHHHHHhcCCCeEEeCCCCHHHHHHHHHHHH
Confidence            99999865345899999999988888889999999999999999999977666554

>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=99.86  E-value=4.4e-21  Score=144.15  Aligned_cols=117  Identities=22%  Similarity=0.400  Sum_probs=105.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.||+++|+++
T Consensus         4 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~l~~~~g~~~   65 (136)
T 1mvo_A            4 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEK------------------PDLIVLDVMLPKLDGIEV   65 (136)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESSCSSSCHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCcEEEEecCHHHHHHHHhhcC------------------CCEEEEecCCCCCCHHHH
Confidence            68999999999999999999999999999999999999986544                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.|++..+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        66 ~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~  120 (136)
T 1mvo_A           66 CKQLRQQKL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILR  120 (136)
T ss_dssp             HHHHHHTTC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCC--CCCEEEEECCCCHHHHHHHHhCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            999998754  7999999998888888899999999999999999999877766554

>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=99.86  E-value=2.9e-21  Score=161.67  Aligned_cols=120  Identities=29%  Similarity=0.553  Sum_probs=109.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus       128 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~------------------~dlvl~D~~mp~~~G~  189 (254)
T 2ayx_A          128 DDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH------------------IDIVLSDVNMPNMDGY  189 (254)
T ss_dssp             CCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHHSC------------------CSEEEEEESSCSSCCH
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhCC------------------CCEEEEcCCCCCCCHH
Confidence            4589999999999999999999999999999999999999996543                  5699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++++.||+..+  .+|||++|+........++++.|+++||.||++.++|...+.+++..
T Consensus       190 ~l~~~ir~~~~--~~piI~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~~  247 (254)
T 2ayx_A          190 RLTQRIRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAER  247 (254)
T ss_dssp             HHHHHHHHHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCC--CCcEEEEECCCCHHHHHHHHHcCCceEEECCCCHHHHHHHHHHHHHH
Confidence            99999998754  89999999999899999999999999999999999998877776543

>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92; 2.10A {Neptuniibacter caesariensis}

Probab=99.86  E-value=1.4e-20  Score=144.77  Aligned_cols=121  Identities=29%  Similarity=0.356  Sum_probs=109.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      .+++||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+
T Consensus         6 ~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~~------------------~dlvi~d~~l~~~~g~   67 (154)
T 2rjn_A            6 KNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTS------------------VQLVISDMRMPEMGGE   67 (154)
T ss_dssp             SCCEEEEECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTTSC------------------CSEEEEESSCSSSCHH
T ss_pred             CCCeEEEEcCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcCC------------------CCEEEEecCCCCCCHH
Confidence            4689999999999999999999999999999999999999996443                  5699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc-ccccccCCCCHHHHHHhhHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG-AEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G-a~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++.|+...+  .+|||++|+..+......++..| +++||.||++.++|...+..++...
T Consensus        68 ~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~~l~kP~~~~~L~~~i~~~~~~~  127 (154)
T 2rjn_A           68 VFLEQVAKSYP--DIERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLA  127 (154)
T ss_dssp             HHHHHHHHHCT--TSEEEEEECGGGHHHHHHHHHTTCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC--CCcEEEEecCCCHHHHHHHHhccchheeeeCCCCHHHHHHHHHHHHHHH
Confidence            99999998754  89999999998888899999998 9999999999999988777776544

>3cg4_A Response regulator receiver domain protein (CHEY-; structural genomics, unknown function; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}

Probab=99.86  E-value=1.8e-21  Score=147.37  Aligned_cols=124  Identities=27%  Similarity=0.439  Sum_probs=108.9

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ...+++||||||++..+..+..+|...||.|..+.++.+|++.+...                  .||+||+|+.||+++
T Consensus         4 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~------------------~~dlii~d~~l~~~~   65 (142)
T 3cg4_A            4 AEHKGDVMIVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKG------------------FSGVVLLDIMMPGMD   65 (142)
T ss_dssp             --CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTC------------------CCEEEEEESCCSSSC
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHHCCeEEEEeCCHHHHHHHHHhc------------------CCCEEEEeCCCCCCC
Confidence            34578999999999999999999999999999999999999999654                  356999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      |+++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..++..
T Consensus        66 g~~~~~~l~~~~~~~~~pii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~  127 (142)
T 3cg4_A           66 GWDTIRAILDNSLEQGIAIVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGF  127 (142)
T ss_dssp             HHHHHHHHHHTTCCTTEEEEEEECTTCCCCSSTTGGGGEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccCCCCEEEEECCCCHHHHHHHHhcCccEEEeCCCCHHHHHHHHHHHHHH
Confidence            99999999984334589999999988888888899999999999999999998877776643

>4dad_A Putative pilus assembly-related protein; response regulator receiver domain, CHEY-related protein, ST genomics; 2.50A {Burkholderia pseudomallei} PDB: 4dn6_A

Probab=99.86  E-value=1.4e-21  Score=148.99  Aligned_cols=121  Identities=9%  Similarity=0.184  Sum_probs=107.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCC-CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCccc-ccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSS-YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE-VGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g-~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~-~~~dlIilD~~mp~~   90 (241)
                      ....+||||||++..+..+..+|+..| |.|..+.++.+++..+..                 . ..|||||+|+.||++
T Consensus        18 ~~~~~ilivdd~~~~~~~l~~~L~~~g~~~v~~~~~~~~~~~~~~~-----------------~~~~~dlvi~D~~l~~~   80 (146)
T 4dad_A           18 QGMINILVASEDASRLAHLARLVGDAGRYRVTRTVGRAAQIVQRTD-----------------GLDAFDILMIDGAALDT   80 (146)
T ss_dssp             GGGCEEEEECSCHHHHHHHHHHHHHHCSCEEEEECCCHHHHTTCHH-----------------HHTTCSEEEEECTTCCH
T ss_pred             CCCCeEEEEeCCHHHHHHHHHHHhhCCCeEEEEeCCHHHHHHHHHh-----------------cCCCCCEEEEeCCCCCc
Confidence            456899999999999999999999988 999999999988877642                 1 346699999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +|+++++.|+...+  .+|||++|+..+......+++.||++||.||++.++|...+..++.
T Consensus        81 ~g~~~~~~l~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~  140 (146)
T 4dad_A           81 AELAAIEKLSRLHP--GLTCLLVTTDASSQTLLDAMRAGVRDVLRWPLEPRALDDALKRAAA  140 (146)
T ss_dssp             HHHHHHHHHHHHCT--TCEEEEEESCCCHHHHHHHHTTTEEEEEESSCCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhCC--CCcEEEEeCCCCHHHHHHHHHhCCceeEcCCCCHHHHHHHHHHHHh
Confidence            99999999998764  8999999999999999999999999999999999999887776654

>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=99.86  E-value=1.4e-21  Score=172.18  Aligned_cols=116  Identities=22%  Similarity=0.319  Sum_probs=106.9

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      +||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|++++
T Consensus         2 ~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~------------------~DlvllDi~mP~~dG~ell   63 (368)
T 3dzd_A            2 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKIKELF------------------FPVIVLDVWMPDGDGVNFI   63 (368)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHBC------------------CSEEEEESEETTEETTTHH
T ss_pred             EEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCHHHHH
Confidence            7999999999999999999999999999999999999996554                  5599999999999999999


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++|+...+  ++|||++|+..+.+.+.++++.||++||.||++.++|...+.+++.
T Consensus        64 ~~lr~~~~--~~pvI~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~~l~  117 (368)
T 3dzd_A           64 DFIKENSP--DSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFE  117 (368)
T ss_dssp             HHHHHHCT--TCEEEEEECSSCCHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHhhCC--CCeEEEEeCCCCHHHHHHHHhcCcceEEeCCCCHHHHHHHHHHHHH
Confidence            99998765  8999999999999999999999999999999999999877766654

>1dcf_A ETR1 protein; beta-alpha five sandwich, transferase; 2.50A {Arabidopsis thaliana} SCOP: c.23.1.2

Probab=99.86  E-value=5.9e-21  Score=143.73  Aligned_cols=119  Identities=27%  Similarity=0.478  Sum_probs=101.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|...||.|..+.++.+|++.+...                  . |+||+|+.||+++|+
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~------------------~-dlvllD~~lp~~~g~   66 (136)
T 1dcf_A            6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHE------------------H-KVVFMDVCMPGVENY   66 (136)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCTT------------------C-SEEEEECCSSTTTTT
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCHHHHHHHHhcc------------------C-CEEEEeCCCCCCcHH
Confidence            468999999999999999999999999999999999999988432                  2 599999999999999


Q ss_pred             HHHHHHHhcCCC---CCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSL---RDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~---~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++.|++..+.   ...+||++|+..+......+++.|+++||.||++.++|...+..++
T Consensus        67 ~~~~~l~~~~~~~~~~~~~ii~~s~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~l~~~~  127 (136)
T 1dcf_A           67 QIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLL  127 (136)
T ss_dssp             HHHHHHHHHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhccCCCceEEEEeCCCCHHHHHHHHHcCCCeEEECCCCHHHHHHHHHHHh
Confidence            999999853211   1235788999988888999999999999999999999977666554

>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=5.3e-21  Score=154.32  Aligned_cols=119  Identities=25%  Similarity=0.407  Sum_probs=106.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..+||||||++..+..+..+|...||.|. .+.++.+|++.+....                  ||+||+|+.||+++|+
T Consensus        13 ~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~al~~~~~~~------------------~dlvi~D~~~p~~~g~   74 (205)
T 1s8n_A           13 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHK------------------PDLVIMDVKMPRRDGI   74 (205)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC------------------CSEEEEESSCSSSCHH
T ss_pred             CccEEEEECCHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHHHhhcC------------------CCEEEEeCCCCCCChH
Confidence            36999999999999999999999999988 8999999999986544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++.|+...   ..|||++|+..+......+++.||++||.||++.++|...+..++...
T Consensus        75 ~~~~~l~~~~---~~pii~lt~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  132 (205)
T 1s8n_A           75 DAASEIASKR---IAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRF  132 (205)
T ss_dssp             HHHHHHHHTT---CSCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC---CCCEEEEecCCCHHHHHHHHhcCCcEEEeCCCCHHHHHHHHHHHHHHH
Confidence            9999999865   349999999998889999999999999999999999988777776554

>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=99.86  E-value=1.4e-21  Score=147.93  Aligned_cols=121  Identities=26%  Similarity=0.399  Sum_probs=99.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..+..+|... |.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         3 ~~~iLivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~~~------------------~dlvi~D~~l~~~~g~~   63 (140)
T 3n53_A            3 LKKILIIDQQDFSRIELKNFLDSE-YLVIESKNEKEALEQIDHHH------------------PDLVILDMDIIGENSPN   63 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTT-SEEEEESSHHHHHHHHHHHC------------------CSEEEEETTC------C
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHhc-ceEEEeCCHHHHHHHHhcCC------------------CCEEEEeCCCCCCcHHH
Confidence            579999999999999999999987 99999999999999996544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++.|+.....+.+|||++|+..+.+...++++.|+++||.||++.++|...+..+++++
T Consensus        64 ~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  123 (140)
T 3n53_A           64 LCLKLKRSKGLKNVPLILLFSSEHKEAIVNGLHSGADDYLTKPFNRNDLLSRIEIHLRTQ  123 (140)
T ss_dssp             HHHHHHTSTTCTTCCEEEEECC----CTTTTTTCCCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCcccCCCCEEEEecCCCHHHHHHHHhcCCCeeeeCCCCHHHHHHHHHHHHhhH
Confidence            999999876446899999999988888889999999999999999999988777776543

>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A

Probab=99.86  E-value=1e-20  Score=153.54  Aligned_cols=120  Identities=25%  Similarity=0.408  Sum_probs=107.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcC-CCEE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTS-SYQV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~-g~~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      .+++||||||++..+..+..+|... +|.+ ..+.++.+|++.+....                  ||+||+|+.||+++
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~~~~~~------------------~dlvllD~~lp~~~   65 (215)
T 1a04_A            4 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD------------------PDLILLDLNMPGMN   65 (215)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEETTSTTSC
T ss_pred             CceEEEEECCCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCc
Confidence            4589999999999999999999976 4887 68999999999986544                  55999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      |+++++.|+...+  .+|||++|+..+.+....+++.||++||.||++.++|...+..++.+
T Consensus        66 g~~~~~~lr~~~~--~~~ii~ls~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  125 (215)
T 1a04_A           66 GLETLDKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAG  125 (215)
T ss_dssp             HHHHHHHHHHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhCC--CCcEEEEECCCCHHHHHHHHHcCCcEEEeCCCCHHHHHHHHHHHHcC
Confidence            9999999998754  89999999999999999999999999999999999998877776653

>3eul_A Possible nitrate/nitrite response transcriptional regulatory protein NARL (DNA-binding...; central beta strand flanked by alpha helices; 1.90A {Mycobacterium tuberculosis}

Probab=99.86  E-value=1.3e-20  Score=144.67  Aligned_cols=122  Identities=26%  Similarity=0.395  Sum_probs=107.6

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCE--EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQ--VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~--v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      .....+||||||++..+..+..+|...|+.  |..+.++.+|++.+....                  ||+||+|+.||+
T Consensus        12 ~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~a~~~l~~~~------------------~dlii~d~~l~~   73 (152)
T 3eul_A           12 QPEKVRVVVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKAHL------------------PDVALLDYRMPG   73 (152)
T ss_dssp             --CCEEEEEECSSHHHHHHHHHHHHHHSSEEEEEEESSHHHHHHHHHHHC------------------CSEEEEETTCSS
T ss_pred             CCceEEEEEEcCCHHHHHHHHHHHhhCCCeEEEEEeCCHHHHHHHHHhcC------------------CCEEEEeCCCCC
Confidence            456799999999999999999999988854  458999999999996554                  559999999999


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++|+++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.+
T Consensus        74 ~~g~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~Kp~~~~~l~~~i~~~~~~  135 (152)
T 3eul_A           74 MDGAQVAAAVRSYEL--PTRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKG  135 (152)
T ss_dssp             SCHHHHHHHHHHTTC--SCEEEEEESCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHhcCC--CCeEEEEEccCCHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcC
Confidence            999999999998754  89999999999999999999999999999999999998877776654

>3cg0_A Response regulator receiver modulated diguanylate with PAS/PAC sensor; signal receiver domain, diguanylate cyclase; 2.15A {Desulfovibrio desulfuricans subsp}

Probab=99.86  E-value=1.3e-20  Score=142.17  Aligned_cols=122  Identities=16%  Similarity=0.295  Sum_probs=108.5

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-C
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-G   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~   89 (241)
                      ...+++||||||++..+..+...|+..||.|. .+.++.+|+..+....                  ||+||+|+.|| +
T Consensus         6 ~~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~~a~~~~~~~~------------------~dlii~d~~~~~~   67 (140)
T 3cg0_A            6 SDDLPGVLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLR------------------PDIALVDIMLCGA   67 (140)
T ss_dssp             --CCCEEEEECCBHHHHHHHHHHHHHHTCEEEEEESSHHHHHHHHHHHC------------------CSEEEEESSCCSS
T ss_pred             CCCCceEEEEECCHHHHHHHHHHHHHCCCeeEEEECCHHHHHHHHHhCC------------------CCEEEEecCCCCC
Confidence            34578999999999999999999999999999 5999999999996544                  55999999998 7


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++|+++++.|+.. +  .+|||++|+..+......+++.|+++||.||++.++|...+..+++..
T Consensus        68 ~~g~~~~~~l~~~-~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~~~  129 (140)
T 3cg0_A           68 LDGVETAARLAAG-C--NLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKK  129 (140)
T ss_dssp             SCHHHHHHHHHHH-S--CCCEEEEECCCCHHHHHHHHTTCCSEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhC-C--CCCEEEEecCCCHHHHHHHHhcCCCEEEeCCCCHHHHHHHHHHHHhcc
Confidence            9999999999987 3  899999999999999999999999999999999999988877776544

>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=3.2e-20  Score=140.28  Aligned_cols=118  Identities=22%  Similarity=0.330  Sum_probs=103.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|... |.|..+.++.+|+..+...                  .||+||+|+.||+++|+++
T Consensus         2 ~~Ilivdd~~~~~~~l~~~l~~~-~~v~~~~~~~~a~~~~~~~------------------~~dlvl~D~~lp~~~g~~~   62 (139)
T 2jk1_A            2 PAILLVDDEPHSLAAMKLALEDD-FDVLTAQGAEAAIAILEEE------------------WVQVIICDQRMPGRTGVDF   62 (139)
T ss_dssp             CEEEEECSSHHHHHHHHHHHTTT-SCEEEESSHHHHHHHHHHS------------------CEEEEEEESCCSSSCHHHH
T ss_pred             CeEEEEcCCHHHHHHHHHHhhcC-ceEEEcCCHHHHHHHHhcC------------------CCCEEEEeCCCCCCcHHHH
Confidence            47999999999999999999875 9999999999999998643                  3669999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHh-cccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEE-GAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~-Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++.|+...+  .+|+|++|+..+......++.. |+++||.||++.++|...+..++...
T Consensus        63 ~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~ga~~~l~KP~~~~~L~~~i~~~~~~~  120 (139)
T 2jk1_A           63 LTEVRERWP--ETVRIIITGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARMF  120 (139)
T ss_dssp             HHHHHHHCT--TSEEEEEESCTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCC--CCcEEEEeCCCChHHHHHHHHhhchhhhccCCCCHHHHHHHHHHHHHHH
Confidence            999998754  7899999998888888888876 59999999999999988777766544

>3cz5_A Two-component response regulator, LUXR family; structural genomics, protein structure initiative; 2.70A {Aurantimonas SP}

Probab=99.85  E-value=1e-20  Score=145.39  Aligned_cols=120  Identities=19%  Similarity=0.320  Sum_probs=108.0

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhc-CCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKT-SSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      .++++||||||++..+..+..+|.. .||.+. .+.++.+|+..+....                  ||+||+|+.||++
T Consensus         3 ~~~~~ILivdd~~~~~~~l~~~L~~~~~~~v~~~~~~~~~a~~~l~~~~------------------~dlii~D~~l~~~   64 (153)
T 3cz5_A            3 LSTARIMLVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYRETT------------------PDIVVMDLTLPGP   64 (153)
T ss_dssp             -CCEEEEEECSCHHHHHHHHHHHTTSTTEEEEEEESSHHHHHHHHHTTC------------------CSEEEECSCCSSS
T ss_pred             CcccEEEEECCcHHHHHHHHHHHhhCCCcEEEEEeCCHHHHHHHHhcCC------------------CCEEEEecCCCCC
Confidence            3468999999999999999999998 799988 8999999999996544                  5599999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +|+++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        65 ~g~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~i~~~~~  124 (153)
T 3cz5_A           65 GGIEATRHIRQWDG--AARILIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILA  124 (153)
T ss_dssp             CHHHHHHHHHHHCT--TCCEEEEESCCSHHHHHHHHHTTCSEEEETTSCTTHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHhCC--CCeEEEEECCCCHHHHHHHHHCCCcEEEecCCCHHHHHHHHHHHHh
Confidence            99999999998754  8999999999999999999999999999999999999887777654

>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*

Probab=99.85  E-value=4.6e-21  Score=140.15  Aligned_cols=113  Identities=25%  Similarity=0.417  Sum_probs=99.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         2 ~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~l~~~~g~~~   63 (116)
T 3a10_A            2 KRILVVDDEPNIRELLKEELQEEGYEIDTAENGEEALKKFFSGN------------------YDLVILDIEMPGISGLEV   63 (116)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSCCSSSCHHHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHhcCC------------------CCEEEEECCCCCCCHHHH
Confidence            58999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++.|+...+  .+|||++|+..+..  ..+++.|+++|+.||++.++|...+..+
T Consensus        64 ~~~l~~~~~--~~~ii~~s~~~~~~--~~~~~~g~~~~l~Kp~~~~~l~~~i~~~  114 (116)
T 3a10_A           64 AGEIRKKKK--DAKIILLTAYSHYR--SDMSSWAADEYVVKSFNFDELKEKVKKL  114 (116)
T ss_dssp             HHHHHHHCT--TCCEEEEESCGGGG--GCGGGGGSSEEEECCSSTHHHHHHHHHH
T ss_pred             HHHHHccCC--CCeEEEEECCcchH--HHHHhccccceEECCCCHHHHHHHHHHH
Confidence            999998754  89999999876554  6788999999999999999987666543

>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=99.85  E-value=9.2e-21  Score=154.64  Aligned_cols=118  Identities=25%  Similarity=0.390  Sum_probs=107.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~------------------~dlvllD~~l~~~~g~~~   64 (225)
T 1kgs_A            3 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP------------------FDVVILDIMLPVHDGWEI   64 (225)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhcCC------------------CCEEEEeCCCCCCCHHHH
Confidence            68999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+...+  ++|||++|+..+......+++.||++||.||++.++|...+..++++
T Consensus        65 ~~~lr~~~~--~~~ii~ls~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  120 (225)
T 1kgs_A           65 LKSMRESGV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  120 (225)
T ss_dssp             HHHHHHTTC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCCEEEEeCCCCHHHHHHHHhCCccEEEeCCCCHHHHHHHHHHHHhh
Confidence            999998754  89999999999888899999999999999999999998877776654

>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=2.3e-20  Score=168.31  Aligned_cols=121  Identities=30%  Similarity=0.468  Sum_probs=109.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|...||.|..+.++.+|++.+....                  |||||+|+.||+++|+++
T Consensus         2 ~~iLivdD~~~~~~~l~~~L~~~~~~v~~a~~~~~al~~~~~~~------------------~dlvllD~~mp~~~G~~~   63 (459)
T 1w25_A            2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL------------------PDIILLDVMMPGMDGFTV   63 (459)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHhcCC------------------CCEEEEcCCCCCCCHHHH
Confidence            58999999999999999999999999999999999999986544                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++.|+.....+++|||++|+..+.....++++.||++||.||++.++|...+..+++..
T Consensus        64 ~~~l~~~~~~~~~pii~lt~~~~~~~~~~a~~~Ga~~~l~KP~~~~~l~~~i~~~~~~~  122 (459)
T 1w25_A           64 CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (459)
T ss_dssp             HHHHHHSTTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCcccCCCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHHH
Confidence            99999865456899999999999999999999999999999999999988777766543

>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structu initiative; 1.80A {Bacteroides fragilis}

Probab=99.85  E-value=1.7e-20  Score=141.48  Aligned_cols=118  Identities=25%  Similarity=0.261  Sum_probs=106.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-----C
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-----G   89 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-----~   89 (241)
                      +++||||||++..+..+...|+..||.|..+.++.+|++.+...                  .||+||+|+.||     +
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~------------------~~dlvi~d~~~~~~~~~~   64 (140)
T 2qr3_A            3 LGTIIIVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREE------------------NPEVVLLDMNFTSGINNG   64 (140)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHHHHS------------------CEEEEEEETTTTC-----
T ss_pred             CceEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHHcC------------------CCCEEEEeCCcCCCCCCC
Confidence            57999999999999999999999999999999999999999643                  366999999999     9


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++|+++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        65 ~~g~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~l~~~~~  125 (140)
T 2qr3_A           65 NEGLFWLHEIKRQYR--DLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAAS  125 (140)
T ss_dssp             CCHHHHHHHHHHHCT--TCCEEEEEEGGGHHHHHHHHHTTCCEEEEESCCHHHHHHHHHHHHT
T ss_pred             ccHHHHHHHHHhhCc--CCCEEEEECCCCHHHHHHHHHcCchheeeCCCCHHHHHHHHHHHHH
Confidence            999999999998754  8999999999888899999999999999999999999877776654

>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}

Probab=99.84  E-value=1.8e-20  Score=141.93  Aligned_cols=124  Identities=22%  Similarity=0.381  Sum_probs=106.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ..++||||||++..+..+..+|+..|+  .|..+.++.+|+..+......            ....||+||+|+.||+++
T Consensus         6 ~~~~ILivdd~~~~~~~l~~~L~~~g~~~~v~~~~~~~~a~~~l~~~~~~------------~~~~~dlii~D~~l~~~~   73 (143)
T 2qvg_A            6 DKVDILYLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKE------------NKIHPKLILLDINIPKMN   73 (143)
T ss_dssp             -CCSEEEECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHHHHTCTTC------------CCCCCSEEEEETTCTTSC
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHhCCCceEEEECCHHHHHHHHHhcccc------------cCCCCCEEEEecCCCCCC
Confidence            468999999999999999999998888  899999999999998641110            013467999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      |+++++.|+.....+.+|||++|+..+......+++.|+++||.||++.++|...+..
T Consensus        74 g~~~~~~l~~~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~L~~~~~~  131 (143)
T 2qvg_A           74 GIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWI  131 (143)
T ss_dssp             HHHHHHHHTTSGGGTTCEEEEEESCCCHHHHHHHTTTTCCEEEESSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCccccCCcEEEEeCCCCHHHHHHHHhcCCCeEEECCCCHHHHHHHHHH
Confidence            9999999998653358999999999999999999999999999999999999766443

>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=99.84  E-value=3.6e-20  Score=164.22  Aligned_cols=119  Identities=24%  Similarity=0.467  Sum_probs=108.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         1 m~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~------------------~DlvllD~~mp~~dG~el   62 (387)
T 1ny5_A            1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKH------------------FNVVLLDLLLPDVNGLEI   62 (387)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESBCSSSBHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCHHHH
Confidence            47999999999999999999988999999999999999996544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++|+...+  ++|||++|+..+.+.+.++++.||++||.||++.++|...+.+++..+
T Consensus        63 l~~lr~~~~--~~pvIvlT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~~  119 (387)
T 1ny5_A           63 LKWIKERSP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEHR  119 (387)
T ss_dssp             HHHHHHHCT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhCC--CCcEEEEeCCCCHHHHHHHHhcCceEEecCCCCHHHHHHHHHHHHHHH
Confidence            999998754  899999999999999999999999999999999999988777776543

>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=99.84  E-value=1.2e-20  Score=154.76  Aligned_cols=120  Identities=26%  Similarity=0.411  Sum_probs=107.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ..++||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||+|+.||+++|+
T Consensus         6 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~------------------~dlvllD~~l~~~~g~   67 (233)
T 1ys7_A            6 TSPRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR------------------PDAIVLDINMPVLDGV   67 (233)
T ss_dssp             -CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESSCSSSCHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCHH
Confidence            4579999999999999999999999999999999999999986544                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++++.|+...+  ++|||++|+..+......+++.||++||.||++.++|...+..++++
T Consensus        68 ~~~~~l~~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  125 (233)
T 1ys7_A           68 SVVTALRAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRR  125 (233)
T ss_dssp             HHHHHHHHTTC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCC--CCCEEEEEcCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            99999998754  89999999998888888999999999999999999998877776654

>3bre_A Probable two-component response regulator; protein-nucleotide complex, signaling protein; HET: C2E; 2.40A {Pseudomonas aeruginosa} PDB: 3i5a_A*

Probab=99.84  E-value=4.6e-20  Score=160.93  Aligned_cols=120  Identities=22%  Similarity=0.363  Sum_probs=106.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhh-cCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLK-TSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~-~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...+||||||++..+..+..+|. ..||.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus        17 ~~~~ilivdD~~~~~~~l~~~l~~~~~~~v~~~~~~~~al~~~~~~~------------------~dlvl~D~~mp~~~G   78 (358)
T 3bre_A           17 GAVMVLLVDDQAMIGEAVRRSLASEAGIDFHFCSDPQQAVAVANQIK------------------PTVILQDLVMPGVDG   78 (358)
T ss_dssp             -CEEEEEECSCTTHHHHHHTTSSSCTTEEEEEECCHHHHHHHHHHHC------------------CSEEEEESBCSSSBH
T ss_pred             cCceEEEEECCHHHHHHHHHHHHhccCcEEEEeCCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCH
Confidence            35789999999999999999996 46899999999999999996544                  459999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++.|+.....+++|||++|+..+......+++.||++||.||++..+|...+..+.
T Consensus        79 ~~~~~~l~~~~~~~~~~ii~~s~~~~~~~~~~a~~~Ga~~~l~Kp~~~~~l~~~v~~~~  137 (358)
T 3bre_A           79 LTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHS  137 (358)
T ss_dssp             HHHHHHHTTSTTTTTSCEEEEESSCCHHHHHHHHHTTCSEEEESCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcccCCCcEEEEeCCCCHHHHHHHHhcChheEeeccCCHHHHHHHHHHHH
Confidence            99999999865456899999999999999999999999999999999999977665553

>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A

Probab=99.83  E-value=3.9e-20  Score=136.69  Aligned_cols=117  Identities=22%  Similarity=0.358  Sum_probs=104.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-CCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-GMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~~~g~~   94 (241)
                      .+||||||++..+..+...|...||.|..+.++.+|++.+....                  ||+||+|+.|| +++|++
T Consensus         6 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~~~~~~------------------~dlvi~d~~~~~~~~g~~   67 (127)
T 2gkg_A            6 KKILIVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRRDR------------------PDLVVLAVDLSAGQNGYL   67 (127)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHHTCEEEEECCHHHHHHHHHHHC------------------CSEEEEESBCGGGCBHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHhcCceEEEecCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCCHHH
Confidence            68999999999999999999999999999999999999986544                  55999999999 999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.|+.....+++|||++ +..+......+++.|+++|+.||++.++|...+.+++
T Consensus        68 ~~~~l~~~~~~~~~~ii~~-~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~  123 (127)
T 2gkg_A           68 ICGKLKKDDDLKNVPIVII-GNPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALI  123 (127)
T ss_dssp             HHHHHHHSTTTTTSCEEEE-ECGGGHHHHHHSTTCCSEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHhcCccccCCCEEEE-ecCCchhHHHHHHhCcchheeCCCCHHHHHHHHHHHH
Confidence            9999998744458999999 8878888889999999999999999999987766654

>3eqz_A Response regulator; structural genomics, unknown function, PSI-2, protein struct initiative; 2.15A {Colwellia psychrerythraea} SCOP: c.23.1.0

Probab=99.83  E-value=1.9e-20  Score=140.11  Aligned_cols=117  Identities=18%  Similarity=0.263  Sum_probs=103.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..+..+|+..++.|..++++.+++..+..                  . ||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~~~~~------------------~-~dlvi~D~~l~~~~g~~   63 (135)
T 3eqz_A            3 LNRVFIVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLN------------------K-QDIIILDLMMPDMDGIE   63 (135)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHTTTCSCEEEESCHHHHTTSCCC------------------T-TEEEEEECCTTTTHHHH
T ss_pred             cceEEEEeCCHHHHHHHHHHHHhhcceeeeecCHHHHHHhhcc------------------C-CCEEEEeCCCCCCCHHH
Confidence            5799999999999999999999888899999999999887643                  2 66999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCCh-----HHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVP-----SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~-----~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|++..+  .+|||++|+..+.     .....++..|+++||.||++.++|...+.++..
T Consensus        64 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~~~~~g~~~~l~KP~~~~~l~~~l~~~~~  124 (135)
T 3eqz_A           64 VIRHLAEHKS--PASLILISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSN  124 (135)
T ss_dssp             HHHHHHHTTC--CCEEEEEESSCHHHHHHHHHHHHHTTCEEEEEEESSCCHHHHHHHHHHHSC
T ss_pred             HHHHHHhCCC--CCCEEEEEeccchhHHHHHHHHHHcCCCcceeeCCCCCHHHHHHHHHHHHh
Confidence            9999998764  8999999998764     666778999999999999999999887776653

>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein structure initiative; 2.40A {Klebsiella pneumoniae}

Probab=99.83  E-value=8.8e-20  Score=138.26  Aligned_cols=121  Identities=20%  Similarity=0.358  Sum_probs=100.9

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcC-CCEE-EEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTS-SYQV-TTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~-g~~v-~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ....++||||||++..+..+..+|... ||.+ ..+.++.+|++.+....                  ||+||+|+.||+
T Consensus         6 ~~~~~~iLivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~------------------~dlvi~d~~l~~   67 (143)
T 2qv0_A            6 SGEKMKVIIVEDEFLAQQELSWLINTHSQMEIVGSFDDGLDVLKFLQHNK------------------VDAIFLDINIPS   67 (143)
T ss_dssp             ----CEEEEECSCHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHHHHHCC------------------CSEEEECSSCSS
T ss_pred             CCCceEEEEEcCCHHHHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhCC------------------CCEEEEecCCCC
Confidence            345689999999999999999999875 7885 48999999999986544                  559999999999


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++|+++++.|+...+  .+|||++|+..  +...++++.|+++||.||++.++|...+.+++..+
T Consensus        68 ~~g~~~~~~l~~~~~--~~~ii~~s~~~--~~~~~~~~~g~~~~l~KP~~~~~l~~~i~~~~~~~  128 (143)
T 2qv0_A           68 LDGVLLAQNISQFAH--KPFIVFITAWK--EHAVEAFELEAFDYILKPYQESRIINMLQKLTTAW  128 (143)
T ss_dssp             SCHHHHHHHHTTSTT--CCEEEEEESCC--TTHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHccCC--CceEEEEeCCH--HHHHHHHhCCcceEEeCCCCHHHHHHHHHHHHHHH
Confidence            999999999998643  67889898874  35678999999999999999999988887776544

>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein interaction, histidine kinase, response regulator, phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB: 3kyi_B*

Probab=99.83  E-value=5.2e-20  Score=140.14  Aligned_cols=114  Identities=27%  Similarity=0.418  Sum_probs=94.8

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcC-CCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTS-SYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~-g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      .....+||||||++..+..+..+|+.. ||.++ .+.++.+|++.+...                 ..||+||+|+.||+
T Consensus        10 ~~~~~~vlivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~-----------------~~~dlvilD~~l~~   72 (145)
T 3kyj_B           10 HGSPYNVMIVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQ-----------------PNVDLILLDIEMPV   72 (145)
T ss_dssp             -CCSEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHC-----------------TTCCEEEECTTSCC
T ss_pred             CCCCCeEEEEcCCHHHHHHHHHHHHhCCCceEEEEECCHHHHHHHHhcC-----------------CCCCEEEEeCCCCC
Confidence            456789999999999999999999988 88865 899999999998654                 13569999999999


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEEcc--CCChHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIMSS--ENVPSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIils~--~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      ++|+++++.|+...   .+|+|++++  ..+.....++++.|+++||.||++..+|..
T Consensus        73 ~~g~~~~~~lr~~~---~~~iiil~~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l~~  127 (145)
T 3kyj_B           73 MDGMEFLRHAKLKT---RAKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHDL  127 (145)
T ss_dssp             CTTCHHHHHHHHHC---CCEEC-CBSSCSTTSSHHHHHHHTTCSCCCBCCCSCC----
T ss_pred             CCHHHHHHHHHhcC---CCCeEEEEEeccCChHHHHHHHhCCCCEEEeCCCCHHHHHH
Confidence            99999999999865   378999987  556667889999999999999999777643

>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}

Probab=99.83  E-value=1.5e-20  Score=154.27  Aligned_cols=119  Identities=18%  Similarity=0.268  Sum_probs=107.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC-CEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS-YQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g-~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+..+|...| |.++ .+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         1 m~~ILivdd~~~~~~~l~~~L~~~~~~~vv~~~~~~~~al~~l~~~~------------------~dlvllD~~lp~~~g   62 (225)
T 3c3w_A            1 MVKVFLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVPAAR------------------PDVAVLDVRLPDGNG   62 (225)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTCTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEECSEETTEEH
T ss_pred             CcEEEEEcCCHHHHHHHHHHHhcCCCcEEEEEECCHHHHHHHHhhcC------------------CCEEEEeCCCCCCCH
Confidence            3789999999999999999999876 8854 7999999999986544                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+...+  .+|||++|+..+......+++.||++||.||++.++|...+..++.+
T Consensus        63 ~~~~~~lr~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  121 (225)
T 3c3w_A           63 IELCRDLLSRMP--DLRCLILTSYTSDEAMLDAILAGASGYVVKDIKGMELARAVKDVGAG  121 (225)
T ss_dssp             HHHHHHHHHHCT--TCEEEEGGGSSSHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC--CCcEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcC
Confidence            999999998754  89999999999999999999999999999999999998888777655

>2qsj_A DNA-binding response regulator, LUXR family; structural genomics, PSI-2, protein structure initiative; 2.10A {Silicibacter pomeroyi dss-3}

Probab=99.83  E-value=4.4e-20  Score=141.80  Aligned_cols=118  Identities=28%  Similarity=0.325  Sum_probs=95.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CC-EEEEECCHHHHHHHhcc-cCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SY-QVTTVDSGSKALEFLGL-HEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~-~v~~~~~~~~al~~l~~-~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      +++||||||++..+..+..+|... || .|..+.++.+|+..+.. .                  .||+||+|+.||+++
T Consensus         3 ~~~iLivdd~~~~~~~l~~~L~~~~g~~~v~~~~~~~~a~~~l~~~~------------------~~dlvi~d~~l~~~~   64 (154)
T 2qsj_A            3 LTVVLIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADN------------------TVDLILLDVNLPDAE   64 (154)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHHHCTTEEEEEESSHHHHHHHHHTTC------------------CCSEEEECC------
T ss_pred             ccEEEEEcCCHHHHHHHHHHHHhCCCceEEEEecCHHHHHHHHhccC------------------CCCEEEEeCCCCCCc
Confidence            579999999999999999999987 88 67799999999999965 3                  356999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |+++++.|+...+  .+|||++|+..+......+++.|+++||.||++.++|...+..++.
T Consensus        65 g~~~~~~l~~~~~--~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kp~~~~~L~~~l~~~~~  123 (154)
T 2qsj_A           65 AIDGLVRLKRFDP--SNAVALISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILE  123 (154)
T ss_dssp             CHHHHHHHHHHCT--TSEEEEC-----CHHHHHHHHTTCCBBCCTTSCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHhCC--CCeEEEEeCCCCHHHHHHHHHccCCEEEeCCCCHHHHHHHHHHHHc
Confidence            9999999998754  8999999999888889999999999999999999999877766653

>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=99.83  E-value=7.6e-20  Score=149.78  Aligned_cols=117  Identities=25%  Similarity=0.419  Sum_probs=106.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         5 ~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~~~~~~------------------~dlvllD~~l~~~~g~~~   66 (230)
T 2oqr_A            5 TSVLIVEDEESLADPLAFLLRKEGFEATVVTDGPAALAEFDRAG------------------ADIVLLDLMLPGMSGTDV   66 (230)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHHHHHC------------------CSEEEEESSCSSSCHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhccC------------------CCEEEEECCCCCCCHHHH
Confidence            68999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+.. +  .+|||++|+..+......+++.||++||.||++.++|...+..++++
T Consensus        67 ~~~l~~~-~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~l~~~i~~~~~~  121 (230)
T 2oqr_A           67 CKQLRAR-S--SVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRR  121 (230)
T ss_dssp             HHHHHHH-C--SCSEEEEECCHHHHHHHHHHHHCCSCCCCSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHcC-C--CCCEEEEeCCCcHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhh
Confidence            9999985 3  79999999998888889999999999999999999998877776544

>2rdm_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein struct initiative; HET: MSE; 1.76A {Sinorhizobium medicae}

Probab=99.82  E-value=1.3e-19  Score=135.21  Aligned_cols=119  Identities=24%  Similarity=0.329  Sum_probs=103.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~g   92 (241)
                      ++++||||||++..+..+...|...||.|..+.++.+|++.+...                 ..||+||+|+.||+ ++|
T Consensus         4 ~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~a~~~l~~~-----------------~~~dlvi~d~~l~~~~~g   66 (132)
T 2rdm_A            4 EAVTILLADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSG-----------------AAIDGVVTDIRFCQPPDG   66 (132)
T ss_dssp             SSCEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTT-----------------CCCCEEEEESCCSSSSCH
T ss_pred             CCceEEEEcCcHHHHHHHHHHHHHcCCEEEEECCHHHHHHHHHcC-----------------CCCCEEEEeeeCCCCCCH
Confidence            468999999999999999999999999999999999999998643                 13569999999997 999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++.|+...+  .+|||++|+..+......++..|  +||.||++.++|...+.++...
T Consensus        67 ~~~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~--~~l~kP~~~~~l~~~i~~~~~~  123 (132)
T 2rdm_A           67 WQVARVAREIDP--NMPIVYISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNA  123 (132)
T ss_dssp             HHHHHHHHHHCT--TCCEEEEESSCCTTHHHHSCTTC--EEEESSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCC--CCCEEEEeCCccHHHHHhhcCCc--ceEeCCCCHHHHHHHHHHHHhc
Confidence            999999998754  89999999988887777776665  7999999999998877666543

>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=99.82  E-value=1.7e-19  Score=146.86  Aligned_cols=115  Identities=21%  Similarity=0.334  Sum_probs=104.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...| .|..+.++.+|++.+  ..                  ||+||+|+.||+++|+++
T Consensus         3 ~~ilivdd~~~~~~~l~~~L~~~~-~v~~~~~~~~al~~~--~~------------------~dlvllD~~lp~~~g~~~   61 (220)
T 1p2f_A            3 WKIAVVDDDKNILKKVSEKLQQLG-RVKTFLTGEDFLNDE--EA------------------FHVVVLDVMLPDYSGYEI   61 (220)
T ss_dssp             EEEEEECSCHHHHHHHHHHHTTTE-EEEEESSHHHHHHCC--SC------------------CSEEEEESBCSSSBHHHH
T ss_pred             ceEEEEeCCHHHHHHHHHHHHhCC-CEEEECCHHHHHHhc--CC------------------CCEEEEeCCCCCCCHHHH
Confidence            689999999999999999999888 888999999999866  33                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.|+...+  .+|||++|+..+......+++.||++||.||++.++|...+..++.+
T Consensus        62 ~~~lr~~~~--~~~ii~lt~~~~~~~~~~~~~~ga~~~l~Kp~~~~~L~~~i~~~~~~  117 (220)
T 1p2f_A           62 CRMIKETRP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLER  117 (220)
T ss_dssp             HHHHHHHCT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCcEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999998754  89999999999999999999999999999999999998877776654

>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}

Probab=99.82  E-value=1.9e-19  Score=130.88  Aligned_cols=113  Identities=19%  Similarity=0.250  Sum_probs=100.7

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+...|...||.|..+.++.+++..+....                  ||+||+|+.+|+++|+++
T Consensus         2 ~~iliv~~~~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~l~~~~------------------~dlii~d~~~~~~~~~~~   63 (119)
T 2j48_A            2 GHILLLEEEDEAATVVCEMLTAAGFKVIWLVDGSTALDQLDLLQ------------------PIVILMAWPPPDQSCLLL   63 (119)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC------------------CSEEEEECSTTCCTHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHhCCcEEEEecCHHHHHHHHHhcC------------------CCEEEEecCCCCCCHHHH
Confidence            58999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      ++.++.....+.+|||++|+.....   .++..|+++|+.||++..+|...+..
T Consensus        64 ~~~l~~~~~~~~~~ii~~~~~~~~~---~~~~~g~~~~l~kp~~~~~l~~~l~~  114 (119)
T 2j48_A           64 LQHLREHQADPHPPLVLFLGEPPVD---PLLTAQASAILSKPLDPQLLLTTLQG  114 (119)
T ss_dssp             HHHHHHTCCCSSCCCEEEESSCCSS---HHHHHHCSEECSSCSTTHHHHHHHHT
T ss_pred             HHHHHhccccCCCCEEEEeCCCCch---hhhhcCHHHhccCCCCHHHHHHHHHH
Confidence            9999987644589999999987665   88999999999999999998766544

>2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A

Probab=99.82  E-value=1.4e-19  Score=149.51  Aligned_cols=116  Identities=22%  Similarity=0.472  Sum_probs=105.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         6 ~~ILivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlvilD~~l~~~~g~~~   67 (238)
T 2gwr_A            6 QRILVVDDDASLAEMLTIVLRGEGFDTAVIGDGTQALTAVRELR------------------PDLVLLDLMLPGMNGIDV   67 (238)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEECCGGGHHHHHHHHC------------------CSEEEEESSCSSSCHHHH
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEeCCCCCCCHHHH
Confidence            68999999999999999999999999999999999999986544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++.|+...   .+|||++|+..+......+++.||++||.||++.++|...+..++.
T Consensus        68 ~~~lr~~~---~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~  121 (238)
T 2gwr_A           68 CRVLRADS---GVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLR  121 (238)
T ss_dssp             HHHHHTTC---CCCEEEEEETTCCSCHHHHHHTTCCEEEEESCCHHHHHHHHHHHCC
T ss_pred             HHHHHhCC---CCcEEEEeCCCCHHHHHHHHHCCCCEEEeCCCCHHHHHHHHHHHHh
Confidence            99999753   7999999999888888999999999999999999999877766543

>3t8y_A CHEB, chemotaxis response regulator protein-glutamate methylesterase; CHEA, hydrolase; 1.90A {Thermotoga maritima}

Probab=99.81  E-value=3.1e-19  Score=139.11  Aligned_cols=112  Identities=25%  Similarity=0.353  Sum_probs=93.9

Q ss_pred             hhcCcceEEEEeCCHHHHHHHHHHhhcCC-CE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC
Q 026239           11 VAESQFHVLAVDDSIIDRKLIERLLKTSS-YQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP   88 (241)
Q Consensus        11 ~~~~~~~ILiVdd~~~~~~~l~~~L~~~g-~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp   88 (241)
                      |...+++||||||++..+..+..+|...| +. +..+.++.+|++.+....                  ||+||+|+.||
T Consensus        21 M~~~~~~ILivdd~~~~~~~l~~~L~~~~~~~~v~~~~~~~~al~~l~~~~------------------~dlvilD~~l~   82 (164)
T 3t8y_A           21 MTDRVIRVLVVDDSAFMRMVLKDIIDSQPDMKVVGFAKDGLEAVEKAIELK------------------PDVITMDIEMP   82 (164)
T ss_dssp             ---CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEECSSCS
T ss_pred             cccCccEEEEEcCCHHHHHHHHHHHhcCCCeEEEEecCCHHHHHHHhccCC------------------CCEEEEeCCCC
Confidence            34567899999999999999999999875 44 447999999999996544                  55999999999


Q ss_pred             CCCHHHHHHHHHhcCCCCCCcEEEEccCCChH--HHHHHHHhcccccccCCCCHHHH
Q 026239           89 GMTGYDLLKKIKESSSLRDIPVVIMSSENVPS--RISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        89 ~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~--~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      +++|+++++.|+...   .+|||++|+..+..  .+.++++.||++||.||++..+|
T Consensus        83 ~~~g~~l~~~lr~~~---~~~ii~~s~~~~~~~~~~~~~~~~ga~~~l~KP~~~~~l  136 (164)
T 3t8y_A           83 NLNGIEALKLIMKKA---PTRVIMVSSLTEEGAAITIEALRNGAVDFITKPHGSISL  136 (164)
T ss_dssp             SSCHHHHHHHHHHHS---CCEEEEEESSCCTTCHHHHHHHHTTCCEEEECSSSSSCG
T ss_pred             CCCHHHHHHHHHhcC---CceEEEEecCCccchHHHHHHHHcCcCEEEeCCCCHHHH
Confidence            999999999999875   37999999876543  67789999999999999996555

>3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A*

Probab=99.81  E-value=1.5e-20  Score=154.03  Aligned_cols=121  Identities=14%  Similarity=0.093  Sum_probs=102.4

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhh-cCCCEEEE-ECCHHHHHHH-hcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLK-TSSYQVTT-VDSGSKALEF-LGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~-~~g~~v~~-~~~~~~al~~-l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ..+++||||||++..+..+..+|+ ..||.|.. +.++.+++.. +..                  ..||+||+|+.||+
T Consensus         5 ~~~~~IlivdD~~~~~~~l~~~L~~~~~~~v~~~~~~~~~~~~~~~~~------------------~~~dlvllD~~mp~   66 (225)
T 3klo_A            5 ENKLNVRMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPES------------------RSIQMLVIDYSRIS   66 (225)
T ss_dssp             CSSEEEEEESCCSHHHHHHHHHHHHHSSEEEEEECGGGHHHHTTCSGG------------------GGCCEEEEEGGGCC
T ss_pred             CCceEEEEEcCcHHHHHHHHHHHhhCCCceEEEEeCCcHHHHHHHhhc------------------cCCCEEEEeCCCCC
Confidence            456899999999999999999998 46888864 4566666553 433                  34679999999999


Q ss_pred             CCHHHHHHHHHh-cCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           90 MTGYDLLKKIKE-SSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        90 ~~g~~ll~~ir~-~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++|+++++.|+. ..+  ++|||++|+..+......+++.||++||.||++.++|...+..++++
T Consensus        67 ~~G~~~~~~lr~~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~L~~~i~~~~~~  129 (225)
T 3klo_A           67 DDVLTDYSSFKHISCP--DAKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQD  129 (225)
T ss_dssp             HHHHHHHHHHHHHHCT--TCEEEEEEECTTCCHHHHTTSTTEEEEEETTCCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHhhCC--CCcEEEEECCcchhHHHHHHHhCCCEEEecCCCHHHHHHHHHHHHCC
Confidence            999999999998 554  89999999999888889999999999999999999998888777653

>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter pylori} PDB: 2hqo_A

Probab=99.81  E-value=4.3e-19  Score=133.59  Aligned_cols=117  Identities=17%  Similarity=0.308  Sum_probs=104.1

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      .....+||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||    ||+++
T Consensus        15 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlvi----~~~~~   72 (137)
T 2pln_A           15 PRGSMRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN------------------YDLVM----VSDKN   72 (137)
T ss_dssp             CTTCSEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHSC------------------CSEEE----ECSTT
T ss_pred             CCCCCeEEEEeCCHHHHHHHHHHHHHcCcEEEEeCCHHHHHHHHHcCC------------------CCEEE----EcCcc
Confidence            345689999999999999999999999999999999999999996544                  45988    89999


Q ss_pred             HHHHHHHHHhcCCCC-CCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHHHHH
Q 026239           92 GYDLLKKIKESSSLR-DIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHLMKT  153 (241)
Q Consensus        92 g~~ll~~ir~~~~~~-~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~~~  153 (241)
                      |+++++.|+..   + .+|||++|+..+......+++.|+++||.||+ +.++|...+..++.+
T Consensus        73 g~~~~~~l~~~---~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~kP~~~~~~l~~~i~~~~~~  133 (137)
T 2pln_A           73 ALSFVSRIKEK---HSSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF  133 (137)
T ss_dssp             HHHHHHHHHHH---STTSEEEEEESSCCHHHHHHHHHTTCSEEEESSCSCHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHhc---CCCccEEEEeCCCCHHHHHHHHHcCCceeeeCCCCCHHHHHHHHHHHHhh
Confidence            99999999986   4 79999999999999999999999999999999 999998777666543

>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=99.81  E-value=3.5e-21  Score=141.92  Aligned_cols=118  Identities=28%  Similarity=0.435  Sum_probs=105.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+||||||++..+..+...|...||.|..+.++.+++..+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~ilivdd~~~~~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~------------------~~dlvi~d~~~~~~~g~~   64 (124)
T 1dc7_A            3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASK------------------TPDVLLSDIRMPGMDGLA   64 (124)
T ss_dssp             CCCCEEECSSSSHHHHHHHHHTTTTCCCEECCCTTHHHHHSSSC------------------CCSCEEECSCSSHHHHCS
T ss_pred             ccEEEEEeCCHHHHHHHHHHHHhCCcEEEEeCCHHHHHHHHhcC------------------CCCEEEEeeecCCCCHHH
Confidence            46899999999999999999998899999999999999988543                  356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++.|+...+  .+|||++|+..+......+++.|+++|+.||++.++|...+..++.
T Consensus        65 ~~~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~g~~~~l~kp~~~~~l~~~i~~~~~  120 (124)
T 1dc7_A           65 LLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAIS  120 (124)
T ss_dssp             THHHHHHHCT--TSCCCCBCCSTTSTTTTSSCTTCCCCCBCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCC--CCCEEEEecCCCHHHHHHHHhcCcceEeeCCCCHHHHHHHHHHHHH
Confidence            9999998654  8999999998888888889999999999999999999877766553

>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas aeruginosa} SCOP: c.23.1.3

Probab=99.81  E-value=2.5e-19  Score=143.48  Aligned_cols=117  Identities=11%  Similarity=0.073  Sum_probs=100.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ...++||||||++..+..+..+|...||.|..+.++.+++    ..                  .||+||+|+.||+++|
T Consensus        10 ~~~~~iLivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al----~~------------------~~dlvl~D~~mp~~~g   67 (196)
T 1qo0_D           10 LRELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAF----DV------------------PVDVVFTSIFQNRHHD   67 (196)
T ss_dssp             GGGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSC----SS------------------CCSEEEEECCSSTHHH
T ss_pred             hcCCeEEEEcCChhHHHHHHHHHHHcCCeEEEecCchhhC----CC------------------CCCEEEEeCCCCccch
Confidence            3468999999999999999999998899999887776654    11                  3669999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      + +++.++...  +++|||++|+..+.+.+..+++.|+++||.||++..+|...+..++...
T Consensus        68 ~-l~~~~~~~~--~~~~ii~lt~~~~~~~~~~a~~~ga~~~l~KP~~~~~L~~~l~~~~~~~  126 (196)
T 1qo0_D           68 E-IAALLAAGT--PRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRIS  126 (196)
T ss_dssp             H-HHHHHHHSC--TTCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHHH
T ss_pred             H-HHHHHhccC--CCCCEEEEEcCCChHHHHHHHHcCCCeeEecCcCHHHHHHHHHHHHHHH
Confidence            9 999998764  4899999999999999999999999999999999999987776665443

>3c97_A Signal transduction histidine kinase; structural genomics, signaling, PSI-2, protein structure initiative; 1.70A {Aspergillus oryzae RIB40}

Probab=99.80  E-value=2.2e-19  Score=135.88  Aligned_cols=118  Identities=19%  Similarity=0.345  Sum_probs=98.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .++||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus        10 ~~~iLivdd~~~~~~~l~~~L~~~~~~v~~~~~~~~al~~l~~~~------------------~dlvllD~~lp~~~g~~   71 (140)
T 3c97_A           10 PLSVLIAEDNDICRLVAAKALEKCTNDITVVTNGLQALQAYQNRQ------------------FDVIIMDIQMPVMDGLE   71 (140)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHTTTCSEEEEESSHHHHHHHHHHSC------------------CSEEEECTTCCSSCHHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHHcCCceEEECCHHHHHHHHhcCC------------------CCEEEEeCCCCCCcHHH
Confidence            368999999999999999999998999999999999999986544                  55999999999999999


Q ss_pred             HHHHHHhcC---CCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESS---SLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~---~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.|++..   ..+.+|||++|+........   ..|+++||.||++.++|...+..++.+
T Consensus        72 ~~~~l~~~~~~~~~~~~~ii~~s~~~~~~~~~---~~g~~~~l~KP~~~~~L~~~i~~~~~~  130 (140)
T 3c97_A           72 AVSEIRNYERTHNTKRASIIAITADTIDDDRP---GAELDEYVSKPLNPNQLRDVVLTCHSE  130 (140)
T ss_dssp             HHHHHHHHHHHHTCCCCCCEEEESSCCSCCCC---CSSCSEEEESSCCHHHHHHHHHHHHC-
T ss_pred             HHHHHHhhhhhcCCCceEEEEEeCccchhHHH---hCChhheEeCCCCHHHHHHHHHHHhCC
Confidence            999999742   12478999999865544322   689999999999999998877766543

>3sy8_A ROCR; TIM barrel phosphodiesterase-A, transcription regulator; HET: EPE; 2.50A {Pseudomonas aeruginosa}

Probab=99.80  E-value=1.8e-19  Score=160.25  Aligned_cols=119  Identities=22%  Similarity=0.271  Sum_probs=102.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhc-CCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKT-SSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +++||||||++..+..+..+|+. .||.|..+.++.+|++.+...                 ..||+||+|+.||+|+|+
T Consensus         3 ~~~ILivDD~~~~~~~l~~~L~~~~~~~v~~a~~g~eal~~l~~~-----------------~~~DlvllDi~mP~~dG~   65 (400)
T 3sy8_A            3 DLNVLVLEDEPFQRLVAVTALKKVVPGSILEAADGKEAVAILESC-----------------GHVDIAICDLQMSGMDGL   65 (400)
T ss_dssp             CEEEEEECSSHHHHHHHHHHHHHHCSEEEEEESSHHHHHHHHHHH-----------------SCEEEEEECSSCSSSCHH
T ss_pred             CceEEEEcCCHHHHHHHHHHHHhcCCcEEEEecCHHHHHHHHhhC-----------------CCCCEEEEeCCCCCCCHH
Confidence            47999999999999999999987 678999999999999998642                 236699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCCh-----HHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVP-----SRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~-----~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++|+...+  .+|||++|+....     ....+++..||++||.||++.++|...+..++.
T Consensus        66 ell~~l~~~~~--~~~ii~~s~~~~~~~~~~~~~~~a~~~ga~~yl~KP~~~~~L~~~i~~~~~  127 (400)
T 3sy8_A           66 AFLRHASLSGK--VHSVILSSEVDPILRQATISMIECLGLNFLGDLGKPFSLERITALLTRYNA  127 (400)
T ss_dssp             HHHHHHHHHTC--EEEEEESCCCCGGGHHHHHHHHHTTTCEEEEECCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCC--CceEEEEcCchHHHHHHHHHHHHHcCCeeccCcCCCcCHHHHHHHHHHHHH
Confidence            99999998764  6677777776655     567788999999999999999999887776643

>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=99.78  E-value=6.9e-19  Score=132.63  Aligned_cols=116  Identities=22%  Similarity=0.253  Sum_probs=97.8

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcc-cCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGL-HEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ..+..+||||||++..+..+..+|...||.|..+.++.+|++.+.. ..                  ||+||+|+.||++
T Consensus        12 ~~~~~~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~------------------~dlvilD~~l~~~   73 (138)
T 2b4a_A           12 HMQPFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLST------------------CDLLIVSDQLVDL   73 (138)
T ss_dssp             --CCCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGGGGS------------------CSEEEEETTCTTS
T ss_pred             CCCCCeEEEECCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCCC------------------CCEEEEeCCCCCC
Confidence            4457899999999999999999999999999999999999998864 43                  5699999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEc-cCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMS-SENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils-~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +|+++++.|+...  +.+|||++| +..+... ..++   +++||.||++.++|...+..++
T Consensus        74 ~g~~~~~~l~~~~--~~~~ii~ls~~~~~~~~-~~~~---~~~~l~KP~~~~~L~~~i~~~~  129 (138)
T 2b4a_A           74 SIFSLLDIVKEQT--KQPSVLILTTGRHELIE-SSEH---NLSYLQKPFAISELRAAIDYHK  129 (138)
T ss_dssp             CHHHHHHHHTTSS--SCCEEEEEESCC--CCC-CSSS---CEEEEESSCCHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhhC--CCCCEEEEECCCCCHHH-HHHH---HHheeeCCCCHHHHHHHHHHHH
Confidence            9999999999854  489999999 8766555 5555   9999999999999977666543

>2hqr_A Putative transcriptional regulator; phosporylation-independent response regulator, H. pylori, SY dimer, signaling protein; NMR {Helicobacter pylori}

Probab=99.77  E-value=3.3e-18  Score=139.46  Aligned_cols=114  Identities=18%  Similarity=0.310  Sum_probs=102.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      ++||||||++..+..+..+|...||.|..+.++.+|+..+....                  ||+||    ||+++|+++
T Consensus         1 m~ilivdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~------------------~dlvi----lp~~~g~~~   58 (223)
T 2hqr_A            1 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRN------------------YDLVM----VSDKNALSF   58 (223)
T ss_dssp             CCEEEECSCHHHHHHHHHHHGGGTCCEEEESSHHHHHHHHTTSC------------------CSEEE----ECCTTHHHH
T ss_pred             CEEEEEcCCHHHHHHHHHHHHHCCcEEEEECCHHHHHHHHhcCC------------------CCEEE----eCCCCHHHH
Confidence            47999999999999999999999999999999999999996544                  55998    999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l~~~  153 (241)
                      ++.|+.. + .++|||++|+..+......+++.||++||.||+ +.++|...+..++++
T Consensus        59 ~~~lr~~-~-~~~~ii~lt~~~~~~~~~~~~~~Ga~~~l~Kp~~~~~~L~~~i~~~~~~  115 (223)
T 2hqr_A           59 VSRIKEK-H-SSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF  115 (223)
T ss_dssp             HHHHHHH-C-TTSEEEEEESSCCHHHHHHHHHHTCSEEEETTCSCTHHHHHHHHHHTSS
T ss_pred             HHHHHhC-C-CCCcEEEEECCCCHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHHhcc
Confidence            9999987 2 379999999999999999999999999999999 999998877776544

>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1 c.40.1.1

Probab=99.74  E-value=2.1e-17  Score=144.51  Aligned_cols=105  Identities=30%  Similarity=0.426  Sum_probs=92.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcC-CCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTS-SYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~-g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      +++||||||++..+..+..+|... ||. |..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         3 ~~rVLIVDD~~~~r~~L~~~L~~~~g~~vv~~a~~~~eAl~~l~~~~------------------pDlVllDi~mp~~dG   64 (349)
T 1a2o_A            3 KIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFN------------------PDVLTLDVEMPRMDG   64 (349)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEECCCSSSCH
T ss_pred             CCEEEEEECCHHHHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHhccC------------------CCEEEEECCCCCCCH
Confidence            589999999999999999999986 898 558999999999996544                  459999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCCh--HHHHHHHHhcccccccCCCCH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVP--SRISRCLEEGAEEFFLKPVRL  140 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~--~~~~~~l~~Ga~~~l~KP~~~  140 (241)
                      +++++.|+...   .+|||++|+..+.  +...++++.||++||.||++.
T Consensus        65 lell~~l~~~~---p~pVIvlS~~~~~~~~~~~~al~~Ga~d~l~KP~~~  111 (349)
T 1a2o_A           65 LDFLEKLMRLR---PMPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQLG  111 (349)
T ss_dssp             HHHHHHHHHSS---CCCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSSS
T ss_pred             HHHHHHHHhcC---CCcEEEEECCCcccHHHHHHHHhCCceEEEECCCCc
Confidence            99999999864   3899999987765  447889999999999999983

>3luf_A Two-component system response regulator/ggdef domain protein; structural genomics, ASA_2441, PSI-2, protein structure initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB: 3mf4_A*

Probab=99.73  E-value=8e-18  Score=141.20  Aligned_cols=104  Identities=18%  Similarity=0.330  Sum_probs=85.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhc-CCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKT-SSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~-~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +.+||||||++..+..+...|.. .||.+..+ ++.+++..+.                  ...||+||+|+.||+++|+
T Consensus         4 ~~~ILiVdD~~~~~~~l~~~L~~~~~~~v~~~-~~~~~~~~~~------------------~~~~dlvllD~~mP~~~G~   64 (259)
T 3luf_A            4 KQKILIVEDSMTIRRMLIQAIAQQTGLEIDAF-DTLEGARHCQ------------------GDEYVVALVDLTLPDAPSG   64 (259)
T ss_dssp             CCEEEEECCCHHHHHHHHHHHHHHHCCEEEEE-SSTGGGTTCC------------------TTTEEEEEEESCBTTBTTS
T ss_pred             CCeEEEEECCHHHHHHHHHHHHhcCCeEEEEe-ChHHHHHHhh------------------cCCCcEEEEeCCCCCCCHH
Confidence            36899999999999999999975 47777655 4445544432                  2357899999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLS  141 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~  141 (241)
                      +++++|+..    .+|||++|+..+.+...+++++||++||.||+...
T Consensus        65 ~~~~~lr~~----~~pvi~lt~~~~~~~~~~a~~~Ga~dyl~Kp~~~~  108 (259)
T 3luf_A           65 EAVKVLLER----GLPVVILTADISEDKREAWLEAGVLDYVMKDSRHS  108 (259)
T ss_dssp             HHHHHHHHT----TCCEEEEECC-CHHHHHHHHHTTCCEEEECSSHHH
T ss_pred             HHHHHHHhC----CCCEEEEEccCCHHHHHHHHHCCCcEEEeCCchhH
Confidence            999999973    58999999999999999999999999999997543

>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate, PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A {Escherichia coli}

Probab=99.70  E-value=2e-17  Score=157.76  Aligned_cols=119  Identities=18%  Similarity=0.231  Sum_probs=102.8

Q ss_pred             ceEEEEeCCH-HH-------HHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           16 FHVLAVDDSI-ID-------RKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        16 ~~ILiVdd~~-~~-------~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ++||||||+. ..       +..|...|+..||.|..+.++.+|+..+...                 ..+|+||+|+.|
T Consensus         1 m~ILiVdDd~~~~~~~~~~~~~~L~~~L~~~g~~v~~a~~g~~al~~~~~~-----------------~~~d~vilDi~l   63 (755)
T 2vyc_A            1 MKVLIVESEFLHQDTWVGNAVERLADALSQQNVTVIKSTSFDDGFAILSSN-----------------EAIDCLMFSYQM   63 (755)
T ss_dssp             CEEEEECCTTSTTSHHHHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTT-----------------CCCSEEEEECCC
T ss_pred             CeEEEEeCCccccccccHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHhcC-----------------CCCcEEEEeCCC
Confidence            4899999999 88       9999999999999999999999999998532                 236799999999


Q ss_pred             CC----CCHHHHHHHHHhcCCCCCCcEEEEccCCC-hHHHHHHHHhcccccccCCCCHHH-HHHhhHHHHHH
Q 026239           88 PG----MTGYDLLKKIKESSSLRDIPVVIMSSENV-PSRISRCLEEGAEEFFLKPVRLSD-LNKLKPHLMKT  153 (241)
Q Consensus        88 p~----~~g~~ll~~ir~~~~~~~ipvIils~~~~-~~~~~~~l~~Ga~~~l~KP~~~~~-L~~~~~~l~~~  153 (241)
                      |+    ++|+++|++||+...  ++|||++|+... .+.....+..||+||+.||++..+ |..-+..++++
T Consensus        64 p~~~~~~~G~~ll~~iR~~~~--~iPIi~lTa~~~~~~d~~~~l~~gaddyi~kpf~~~efl~~ri~a~~rr  133 (755)
T 2vyc_A           64 EHPDEHQNVRQLIGKLHERQQ--NVPVFLLGDREKALAAMDRDLLELVDEFAWILEDTADFIAGRAVAAMTR  133 (755)
T ss_dssp             CSHHHHHHHHHHHHHHHHHST--TCCEEEEECHHHHHHTCSHHHHHHCSEEEETTTSCHHHHHHHHHHHHHH
T ss_pred             CcccccccHHHHHHHHHHhCC--CCCEEEEecCCcchhhccHhHhhcCCceEeCCCCCHHHHHHHHHHHHHH
Confidence            99    999999999999764  799999999776 666778899999999999999999 65444444444

>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=99.28  E-value=1.1e-10  Score=104.80  Aligned_cols=117  Identities=20%  Similarity=0.252  Sum_probs=96.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      ..+|++|||+...+..+...|.. .+.+....++.+++. ...                  ..+|+|++|+.||+|+|++
T Consensus       152 ~~~ilivdd~~~~~~~i~~~L~~-~~~~~~~~~~~~~~~-~~~------------------~~~dlil~D~~mp~~dG~~  211 (459)
T 1w25_A          152 GGRVLIVDDNERQAQRVAAELGV-EHRPVIESDPEKAKI-SAG------------------GPVDLVIVNAAAKNFDGLR  211 (459)
T ss_dssp             SCEEEEECSCHHHHHHHHHHHTT-TSEEEEECCHHHHHH-HHH------------------SSCSEEEEETTCSSSCHHH
T ss_pred             CCeEEEECCchhhHHHHHHHHhc-ccceeeccCHHHHhh-hcc------------------CCCCEEEEecCCCCCcHHH
Confidence            46899999999888888888865 466777788888753 222                  2356999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++.++.......+||+++|+.........+++.|+++|+.||+...++...+..+.
T Consensus       212 ~~~~ir~~~~~~~~pii~lt~~~~~~~~~~~l~~Ga~d~~~kp~~~~~l~~~v~~~~  268 (459)
T 1w25_A          212 FTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQI  268 (459)
T ss_dssp             HHHHHHTSGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHH
T ss_pred             HHHHHHhCccccCCcEEEEcCCCchHHHHHHHhccccccccCCCCHHHHHHHHHHHH
Confidence            999999876666899999999999988999999999999999999998865544443

>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=99.23  E-value=7e-12  Score=102.26  Aligned_cols=87  Identities=22%  Similarity=0.364  Sum_probs=70.0

Q ss_pred             CCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCC
Q 026239           39 SYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENV  118 (241)
Q Consensus        39 g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~  118 (241)
                      .+.|..+.++.+|++.+....                  ||+||+|+.||+++|+++++.|++..+  ..++++++....
T Consensus         5 v~~v~~~~~~~~a~~~~~~~~------------------~dlvl~D~~~p~~~g~~~~~~l~~~~~--~~~i~vi~~~~~   64 (237)
T 3cwo_X            5 VLIVDDATNGREAVEKYKELK------------------PDIVTMDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQ   64 (237)
T ss_dssp             EEEEECCCSSSTTHHHHHHHC------------------CSCEEEECCSTTSSHHHHHHHHHHHSS--SCCEEEECCSST
T ss_pred             EEEEEECCCHHHHHHHHHhcC------------------CCEEEEeCCCCCCCHHHHHHHHHHhCC--CCCEEEEECCCC
Confidence            355667889999999986544                  559999999999999999999998654  455666666666


Q ss_pred             hHHHHHHHHhcccccccCC--CCHHHHHH
Q 026239          119 PSRISRCLEEGAEEFFLKP--VRLSDLNK  145 (241)
Q Consensus       119 ~~~~~~~l~~Ga~~~l~KP--~~~~~L~~  145 (241)
                      .+....+++.|+++|+.||  ++..++..
T Consensus        65 ~~~~~~~~~~Ga~~~l~kp~~~~~~~l~~   93 (237)
T 3cwo_X           65 QAMVIEAIKAGAKDFIVNTAAVENPSLIT   93 (237)
T ss_dssp             HHHHHHHHHTTCCEEEESHHHHHCTHHHH
T ss_pred             HHHHHHHHHCCHHheEeCCcccChHHHHH
Confidence            8888999999999999999  66666544

>3q7r_A Transcriptional regulatory protein; CHXR, receiver domain, transcription factor, OMPR, chlamydia transcription; 1.60A {Chlamydia trachomatis} PDB: 3q7s_A* 3q7t_A

Probab=97.89  E-value=6.8e-05  Score=52.36  Aligned_cols=107  Identities=20%  Similarity=0.231  Sum_probs=81.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...+||+|..|....-.++.++....|.+++.....                        .+...|+|+|.|.+-..+  
T Consensus        11 ~~~~iL~VtEd~~ls~QlKel~~~~eY~~~is~~~~------------------------~e~~AdlIfCEYlLLPe~--   64 (121)
T 3q7r_A           11 GPKHVLLVSEHWDLFFQTKELLNPEEYRCTIGQQYK------------------------QELSADLVVCEYSLLPRE--   64 (121)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHSCTTTEEEEEESSCC------------------------CCTTEEEEEEEGGGSCTT--
T ss_pred             CCcEEEEEecCchhhHHHHHhcCCcceeEEeccccC------------------------CcccceeEEEeeecChHH--
Confidence            346789999888888889999988889988764321                        344568999999764322  


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                           |.........-+|++-..-+.+.+.+.++.||. |++.|+.+.-|..+++..++
T Consensus        65 -----ifS~k~~~~~dliVLfD~F~EEa~v~vLd~Ga~-yLlrPIT~kvldAvIraFLr  117 (121)
T 3q7r_A           65 -----IRSPKSLEGSFVLVLLDFFDEETSVDLLDRGFW-YLIRPITPRILKSAISLFLS  117 (121)
T ss_dssp             -----CCCCTTCCSCEEEEEESSCCHHHHHHHHHTTCE-EEESCCCHHHHHHHHHHHHH
T ss_pred             -----hcCCCCCCcccEEEEehhhchHHHHHHHhCCce-eEeccCcHHHHHHHHHHHHh
Confidence                 333333445678888888889999999999999 99999999888777776654

>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=97.85  E-value=1.7e-05  Score=75.11  Aligned_cols=93  Identities=14%  Similarity=0.174  Sum_probs=71.6

Q ss_pred             HHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCC
Q 026239           29 KLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDI  108 (241)
Q Consensus        29 ~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~i  108 (241)
                      ..|...|+..||+|..+.++.+|+.++..                 +..+++||+|+.++   +.+++++||....  ++
T Consensus        20 ~~L~~~Le~~g~~V~~a~s~~Da~~~i~~-----------------~~~i~avIld~d~~---~~~ll~~Ir~~~~--~i   77 (715)
T 3n75_A           20 RELHRALERLNFQIVYPNDRDDLLKLIEN-----------------NARLCGVIFDWDKY---NLELCEEISKMNE--NL   77 (715)
T ss_dssp             HHHHHHHHHTTCEEECCSSHHHHHHHHHH-----------------CTTEEEEEEEHHHH---HHHHHHHHHHHCT--TC
T ss_pred             HHHHHHHHHCCcEEEEeCCHHHHHHHHHh-----------------CCCceEEEEecccc---HHHHHHHHHHhCC--CC
Confidence            34557788899999999999999999964                 23478999999885   7899999999875  99


Q ss_pred             cEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239          109 PVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus       109 pvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      ||++++.......+....-.++++|+.+..+..++
T Consensus        78 PVFl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (715)
T 3n75_A           78 PLYAFANTYSTLDVSLNDLRLQISFFEYALGAAED  112 (715)
T ss_dssp             EEEEECCTTCCCCGGGTTSCCEEEEECCCTTCHHH
T ss_pred             CEEEEecCCcccccchhhhhccCeEEEeCCCCHHH
Confidence            99999987543322211235788999998765554

>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=97.57  E-value=0.0002  Score=58.97  Aligned_cols=95  Identities=18%  Similarity=0.131  Sum_probs=65.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      -...+||||||+...+..+...|..+|+.|..+.+.       .                  ...+|+||+|+.+|+..+
T Consensus         9 l~~~~vlvv~d~~~~~~~l~~~L~~~g~~v~~~~~~-------~------------------~~~~~~ii~d~~~~~~~~   63 (254)
T 2ayx_A            9 LSGKRCWLAVRNASLCQFLETSLQRSGIVVTTYEGQ-------E------------------PTPEDVLITDEVVSKKWQ   63 (254)
T ss_dssp             TTTEEEEEECCCHHHHHHHHHHHTTTTEEEEECSSC-------C------------------CCTTCEEEEESSCSCCCC
T ss_pred             cCCCEEEEEcCCHHHHHHHHHHHHHCCCEEEEecCC-------C------------------CCcCcEEEEcCCCccccc
Confidence            346899999999999999999999999999887640       1                  124679999999987543


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                                    ...++.++.......    ...+...|+.+|+....+..++.++
T Consensus        64 --------------~~~~i~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~l~~~  103 (254)
T 2ayx_A           64 --------------GRAVVTFCRRHIGIP----LEKAPGEWVHSVAAPHELPALLARI  103 (254)
T ss_dssp             --------------SSEEEEECSSCCCSC----CTTSTTEEEECSSCCSHHHHHHHHH
T ss_pred             --------------cceEEEEecccCCCc----ccccCCceeccccchHHHHHHHHHH
Confidence                          113555655432110    1234457889999887776555443

>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix}

Probab=97.54  E-value=0.0019  Score=49.64  Aligned_cols=120  Identities=18%  Similarity=0.241  Sum_probs=81.0

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      ...+|++.    |.+..-...+..+|+..||+|...   .+.++.++.+....+                  |+|.+...
T Consensus        17 ~~~~vlla~~~gd~HdiG~~~va~~l~~~G~eVi~lG~~~p~e~lv~aa~~~~~------------------diV~lS~~   78 (161)
T 2yxb_A           17 RRYKVLVAKMGLDGHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAVQEDV------------------DVIGVSIL   78 (161)
T ss_dssp             CSCEEEEEEESSSSCCHHHHHHHHHHHHTTCEEECCCSBCCHHHHHHHHHHTTC------------------SEEEEEES
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcCC------------------CEEEEEee
Confidence            45778877    777788888999999999999853   467788888865544                  48888776


Q ss_pred             CCC-C-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           87 MPG-M-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        87 mp~-~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +.. + .-.++++.|++... ++++|++ .+.........+.+.|+++++..-.+..+....+..++..
T Consensus        79 ~~~~~~~~~~~i~~L~~~g~-~~i~v~v-GG~~~~~~~~~l~~~G~d~v~~~~~~~~~~~~~~~~~~~~  145 (161)
T 2yxb_A           79 NGAHLHLMKRLMAKLRELGA-DDIPVVL-GGTIPIPDLEPLRSLGIREIFLPGTSLGEIIEKVRKLAEE  145 (161)
T ss_dssp             SSCHHHHHHHHHHHHHHTTC-TTSCEEE-EECCCHHHHHHHHHTTCCEEECTTCCHHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhcCC-CCCEEEE-eCCCchhcHHHHHHCCCcEEECCCCCHHHHHHHHHHHHHH
Confidence            653 1 23456777877543 3677665 4555555555567899998676555555555555555443

>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=96.85  E-value=0.0016  Score=52.13  Aligned_cols=64  Identities=11%  Similarity=0.344  Sum_probs=50.4

Q ss_pred             cEEEEeC-CCCCCCHH--HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc------ccCCCCHHHHHH
Q 026239           79 NLVITDY-CMPGMTGY--DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF------FLKPVRLSDLNK  145 (241)
Q Consensus        79 dlIilD~-~mp~~~g~--~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~------l~KP~~~~~L~~  145 (241)
                      +++++++ .++.++|+  ++++.++..   .++|||++++...++...++++.|++++      ..+|++..++.+
T Consensus       146 ~vli~~~~~~g~~~g~~~~~i~~~~~~---~~~Pvia~~g~~~~~~~~~~~~~G~~~~~vg~a~~~~~~~~~~~~~  218 (237)
T 3cwo_X          146 EILLTSIDRDGTKSGYDTEMIRFVRPL---TTLPIIASGGAGKMEHFLEAFLAGADAALAASVFHFREIDVRELKE  218 (237)
T ss_dssp             EEEEEETTTTTCCSCCCHHHHHHHGGG---CCSCEEEESCCCSHHHHHHHHHHTCSEEEESHHHHTTSSCHHHHHH
T ss_pred             eEEEEecCCCCccccccHHHHHHHHHh---cCCCEEecCCCCCHHHHHHHHHcCcHHHhhhHHHHcCCCCHHHHHH
Confidence            4888886 55556664  466666654   3799999999999999999999999998      378988887754

>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural genomics, protein structure initiative, PSI; 2.90A {Pseudomonas aeruginosa} SCOP: c.1.31.1

Probab=95.88  E-value=0.07  Score=43.89  Aligned_cols=87  Identities=18%  Similarity=0.155  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhhcCCCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-----CCHHHHHH
Q 026239           25 IIDRKLIERLLKTSSYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-----MTGYDLLK   97 (241)
Q Consensus        25 ~~~~~~l~~~L~~~g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-----~~g~~ll~   97 (241)
                      ....+.. +.|...||.|.  +++|...|..+.. ..                  +++| +.+..|-     ...+++++
T Consensus       122 ~~tv~aa-~~L~~~Gf~Vlpy~~dd~~~akrl~~-~G------------------~~aV-mPlg~pIGsG~Gi~~~~lI~  180 (265)
T 1wv2_A          122 VETLKAA-EQLVKDGFDVMVYTSDDPIIARQLAE-IG------------------CIAV-MPLAGLIGSGLGICNPYNLR  180 (265)
T ss_dssp             HHHHHHH-HHHHTTTCEEEEEECSCHHHHHHHHH-SC------------------CSEE-EECSSSTTCCCCCSCHHHHH
T ss_pred             HHHHHHH-HHHHHCCCEEEEEeCCCHHHHHHHHH-hC------------------CCEE-EeCCccCCCCCCcCCHHHHH
Confidence            3333433 44556799877  4566665554432 22                  3354 5655542     23478999


Q ss_pred             HHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           98 KIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        98 ~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .|++..   ++|||+=.+-..++.+..+++.||++++.
T Consensus       181 ~I~e~~---~vPVI~eGGI~TPsDAa~AmeLGAdgVlV  215 (265)
T 1wv2_A          181 IILEEA---KVPVLVDAGVGTASDAAIAMELGCEAVLM  215 (265)
T ss_dssp             HHHHHC---SSCBEEESCCCSHHHHHHHHHHTCSEEEE
T ss_pred             HHHhcC---CCCEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            999853   79999988888999999999999999864

>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=95.72  E-value=0.14  Score=37.88  Aligned_cols=104  Identities=9%  Similarity=0.039  Sum_probs=67.2

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC-C-HHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM-T-GYDLL   96 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~-~-g~~ll   96 (241)
                      |-+..-...+..+|+..||+|..   ..+.++.++.+....+                  |+|.+...+... . .-+++
T Consensus        14 d~HdiG~~~v~~~l~~~G~~Vi~lG~~~p~e~~v~~a~~~~~------------------d~v~lS~~~~~~~~~~~~~i   75 (137)
T 1ccw_A           14 DCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETKA------------------DAILVSSLYGQGEIDCKGLR   75 (137)
T ss_dssp             CCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTC------------------SEEEEEECSSTHHHHHTTHH
T ss_pred             chhHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhcCC------------------CEEEEEecCcCcHHHHHHHH
Confidence            34455566788899999999883   4578888888865554                  488888776431 1 23567


Q ss_pred             HHHHhcCCCCCCcEEEEccC----CCh-HHHHHHHHhcccccccCCCCHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSE----NVP-SRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~----~~~-~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      +.|++... ++++|++-...    .+. .....+.+.|++.|+.--.+..++.
T Consensus        76 ~~l~~~g~-~~i~v~vGG~~~~~~~~~~~~~~~~~~~G~d~~~~~g~~~~~~~  127 (137)
T 1ccw_A           76 QKCDEAGL-EGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGI  127 (137)
T ss_dssp             HHHHHTTC-TTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHH
T ss_pred             HHHHhcCC-CCCEEEEECCCcCchHhhhhhHHHHHHCCCCEEECCCCCHHHHH
Confidence            77877643 36776554332    111 1244578899998887656665553

>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=95.40  E-value=0.12  Score=41.83  Aligned_cols=86  Identities=10%  Similarity=0.162  Sum_probs=60.1

Q ss_pred             HHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC------CCCCCHHHHHHHHH
Q 026239           28 RKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC------MPGMTGYDLLKKIK  100 (241)
Q Consensus        28 ~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~------mp~~~g~~ll~~ir  100 (241)
                      ...+.+.++..|..+. .+.+.+++......                   .+|+|.+...      .+...++++++.++
T Consensus       118 l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~-------------------Gad~Ig~~~~g~t~~~~~~~~~~~li~~l~  178 (229)
T 3q58_A          118 IDSLLTRIRLHGLLAMADCSTVNEGISCHQK-------------------GIEFIGTTLSGYTGPITPVEPDLAMVTQLS  178 (229)
T ss_dssp             HHHHHHHHHHTTCEEEEECSSHHHHHHHHHT-------------------TCSEEECTTTTSSSSCCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCEEEEecCCHHHHHHHHhC-------------------CCCEEEecCccCCCCCcCCCCCHHHHHHHH
Confidence            3334444556677655 67788888776532                   3557753221      22345789999998


Q ss_pred             hcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239          101 ESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus       101 ~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      ..    ++|||.-++-.+.+.+.++++.||++++.=
T Consensus       179 ~~----~ipvIA~GGI~t~~d~~~~~~~GadgV~VG  210 (229)
T 3q58_A          179 HA----GCRVIAEGRYNTPALAANAIEHGAWAVTVG  210 (229)
T ss_dssp             TT----TCCEEEESSCCSHHHHHHHHHTTCSEEEEC
T ss_pred             Hc----CCCEEEECCCCCHHHHHHHHHcCCCEEEEc
Confidence            63    789999988888999999999999998653

>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=95.39  E-value=0.12  Score=41.45  Aligned_cols=103  Identities=16%  Similarity=0.176  Sum_probs=69.7

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEE--e
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVIT--D   84 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIil--D   84 (241)
                      ...+|++.    |-+..=...+..+|+..||+|+..   -..++.++.+....||                  +|.+  .
T Consensus        91 ~~~~vll~~v~gd~HdiG~~iv~~~l~~~G~~Vi~LG~~vp~e~iv~~~~~~~~d------------------~v~l~~S  152 (215)
T 3ezx_A           91 EAGLAITFVAEGDIHDIGHRLVTTMLGANGFQIVDLGVDVLNENVVEEAAKHKGE------------------KVLLVGS  152 (215)
T ss_dssp             -CCEEEEEECTTCCCCHHHHHHHHHHHHTSCEEEECCSSCCHHHHHHHHHHTTTS------------------CEEEEEE
T ss_pred             CCCeEEEEeCCCChhHHHHHHHHHHHHHCCCeEEEcCCCCCHHHHHHHHHHcCCC------------------EEEEEch
Confidence            34677776    667777788899999999999854   3567777888665554                  8888  7


Q ss_pred             CCCCC-CC-HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           85 YCMPG-MT-GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        85 ~~mp~-~~-g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      ..|.. +. --++++.+++.....++||++-......+.   +-+.|||.|-.-.
T Consensus       153 ~l~~~~~~~~~~~i~~l~~~~~~~~v~v~vGG~~~~~~~---a~~iGad~~~~dA  204 (215)
T 3ezx_A          153 ALMTTSMLGQKDLMDRLNEEKLRDSVKCMFGGAPVSDKW---IEEIGADATAENA  204 (215)
T ss_dssp             CSSHHHHTHHHHHHHHHHHTTCGGGSEEEEESSSCCHHH---HHHHTCCBCCSSH
T ss_pred             hcccCcHHHHHHHHHHHHHcCCCCCCEEEEECCCCCHHH---HHHhCCeEEECCH
Confidence            76642 22 346778888765323678776655555443   4467998885543

>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl transferase, structural genomics, PSI, protein structure initiative; HET: B1M; 1.70A {Moorella thermoacetica}

Probab=95.39  E-value=0.12  Score=41.03  Aligned_cols=103  Identities=14%  Similarity=0.120  Sum_probs=69.4

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEEC---CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTVD---SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~~---~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      ...+||+.    |-+..-...+..+|+..||+|....   ..++.++.+....                  +|+|.+...
T Consensus        87 ~~~~vll~~~~gd~H~iG~~~va~~l~~~G~~v~~LG~~vp~~~l~~~~~~~~------------------~d~v~lS~~  148 (210)
T 1y80_A           87 SVGKIVLGTVKGDLHDIGKNLVAMMLESGGFTVYNLGVDIEPGKFVEAVKKYQ------------------PDIVGMSAL  148 (210)
T ss_dssp             CCCEEEEEEBTTCCCCHHHHHHHHHHHHTTCEEEECCSSBCHHHHHHHHHHHC------------------CSEEEEECC
T ss_pred             CCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEecc
Confidence            34577777    6667777889999999999998643   4667777775544                  459998887


Q ss_pred             CCC-CC-HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           87 MPG-MT-GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        87 mp~-~~-g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      +.. +. --++++.+++....+++||++-....+.+.   +.+.|++.|..-.
T Consensus       149 ~~~~~~~~~~~i~~l~~~~~~~~~~v~vGG~~~~~~~---~~~~gad~~~~da  198 (210)
T 1y80_A          149 LTTTMMNMKSTIDALIAAGLRDRVKVIVGGAPLSQDF---ADEIGADGYAPDA  198 (210)
T ss_dssp             SGGGTHHHHHHHHHHHHTTCGGGCEEEEESTTCCHHH---HHHHTCSEECSSH
T ss_pred             ccccHHHHHHHHHHHHhcCCCCCCeEEEECCCCCHHH---HHHcCCeEEECCH
Confidence            653 22 346777888764323588777655555443   3567998775543

>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix B (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}

Probab=94.82  E-value=0.46  Score=38.96  Aligned_cols=101  Identities=13%  Similarity=0.102  Sum_probs=69.4

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      ...+||+.    |-+..-...+..+|+..||+|...   -..++.++.+....|                  |+|.+...
T Consensus       122 ~~~~vlla~~~gd~HdiG~~iva~~L~~~G~~Vi~LG~~vp~e~l~~~~~~~~~------------------d~V~lS~l  183 (258)
T 2i2x_B          122 TKGTVVCHVAEGDVHDIGKNIVTALLRANGYNVVDLGRDVPAEEVLAAVQKEKP------------------IMLTGTAL  183 (258)
T ss_dssp             CSCEEEEEECTTCCCCHHHHHHHHHHHHTTCEEEEEEEECCSHHHHHHHHHHCC------------------SEEEEECC
T ss_pred             CCCeEEEEeCCCCccHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCC------------------CEEEEEee
Confidence            35677777    566777788899999999998643   466777777765544                  49998887


Q ss_pred             CCC-CC-HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           87 MPG-MT-GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        87 mp~-~~-g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      +.. +. --++++.|++...  ++||++-......+.   +-..|++.|..-.
T Consensus       184 ~~~~~~~~~~~i~~l~~~~~--~~~v~vGG~~~~~~~---~~~igad~~~~da  231 (258)
T 2i2x_B          184 MTTTMYAFKEVNDMLLENGI--KIPFACGGGAVNQDF---VSQFALGVYGEEA  231 (258)
T ss_dssp             CTTTTTHHHHHHHHHHTTTC--CCCEEEESTTCCHHH---HHTSTTEEECSST
T ss_pred             ccCCHHHHHHHHHHHHhcCC--CCcEEEECccCCHHH---HHHcCCeEEECCH
Confidence            664 33 3467888888654  588776655555443   2367987776544

>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=94.82  E-value=0.46  Score=38.96  Aligned_cols=85  Identities=16%  Similarity=0.198  Sum_probs=69.6

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      +.+.+.|.+.-.++.....+..+|...-|.+..+++..+.++++..+.                ..+|++|+...  +.+
T Consensus         6 ~~~~LsI~~~~~s~~l~~~~~~~L~~dRY~l~~~~s~~~f~~~le~~~----------------e~iDcLvle~~--~~~   67 (289)
T 1r8j_A            6 VLSQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHR----------------DQIDCLILVAA--NPS   67 (289)
T ss_dssp             CCCCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHST----------------TSCSEEEEETT--STT
T ss_pred             cccceeEEEEeCCHHHHHHHHHhcccCceEEEEcCcHHHHHHHHHhcc----------------ccCCEEEEEeC--CCc
Confidence            466789999999999999999999888899999999999999997654                34889998762  234


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSE  116 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~  116 (241)
                      -..++..+.+.+.  -+|+|++...
T Consensus        68 ~~~~~~~L~~~g~--lLP~vil~~~   90 (289)
T 1r8j_A           68 FRAVVQQLCFEGV--VVPAIVVGDR   90 (289)
T ss_dssp             HHHHHHHHHHTTC--CCCEEEESCC
T ss_pred             cHHHHHHHHHcCc--cccEEEeccC
Confidence            6788889998775  6899998665

>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=94.81  E-value=0.22  Score=40.34  Aligned_cols=85  Identities=15%  Similarity=0.191  Sum_probs=59.1

Q ss_pred             HHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC------CCCCCHHHHHHHHH
Q 026239           28 RKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC------MPGMTGYDLLKKIK  100 (241)
Q Consensus        28 ~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~------mp~~~g~~ll~~ir  100 (241)
                      ...+.+.++..|..+. .+.+.+++......                   .+|+|.+...      .....++++++.++
T Consensus       118 l~~~i~~~~~~g~~v~~~v~t~eea~~a~~~-------------------Gad~Ig~~~~g~t~~~~~~~~~~~~i~~l~  178 (232)
T 3igs_A          118 VEALLARIHHHHLLTMADCSSVDDGLACQRL-------------------GADIIGTTMSGYTTPDTPEEPDLPLVKALH  178 (232)
T ss_dssp             HHHHHHHHHHTTCEEEEECCSHHHHHHHHHT-------------------TCSEEECTTTTSSSSSCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCEEEEeCCCHHHHHHHHhC-------------------CCCEEEEcCccCCCCCCCCCCCHHHHHHHH
Confidence            3334444556676655 56788888766532                   3456653221      12345689999998


Q ss_pred             hcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          101 ESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       101 ~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      ..    ++|||.-++-.+.+.+.++++.||++++.
T Consensus       179 ~~----~ipvIA~GGI~t~~d~~~~~~~GadgV~V  209 (232)
T 3igs_A          179 DA----GCRVIAEGRYNSPALAAEAIRYGAWAVTV  209 (232)
T ss_dssp             HT----TCCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             hc----CCcEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence            74    68999988888899999999999999865

>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=94.15  E-value=0.83  Score=37.61  Aligned_cols=110  Identities=9%  Similarity=0.043  Sum_probs=70.4

Q ss_pred             CcceEEEE----eCCHHHHHHHHHH--------hhcC-CCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCccccc
Q 026239           14 SQFHVLAV----DDSIIDRKLIERL--------LKTS-SYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG   77 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~--------L~~~-g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~   77 (241)
                      ...+|++.    |-+..=...+..+        |+.. ||+|+..   -..++.++.+....                  
T Consensus       119 ~~~~Vvlatv~gD~HdiG~~iv~~~k~~~~~~~L~~~~G~eVi~LG~~vp~e~iv~aa~e~~------------------  180 (262)
T 1xrs_B          119 RKIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVELE------------------  180 (262)
T ss_dssp             SCEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHHTT------------------
T ss_pred             CCCEEEEEeCCCCCchHHHHHHhhhhcccchHHHHhcCCcEEEECCCCCCHHHHHHHHHHcC------------------
Confidence            34566554    5556666667767        8999 9999753   36777888776554                  


Q ss_pred             ccEEEEeCCCCCC----CH-HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHH
Q 026239           78 VNLVITDYCMPGM----TG-YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        78 ~dlIilD~~mp~~----~g-~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      +|+|.+...+...    .. -++++.+++.....+++|++=....+.+   .+.+.|++.|+.--....++.
T Consensus       181 ~d~VglS~l~t~~~~~~~~~~~~i~~L~~~g~~~~i~vivGG~~~~~~---~a~~iGad~~~~da~~~~~~a  249 (262)
T 1xrs_B          181 ADVLLVSQTVTQKNVHIQNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVA  249 (262)
T ss_dssp             CSEEEEECCCCTTSHHHHHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHH
T ss_pred             CCEEEEEeecCCccchHHHHHHHHHHHHhcCCCCCCEEEEECCcCCHH---HHHHcCCeEEECCchHHHHHH
Confidence            4599998887652    22 2467777775432236665544443333   366789998887666666653

>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG, thermus thermophilus HB8, structural genomics, NPPSFA; 2.30A {Thermus thermophilus}

Probab=94.09  E-value=0.11  Score=42.71  Aligned_cols=80  Identities=20%  Similarity=0.199  Sum_probs=53.3

Q ss_pred             HhhcCCCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH-----HHHHHHHHhcCCCC
Q 026239           34 LLKTSSYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG-----YDLLKKIKESSSLR  106 (241)
Q Consensus        34 ~L~~~g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g-----~~ll~~ir~~~~~~  106 (241)
                      .|...||.|.  +.+|...|- .+....+                  ++| +.+..|-.+|     .++++.+++...  
T Consensus       119 ~L~k~Gf~Vlpy~~~D~~~ak-~l~~~G~------------------~aV-mPlg~pIGsG~Gi~~~~~L~~i~~~~~--  176 (268)
T 2htm_A          119 RLIEEDFLVLPYMGPDLVLAK-RLAALGT------------------ATV-MPLAAPIGSGWGVRTRALLELFAREKA--  176 (268)
T ss_dssp             HHHHTTCEECCEECSCHHHHH-HHHHHTC------------------SCB-EEBSSSTTTCCCSTTHHHHHHHHHTTT--
T ss_pred             HHHHCCCEEeeccCCCHHHHH-HHHhcCC------------------CEE-EecCccCcCCcccCCHHHHHHHHHhcC--
Confidence            3445699876  345654433 3322222                  244 6666553333     567899987433  


Q ss_pred             C-CcEEEEccCCChHHHHHHHHhccccccc
Q 026239          107 D-IPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       107 ~-ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      + +|||+=.+-..++.+..++++||++++.
T Consensus       177 ~~vPVI~~GGI~tpsDAa~AmeLGAdgVlV  206 (268)
T 2htm_A          177 SLPPVVVDAGLGLPSHAAEVMELGLDAVLV  206 (268)
T ss_dssp             TSSCBEEESCCCSHHHHHHHHHTTCCEEEE
T ss_pred             CCCeEEEeCCCCCHHHHHHHHHcCCCEEEE
Confidence            6 9999988888999999999999999864

>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=93.41  E-value=0.88  Score=43.08  Aligned_cols=120  Identities=15%  Similarity=0.100  Sum_probs=77.2

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      .+.+|++.    |.+..-...+..+|...||+|...   .+.++.++......                  +|+|.+...
T Consensus       603 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e~~------------------adiVglSsl  664 (762)
T 2xij_A          603 RRPRLLVAKMGQDGHDRGAKVIATGFADLGFDVDIGPLFQTPREVAQQAVDAD------------------VHAVGVSTL  664 (762)
T ss_dssp             SCCEEEEECCSSCCCCHHHHHHHHHHHHTTCEEEECCTTCCHHHHHHHHHHTT------------------CSEEEEEEC
T ss_pred             CCCEEEEEecCcchhhHHHHHHHHHHHhCCeEEeeCCCCCCHHHHHHHHHHcC------------------CCEEEEeee
Confidence            45677765    445555677888999999999853   36788888876544                  448887765


Q ss_pred             CCC-C-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           87 MPG-M-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        87 mp~-~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      |.. + ..-++++.|++... ++++|+ +.+..-......+.+.|+++|+..-.+..+....+..++..
T Consensus       665 ~~~~~~~~~~vi~~Lr~~G~-~dv~Vi-vGG~~P~~d~~~l~~~GaD~~f~pgtd~~e~~~~i~~~l~~  731 (762)
T 2xij_A          665 AAGHKTLVPELIKELNSLGR-PDILVM-CGGVIPPQDYEFLFEVGVSNVFGPGTRIPKAAVQVLDDIEK  731 (762)
T ss_dssp             SSCHHHHHHHHHHHHHHTTC-TTSEEE-EEESCCGGGHHHHHHHTCCEEECTTCCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcCC-CCCEEE-EeCCCCcccHHHHHhCCCCEEeCCCCCHHHHHHHHHHHHHH
Confidence            543 2 24567888888754 355444 44322222345578899999998666777765544444433

>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=93.36  E-value=0.85  Score=42.25  Aligned_cols=112  Identities=8%  Similarity=0.089  Sum_probs=71.2

Q ss_pred             hcCcceEEEE----eCCHHHHHHH----HHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccE
Q 026239           12 AESQFHVLAV----DDSIIDRKLI----ERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNL   80 (241)
Q Consensus        12 ~~~~~~ILiV----dd~~~~~~~l----~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dl   80 (241)
                      .+.+.+||+.    |-+..=...+    ..+|+..||+|+..   -+.++.++.+....                  +|+
T Consensus       599 ~e~kGKVVIATVgGD~HDIGKklVaNIVa~~LE~aGFEVIDLGvdVPpEeIVeAA~Eed------------------ADV  660 (763)
T 3kp1_A          599 EKTPLKIVAATVGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAAIELK------------------ADA  660 (763)
T ss_dssp             HHSCCEEEEEEBTTCCCCHHHHHTTSTTTTCGGGGTCEEEECCSSBCHHHHHHHHHHTT------------------CSE
T ss_pred             hccCCEEEEEeCCCChhhhhhHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHcC------------------CCE
Confidence            3456788776    3343333322    46789999999854   36788888886554                  459


Q ss_pred             EEEeCCCCC----CCH-HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHH
Q 026239           81 VITDYCMPG----MTG-YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        81 IilD~~mp~----~~g-~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      |.+...|..    +.. -++++.|++.+....++|++=......+   -+.+.||+.|+.--....++.
T Consensus       661 VGLSsLLTt~dihL~~MkevIelLrE~GlrDkIkVIVGGa~~tqd---~AkeIGADa~f~DATeAVeVA  726 (763)
T 3kp1_A          661 ILASTIISHDDIHYKNMKRIHELAVEKGIRDKIMIGCGGTQVTPE---VAVKQGVDAGFGRGSKGIHVA  726 (763)
T ss_dssp             EEEECCCCGGGHHHHHHHHHHHHHHHTTCTTTSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHH
T ss_pred             EEEeccccCchhhHHHHHHHHHHHHhcCCCCCCEEEEECCCCCHH---HHHHcCCcEEECCcchHHHHH
Confidence            999987775    233 3467778876542236665543334433   245899999988766666553

>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=92.91  E-value=1.1  Score=37.16  Aligned_cols=88  Identities=10%  Similarity=0.034  Sum_probs=57.8

Q ss_pred             HHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-C-CCHHHHHHHHHhcCC
Q 026239           28 RKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-G-MTGYDLLKKIKESSS  104 (241)
Q Consensus        28 ~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~-~~g~~ll~~ir~~~~  104 (241)
                      ...+.......|..+. .+.+.+++...+..                   .+|+|-+.-.-. . ..+++.+.+|....+
T Consensus       151 l~~l~~~a~~lGl~~lvev~t~ee~~~A~~~-------------------Gad~IGv~~r~l~~~~~dl~~~~~l~~~v~  211 (272)
T 3qja_A          151 LVSMLDRTESLGMTALVEVHTEQEADRALKA-------------------GAKVIGVNARDLMTLDVDRDCFARIAPGLP  211 (272)
T ss_dssp             HHHHHHHHHHTTCEEEEEESSHHHHHHHHHH-------------------TCSEEEEESBCTTTCCBCTTHHHHHGGGSC
T ss_pred             HHHHHHHHHHCCCcEEEEcCCHHHHHHHHHC-------------------CCCEEEECCCcccccccCHHHHHHHHHhCc
Confidence            3334445566788765 67888887665532                   234666542211 1 123566777776432


Q ss_pred             CCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239          105 LRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       105 ~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                       .++|||.-++-.+.+.+..+.+.|+++++.
T Consensus       212 -~~~pvVaegGI~t~edv~~l~~~GadgvlV  241 (272)
T 3qja_A          212 -SSVIRIAESGVRGTADLLAYAGAGADAVLV  241 (272)
T ss_dssp             -TTSEEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             -ccCEEEEECCCCCHHHHHHHHHcCCCEEEE
Confidence             268999988888899999999999999976

>1req_A Methylmalonyl-COA mutase; isomerase, intramolecular transferase; HET: B12 DCA; 2.00A {Propionibacterium freudenreichii subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 2req_A* 3req_A* 4req_A* 6req_A* 7req_A* 5req_A* 1e1c_A*

Probab=92.52  E-value=1.2  Score=41.98  Aligned_cols=112  Identities=13%  Similarity=0.117  Sum_probs=73.6

Q ss_pred             CcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      .+.+|++.    |.+..-...+..+|...||+|...   .+.++.++......                  +|+|.+...
T Consensus       595 ~r~kVvlatvg~D~HdiG~~iVa~~l~~~GfeVi~lG~~v~~eeiv~aA~e~~------------------adiVglSsl  656 (727)
T 1req_A          595 RRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEAD------------------VHVVGVSSL  656 (727)
T ss_dssp             SCCEEEEECBTTCCCCHHHHHHHHHHHHHTCEEEECCTTBCHHHHHHHHHHTT------------------CSEEEEEEC
T ss_pred             CCCEEEEEeCCcchhHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHcC------------------CCEEEEeee
Confidence            45677765    455556677888999999999854   35688888876544                  448888766


Q ss_pred             CCC-C-CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHH
Q 026239           87 MPG-M-TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNK  145 (241)
Q Consensus        87 mp~-~-~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~  145 (241)
                      |.. + ..-++++.|++... ++++|+ +.+.........+.+.|+++|+.--.+..++.+
T Consensus       657 ~~~~~~~~~~vi~~L~~~G~-~~i~Vi-vGG~~p~~d~~~l~~~GaD~~f~~gt~~~e~a~  715 (727)
T 1req_A          657 AGGHLTLVPALRKELDKLGR-PDILIT-VGGVIPEQDFDELRKDGAVEIYTPGTVIPESAI  715 (727)
T ss_dssp             SSCHHHHHHHHHHHHHHTTC-TTSEEE-EEESCCGGGHHHHHHTTEEEEECTTCCHHHHHH
T ss_pred             cHhHHHHHHHHHHHHHhcCC-CCCEEE-EcCCCccccHHHHHhCCCCEEEcCCccHHHHHH
Confidence            543 2 24567888888653 355444 444233333455789999999986566666543

>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A {Bacillus subtilis} PDB: 3qh2_A*

Probab=92.37  E-value=1.4  Score=34.87  Aligned_cols=81  Identities=22%  Similarity=0.312  Sum_probs=52.8

Q ss_pred             HHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-------CCHHHHHHHHH
Q 026239           29 KLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-------MTGYDLLKKIK  100 (241)
Q Consensus        29 ~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-------~~g~~ll~~ir  100 (241)
                      ..++.++.  +..+. .+.+..++.....                   ..+|.|+++...+.       ..|++.++.++
T Consensus       102 ~~~~~~~~--~~~ig~sv~t~~~~~~a~~-------------------~gaD~i~~~~~f~~~~~~g~~~~~~~~l~~~~  160 (221)
T 1yad_A          102 KQIRARFP--HLHIGRSVHSLEEAVQAEK-------------------EDADYVLFGHVFETDCKKGLEGRGVSLLSDIK  160 (221)
T ss_dssp             HHHHHHCT--TCEEEEEECSHHHHHHHHH-------------------TTCSEEEEECCC----------CHHHHHHHHH
T ss_pred             HHHHHHCC--CCEEEEEcCCHHHHHHHHh-------------------CCCCEEEECCccccCCCCCCCCCCHHHHHHHH
Confidence            34444442  44333 5667777766543                   22568888764332       23688888887


Q ss_pred             hcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239          101 ESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus       101 ~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      ...   ++||++..+- +.+.+..+++.||+++.
T Consensus       161 ~~~---~~pvia~GGI-~~~nv~~~~~~Ga~gv~  190 (221)
T 1yad_A          161 QRI---SIPVIAIGGM-TPDRLRDVKQAGADGIA  190 (221)
T ss_dssp             HHC---CSCEEEESSC-CGGGHHHHHHTTCSEEE
T ss_pred             HhC---CCCEEEECCC-CHHHHHHHHHcCCCEEE
Confidence            653   6899888776 78888999999998764

>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=91.88  E-value=0.45  Score=39.11  Aligned_cols=56  Identities=20%  Similarity=0.305  Sum_probs=39.3

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      .+++++.+|+..+  ++|+++|+..+.      ...+..|.++|+++++.-.+..+++..++..
T Consensus        81 ~~~~v~~ir~~~~--~~Pi~~m~y~n~v~~~g~~~f~~~~~~aG~dgvii~dl~~ee~~~~~~~  142 (262)
T 2ekc_A           81 VLELSETLRKEFP--DIPFLLMTYYNPIFRIGLEKFCRLSREKGIDGFIVPDLPPEEAEELKAV  142 (262)
T ss_dssp             HHHHHHHHHHHCT--TSCEEEECCHHHHHHHCHHHHHHHHHHTTCCEEECTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcC--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEECCCCHHHHHHHHHH
Confidence            4567888887632  789999864431      3456778899999999977777666554443

>3o63_A Probable thiamine-phosphate pyrophosphorylase; thiamin biosynthesis, TIM barrel, transferase; 2.35A {Mycobacterium tuberculosis}

Probab=91.51  E-value=2.4  Score=34.33  Aligned_cols=71  Identities=15%  Similarity=0.269  Sum_probs=49.7

Q ss_pred             EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-------CCHHHHHHHHHhcCCCCCCcEEEEccC
Q 026239           44 TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-------MTGYDLLKKIKESSSLRDIPVVIMSSE  116 (241)
Q Consensus        44 ~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-------~~g~~ll~~ir~~~~~~~ipvIils~~  116 (241)
                      .+.+.+++.....                   ..+|.|.+.-..|.       .-|++.+++++.... .++|||.+.+-
T Consensus       141 S~ht~~Ea~~A~~-------------------~GaDyI~vgpvf~T~tK~~~~~~gl~~l~~~~~~~~-~~iPvvAiGGI  200 (243)
T 3o63_A          141 STHDPDQVAAAAA-------------------GDADYFCVGPCWPTPTKPGRAAPGLGLVRVAAELGG-DDKPWFAIGGI  200 (243)
T ss_dssp             EECSHHHHHHHHH-------------------SSCSEEEECCSSCCCC-----CCCHHHHHHHHTC----CCCEEEESSC
T ss_pred             eCCCHHHHHHHhh-------------------CCCCEEEEcCccCCCCCCCcchhhHHHHHHHHHhcc-CCCCEEEecCC
Confidence            5678888776553                   23568887654443       237888999987521 27999999876


Q ss_pred             CChHHHHHHHHhccccccc
Q 026239          117 NVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       117 ~~~~~~~~~l~~Ga~~~l~  135 (241)
                       +.+.+..++.+||+++..
T Consensus       201 -~~~ni~~~~~aGa~gvav  218 (243)
T 3o63_A          201 -NAQRLPAVLDAGARRIVV  218 (243)
T ss_dssp             -CTTTHHHHHHTTCCCEEE
T ss_pred             -CHHHHHHHHHcCCCEEEE
Confidence             567788999999998754

>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=91.45  E-value=0.4  Score=38.73  Aligned_cols=51  Identities=14%  Similarity=0.320  Sum_probs=36.5

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCC------hHHHHHHHHhcccccccCCCCHHHHHHh
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENV------PSRISRCLEEGAEEFFLKPVRLSDLNKL  146 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~------~~~~~~~l~~Ga~~~l~KP~~~~~L~~~  146 (241)
                      +++++.+++..   ++||++++..+.      ...+..++++||+.++.-.....+...+
T Consensus        69 ~~~i~~i~~~~---~~pv~~~~~~~~~~~~~~~~~~~~~~~~Gad~v~~~~~~~~~~~~~  125 (248)
T 1geq_A           69 FWIVKEFRRHS---STPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEF  125 (248)
T ss_dssp             HHHHHHHHTTC---CCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTCCGGGHHHH
T ss_pred             HHHHHHHHhhC---CCCEEEEeccchhhhcCHHHHHHHHHHCCCCEEEECCCChhhHHHH
Confidence            77888888753   679998875333      4678889999999988865555444333

>3ffs_A Inosine-5-monophosphate dehydrogenase; beta-alpha barrel, TIM fold, oxidoreductase; 3.19A {Cryptosporidium parvum}

Probab=91.11  E-value=2.7  Score=36.72  Aligned_cols=101  Identities=16%  Similarity=0.206  Sum_probs=64.4

Q ss_pred             cceEEEEeC----CHHHHHHHHHHhhcCCCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC--
Q 026239           15 QFHVLAVDD----SIIDRKLIERLLKTSSYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC--   86 (241)
Q Consensus        15 ~~~ILiVdd----~~~~~~~l~~~L~~~g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~--   86 (241)
                      ...++++|-    .....+.++.+-+..+..|.  .+.+.++|..++..                   .+|.|++.+.  
T Consensus       156 GvdvIvldta~G~~~~~~e~I~~ik~~~~i~Vi~g~V~t~e~A~~a~~a-------------------GAD~I~vG~g~G  216 (400)
T 3ffs_A          156 GVDVIVLDSAHGHSLNIIRTLKEIKSKMNIDVIVGNVVTEEATKELIEN-------------------GADGIKVGIGPG  216 (400)
T ss_dssp             TCSEEEECCSCCSBHHHHHHHHHHHTTCCCEEEEEEECSHHHHHHHHHT-------------------TCSEEEECC---
T ss_pred             CCCEEEEeCCCCCcccHHHHHHHHHhcCCCeEEEeecCCHHHHHHHHHc-------------------CCCEEEEeCCCC
Confidence            466777752    23345555555454466554  57888888776642                   3557777321  


Q ss_pred             ---------CCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           87 ---------MPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        87 ---------mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                               -.+...++++..+.......++|||.-.+-.+...+..++.+||+.+.
T Consensus       217 s~~~tr~~~g~g~p~~~al~~v~~~~~~~~IPVIA~GGI~~~~di~kalalGAd~V~  273 (400)
T 3ffs_A          217 SICTTRIVAGVGVPQITAIEKCSSVASKFGIPIIADGGIRYSGDIGKALAVGASSVM  273 (400)
T ss_dssp             ------CCSCBCCCHHHHHHHHHHHHTTTTCCEEEESCCCSHHHHHHHHTTTCSEEE
T ss_pred             cCcccccccccchhHHHHHHHHHHHHHhcCCCEEecCCCCCHHHHHHHHHcCCCEEE
Confidence                     012345667777764321237999988888889999999999998763

>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=89.39  E-value=0.56  Score=38.63  Aligned_cols=57  Identities=18%  Similarity=0.417  Sum_probs=39.5

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCC------ChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSEN------VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~------~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++++++.||+...  ++||++|+..+      ....+..+.++|+++++.-....+++..++..+
T Consensus        81 ~~~~v~~ir~~~~--~~Pv~lm~y~n~v~~~g~~~~~~~~~~aGadgii~~d~~~e~~~~~~~~~  143 (268)
T 1qop_A           81 CFEMLAIIREKHP--TIPIGLLMYANLVFNNGIDAFYARCEQVGVDSVLVADVPVEESAPFRQAA  143 (268)
T ss_dssp             HHHHHHHHHHHCS--SSCEEEEECHHHHHTTCHHHHHHHHHHHTCCEEEETTCCGGGCHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CCCEEEEEcccHHHHhhHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence            4577888887632  78999886332      246677889999999988777766555544443

>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics, southeast collaboratory for structural genomics, hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP: c.1.3.1

Probab=88.73  E-value=2.9  Score=32.54  Aligned_cols=53  Identities=26%  Similarity=0.403  Sum_probs=39.7

Q ss_pred             ccEEEEeCCCCC-------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           78 VNLVITDYCMPG-------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        78 ~dlIilD~~mp~-------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      +|.|+++-..|.       ..+++.++.++...   ++||++..+-. .+.+..+++.|++++.
T Consensus       129 ~d~i~~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~pvia~GGI~-~~nv~~~~~~Ga~gv~  188 (215)
T 1xi3_A          129 ADYLGAGSVFPTKTKEDARVIGLEGLRKIVESV---KIPVVAIGGIN-KDNAREVLKTGVDGIA  188 (215)
T ss_dssp             CSEEEEECSSCC----CCCCCHHHHHHHHHHHC---SSCEEEESSCC-TTTHHHHHTTTCSEEE
T ss_pred             CCEEEEcCCccCCCCCCCCCcCHHHHHHHHHhC---CCCEEEECCcC-HHHHHHHHHcCCCEEE
Confidence            568888754443       35788999988753   68998877655 7778888899998874

>3vnd_A TSA, tryptophan synthase alpha chain; psychrophilic enzyme, cold adaptation; HET: PE8; 2.60A {Shewanella frigidimarina}

Probab=88.59  E-value=0.33  Score=40.14  Aligned_cols=56  Identities=13%  Similarity=0.381  Sum_probs=40.8

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCC------ChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSEN------VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~------~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +++++.+|+...  ++||++|+-.+      ....+.+|.++|+++++.-....++...++..+
T Consensus        83 ~~~v~~ir~~~~--~~Pivlm~Y~npv~~~g~e~f~~~~~~aGvdgvii~Dlp~ee~~~~~~~~  144 (267)
T 3vnd_A           83 FDIITKVRAQHP--DMPIGLLLYANLVFANGIDEFYTKAQAAGVDSVLIADVPVEESAPFSKAA  144 (267)
T ss_dssp             HHHHHHHHHHCT--TCCEEEEECHHHHHHHCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHH
T ss_pred             HHHHHHHHhcCC--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEeCCCCHhhHHHHHHHH
Confidence            678888887533  78999997643      255688899999999988767776655544444

>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase, 2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A {Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*

Probab=88.43  E-value=4.3  Score=34.13  Aligned_cols=54  Identities=20%  Similarity=0.220  Sum_probs=40.0

Q ss_pred             ccEEEEeCCCC----C---CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           78 VNLVITDYCMP----G---MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        78 ~dlIilD~~mp----~---~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      +|.|+++-.-+    +   ...+++++.++...   ++|||+-.+-.+.+.+..++..||+++.
T Consensus       139 aD~i~v~g~~~GG~~G~~~~~~~~~l~~v~~~~---~iPviaaGGI~~~~~v~~al~~GAdgV~  199 (328)
T 2gjl_A          139 VDAVSIDGFECAGHPGEDDIPGLVLLPAAANRL---RVPIIASGGFADGRGLVAALALGADAIN  199 (328)
T ss_dssp             CSEEEEECTTCSBCCCSSCCCHHHHHHHHHTTC---CSCEEEESSCCSHHHHHHHHHHTCSEEE
T ss_pred             CCEEEEECCCCCcCCCCccccHHHHHHHHHHhc---CCCEEEECCCCCHHHHHHHHHcCCCEEE
Confidence            56777753222    1   25678899988643   7899988887788889999999998763

>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=88.26  E-value=1  Score=37.29  Aligned_cols=55  Identities=15%  Similarity=0.206  Sum_probs=38.7

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCC------ChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSEN------VPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~------~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +++++.+|+. .  ++||++|+-.+      ....+..|.++|+++++.-.+..+++..++..+
T Consensus        80 ~~~v~~ir~~-~--~~Pii~m~y~n~v~~~g~~~f~~~~~~aG~dGviv~Dl~~ee~~~~~~~~  140 (271)
T 1ujp_A           80 LELVREVRAL-T--EKPLFLMTYLNPVLAWGPERFFGLFKQAGATGVILPDLPPDEDPGLVRLA  140 (271)
T ss_dssp             HHHHHHHHHH-C--CSCEEEECCHHHHHHHCHHHHHHHHHHHTCCEEECTTCCGGGCHHHHHHH
T ss_pred             HHHHHHHHhc-C--CCCEEEEecCcHHHHhhHHHHHHHHHHcCCCEEEecCCCHHHHHHHHHHH
Confidence            5778888876 3  79999986332      234566788999999998767666655544443

>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=88.04  E-value=4.1  Score=37.37  Aligned_cols=102  Identities=12%  Similarity=0.201  Sum_probs=68.0

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ..+||+.    |-+..-..++..+|...||+|+..   -..++.++.+....                  +|+|.+...+
T Consensus        98 ~~kVLlatv~GD~HdiG~~iva~~L~~~G~eVi~LG~~vP~e~iv~aa~~~~------------------~diVgLS~l~  159 (579)
T 3bul_A           98 NGKMVIATVKGDVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEVN------------------ADLIGLSGLI  159 (579)
T ss_dssp             SCEEEEEEBTTCCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHHHT------------------CSEEEEECCS
T ss_pred             CCeEEEEECCCCCchHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcC------------------CCEEEEEecC
Confidence            5677777    566677788888999999999854   35777777776554                  4499988766


Q ss_pred             CC-CC-HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHh-----cccccccCCC
Q 026239           88 PG-MT-GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE-----GAEEFFLKPV  138 (241)
Q Consensus        88 p~-~~-g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~-----Ga~~~l~KP~  138 (241)
                      .. ++ --++++.|++.+.  ++||++-..........  -+.     ||+.|..--.
T Consensus       160 t~~~~~m~~~i~~Lr~~g~--~i~ViVGGa~~~~~~a~--~~i~p~~~GAD~ya~DA~  213 (579)
T 3bul_A          160 TPSLDEMVNVAKEMERQGF--TIPLLIGGATTSKAHTA--VKIEQNYSGPTVYVQNAS  213 (579)
T ss_dssp             THHHHHHHHHHHHHHHTTC--CSCEEEESTTCCHHHHH--HHTGGGCSSCEEECCSHH
T ss_pred             CCCHHHHHHHHHHHHHcCC--CCeEEEEccccchhhhh--hhhhhcccCCeEEECCHH
Confidence            43 11 2346778887654  78887665555544321  133     8887765444

>4fo4_A Inosine 5'-monophosphate dehydrogenase; structural genomics, IMPDH, IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.03A {Vibrio cholerae o1 biovar el tor} PDB: 4ff0_A* 4hlv_A* 4fez_A

Probab=87.86  E-value=5.7  Score=34.23  Aligned_cols=102  Identities=20%  Similarity=0.235  Sum_probs=63.6

Q ss_pred             cCcceEEEEe----CCHHHHHHHHHHhhcC-CCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC
Q 026239           13 ESQFHVLAVD----DSIIDRKLIERLLKTS-SYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY   85 (241)
Q Consensus        13 ~~~~~ILiVd----d~~~~~~~l~~~L~~~-g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~   85 (241)
                      +....+++||    +.....+.++.+-+.. +..|.  .+.+.++|..+...                   ..|.|.+.+
T Consensus       118 eaGvd~I~idta~G~~~~~~~~I~~ik~~~p~v~Vi~G~v~t~e~A~~a~~a-------------------GAD~I~vG~  178 (366)
T 4fo4_A          118 EAGVDVLLIDSSHGHSEGVLQRIRETRAAYPHLEIIGGNVATAEGARALIEA-------------------GVSAVKVGI  178 (366)
T ss_dssp             HTTCSEEEEECSCTTSHHHHHHHHHHHHHCTTCEEEEEEECSHHHHHHHHHH-------------------TCSEEEECS
T ss_pred             hCCCCEEEEeCCCCCCHHHHHHHHHHHHhcCCCceEeeeeCCHHHHHHHHHc-------------------CCCEEEEec
Confidence            3456777775    2344444455554444 44443  47788888776642                   355777742


Q ss_pred             CCCC------------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           86 CMPG------------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        86 ~mp~------------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      . |+            ...++++..+.......++|||.-.+-.+...+..++.+||+.+.
T Consensus       179 g-pGs~~~tr~~~g~g~p~~~~l~~v~~~~~~~~iPVIA~GGI~~~~di~kala~GAd~V~  238 (366)
T 4fo4_A          179 G-PGSICTTRIVTGVGVPQITAIADAAGVANEYGIPVIADGGIRFSGDISKAIAAGASCVM  238 (366)
T ss_dssp             S-CSTTBCHHHHHCCCCCHHHHHHHHHHHHGGGTCCEEEESCCCSHHHHHHHHHTTCSEEE
T ss_pred             C-CCCCCCcccccCcccchHHHHHHHHHHHhhcCCeEEEeCCCCCHHHHHHHHHcCCCEEE
Confidence            1 21            234566666654211127999988888788999999999998764

>3tsm_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, ssgcid, seattle structural GE center for infectious disease, lyase; 2.15A {Brucella melitensis} SCOP: c.1.2.0

Probab=87.53  E-value=4.9  Score=33.15  Aligned_cols=93  Identities=12%  Similarity=0.096  Sum_probs=59.2

Q ss_pred             HHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC-CCCC-CHHHHHHHHHhcCCCC
Q 026239           30 LIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC-MPGM-TGYDLLKKIKESSSLR  106 (241)
Q Consensus        30 ~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~-mp~~-~g~~ll~~ir~~~~~~  106 (241)
                      .+.......|..+. .+.+.+++...+..                   .+|+|=+... +-.. ..++....|...-+ .
T Consensus       160 ~l~~~a~~lGl~~lvevh~~eEl~~A~~~-------------------ga~iIGinnr~l~t~~~dl~~~~~L~~~ip-~  219 (272)
T 3tsm_A          160 ELEDTAFALGMDALIEVHDEAEMERALKL-------------------SSRLLGVNNRNLRSFEVNLAVSERLAKMAP-S  219 (272)
T ss_dssp             HHHHHHHHTTCEEEEEECSHHHHHHHTTS-------------------CCSEEEEECBCTTTCCBCTHHHHHHHHHSC-T
T ss_pred             HHHHHHHHcCCeEEEEeCCHHHHHHHHhc-------------------CCCEEEECCCCCccCCCChHHHHHHHHhCC-C
Confidence            34444556788765 67888888766532                   2346544421 1111 12455555554432 3


Q ss_pred             CCcEEEEccCCChHHHHHHHHhccccccc-----CCCCHHH
Q 026239          107 DIPVVIMSSENVPSRISRCLEEGAEEFFL-----KPVRLSD  142 (241)
Q Consensus       107 ~ipvIils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~  142 (241)
                      ++|+|.-++-..++.+.++.++|+++|+.     ++-++..
T Consensus       220 ~~~vIaesGI~t~edv~~l~~~Ga~gvLVG~almr~~d~~~  260 (272)
T 3tsm_A          220 DRLLVGESGIFTHEDCLRLEKSGIGTFLIGESLMRQHDVAA  260 (272)
T ss_dssp             TSEEEEESSCCSHHHHHHHHTTTCCEEEECHHHHTSSCHHH
T ss_pred             CCcEEEECCCCCHHHHHHHHHcCCCEEEEcHHHcCCcCHHH
Confidence            68999999988999999999999999965     5555443

>1geq_A Tryptophan synthase alpha-subunit; hyperthermophIle, pyrococ furiosus, X-RAY analysis, stability, calorimetry, lyase; 2.00A {Pyrococcus furiosus} SCOP: c.1.2.4 PDB: 1wdw_A* 2dzu_A 2dzp_A 2e09_A 2dzw_A 2dzs_A 2dzv_A 2dzt_A 2dzx_A

Probab=87.36  E-value=4  Score=32.66  Aligned_cols=42  Identities=24%  Similarity=0.326  Sum_probs=32.9

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      +++.++.+++..   ++||++-.+-...+.+..++.+||++++.=
T Consensus       179 ~~~~i~~l~~~~---~~pi~~~GGI~~~e~i~~~~~~Gad~vivG  220 (248)
T 1geq_A          179 AYDLLRRAKRIC---RNKVAVGFGVSKREHVVSLLKEGANGVVVG  220 (248)
T ss_dssp             HHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEEC
T ss_pred             HHHHHHHHHhhc---CCCEEEEeecCCHHHHHHHHHcCCCEEEEc
Confidence            356788888753   689888777777688889989999998754

>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center for structural genomics, JCSG, protein structure INI PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}

Probab=87.33  E-value=4.9  Score=33.90  Aligned_cols=79  Identities=27%  Similarity=0.297  Sum_probs=53.3

Q ss_pred             HhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-C----CCHHHHHHHHHhcCCCCC
Q 026239           34 LLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-G----MTGYDLLKKIKESSSLRD  107 (241)
Q Consensus        34 ~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~----~~g~~ll~~ir~~~~~~~  107 (241)
                      .++..|..|. .+.+.+++.....                   ..+|.|+++-.-. +    ...++++..++...   +
T Consensus       119 ~l~~~g~~v~~~v~s~~~a~~a~~-------------------~GaD~i~v~g~~~GG~~G~~~~~~ll~~i~~~~---~  176 (326)
T 3bo9_A          119 ELKENGTKVIPVVASDSLARMVER-------------------AGADAVIAEGMESGGHIGEVTTFVLVNKVSRSV---N  176 (326)
T ss_dssp             HHHHTTCEEEEEESSHHHHHHHHH-------------------TTCSCEEEECTTSSEECCSSCHHHHHHHHHHHC---S
T ss_pred             HHHHcCCcEEEEcCCHHHHHHHHH-------------------cCCCEEEEECCCCCccCCCccHHHHHHHHHHHc---C
Confidence            3444565554 4567777665543                   2245777753222 2    35688999988653   6


Q ss_pred             CcEEEEccCCChHHHHHHHHhcccccc
Q 026239          108 IPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus       108 ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      +|||+-.+-.+.+.+..++..||+++.
T Consensus       177 iPviaaGGI~~~~dv~~al~~GA~gV~  203 (326)
T 3bo9_A          177 IPVIAAGGIADGRGMAAAFALGAEAVQ  203 (326)
T ss_dssp             SCEEEESSCCSHHHHHHHHHHTCSEEE
T ss_pred             CCEEEECCCCCHHHHHHHHHhCCCEEE
Confidence            899988888889999999999998864

>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion protein, cobalamin, precorrin, novel fold, VIT; 2.10A {Thermotoga maritima}

Probab=86.88  E-value=2  Score=34.84  Aligned_cols=54  Identities=9%  Similarity=0.255  Sum_probs=40.3

Q ss_pred             EEEEeCCCCCC---CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           80 LVITDYCMPGM---TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        80 lIilD~~mp~~---~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      +.+.|....+.   .-+++++.+++..   ++||++..+-.+.+.+..+++.||+.+++=
T Consensus        47 i~v~d~~~~~~~~g~~~~~i~~i~~~~---~iPvi~~ggi~~~~~i~~~~~~Gad~v~lg  103 (266)
T 2w6r_A           47 ILLTSIDRDGTKSGYDTEMIRFVRPLT---TLPIIASGGAGKMEHFLEAFLAGADKALAA  103 (266)
T ss_dssp             EEEEETTTSSCSSCCCHHHHHHHGGGC---CSCEEEESCCCSTHHHHHHHHHTCSEEECC
T ss_pred             EEEEecCcccCCCcccHHHHHHHHHhc---CCCEEEECCCCCHHHHHHHHHcCCcHhhhh
Confidence            55567654321   2278889998753   799999888788888999999999987653

>3usb_A Inosine-5'-monophosphate dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid, TIM barrel, CBS-domain; HET: MSE IMP; 2.38A {Bacillus anthracis} PDB: 3tsd_A* 3tsb_A*

Probab=86.75  E-value=7.7  Score=34.92  Aligned_cols=104  Identities=13%  Similarity=0.190  Sum_probs=61.9

Q ss_pred             cCcceEEEEeCC----HHHHHHHHHHhhcCC-CEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC
Q 026239           13 ESQFHVLAVDDS----IIDRKLIERLLKTSS-YQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY   85 (241)
Q Consensus        13 ~~~~~ILiVdd~----~~~~~~l~~~L~~~g-~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~   85 (241)
                      +....+++||..    ......++.+-+..+ ..+.  .+.+.+.|..+...                   .+|.|++++
T Consensus       266 eaGvd~I~Id~a~g~~~~v~~~i~~i~~~~~~~~vi~g~v~t~e~a~~~~~a-------------------Gad~i~vg~  326 (511)
T 3usb_A          266 KASVDAIVLDTAHGHSQGVIDKVKEVRAKYPSLNIIAGNVATAEATKALIEA-------------------GANVVKVGI  326 (511)
T ss_dssp             HTTCSEEEEECSCTTSHHHHHHHHHHHHHCTTSEEEEEEECSHHHHHHHHHH-------------------TCSEEEECS
T ss_pred             hhccceEEecccccchhhhhhHHHHHHHhCCCceEEeeeeccHHHHHHHHHh-------------------CCCEEEECC
Confidence            345677777632    334445555544443 3333  46677777666532                   355777643


Q ss_pred             CCC-----------CCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           86 CMP-----------GMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        86 ~mp-----------~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .-.           +...++++..+.......++|||.-.+-.+...+.+|+.+||+..+.
T Consensus       327 g~gsi~~~~~~~g~g~p~~~~l~~v~~~~~~~~iPVIa~GGI~~~~di~kala~GA~~V~v  387 (511)
T 3usb_A          327 GPGSICTTRVVAGVGVPQLTAVYDCATEARKHGIPVIADGGIKYSGDMVKALAAGAHVVML  387 (511)
T ss_dssp             SCSTTCCHHHHHCCCCCHHHHHHHHHHHHHTTTCCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             CCccccccccccCCCCCcHHHHHHHHHHHHhCCCcEEEeCCCCCHHHHHHHHHhCchhhee
Confidence            211           12345555554322111269999988888999999999999998754

>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural genomics, CSG center for structural genomics of infectious diseases; 2.10A {Vibrio cholerae o1 biovar el tor} SCOP: c.1.2.4

Probab=86.66  E-value=0.71  Score=38.24  Aligned_cols=58  Identities=12%  Similarity=0.363  Sum_probs=40.9

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccC------CChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSE------NVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~------~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +.+++++.+|+...  ++|||+|+-.      .....+.+|.++|+++++.--+.+++...++..+
T Consensus        83 ~~~~~v~~~r~~~~--~~Pivlm~Y~n~v~~~g~~~f~~~~~~aGvdGvIipDlp~ee~~~~~~~~  146 (271)
T 3nav_A           83 ICFELIAQIRARNP--ETPIGLLMYANLVYARGIDDFYQRCQKAGVDSVLIADVPTNESQPFVAAA  146 (271)
T ss_dssp             HHHHHHHHHHHHCT--TSCEEEEECHHHHHHTCHHHHHHHHHHHTCCEEEETTSCGGGCHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--CCCEEEEecCcHHHHHhHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Confidence            34678888887533  7999999743      3355688899999999988666666654444333

>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase, tryptophan biosynthesis, pyridoxal phosphate; HET: IPL PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB: 1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A* 1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A* 1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...

Probab=86.26  E-value=3.7  Score=33.58  Aligned_cols=42  Identities=21%  Similarity=0.283  Sum_probs=33.6

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      .++++++|+..   ++||++=.+-.+++.+..++..|||.++.=.
T Consensus       194 ~~~i~~lr~~~---~~pi~vggGI~t~e~~~~~~~agAD~vVVGS  235 (268)
T 1qop_A          194 HHLIEKLKEYH---AAPALQGFGISSPEQVSAAVRAGAAGAISGS  235 (268)
T ss_dssp             HHHHHHHHHTT---CCCEEEESSCCSHHHHHHHHHTTCSEEEECH
T ss_pred             HHHHHHHHhcc---CCcEEEECCCCCHHHHHHHHHcCCCEEEECh
Confidence            58899999853   6898876666668889998999999987643

>1ka9_F Imidazole glycerol phosphtate synthase; riken structural genomics/proteomics initiative, RSGI, structural genomics, transferase; 2.30A {Thermus thermophilus} SCOP: c.1.2.1

Probab=86.26  E-value=3  Score=33.42  Aligned_cols=53  Identities=19%  Similarity=0.230  Sum_probs=40.0

Q ss_pred             EEEEeCCCCCCC---HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGMT---GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~~---g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +.+.|....+..   .+++++.+++..   ++||++...-.+.+.+..++..||+.++.
T Consensus        48 i~v~d~~~~~~~~~~~~~~i~~i~~~~---~iPvi~~Ggi~~~~~~~~~~~~Gad~V~l  103 (252)
T 1ka9_F           48 LVFLDISATHEERAILLDVVARVAERV---FIPLTVGGGVRSLEDARKLLLSGADKVSV  103 (252)
T ss_dssp             EEEEECCSSTTCHHHHHHHHHHHHTTC---CSCEEEESSCCSHHHHHHHHHHTCSEEEE
T ss_pred             EEEEcCCccccCccccHHHHHHHHHhC---CCCEEEECCcCCHHHHHHHHHcCCCEEEE
Confidence            566676644333   245677777642   79999999988999999999999988765

>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=86.10  E-value=1.2  Score=36.66  Aligned_cols=43  Identities=23%  Similarity=0.315  Sum_probs=35.8

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      .+.++++++++..   ++|||+..+-.+.+.+..++.+||++++.=
T Consensus       165 ~~~~~l~~i~~~~---~iPviv~gGI~t~eda~~~~~~GAdgViVG  207 (264)
T 1xm3_A          165 LNPLNLSFIIEQA---KVPVIVDAGIGSPKDAAYAMELGADGVLLN  207 (264)
T ss_dssp             SCHHHHHHHHHHC---SSCBEEESCCCSHHHHHHHHHTTCSEEEES
T ss_pred             CCHHHHHHHHhcC---CCCEEEEeCCCCHHHHHHHHHcCCCEEEEc
Confidence            3478899998743   799999988888999999999999988653

>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=85.91  E-value=2.5  Score=36.26  Aligned_cols=48  Identities=15%  Similarity=0.117  Sum_probs=39.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhc---CCCEEEEECCHHHHHHHhcccCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKT---SSYQVTTVDSGSKALEFLGLHEDD   61 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~---~g~~v~~~~~~~~al~~l~~~~~d   61 (241)
                      -++++.|+|.|..+.+.|..+|..   ..|.+..+++.+.+.++++....|
T Consensus        20 ~~i~l~i~d~d~~Y~~~l~~y~~~~~~~~~~v~~ft~~e~~~~~~~~~~~d   70 (373)
T 3fkq_A           20 MKIKVALLDKDKEYLDRLTGVFNTKYADKLEVYSFTDEKNAIESVKEYRID   70 (373)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHHHTTTTEEEEEESCHHHHHHHHHHHTCS
T ss_pred             ceEEEEEEeCCHHHHHHHHHHHhhccCCceEEEEECCHHHHHHHHhcCCCC
Confidence            368999999999999999998853   358999999999999998654433

>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion protein, cobalamin, precorrin, novel fold, VIT; 2.10A {Thermotoga maritima}

Probab=85.71  E-value=4.4  Score=32.73  Aligned_cols=41  Identities=7%  Similarity=0.263  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+++++++++..   ++|||+..+-.+.+.+.++++.||++++.
T Consensus       188 ~~~~i~~l~~~~---~ipvia~GGI~~~ed~~~~~~~Gadgv~v  228 (266)
T 2w6r_A          188 DTEMIRFVRPLT---TLPIIASGGAGKMEHFLEAFLAGADAALA  228 (266)
T ss_dssp             CHHHHHHHGGGC---CSCEEEESCCCSHHHHHHHHHHTCSEEEE
T ss_pred             CHHHHHHHHHHc---CCCEEEeCCCCCHHHHHHHHHcCCHHHHc
Confidence            378999998753   78999999888889999999999998754

>2tps_A Protein (thiamin phosphate synthase); thiamin biosynthesis, TIM barrel; HET: TPS; 1.25A {Bacillus subtilis} SCOP: c.1.3.1 PDB: 1g4t_A* 3o15_A* 1g6c_A* 1g4e_A* 1g69_A* 3o16_A 1g4s_A* 1g4p_A* 1g67_A*

Probab=85.50  E-value=10  Score=29.62  Aligned_cols=41  Identities=17%  Similarity=0.360  Sum_probs=31.1

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      .|++.++.++....  ++||++..+-. .+.+..++..|++++.
T Consensus       158 ~~~~~l~~~~~~~~--~~pvia~GGI~-~~nv~~~~~~Ga~gv~  198 (227)
T 2tps_A          158 QGVSLIEAVRRQGI--SIPIVGIGGIT-IDNAAPVIQAGADGVS  198 (227)
T ss_dssp             CTTHHHHHHHHTTC--CCCEEEESSCC-TTTSHHHHHTTCSEEE
T ss_pred             cCHHHHHHHHHhCC--CCCEEEEcCCC-HHHHHHHHHcCCCEEE
Confidence            37889999987542  48998877655 7777788899998864

>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics, oxidoreductase, flavoprotein; HET: FMN; 1.70A {Streptococcus pneumoniae} PDB: 2z6j_A*

Probab=85.38  E-value=3.9  Score=34.52  Aligned_cols=53  Identities=19%  Similarity=0.236  Sum_probs=39.9

Q ss_pred             ccEEEEeCCCC-----CCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           78 VNLVITDYCMP-----GMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        78 ~dlIilD~~mp-----~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      +|.|+++-.-.     ....+++++.++...   ++|||+..+-.+.+.+..++..||+++
T Consensus       131 aD~i~v~g~~~GG~~g~~~~~~ll~~i~~~~---~iPViaaGGI~~~~~~~~al~~GAdgV  188 (332)
T 2z6i_A          131 ADAVIAEGMEAGGHIGKLTTMTLVRQVATAI---SIPVIAAGGIADGEGAAAGFMLGAEAV  188 (332)
T ss_dssp             CSCEEEECTTSSEECCSSCHHHHHHHHHHHC---SSCEEEESSCCSHHHHHHHHHTTCSEE
T ss_pred             CCEEEEECCCCCCCCCCccHHHHHHHHHHhc---CCCEEEECCCCCHHHHHHHHHcCCCEE
Confidence            55777753211     135688999998753   689998888888999999999999875

>3khj_A Inosine-5-monophosphate dehydrogenase; enzyme-inhibitor complex, oxidoreductase; HET: IMP C64; 2.80A {Cryptosporidium parvum}

Probab=85.08  E-value=5.4  Score=34.25  Aligned_cols=102  Identities=16%  Similarity=0.210  Sum_probs=60.8

Q ss_pred             CcceEEEEe----CCHHHHHHHHHHhhcCCCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           14 SQFHVLAVD----DSIIDRKLIERLLKTSSYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        14 ~~~~ILiVd----d~~~~~~~l~~~L~~~g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ....++++|    +.....+.++.+-+..+..|.  .+.+.++|..++..                   .+|.|.+.+.-
T Consensus       116 aGad~I~ld~a~G~~~~~~~~i~~i~~~~~~~Vivg~v~t~e~A~~l~~a-------------------GaD~I~VG~~~  176 (361)
T 3khj_A          116 AGVDVIVLDSAHGHSLNIIRTLKEIKSKMNIDVIVGNVVTEEATKELIEN-------------------GADGIKVGIGP  176 (361)
T ss_dssp             TTCSEEEECCSCCSBHHHHHHHHHHHHHCCCEEEEEEECSHHHHHHHHHT-------------------TCSEEEECSSC
T ss_pred             cCcCeEEEeCCCCCcHHHHHHHHHHHHhcCCcEEEccCCCHHHHHHHHHc-------------------CcCEEEEecCC
Confidence            345666664    233344555555444465554  56788887766532                   34577763210


Q ss_pred             -----------CCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           88 -----------PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        88 -----------p~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                                 .+...++++..+.......++|||.-.+-.+...+..++.+||+.+.
T Consensus       177 Gs~~~tr~~~g~g~p~~~~i~~v~~~~~~~~iPVIA~GGI~~~~di~kala~GAd~V~  234 (361)
T 3khj_A          177 GSICTTRIVAGVGVPQITAIEKCSSVASKFGIPIIADGGIRYSGDIGKALAVGASSVM  234 (361)
T ss_dssp             CTTCCHHHHTCBCCCHHHHHHHHHHHHHHHTCCEEEESCCCSHHHHHHHHHHTCSEEE
T ss_pred             CcCCCcccccCCCCCcHHHHHHHHHHHhhcCCeEEEECCCCCHHHHHHHHHcCCCEEE
Confidence                       01234555666543211126899988887788999999999998763

>2gek_A Phosphatidylinositol mannosyltransferase (PIMA); GT4 glycosyltransferase, rossmann fold, complex; HET: GDP; 2.40A {Mycobacterium smegmatis} PDB: 2gej_A*

Probab=84.86  E-value=12  Score=31.44  Aligned_cols=66  Identities=11%  Similarity=0.087  Sum_probs=44.5

Q ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           78 VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        78 ~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      .|++|+-..-.+.-|..+++.+..     .+|||+...    ....+.+..|..+|+..|.+.++|...+..++.
T Consensus       283 adv~v~ps~~~e~~~~~~~Ea~a~-----G~PvI~~~~----~~~~e~i~~~~~g~~~~~~d~~~l~~~i~~l~~  348 (406)
T 2gek_A          283 ADVYCAPHLGGESFGIVLVEAMAA-----GTAVVASDL----DAFRRVLADGDAGRLVPVDDADGMAAALIGILE  348 (406)
T ss_dssp             SSEEEECCCSCCSSCHHHHHHHHH-----TCEEEECCC----HHHHHHHTTTTSSEECCTTCHHHHHHHHHHHHH
T ss_pred             CCEEEecCCCCCCCchHHHHHHHc-----CCCEEEecC----CcHHHHhcCCCceEEeCCCCHHHHHHHHHHHHc
Confidence            357776532133346677777764     678775322    345566777888999999999999887777764

>3bw2_A 2-nitropropane dioxygenase; TIM barrel, oxidoreductase; HET: FMN; 2.10A {Streptomyces ansochromogenes} PDB: 3bw4_A* 3bw3_A*

Probab=84.61  E-value=8  Score=33.06  Aligned_cols=41  Identities=29%  Similarity=0.365  Sum_probs=33.6

Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      ..+++++.++...   ++|||+..+-.+.+.+..++..||+.+.
T Consensus       195 ~~~~~l~~i~~~~---~iPViaaGGI~~~~~~~~~l~~GAd~V~  235 (369)
T 3bw2_A          195 GLLSLLAQVREAV---DIPVVAAGGIMRGGQIAAVLAAGADAAQ  235 (369)
T ss_dssp             CHHHHHHHHHHHC---SSCEEEESSCCSHHHHHHHHHTTCSEEE
T ss_pred             cHHHHHHHHHHhc---CceEEEECCCCCHHHHHHHHHcCCCEEE
Confidence            3488999998753   7899988877789999999999998753

>3f4w_A Putative hexulose 6 phosphate synthase; humps, malonate, lyase; 1.65A {Salmonella typhimurium} SCOP: c.1.2.0

Probab=84.42  E-value=8.7  Score=29.71  Aligned_cols=55  Identities=7%  Similarity=0.105  Sum_probs=37.0

Q ss_pred             ccEEEEeCCCC----CCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           78 VNLVITDYCMP----GMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        78 ~dlIilD~~mp----~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .|.|.++....    +..+++.++++++..+  ++||++-.+-. .+.+..++++||+.++.
T Consensus       128 ~d~i~v~~g~~g~~~~~~~~~~i~~l~~~~~--~~~i~~~gGI~-~~~~~~~~~~Gad~vvv  186 (211)
T 3f4w_A          128 ADMLAVHTGTDQQAAGRKPIDDLITMLKVRR--KARIAVAGGIS-SQTVKDYALLGPDVVIV  186 (211)
T ss_dssp             CCEEEEECCHHHHHTTCCSHHHHHHHHHHCS--SCEEEEESSCC-TTTHHHHHTTCCSEEEE
T ss_pred             CCEEEEcCCCcccccCCCCHHHHHHHHHHcC--CCcEEEECCCC-HHHHHHHHHcCCCEEEE
Confidence            45776652111    1135788899987643  68888766654 77888899999998754

>2v5j_A 2,4-dihydroxyhept-2-ENE-1,7-dioic acid aldolase; lyase, class II aldolase, homoprotocatechuate, aromatic DEGR aromatic hydrocarbons catabolism; 1.60A {Escherichia coli} PDB: 2v5k_A

Probab=84.13  E-value=17  Score=30.09  Aligned_cols=71  Identities=14%  Similarity=0.168  Sum_probs=49.2

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-CCCCHHHHHHhhH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-KPVRLSDLNKLKP  148 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-KP~~~~~L~~~~~  148 (241)
                      .+|.||+|+.-...+--.+...++.... ...+++|=+...++..+..+++.|++.++. |--+.+++..++.
T Consensus        60 GaD~v~lDlEh~~~~~~~~~~~l~a~~~-~~~~~~VRv~~~d~~di~~~ld~ga~~ImlP~V~saeea~~~~~  131 (287)
T 2v5j_A           60 GFDWLLIDGEHAPNNVQTVLTQLQAIAP-YPSQPVVRPSWNDPVQIKQLLDVGTQTLLVPMVQNADEAREAVR  131 (287)
T ss_dssp             CCSEEEEESSSSSCCHHHHHHHHHHHTT-SSSEEEEECSSSCHHHHHHHHHTTCCEEEESCCCSHHHHHHHHH
T ss_pred             CCCEEEEeCCCccchHHHHHHHHHHHHh-cCCCEEEEECCCCHHHHHHHHhCCCCEEEeCCCCCHHHHHHHHH
Confidence            4669999997665565556665654332 256777777777888899999999987543 3346777766544

>1eep_A Inosine 5'-monophosphate dehydrogenase; alpha-beta barrel, TIM barrel, IMPDH, IMP dehydrogenase, LOO purine biosynthesis, oxidoreductase; 2.40A {Borrelia burgdorferi} SCOP: c.1.5.1

Probab=84.12  E-value=11  Score=32.73  Aligned_cols=44  Identities=9%  Similarity=0.230  Sum_probs=32.7

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .++.+..++......++|||...+-.+...+.+++.+||+.+..
T Consensus       241 ~~~~l~~v~~~~~~~~ipVia~GGI~~~~d~~~ala~GAd~V~i  284 (404)
T 1eep_A          241 QITAICDVYEACNNTNICIIADGGIRFSGDVVKAIAAGADSVMI  284 (404)
T ss_dssp             HHHHHHHHHHHHTTSSCEEEEESCCCSHHHHHHHHHHTCSEEEE
T ss_pred             hHHHHHHHHHHHhhcCceEEEECCCCCHHHHHHHHHcCCCHHhh
Confidence            45666666652211279999888888899999999999988644

>1rd5_A Tryptophan synthase alpha chain, chloroplast; hydroxamic acid, diboa, dimboa, indole, indole-glycerol-PHOS lyase; 2.02A {Zea mays} SCOP: c.1.2.4 PDB: 1tjr_A

Probab=83.82  E-value=3.1  Score=33.82  Aligned_cols=42  Identities=17%  Similarity=0.310  Sum_probs=34.4

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      .+++++++++..   ++||++-.+-.+.+.+..++..||++++.=
T Consensus       189 ~~~~i~~v~~~~---~~pI~vgGGI~~~e~~~~~~~~GAdgvvVG  230 (262)
T 1rd5_A          189 VESLIQEVKKVT---NKPVAVGFGISKPEHVKQIAQWGADGVIIG  230 (262)
T ss_dssp             HHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEEC
T ss_pred             HHHHHHHHHhhc---CCeEEEECCcCCHHHHHHHHHcCCCEEEEC
Confidence            556888888753   789998888777999999999999998653

>4avf_A Inosine-5'-monophosphate dehydrogenase; oxidoreductase; 2.23A {Pseudomonas aeruginosa}

Probab=83.68  E-value=18  Score=32.36  Aligned_cols=102  Identities=14%  Similarity=0.169  Sum_probs=62.6

Q ss_pred             cceEEEEe----CCHHHHHHHHHHhhcC-CCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAVD----DSIIDRKLIERLLKTS-SYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiVd----d~~~~~~~l~~~L~~~-g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ...++++|    ......+.++.+-+.. +..|.  .+.+.++|..+..                   ..+|.|.+.+.-
T Consensus       241 G~d~I~id~a~g~~~~~~~~v~~i~~~~p~~~Vi~g~v~t~e~a~~l~~-------------------aGaD~I~vg~g~  301 (490)
T 4avf_A          241 GVDVVVVDTAHGHSKGVIERVRWVKQTFPDVQVIGGNIATAEAAKALAE-------------------AGADAVKVGIGP  301 (490)
T ss_dssp             TCSEEEEECSCCSBHHHHHHHHHHHHHCTTSEEEEEEECSHHHHHHHHH-------------------TTCSEEEECSSC
T ss_pred             ccceEEecccCCcchhHHHHHHHHHHHCCCceEEEeeeCcHHHHHHHHH-------------------cCCCEEEECCCC
Confidence            46677776    3334445555555544 43443  3677777766653                   235677764211


Q ss_pred             -----------CCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           88 -----------PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        88 -----------p~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                                 .+...++++..+.+.....++|||.-.+-.....+.+++.+||+....
T Consensus       302 Gs~~~t~~~~g~g~p~~~~l~~v~~~~~~~~iPVIa~GGI~~~~di~kal~~GAd~V~v  360 (490)
T 4avf_A          302 GSICTTRIVAGVGVPQISAIANVAAALEGTGVPLIADGGIRFSGDLAKAMVAGAYCVMM  360 (490)
T ss_dssp             STTCHHHHHTCBCCCHHHHHHHHHHHHTTTTCCEEEESCCCSHHHHHHHHHHTCSEEEE
T ss_pred             CcCCCccccCCCCccHHHHHHHHHHHhccCCCcEEEeCCCCCHHHHHHHHHcCCCeeee
Confidence                       012345666666653211269999988888899999999999987643

>2v82_A 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; lyase, kdpgal; HET: KDP; 2.1A {Escherichia coli} PDB: 2v81_A*

Probab=83.10  E-value=2.5  Score=33.07  Aligned_cols=78  Identities=18%  Similarity=0.267  Sum_probs=50.4

Q ss_pred             HhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC-CCCHHHHHHHHHhcCCCCCCcEE
Q 026239           34 LLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP-GMTGYDLLKKIKESSSLRDIPVV  111 (241)
Q Consensus        34 ~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp-~~~g~~ll~~ir~~~~~~~ipvI  111 (241)
                      ..+..|..+. .+.+..++.....                   ..+|.|++   .| +..|++.++.++...+ .++||+
T Consensus        96 ~~~~~g~~~~~g~~t~~e~~~a~~-------------------~G~d~v~v---~~t~~~g~~~~~~l~~~~~-~~ipvi  152 (212)
T 2v82_A           96 RAVGYGMTVCPGCATATEAFTALE-------------------AGAQALKI---FPSSAFGPQYIKALKAVLP-SDIAVF  152 (212)
T ss_dssp             HHHHTTCEEECEECSHHHHHHHHH-------------------TTCSEEEE---TTHHHHCHHHHHHHHTTSC-TTCEEE
T ss_pred             HHHHcCCCEEeecCCHHHHHHHHH-------------------CCCCEEEE---ecCCCCCHHHHHHHHHhcc-CCCeEE
Confidence            3444555432 3677777765543                   22557775   22 1236788888887532 158998


Q ss_pred             EEccCCChHHHHHHHHhccccccc
Q 026239          112 IMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus       112 ils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +..+-+ .+.+..++++||+++..
T Consensus       153 a~GGI~-~~~i~~~~~~Ga~gv~v  175 (212)
T 2v82_A          153 AVGGVT-PENLAQWIDAGCAGAGL  175 (212)
T ss_dssp             EESSCC-TTTHHHHHHHTCSEEEE
T ss_pred             EeCCCC-HHHHHHHHHcCCCEEEE
Confidence            887765 77788899999998863

>1y0e_A Putative N-acetylmannosamine-6-phosphate 2-epimer; mannac-6-P epimerase, NANE, structural genomics, protein STR initiative, PSI; 1.95A {Staphylococcus aureus subsp} SCOP: c.1.2.5

Probab=83.05  E-value=7.1  Score=30.54  Aligned_cols=42  Identities=19%  Similarity=0.308  Sum_probs=34.4

Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      ++++++++++..   ++|||+..+-.+.+.+..++++||+.++.=
T Consensus       163 ~~~~~~~~~~~~---~ipvia~GGI~~~~~~~~~~~~Gad~v~vG  204 (223)
T 1y0e_A          163 DFQFLKDVLQSV---DAKVIAEGNVITPDMYKRVMDLGVHCSVVG  204 (223)
T ss_dssp             HHHHHHHHHHHC---CSEEEEESSCCSHHHHHHHHHTTCSEEEEC
T ss_pred             cHHHHHHHHhhC---CCCEEEecCCCCHHHHHHHHHcCCCEEEEC
Confidence            467888888753   689998888778999999999999988653

>2c6q_A GMP reductase 2; TIM barrel, metal-binding, NADP, oxidoreductase, potassium; HET: IMP NDP; 1.70A {Homo sapiens} PDB: 2bzn_A* 2a7r_A* 2ble_A* 2bwg_A*

Probab=82.76  E-value=14  Score=31.57  Aligned_cols=104  Identities=13%  Similarity=0.164  Sum_probs=62.1

Q ss_pred             cceEEEEe----CCHHHHHHHHHHhhcC-CCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAVD----DSIIDRKLIERLLKTS-SYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiVd----d~~~~~~~l~~~L~~~-g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ...++.++    +.....+.++.+-+.. +..|.  .+.+.++|..+...                   .+|.|++... 
T Consensus       132 g~~~i~i~~~~g~~~~~~~~i~~lr~~~~~~~vi~g~v~t~e~A~~a~~a-------------------GaD~I~v~~g-  191 (351)
T 2c6q_A          132 QVKYICLDVANGYSEHFVEFVKDVRKRFPQHTIMAGNVVTGEMVEELILS-------------------GADIIKVGIG-  191 (351)
T ss_dssp             TCCEEEEECSCTTBHHHHHHHHHHHHHCTTSEEEEEEECSHHHHHHHHHT-------------------TCSEEEECSS-
T ss_pred             CCCEEEEEecCCCcHHHHHHHHHHHHhcCCCeEEEEeCCCHHHHHHHHHh-------------------CCCEEEECCC-
Confidence            35566665    3333445555554444 44443  57788888776642                   3567766432 


Q ss_pred             CC------------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc-ccCCC
Q 026239           88 PG------------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF-FLKPV  138 (241)
Q Consensus        88 p~------------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~-l~KP~  138 (241)
                      ++            ...+.++..+.......++|||.-.+-.+...+..++.+||+.. +-++|
T Consensus       192 ~G~~~~~r~~~g~~~p~~~~l~~v~~~~~~~~ipvIa~GGI~~g~di~kAlalGA~~V~vG~~f  255 (351)
T 2c6q_A          192 PGSVCTTRKKTGVGYPQLSAVMECADAAHGLKGHIISDGGCSCPGDVAKAFGAGADFVMLGGML  255 (351)
T ss_dssp             CSTTBCHHHHHCBCCCHHHHHHHHHHHHHHTTCEEEEESCCCSHHHHHHHHHTTCSEEEESTTT
T ss_pred             CCcCcCccccCCCCccHHHHHHHHHHHHhhcCCcEEEeCCCCCHHHHHHHHHcCCCceeccHHH
Confidence            21            12334444443221112689999888889999999999999976 34454

>3r2g_A Inosine 5'-monophosphate dehydrogenase; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 1.94A {Legionella pneumophila subsp}

Probab=82.72  E-value=18  Score=31.00  Aligned_cols=96  Identities=15%  Similarity=0.129  Sum_probs=55.8

Q ss_pred             cceEEEEeCC----HHHHHHHHHHhhcC-CCEEE--EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC
Q 026239           15 QFHVLAVDDS----IIDRKLIERLLKTS-SYQVT--TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM   87 (241)
Q Consensus        15 ~~~ILiVdd~----~~~~~~l~~~L~~~-g~~v~--~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m   87 (241)
                      ...++.+|-.    ....+.++.+-+.. +..|.  .+.+.++|..+..                   ..+|.|.+... 
T Consensus       112 GvdvI~id~a~G~~~~~~e~I~~ir~~~~~~~Vi~G~V~T~e~A~~a~~-------------------aGaD~I~Vg~g-  171 (361)
T 3r2g_A          112 GADFFCVDVAHAHAKYVGKTLKSLRQLLGSRCIMAGNVATYAGADYLAS-------------------CGADIIKAGIG-  171 (361)
T ss_dssp             TCCEEEEECSCCSSHHHHHHHHHHHHHHTTCEEEEEEECSHHHHHHHHH-------------------TTCSEEEECCS-
T ss_pred             CCCEEEEeCCCCCcHhHHHHHHHHHHhcCCCeEEEcCcCCHHHHHHHHH-------------------cCCCEEEEcCC-
Confidence            4667777622    22223333332222 44444  3677777776653                   23568887533 


Q ss_pred             CCC------------CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           88 PGM------------TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        88 p~~------------~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      |+.            ..++.+..+....   . |||.-.+-.+...+..++.+||+.+.
T Consensus       172 ~G~~~~tr~~~g~g~p~l~aI~~~~~~~---~-PVIAdGGI~~~~di~kALa~GAd~V~  226 (361)
T 3r2g_A          172 GGSVCSTRIKTGFGVPMLTCIQDCSRAD---R-SIVADGGIKTSGDIVKALAFGADFVM  226 (361)
T ss_dssp             SSSCHHHHHHHCCCCCHHHHHHHHTTSS---S-EEEEESCCCSHHHHHHHHHTTCSEEE
T ss_pred             CCcCccccccCCccHHHHHHHHHHHHhC---C-CEEEECCCCCHHHHHHHHHcCCCEEE
Confidence            321            2344444444321   2 89888888889999999999998753

>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=82.57  E-value=6.2  Score=34.49  Aligned_cols=53  Identities=15%  Similarity=0.120  Sum_probs=35.3

Q ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           78 VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        78 ~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .|+||+-+.- +.....++..+|...+  +++||+-+.  +........++||+.++.
T Consensus        69 A~~viv~~~~-~~~n~~i~~~ar~~~p--~~~Iiara~--~~~~~~~L~~~Gad~Vi~  121 (413)
T 3l9w_A           69 AEVLINAIDD-PQTNLQLTEMVKEHFP--HLQIIARAR--DVDHYIRLRQAGVEKPER  121 (413)
T ss_dssp             CSEEEECCSS-HHHHHHHHHHHHHHCT--TCEEEEEES--SHHHHHHHHHTTCSSCEE
T ss_pred             cCEEEECCCC-hHHHHHHHHHHHHhCC--CCeEEEEEC--CHHHHHHHHHCCCCEEEC
Confidence            5688875432 2234566777787654  677877664  456677788999987664

>1ujp_A Tryptophan synthase alpha chain; riken structural genomics/P initiative, RSGI, structural genomics, lyase; HET: CIT; 1.34A {Thermus thermophilus} SCOP: c.1.2.4 PDB: 1wxj_A*

Probab=82.15  E-value=3.8  Score=33.76  Aligned_cols=40  Identities=18%  Similarity=0.282  Sum_probs=31.4

Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                      .++++++|+..   ++||++=.+-.+++.+.++  .|||+++.=.
T Consensus       191 ~~~v~~vr~~~---~~Pv~vGfGI~t~e~a~~~--~~ADgVIVGS  230 (271)
T 1ujp_A          191 KDLVRRIKART---ALPVAVGFGVSGKATAAQA--AVADGVVVGS  230 (271)
T ss_dssp             HHHHHHHHTTC---CSCEEEESCCCSHHHHHHH--TTSSEEEECH
T ss_pred             HHHHHHHHhhc---CCCEEEEcCCCCHHHHHHh--cCCCEEEECh
Confidence            47889998753   7899887777778888775  9999987643

>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=82.04  E-value=9.8  Score=31.00  Aligned_cols=73  Identities=15%  Similarity=0.189  Sum_probs=49.6

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc-cCCCCHHHHHHhhHHH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF-LKPVRLSDLNKLKPHL  150 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l-~KP~~~~~L~~~~~~l  150 (241)
                      .+|.||+|+.-...+.-.+...++.... ...++++=....+...+..+++.|+++++ +|--+.+++..+...+
T Consensus        37 g~D~vilDlEhav~~~~k~~~~l~a~~~-~~~~~~VRVn~~~~~di~~~ld~G~~gI~lP~v~saed~~~~~~~~  110 (261)
T 3qz6_A           37 GLDYFIVDCEHAAYTFREINHLVSVAKN-AGVSVLVRIPQVDRAHVQRLLDIGAEGFMIPGVQSAETMRETVRLA  110 (261)
T ss_dssp             TCSEEEEESSSSCCCHHHHHHHHHHHHH-HTCEEEEECSSCCHHHHHHHHHHTCCEEEETTCCSHHHHHHHHHHH
T ss_pred             CcCEEEEeccCCCCCHHHHHHHHHHHhh-cCCeEEEEeCCCCHHHHHHHHhcCCCEEEECCcCCHHHHHHHHHHh
Confidence            3669999998877766666666654221 13455555555677889999999998764 4445778887665554

>3rht_A (gatase1)-like protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.83A {Planctomyces limnophilus}

Probab=80.85  E-value=0.48  Score=39.02  Aligned_cols=33  Identities=15%  Similarity=0.197  Sum_probs=26.3

Q ss_pred             cceEEEEeCC--HHHHHHHHHHhhcCCCEEEEECC
Q 026239           15 QFHVLAVDDS--IIDRKLIERLLKTSSYQVTTVDS   47 (241)
Q Consensus        15 ~~~ILiVdd~--~~~~~~l~~~L~~~g~~v~~~~~   47 (241)
                      +.+||||+++  +.....+..+|+..||.|+..+.
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            4799999988  66778889999999999987653

>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=80.77  E-value=15  Score=27.36  Aligned_cols=106  Identities=11%  Similarity=0.098  Sum_probs=66.6

Q ss_pred             cceEEEEeCCH-HHHHHHHHHhhcCCCEEEE-EC--CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           15 QFHVLAVDDSI-IDRKLIERLLKTSSYQVTT-VD--SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        15 ~~~ILiVdd~~-~~~~~l~~~L~~~g~~v~~-~~--~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      .++++++.+.. .....+..+++..+ .|.. ..  +.++...++..                    .|++|+-... +.
T Consensus        70 ~~~l~i~G~~~~~~~~~l~~~~~~~~-~v~~~~g~~~~~~~~~~~~~--------------------ad~~l~ps~~-e~  127 (200)
T 2bfw_A           70 EMRFIIIGKGDPELEGWARSLEEKHG-NVKVITEMLSREFVRELYGS--------------------VDFVIIPSYF-EP  127 (200)
T ss_dssp             GEEEEEECCBCHHHHHHHHHHHHHCT-TEEEECSCCCHHHHHHHHTT--------------------CSEEEECCSC-CS
T ss_pred             CeEEEEECCCChHHHHHHHHHHHhcC-CEEEEeccCCHHHHHHHHHH--------------------CCEEEECCCC-CC
Confidence            46777777644 24555666666666 4554 33  44466666532                    3577775443 33


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      -|..+++.+..     .+|||+.. .   ....+.+ .|..+|+..|-+.++|...+..++.
T Consensus       128 ~~~~~~Ea~a~-----G~PvI~~~-~---~~~~e~~-~~~~g~~~~~~~~~~l~~~i~~l~~  179 (200)
T 2bfw_A          128 FGLVALEAMCL-----GAIPIASA-V---GGLRDII-TNETGILVKAGDPGELANAILKALE  179 (200)
T ss_dssp             SCHHHHHHHHT-----TCEEEEES-C---HHHHHHC-CTTTCEEECTTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHC-----CCCEEEeC-C---CChHHHc-CCCceEEecCCCHHHHHHHHHHHHh
Confidence            46777777764     67877542 2   2334445 6788999999999999887777665

>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=80.23  E-value=9.9  Score=30.28  Aligned_cols=56  Identities=14%  Similarity=0.345  Sum_probs=39.5

Q ss_pred             cccEEEEeCCCCCCCH-------HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           77 GVNLVITDYCMPGMTG-------YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g-------~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      .+|.|++....||.+|       ++-++++|+...  +++|. +.+.-..+.+..+.++||+.++.
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            3678888777787665       455777777543  56655 44555678888999999998654

>1ka9_F Imidazole glycerol phosphtate synthase; riken structural genomics/proteomics initiative, RSGI, structural genomics, transferase; 2.30A {Thermus thermophilus} SCOP: c.1.2.1

Probab=80.15  E-value=5.1  Score=32.02  Aligned_cols=63  Identities=16%  Similarity=0.318  Sum_probs=44.9

Q ss_pred             EEEEeCCCCCC-C--HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc------CCCCHHHHHH
Q 026239           80 LVITDYCMPGM-T--GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL------KPVRLSDLNK  145 (241)
Q Consensus        80 lIilD~~mp~~-~--g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~------KP~~~~~L~~  145 (241)
                      +++.+..-.++ .  .+++++++++..   ++|||...+-.+.+.+.++++.||++++.      .|+++.++.+
T Consensus       169 i~~~~~~~~g~~~g~~~~~i~~l~~~~---~ipvia~GGI~~~~d~~~~~~~Gadgv~vgsal~~~~~~~~~~~~  240 (252)
T 1ka9_F          169 ILLTSMDRDGTKEGYDLRLTRMVAEAV---GVPVIASGGAGRMEHFLEAFQAGAEAALAASVFHFGEIPIPKLKR  240 (252)
T ss_dssp             EEEEETTTTTTCSCCCHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEESHHHHTTSSCHHHHHH
T ss_pred             EEEecccCCCCcCCCCHHHHHHHHHHc---CCCEEEeCCCCCHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHH
Confidence            55565543222 2  389999999764   78999998888888999999999988753      4566665543

>2lci_A Protein OR36; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=80.14  E-value=5.8  Score=27.09  Aligned_cols=38  Identities=21%  Similarity=0.346  Sum_probs=26.4

Q ss_pred             EEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhc
Q 026239           19 LAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLG   56 (241)
Q Consensus        19 LiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~   56 (241)
                      |+-|.|..-.+.+.+-+++.||.|.-+.+.++|+..++
T Consensus        81 llqdqdeneleefkrkiesqgyevrkvtddeealkivr  118 (134)
T 2lci_A           81 LLQDQDENELEEFKRKIESQGYEVRKVTDDEEALKIVR  118 (134)
T ss_dssp             EEECSCHHHHHHHHHHHHTTTCEEEEECCHHHHHHHHH
T ss_pred             EeecCchhHHHHHHHHHHhCCeeeeecCChHHHHHHHH
Confidence            44455555566666667777888888888888887664

>3ceu_A Thiamine phosphate pyrophosphorylase; TIM barrel-like protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacteroides thetaiotaomicron vpi-5482}

Probab=80.09  E-value=4.3  Score=31.78  Aligned_cols=55  Identities=11%  Similarity=0.051  Sum_probs=38.4

Q ss_pred             cccEEEEeCCCCCC--------CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           77 GVNLVITDYCMPGM--------TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        77 ~~dlIilD~~mp~~--------~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      ..|.|+++-..|..        -|++.++.++.... .++|||.+.+-+ .+.+..+++.|++++
T Consensus       107 GaDyv~~g~vf~t~sk~~~~~~~g~~~l~~~~~~~~-~~iPviaiGGI~-~~nv~~~~~~Ga~gV  169 (210)
T 3ceu_A          107 FYDYVFMSPIYDSISKVNYYSTYTAEELREAQKAKI-IDSKVMALGGIN-EDNLLEIKDFGFGGA  169 (210)
T ss_dssp             GSSEEEECCCC---------CCCCHHHHHHHHHTTC-SSTTEEEESSCC-TTTHHHHHHTTCSEE
T ss_pred             CCCEEEECCcCCCCCCCCCCCCCCHHHHHHHHHhcC-CCCCEEEECCCC-HHHHHHHHHhCCCEE
Confidence            46788877554422        36788888886420 278999887755 677888999999876

>2vws_A YFAU, 2-keto-3-deoxy sugar aldolase; lyase, escherichia coli K-12 protein YFAU, 2-keto-3-deoxy SU aldolase, degradation of homoprotocatechuate; 1.39A {Escherichia coli} PDB: 2vwt_A

Probab=80.07  E-value=23  Score=28.84  Aligned_cols=72  Identities=17%  Similarity=0.147  Sum_probs=48.7

Q ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc-cCCCCHHHHHHhhHH
Q 026239           77 GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF-LKPVRLSDLNKLKPH  149 (241)
Q Consensus        77 ~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l-~KP~~~~~L~~~~~~  149 (241)
                      .+|.||+|+.-...+.-.+...++.... ...+++|=+...++..+..+++.|+++++ +|--+.+++..++..
T Consensus        39 GaD~v~lDlE~~~~~~~~~~~~~~a~~~-~~~~~~VRv~~~~~~~i~~~l~~g~~~I~~P~V~s~ee~~~~~~~  111 (267)
T 2vws_A           39 GYDWLLIDGEHAPNTIQDLYHQLQAVAP-YASQPVIRPVEGSKPLIKQVLDIGAQTLLIPMVDTAEQARQVVSA  111 (267)
T ss_dssp             CCSEEEEETTTSCCCHHHHHHHHHHHTT-SSSEEEEECSSCCHHHHHHHHHTTCCEEEECCCCSHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHhCCCEEEeCCCCCHHHHHHHHHH
Confidence            4669999987655555555555554332 25667776667778889999999998754 344467777665544

>3tdn_A FLR symmetric alpha-beta TIM barrel; symmetric superfold, de novo protein; 1.40A {Synthetic construct} PDB: 3og3_A 3tdm_A

Probab=80.04  E-value=6.5  Score=31.44  Aligned_cols=54  Identities=9%  Similarity=0.257  Sum_probs=40.6

Q ss_pred             EEEEeCCCCC---CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           80 LVITDYCMPG---MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        80 lIilD~~mp~---~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      |.+.|..-.+   ...+++++.|++..   ++||++-.+-.+.+.+..+++.||+..++=
T Consensus        52 i~v~d~~~~~~~~~~~~~~i~~i~~~~---~ipvi~~Ggi~~~~~~~~~l~~Gad~V~ig  108 (247)
T 3tdn_A           52 ILLTSIDRDGTKSGYDTEMIRFVRPLT---TLPIIASGGAGKMEHFLEAFLRGADKVSIN  108 (247)
T ss_dssp             EEEEETTTTTCSSCCCHHHHHHHGGGC---CSCEEEESCCCSHHHHHHHHHTTCSEECCS
T ss_pred             EEEEecCcccCCCcccHHHHHHHHHhC---CCCEEEeCCCCCHHHHHHHHHcCCCeeehh
Confidence            5566764321   22378999998764   799999888888899999999999887643

---

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	241
d1zesa1	121	c.23.1.1 (A:3-123) PhoB receiver domain {Escherich	1e-22
d1k68a_	140	c.23.1.1 (A:) Response regulator for cyanobacteria	9e-21
d1jbea_	128	c.23.1.1 (A:) CheY protein {Escherichia coli [TaxI	2e-20
d1peya_	119	c.23.1.1 (A:) Sporulation response regulator Spo0F	3e-20
d1k66a_	149	c.23.1.1 (A:) Response regulator for cyanobacteria	4e-20
d1dz3a_	123	c.23.1.1 (A:) Sporulation response regulator Spo0A	6e-20
d1i3ca_	144	c.23.1.1 (A:) Response regulator for cyanobacteria	7e-20
d1mb3a_	123	c.23.1.1 (A:) Cell division response regulator Div	7e-20
d1a2oa1	140	c.23.1.1 (A:1-140) Methylesterase CheB, N-terminal	2e-19
d1dcfa_	134	c.23.1.2 (A:) Receiver domain of the ethylene rece	7e-19
d2r25b1	128	c.23.1.1 (B:1087-1214) Response regulator Sin1 {Ba	2e-18
d1u0sy_	118	c.23.1.1 (Y:) CheY protein {Thermotoga maritima [T	2e-18
d1a04a2	138	c.23.1.1 (A:5-142) Nitrate/nitrite response regula	9e-18
d1p6qa_	129	c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti	2e-17
d2a9pa1	117	c.23.1.1 (A:2-118) DNA-binding response regulator	2e-17
d1krwa_	123	c.23.1.1 (A:) NTRC receiver domain {Salmonella typ	2e-16
d2b4aa1	118	c.23.1.1 (A:2-119) Hypothetical protein BH3024 {Ba	2e-16
d1dbwa_	123	c.23.1.1 (A:) Transcriptional regulatory protein F	6e-16
d2ayxa1	133	c.23.1.1 (A:817-949) Sensor kinase protein RcsC, C	7e-16
d1xhfa1	121	c.23.1.1 (A:2-122) Aerobic respiration control pro	8e-16
d1s8na_	190	c.23.1.1 (A:) Probable two-component system transc	2e-15
d1yioa2	128	c.23.1.1 (A:3-130) Response regulatory protein Sty	4e-15
d1qkka_	140	c.23.1.1 (A:) Transcriptional regulatory protein D	5e-15
d1w25a2	153	c.23.1.1 (A:141-293) Response regulator PleD, rece	8e-15
d1zgza1	120	c.23.1.1 (A:2-121) TorCAD operon transcriptional r	1e-14
d1ny5a1	137	c.23.1.1 (A:1-137) Transcriptional activator sigm5	3e-14
d1mvoa_	121	c.23.1.1 (A:) PhoP receiver domain {Bacillus subti	8e-14
d1w25a1	139	c.23.1.1 (A:2-140) Response regulator PleD, receiv	1e-13
d1kgsa2	122	c.23.1.1 (A:2-123) PhoB receiver domain {Thermotog	1e-13
d1ys7a2	121	c.23.1.1 (A:7-127) Transcriptional regulatory prot	2e-13
d1zh2a1	119	c.23.1.1 (A:2-120) Transcriptional regulatory prot	3e-13
d2pl1a1	119	c.23.1.1 (A:1-119) PhoP receiver domain {Escherich	6e-13
d1p2fa2	120	c.23.1.1 (A:1-120) Response regulator DrrB {Thermo	2e-10
d1qo0d_	189	c.23.1.3 (D:) Positive regulator of the amidase op	1e-09
d1od5a1	245	b.82.1.2 (A:7-251) Seed storage 7S protein {Soybea	6e-04
d1koaa2	350	d.144.1.7 (A:5915-6264) Twitchin, kinase domain {C	0.001
d1fxza1	239	b.82.1.2 (A:10-248) Seed storage 7S protein {Soybe	0.002

>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 = 87.3 bits (216), Expect = 1e-22
 Identities = 31/126 (24%), Positives = 57/126 (45%), Gaps = 18/126 (14%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L V+D    R+++  +L+ + +Q    +    A+  L     D                
Sbjct: 3   ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPD---------------- 46

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L++ D+ +PG +G   +K +K  S  RDIPVV++++        R LE GA+++  KP
Sbjct: 47  --LILLDWMLPGGSGIQFIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKP 104

Query: 138 VRLSDL 143
               +L
Sbjct: 105 FSPKEL 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 = 82.8 bits (204), Expect = 9e-21
 Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 13/128 (10%)

Query: 18  VLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           +  V+D+  D +LI+  L  S   ++V TV  G +A+ +L    +   +S          
Sbjct: 5   IFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASR--------- 55

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
              +L++ D  +P   G ++L +IK   +L+ IPVV++S+      I    +     +  
Sbjct: 56  --PDLILLDLNLPKKDGREVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYIT 113

Query: 136 KPVRLSDL 143
           K   LS L
Sbjct: 114 KSANLSQL 121

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]} Length = 119

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

 Score = 81.1 bits (200), Expect = 3e-20
 Identities = 35/134 (26%), Positives = 58/134 (43%), Gaps = 21/134 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD    R L+  +     YQ     +G +AL+ +     D                
Sbjct: 4   ILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPD---------------- 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             LV+ D  +PGM G ++LK++K      +I V+IM++      I    E GA   F KP
Sbjct: 48  --LVLLDMKIPGMDGIEILKRMKVIDE--NIRVIIMTAYGELDMIQESKELGALTHFAKP 103

Query: 138 VRLSDL-NKLKPHL 150
             + ++ + +K +L
Sbjct: 104 FDIDEIRDAVKKYL 117

>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 = 81.4 bits (200), Expect = 4e-20
 Identities = 36/136 (26%), Positives = 63/136 (46%), Gaps = 10/136 (7%)

Query: 10  AVAESQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHS 67
           AV  +   +L V+DS  D    +RLL+       +    +G +AL+FL           +
Sbjct: 1   AVGNATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCNPDIA 60

Query: 68  VYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLE 127
             P         +++ D  +PG  G ++L++IK+   L+ IPVVIM++ + P  I  C  
Sbjct: 61  PRPA--------VILLDLNLPGTDGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYS 112

Query: 128 EGAEEFFLKPVRLSDL 143
                + +KP+ +  L
Sbjct: 113 YSISSYIVKPLEIDRL 128

>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 = 80.2 bits (198), Expect = 6e-20
 Identities = 24/129 (18%), Positives = 49/129 (37%), Gaps = 21/129 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            V   DD+     L++  + +      + T  +G   L+ L     D             
Sbjct: 3   KVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKRPD------------- 49

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                +++ D  MP + G  +L++I+         V+++++        + +E GA  F 
Sbjct: 50  -----ILLLDIIMPHLDGLAVLERIRAGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFI 103

Query: 135 LKPVRLSDL 143
           LKP  + +L
Sbjct: 104 LKPFDMENL 112

>d1i3ca_ c.23.1.1 (A:) Response regulator for cyanobacterial phytochrome {Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]} Length = 144

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator for cyanobacterial phytochrome
species: Synechocystis sp. PCC 6803, RCP1 [TaxId: 1148]

 Score = 80.9 bits (199), Expect = 7e-20
 Identities = 33/129 (25%), Positives = 61/129 (47%), Gaps = 13/129 (10%)

Query: 17  HVLAVDDSIIDRKLIERLLKTS--SYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L V+DS  D +L++ +LKTS   +++  +  G  A+ FL    +   S          
Sbjct: 5   VILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEYENSPR-------- 56

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
               NL++ D  +P   G ++L +IK++  L+ IPVV++++ +    +    E     + 
Sbjct: 57  ---PNLILLDLNLPKKDGREVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYL 113

Query: 135 LKPVRLSDL 143
            K   L DL
Sbjct: 114 TKSRNLKDL 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 = 80.1 bits (197), Expect = 7e-20
 Identities = 31/126 (24%), Positives = 54/126 (42%), Gaps = 18/126 (14%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D+ ++ KL   LL+   Y+      G  AL     ++ D                
Sbjct: 4   VLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENKPD---------------- 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L++ D  +P ++G ++ K +KE   L  IPVV +++  +     R  E G E +  KP
Sbjct: 48  --LILMDIQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKP 105

Query: 138 VRLSDL 143
           + +   
Sbjct: 106 ISVVHF 111

>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 = 79.2 bits (195), Expect = 2e-19
 Identities = 32/155 (20%), Positives = 61/155 (39%), Gaps = 24/155 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPN 71
           S+  VL+VDDS + R+++  ++ + S    V T      A + +     D          
Sbjct: 2   SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFNPD---------- 51

Query: 72  MHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAE 131
                   ++  D  MP M G D L+K+     +  + V  ++ +     + R LE GA 
Sbjct: 52  --------VLTLDVEMPRMDGLDFLEKLMRLRPMPVVMVSSLTGKGSEVTL-RALELGAI 102

Query: 132 EFFLKPVRLSDLNKLKPHLMKTKIKDQIKQQSQQQ 166
           +F  KP        L        I ++++  ++ +
Sbjct: 103 DFVTKPQLGIREGMLA---YSEMIAEKVRTAARAR 134

>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 = 77.7 bits (191), Expect = 7e-19
 Identities = 31/130 (23%), Positives = 52/130 (40%), Gaps = 22/130 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL +D++ + R + + LL     +VTTV S  + L  +                     
Sbjct: 9   KVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSHEHK---------------- 52

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKE---SSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
              +V  D CMPG+  Y +  +I E       +   +V +S     S   +C+  G +  
Sbjct: 53  ---VVFMDVCMPGVENYQIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGV 109

Query: 134 FLKPVRLSDL 143
            LKPV L ++
Sbjct: 110 LLKPVSLDNI 119

>d2r25b1 c.23.1.1 (B:1087-1214) Response regulator Sin1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 128

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Response regulator Sin1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 76.6 bits (188), Expect = 2e-18
 Identities = 28/127 (22%), Positives = 55/127 (43%), Gaps = 15/127 (11%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           +L V+D+ +++++I+R+L     + +     G +A + +      G++            
Sbjct: 4   ILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGEN------------ 51

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             N++  D  MP + G    K I+        P+V +++    S I  CLE G   F  K
Sbjct: 52  -YNMIFMDVQMPKVDGLLSTKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSK 109

Query: 137 PVRLSDL 143
           P++   L
Sbjct: 110 PIKRPKL 116

>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 = 76.1 bits (187), Expect = 2e-18
 Identities = 27/128 (21%), Positives = 57/128 (44%), Gaps = 21/128 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            VL VDD+   R +++ ++  + Y+      +G +A+E     + D              
Sbjct: 3   RVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELKPD-------------- 48

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               +V  D  MP M G D +K+I +     +  +++ S+    + +   ++ GA++F +
Sbjct: 49  ----IVTMDITMPEMNGIDAIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIV 102

Query: 136 KPVRLSDL 143
           KP + S +
Sbjct: 103 KPFQPSRV 110

>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 = 74.9 bits (184), Expect = 9e-18
 Identities = 30/129 (23%), Positives = 54/129 (41%), Gaps = 22/129 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQ 74
            +L +DD  + R  +++L+  +     V    +G + +E     + D             
Sbjct: 4   TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPD------------- 50

Query: 75  EVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF 134
                L++ D  MPGM G + L K++E S      +V+ S  N    +   L+ GA+ + 
Sbjct: 51  -----LILLDLNMPGMNGLETLDKLREKS--LSGRIVVFSVSNHEEDVVTALKRGADGYL 103

Query: 135 LKPVRLSDL 143
           LK +   DL
Sbjct: 104 LKDMEPEDL 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 = 73.9 bits (181), Expect = 2e-17
 Identities = 26/128 (20%), Positives = 54/128 (42%), Gaps = 19/128 (14%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            VL VDD +  R L+   L+   + Q+T    G + ++ +  +                 
Sbjct: 8   KVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNPHH-------------- 53

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               LVI+D+ MP M G  LL+ ++ + + +    +I++++   + + +    GA     
Sbjct: 54  ----LVISDFNMPKMDGLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLA 109

Query: 136 KPVRLSDL 143
           KP  +  +
Sbjct: 110 KPFTIEKM 117

>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 = 73.1 bits (179), Expect = 2e-17
 Identities = 29/126 (23%), Positives = 58/126 (46%), Gaps = 21/126 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           +L VDD      +I+  +    Y+V T  +G +ALE     + D                
Sbjct: 3   ILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPD---------------- 46

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             ++I D  +P + G ++ K I+++S    +P++++S+++        LE GA+++  KP
Sbjct: 47  --IIILDLMLPEIDGLEVAKTIRKTS---SVPILMLSAKDSEFDKVIGLELGADDYVTKP 101

Query: 138 VRLSDL 143
               +L
Sbjct: 102 FSNREL 107

>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 = 70.9 bits (173), Expect = 2e-16
 Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 20/130 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
            +  V  VDD    R ++ER L  +    TT ++G++ L  L     D            
Sbjct: 2   QRGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD------------ 49

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
                 ++++D  MPGM G  LLK+IK+      +PV+IM++ +         ++GA ++
Sbjct: 50  ------VLLSDIRMPGMDGLALLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDY 101

Query: 134 FLKPVRLSDL 143
             KP  + + 
Sbjct: 102 LPKPFDIDEA 111

>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 = 70.7 bits (173), Expect = 2e-16
 Identities = 26/136 (19%), Positives = 48/136 (35%), Gaps = 23/136 (16%)

Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           F V  V+D      LI+  L     +VT   SGS   +                      
Sbjct: 3   FRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQLST--------------- 47

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
              +L+I    +  ++ + LL  +KE +  +   V+I+++      +    E     +  
Sbjct: 48  --CDLLIVSDQLVDLSIFSLLDIVKEQT--KQPSVLILTTGR--HELIESSEHNL-SYLQ 100

Query: 136 KPVRLSDL-NKLKPHL 150
           KP  +S+L   +  H 
Sbjct: 101 KPFAISELRAAIDYHK 116

>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 = 69.7 bits (170), Expect = 6e-16
 Identities = 26/130 (20%), Positives = 50/130 (38%), Gaps = 20/130 (15%)

Query: 14  SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMH 73
             + V  VDD    RK +  +L  + + V    S    L F     +             
Sbjct: 2   QDYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNG------------ 49

Query: 74  QEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF 133
                 +++TD  MP M+G +LL+ + +     +IP ++++           ++ GA +F
Sbjct: 50  ------VLVTDLRMPDMSGVELLRNLGDLK--INIPSIVITGHGDVPMAVEAMKAGAVDF 101

Query: 134 FLKPVRLSDL 143
             KP   + +
Sbjct: 102 IEKPFEDTVI 111

>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 = 69.7 bits (170), Expect = 7e-16
 Identities = 35/135 (25%), Positives = 62/135 (45%), Gaps = 21/135 (15%)

Query: 10  AVAE-SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSV 68
           AV++     +L VDD  I+R+L+   L +  YQ  T + G                    
Sbjct: 2   AVSDNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVD------------------ 43

Query: 69  YPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE 128
             N+  +  +++V++D  MP M GY L ++I++      +PV+ +++  +     RCLE 
Sbjct: 44  ALNVLSKNHIDIVLSDVNMPNMDGYRLTQRIRQLG--LTLPVIGVTANALAEEKQRCLES 101

Query: 129 GAEEFFLKPVRLSDL 143
           G +    KPV L  +
Sbjct: 102 GMDSCLSKPVTLDVI 116

>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 = 69.3 bits (169), Expect = 8e-16
 Identities = 25/127 (19%), Positives = 56/127 (44%), Gaps = 21/127 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H+L V+D ++ R  ++ + +   Y V     G++  + L  ++ +               
Sbjct: 4   HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDIN--------------- 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              LVI D  +PG  G  L ++++E +   ++ ++ ++  +        LE GA+++  K
Sbjct: 49  ---LVIMDINLPGKNGLLLARELREQA---NVALMFLTGRDNEVDKILGLEIGADDYITK 102

Query: 137 PVRLSDL 143
           P    +L
Sbjct: 103 PFNPREL 109

>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 = 69.9 bits (170), Expect = 2e-15
 Identities = 33/174 (18%), Positives = 65/174 (37%), Gaps = 23/174 (13%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
            VL  +D  + R  +  +L+   Y++      G +A+E   LH+ D              
Sbjct: 5   RVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKPD-------------- 50

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
               LVI D  MP   G D   +I      R  P+V++++ +    + R  + GA  + +
Sbjct: 51  ----LVIMDVKMPRRDGIDAASEIASK---RIAPIVVLTAFSQRDLVERARDAGAMAYLV 103

Query: 136 KPVRLSD-LNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQE 188
           KP  +SD +  ++  + + +    ++ +     E        +      Q    
Sbjct: 104 KPFSISDLIPAIELAVSRFREITALEGEVATLSERLETRKLVERAKGLLQTKHG 157

>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 = 67.8 bits (165), Expect = 4e-15
 Identities = 34/151 (22%), Positives = 63/151 (41%), Gaps = 28/151 (18%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            V  VDD +  R+ +  LL+++ ++V T D  S  LE     +                 
Sbjct: 4   TVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHG--------------- 48

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
               ++ D  MPGM+G +L +++   S    IP+V +++        R ++ GA EF  K
Sbjct: 49  ---CLVLDMRMPGMSGIELQEQLTAIS--DGIPIVFITAHGDIPMTVRAMKAGAIEFLPK 103

Query: 137 PVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQ 167
           P     L           I+  ++  ++++Q
Sbjct: 104 PFEEQAL--------LDAIEQGLQLNAERRQ 126

>d1qkka_ c.23.1.1 (A:) Transcriptional regulatory protein DctD, receiver domain {Sinorhizobium meliloti [TaxId: 382]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional regulatory protein DctD, receiver domain
species: Sinorhizobium meliloti [TaxId: 382]

 Score = 67.8 bits (165), Expect = 5e-15
 Identities = 33/158 (20%), Positives = 66/158 (41%), Gaps = 22/158 (13%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            V  +DD    RK +++ L+ + + V++  S ++AL  L                     
Sbjct: 2   SVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAG--------------- 46

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
              +VI+D  MPGM G  L +KI       D+P+++++         + +++GA +F  K
Sbjct: 47  ---IVISDIRMPGMDGLALFRKILALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAK 101

Query: 137 PVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQEEESDE 173
           P     L    +    K ++  + +   ++  E  S+ 
Sbjct: 102 PFAADRLVQSARRAEEKRRLVMENRSL-RRAAEAASEG 138

>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 = 67.4 bits (164), Expect = 8e-15
 Identities = 30/167 (17%), Positives = 56/167 (33%), Gaps = 21/167 (12%)

Query: 3   MAAAAAAAVAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDG 62
           + A AAA +      VL VDD+    + +   L      V    S  +  +       D 
Sbjct: 1   VIAGAAARLDGLGGRVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKISAGGPVD- 57

Query: 63  QSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRI 122
                            LVI +       G      ++     R +PV+ M   +   R+
Sbjct: 58  -----------------LVIVNAAAKNFDGLRFTAALRSEERTRQLPVLAMVDPDDRGRM 100

Query: 123 SRCLEEGAEEFFLKPVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQE 168
            + LE G  +   +P+   +L  ++K  + + +  D ++       E
Sbjct: 101 VKALEIGVNDILSRPIDPQELSARVKTQIQRKRYTDYLRNNLDHSLE 147

>d1zgza1 c.23.1.1 (A:2-121) TorCAD operon transcriptional regulator TorD, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 120

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: TorCAD operon transcriptional regulator TorD, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 66.2 bits (161), Expect = 1e-14
 Identities = 24/127 (18%), Positives = 53/127 (41%), Gaps = 21/127 (16%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           H++ V+D  + +  ++       Y V+   SG+   E +                  Q  
Sbjct: 3   HIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIM------------------QNQ 44

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
            V+L++ D  +P   G  L + ++E      + +++++  +        LE GA+++  K
Sbjct: 45  SVDLILLDINLPDENGLMLTRALRER---STVGIILVTGRSDRIDRIVGLEMGADDYVTK 101

Query: 137 PVRLSDL 143
           P+ L +L
Sbjct: 102 PLELREL 108

>d1ny5a1 c.23.1.1 (A:1-137) Transcriptional activator sigm54 (NtrC1), N-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 137

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Transcriptional activator sigm54 (NtrC1), N-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 65.4 bits (159), Expect = 3e-14
 Identities = 27/155 (17%), Positives = 64/155 (41%), Gaps = 21/155 (13%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
           +VL ++D  + R L+E  L     +V + + G +A + L     +      + P+++   
Sbjct: 2   NVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKHFNVVLLDLLLPDVNG-- 59

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
                            ++LK IKE S   +  V++++           ++ GA +F  K
Sbjct: 60  ----------------LEILKWIKERS--PETEVIVITGHGTIKTAVEAMKMGAYDFLTK 101

Query: 137 PVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQEEE 170
           P  L ++   +   +   K++ + +   +++  +E
Sbjct: 102 PCMLEEIELTINKAIEHRKLRKENELLRREKDLKE 136

>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 = 63.9 bits (155), Expect = 8e-14
 Identities = 27/138 (19%), Positives = 62/138 (44%), Gaps = 21/138 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD      L++  L+ S Y V T   G +AL+                    +  
Sbjct: 4   KILVVDDEESIVTLLQYNLERSGYDVITASDGEEALK------------------KAETE 45

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             +L++ D  +P + G ++ K++++       P++++++++        LE GA+++  K
Sbjct: 46  KPDLIVLDVMLPKLDGIEVCKQLRQQK--LMFPILMLTAKDEEFDKVLGLELGADDYMTK 103

Query: 137 PVRLSDL-NKLKPHLMKT 153
           P    ++  ++K  L ++
Sbjct: 104 PFSPREVNARVKAILRRS 121

>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 = 64.1 bits (155), Expect = 1e-13
 Identities = 37/152 (24%), Positives = 70/152 (46%), Gaps = 19/152 (12%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            +L VDD   + +L+E  L    Y+V+T   G  AL                   M    
Sbjct: 3   RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTAL------------------AMAARD 44

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
             ++++ D  MPGM G+ + +K+K+  + R IPVV++++ +      + LE GA +F  K
Sbjct: 45  LPDIILLDVMMPGMDGFTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTK 104

Query: 137 PVRLSDL-NKLKPHLMKTKIKDQIKQQSQQQQ 167
           P+    L  +++       + D+++Q+    +
Sbjct: 105 PIDDVMLFARVRSLTRFKLVIDELRQREASGR 136

>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 = 63.6 bits (154), Expect = 1e-13
 Identities = 31/147 (21%), Positives = 61/147 (41%), Gaps = 28/147 (19%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D      LI   LK   + V     G + +        D                
Sbjct: 4   VLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEPFD---------------- 47

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             +VI D  +P   G+++LK ++ES    + PV+++++ +      + L  GA+++  KP
Sbjct: 48  --VVILDIMLPVHDGWEILKSMRESG--VNTPVLMLTALSDVEYRVKGLNMGADDYLPKP 103

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQ 164
             L +L          +++  I+++S+
Sbjct: 104 FDLREL--------IARVRALIRRKSE 122

>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 = 63.1 bits (153), Expect = 2e-13
 Identities = 31/127 (24%), Positives = 57/127 (44%), Gaps = 20/127 (15%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL VDD       +ER L+ S ++V T   G++AL     +  D               
Sbjct: 3   RVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENRPD--------------- 47

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
               ++ D  MP + G  ++  ++   +  D+PV ++S+ +        LE GA+++ +K
Sbjct: 48  ---AIVLDINMPVLDGVSVVTALRAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVK 102

Query: 137 PVRLSDL 143
           P  L++L
Sbjct: 103 PFVLAEL 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 = 62.0 bits (150), Expect = 3e-13
 Identities = 24/126 (19%), Positives = 53/126 (42%), Gaps = 21/126 (16%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D    R+ +   L+    +V   ++  + L      + D                
Sbjct: 3   VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPD---------------- 46

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             L+I D  +P   G + ++ +++      +PV+++S+ +  S     L+ GA+++  KP
Sbjct: 47  --LIILDLGLPDGDGIEFIRDLRQW---SAVPVIVLSARSEESDKIAALDAGADDYLSKP 101

Query: 138 VRLSDL 143
             + +L
Sbjct: 102 FGIGEL 107

>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 = 61.3 bits (148), Expect = 6e-13
 Identities = 22/126 (17%), Positives = 54/126 (42%), Gaps = 20/126 (15%)

Query: 18  VLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVG 77
           VL V+D+ + R  ++  ++ + +QV   +   +A  +L  H  D                
Sbjct: 3   VLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPD---------------- 46

Query: 78  VNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP 137
             + I D  +P   G  L+++ + +     +P++++++          L  GA+++  KP
Sbjct: 47  --IAIVDLGLPDEDGLSLIRRWRSND--VSLPILVLTARESWQDKVEVLSAGADDYVTKP 102

Query: 138 VRLSDL 143
             + ++
Sbjct: 103 FHIEEV 108

>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 = 55.0 bits (132), Expect = 2e-10
 Identities = 28/140 (20%), Positives = 57/140 (40%), Gaps = 24/140 (17%)

Query: 16  FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQE 75
           + +  VDD     K +   L+    +V T  +G   L                      E
Sbjct: 3   WKIAVVDDDKNILKKVSEKLQ-QLGRVKTFLTGEDFLN--------------------DE 41

Query: 76  VGVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL 135
              ++V+ D  +P  +GY++ + IKE+    +  V++++  +    + +  E GA+++  
Sbjct: 42  EAFHVVVLDVMLPDYSGYEICRMIKETRP--ETWVILLTLLSDDESVLKGFEAGADDYVT 99

Query: 136 KPVRLSDL-NKLKPHLMKTK 154
           KP     L  ++K  L + K
Sbjct: 100 KPFNPEILLARVKRFLEREK 119

>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 = 53.9 bits (128), Expect = 1e-09
 Identities = 20/207 (9%), Positives = 55/207 (26%), Gaps = 36/207 (17%)

Query: 17  HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEV 76
            VL ++        +   L      V       +A +                       
Sbjct: 13  QVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFDVP--------------------- 51

Query: 77  GVNLVITDYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK 136
            V++V T                  +       +V +     P+ +S+ +E        +
Sbjct: 52  -VDVVFTSIFQNRHHDEIAALLAAGTP---RTTLVALVEYESPAVLSQIIELECHGVITQ 107

Query: 137 PVRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQ 196
           P+    +  +     +   +    +Q  +Q ++               Q + +Q      
Sbjct: 108 PLDAHRVLPVLVSARRISEEMAKLKQKTEQLQDRIAG-----------QARINQAKVLLM 156

Query: 197 QQQQQQQQQQQQQQQQSNNNKRKALEE 223
           Q+    +++  Q   +    +R+ + +
Sbjct: 157 QRHGWDEREAHQHLSREAMKRREPILK 183

>d1od5a1 b.82.1.2 (A:7-251) Seed storage 7S protein {Soybean (Glycine max), glycinin A3B4 [TaxId: 3847]} Length = 245

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: RmlC-like cupins
family: Germin/Seed storage 7S protein
domain: Seed storage 7S protein
species: Soybean (Glycine max), glycinin A3B4 [TaxId: 3847]

 Score = 37.5 bits (87), Expect = 6e-04
 Identities = 13/53 (24%), Positives = 29/53 (54%)

Query: 163 SQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNN 215
           +   Q +++    + + +P  + P+  QQ QQQ+    ++Q Q QQQ+++  +
Sbjct: 145 NFNNQLDQNPRVFYLAGNPDIEHPETMQQQQQQKSHGGRKQGQHQQQEEEGGS 197

>d1koaa2 d.144.1.7 (A:5915-6264) Twitchin, kinase domain {Caenorhabditis elegans, pjk4 [TaxId: 6239]} Length = 350

class: Alpha and beta proteins (a+b)
fold: Protein kinase-like (PK-like)
superfamily: Protein kinase-like (PK-like)
family: Protein kinases, catalytic subunit
domain: Twitchin, kinase domain
species: Caenorhabditis elegans, pjk4 [TaxId: 6239]

 Score = 37.4 bits (86), Expect = 0.001
 Identities = 22/128 (17%), Positives = 38/128 (29%), Gaps = 20/128 (15%)

Query: 88  PGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEE------GAEEF----FLKP 137
            G    + L+ +K      D       SE+    I + L           +     +L P
Sbjct: 226 GGENDDETLRNVKSCDWNMDDSAFSGISEDGKDFIRKLLLADPNTRMTIHQALEHPWLTP 285

Query: 138 VRLSDLNKLKPHLMKTKIKDQIKQQSQQQQEEESDESDFQSPSPPQQQPQESQQSQQQQQ 197
                 +   P    TKI+D IK +     E          P PP  +       ++ + 
Sbjct: 286 GNAPGRDSQIPSSRYTKIRDSIKTKYDAWPE----------PLPPLGRISNYSSLRKHRP 335

Query: 198 QQQQQQQQ 205
           Q+   +  
Sbjct: 336 QEYSIRDA 343

>d1fxza1 b.82.1.2 (A:10-248) Seed storage 7S protein {Soybean (Glycine max), proglycinin [TaxId: 3847]} Length = 239

class: All beta proteins
fold: Double-stranded beta-helix
superfamily: RmlC-like cupins
family: Germin/Seed storage 7S protein
domain: Seed storage 7S protein
species: Soybean (Glycine max), proglycinin [TaxId: 3847]

 Score = 36.4 bits (84), Expect = 0.002
 Identities = 10/41 (24%), Positives = 19/41 (46%)

Query: 176 FQSPSPPQQQPQESQQSQQQQQQQQQQQQQQQQQQQQSNNN 216
            +       Q QE  + QQ+Q   Q Q+ + QQ+++    +
Sbjct: 151 PRRFYLAGNQEQEFLKYQQEQGGHQSQKGKHQQEEENEGGS 191

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	241
d2pl1a1	119	PhoP receiver domain {Escherichia coli [TaxId: 562	99.96
d1ny5a1	137	Transcriptional activator sigm54 (NtrC1), N-termin	99.96
d1zesa1	121	PhoB receiver domain {Escherichia coli [TaxId: 562	99.96
d1qkka_	140	Transcriptional regulatory protein DctD, receiver	99.96
d1dbwa_	123	Transcriptional regulatory protein FixJ, receiver	99.96
d1w25a1	139	Response regulator PleD, receiver domain {Caulobac	99.96
d1ys7a2	121	Transcriptional regulatory protein PrrA, N-termina	99.96
d1krwa_	123	NTRC receiver domain {Salmonella typhimurium [TaxI	99.95
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	99.95
d1kgsa2	122	PhoB receiver domain {Thermotoga maritima [TaxId:	99.95
d1zh2a1	119	Transcriptional regulatory protein KdpE, N-termina	99.95
d1mb3a_	123	Cell division response regulator DivK {Caulobacter	99.95
d1jbea_	128	CheY protein {Escherichia coli [TaxId: 562]}	99.95
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	99.95
d1p6qa_	129	CheY protein {Sinorhizobium meliloti, CheY2 [TaxId	99.95
d1i3ca_	144	Response regulator for cyanobacterial phytochrome	99.95
d2ayxa1	133	Sensor kinase protein RcsC, C-terminal domain {Esc	99.95
d1k66a_	149	Response regulator for cyanobacterial phytochrome	99.95
d1k68a_	140	Response regulator for cyanobacterial phytochrome	99.95
d1mvoa_	121	PhoP receiver domain {Bacillus subtilis [TaxId: 14	99.95
d1xhfa1	121	Aerobic respiration control protein ArcA, N-termin	99.95
d2r25b1	128	Response regulator Sin1 {Baker's yeast (Saccharomy	99.95
d1yioa2	128	Response regulatory protein StyR, N-terminal domai	99.95
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	99.95
d1zgza1	120	TorCAD operon transcriptional regulator TorD, N-te	99.95
d1p2fa2	120	Response regulator DrrB {Thermotoga maritima [TaxI	99.95
d1s8na_	190	Probable two-component system transcriptional regu	99.94
d1dcfa_	134	Receiver domain of the ethylene receptor {Thale cr	99.94
d1w25a2	153	Response regulator PleD, receiver domain {Caulobac	99.94
d1a04a2	138	Nitrate/nitrite response regulator (NarL), receive	99.94
d1dz3a_	123	Sporulation response regulator Spo0A {Bacillus ste	99.94
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	96.63
d7reqa2	168	Methylmalonyl-CoA mutase alpha subunit, C-terminal	96.38
d1xrsb1	160	D-lysine 5,6-aminomutase beta subunit KamE, C-term	96.21
d1r8ja2	135	N-terminal domain of the circadian clock protein K	95.95
d3bula2	156	Methionine synthase, C-terminal domain {Escherichi	94.7
d1xm3a_	251	Thiazole biosynthesis protein ThiG {Bacillus subti	93.38
d1dxea_	253	2-dehydro-3-deoxy-galactarate aldolase {Escherichi	93.34
d1wv2a_	243	Thiazole biosynthesis protein ThiG {Pseudomonas ae	93.17
d1qpoa1	169	Quinolinic acid phosphoribosyltransferase (Nicotin	91.42
d1id1a_	153	Rck domain from putative potassium channel Kch {Es	90.91
d1xi3a_	206	Thiamin phosphate synthase {Archaeon (Pyrococcus f	90.6
d1izca_	299	Macrophomate synthase {Macrophoma commelinae [TaxI	90.43
d1o4ua1	170	Quinolinic acid phosphoribosyltransferase (Nicotin	88.32
d7reqb2	163	Methylmalonyl-CoA mutase beta subunit, C-terminal	87.3
d1thfd_	253	Cyclase subunit (or domain) of imidazoleglycerolph	86.17
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	85.99
d1ka9f_	251	Cyclase subunit (or domain) of imidazoleglycerolph	85.77
d1wbha1	213	KDPG aldolase {Escherichia coli [TaxId: 562]}	85.67
d1kzyc2	106	53BP1 {Human (Homo sapiens) [TaxId: 9606]}	84.55
d2f1ka2	165	Prephenate dehydrogenase TyrA {Synechocystis sp. p	84.54
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	84.04
d1geqa_	248	Trp synthase alpha-subunit {Archaeon Pyrococcus fu	83.6
d1h5ya_	252	Cyclase subunit (or domain) of imidazoleglycerolph	83.48
d1mxsa_	216	KDPG aldolase {Pseudomonas putida [TaxId: 303]}	83.46
d2fy8a1	129	Potassium channel-related protein MthK {Archaeon M	82.67
d1qopa_	267	Trp synthase alpha-subunit {Salmonella typhimurium	82.65
d1xeaa1	167	Putative oxidoreductase VCA1048 {Vibrio cholerae [	82.17
d2basa1	261	Hypothetical protein YkuI, N-terminal domain {Baci	82.09
d1lssa_	132	Ktn Mja218 {Archaeon Methanococcus jannaschii [Tax	80.51
d1a53a_	247	Indole-3-glycerophosphate synthase, IPGS {Archaeon	80.11

>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=6.7e-29  Score=183.60  Aligned_cols=118  Identities=19%  Similarity=0.411  Sum_probs=109.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      +|||||||++..+..+...|+..||.|.++.+|.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         1 mrILvVDDd~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~------------------~dliilD~~mP~~~G~e~   62 (119)
T d2pl1a1           1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHI------------------PDIAIVDLGLPDEDGLSL   62 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSCCSSSCHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcc------------------cceeehhccCCCchhHHH
Confidence            58999999999999999999999999999999999999997554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++|++..+  ++|||++|+..+.+...+++++||++||.||++.++|...+.+++++
T Consensus        63 ~~~i~~~~~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~lrR  118 (119)
T d2pl1a1          63 IRRWRSNDV--SLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR  118 (119)
T ss_dssp             HHHHHHTTC--CSCEEEEESCCCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCc--ccceEeeeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            999999764  89999999999999999999999999999999999998877777653

>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=1.6e-28  Score=185.99  Aligned_cols=118  Identities=25%  Similarity=0.463  Sum_probs=108.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      +|||||||++..+..+..+|+..||.|.++.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         1 mkILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eAl~~l~~~~------------------~dlvilD~~mp~~~G~e~   62 (137)
T d1ny5a1           1 MNVLVIEDDKVFRGLLEEYLSMKGIKVESAERGKEAYKLLSEKH------------------FNVVLLDLLLPDVNGLEI   62 (137)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHHHTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESBCSSSBHHHH
T ss_pred             CEEEEEecCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhccc------------------cccchHHHhhhhhhHHHH
Confidence            58999999999999999999999999999999999999996544                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++||+..+  ++|||++|+..+.+...+|+++||+|||.||++.++|...+.++++.
T Consensus        63 ~~~lr~~~~--~~piI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  118 (137)
T d1ny5a1          63 LKWIKERSP--ETEVIVITGHGTIKTAVEAMKMGAYDFLTKPCMLEEIELTINKAIEH  118 (137)
T ss_dssp             HHHHHHHCT--TSEEEEEEETTCHHHHHHHHTTTCCEEEEESCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCC--CCCEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHH
Confidence            999998765  89999999999999999999999999999999999998776666543

>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=1.8e-28  Score=181.79  Aligned_cols=118  Identities=26%  Similarity=0.451  Sum_probs=109.3

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      |||||||++..+..+..+|+..||.|..+.++.+|++.+...                  .||+||+|+.||+++|++++
T Consensus         2 kILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~------------------~~dlil~D~~mp~~~G~~l~   63 (121)
T d1zesa1           2 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEP------------------WPDLILLDWMLPGGSGIQFI   63 (121)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHHHSSSS------------------CCSEEEECSSCTTSCHHHHH
T ss_pred             EEEEEeCCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHcc------------------CCCEEEeecCCCCCCHHHHH
Confidence            799999999999999999999999999999999999999654                  45699999999999999999


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +.||.....+++|||++|+..+.....+|++.||+|||.||++.++|...+..+++
T Consensus        64 ~~lr~~~~~~~~pvi~lt~~~~~~~~~~~~~~G~~d~l~KP~~~~~L~~~v~~~lr  119 (121)
T d1zesa1          64 KHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR  119 (121)
T ss_dssp             HHHHHSTTTTTSCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHhCccCCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            99998877789999999999999999999999999999999999999877766654

>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=2.9e-28  Score=185.11  Aligned_cols=118  Identities=25%  Similarity=0.404  Sum_probs=107.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|+..||.|.++.++.+|++.+...                  .||+||+|+.||+|+|+++
T Consensus         1 P~ILiVDDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~------------------~~dlil~D~~mP~~~G~el   62 (140)
T d1qkka_           1 PSVFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSAD------------------FAGIVISDIRMPGMDGLAL   62 (140)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCTT------------------CCSEEEEESCCSSSCHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEeCChHHHHHHHhcc------------------CcchHHHhhccCCCCHHHH
Confidence            3799999999999999999999999999999999999999654                  4569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++||+..+  ++|||++|+..+.+...+|+++||+|||.||++.++|...+.+++..
T Consensus        63 ~~~lr~~~~--~~pvI~lT~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~~~~  118 (140)
T d1qkka_          63 FRKILALDP--DLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEK  118 (140)
T ss_dssp             HHHHHHHCT--TSCEEEEECGGGHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCC--CCcEEEEECCCCHHHHHHHHHcCCCEeecCCCCHHHHHHHHHHHHHH
Confidence            999998765  89999999999999999999999999999999999997766665543

>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=3.7e-28  Score=180.56  Aligned_cols=116  Identities=22%  Similarity=0.344  Sum_probs=107.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .++||||||++..+..+..+|+..||.|.++.++.+|++.+...                  .||+||+|+.||+++|++
T Consensus         3 ~~~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~------------------~~dlvi~D~~mp~~~G~e   64 (123)
T d1dbwa_           3 DYTVHIVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDV------------------RNGVLVTDLRMPDMSGVE   64 (123)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGGC------------------CSEEEEEECCSTTSCHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhhc------------------CCcEEEEeccCccccchH
Confidence            58999999999999999999999999999999999999999654                  456999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      ++++||+..+  ++|||++|+..+.+...+|++.||++||.||++.++|...+.++
T Consensus        65 ~~~~lr~~~~--~~~iI~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~a  118 (123)
T d1dbwa_          65 LLRNLGDLKI--NIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERA  118 (123)
T ss_dssp             HHHHHHHTTC--CCCEEEEECTTCHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCC--CCeEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Confidence            9999998764  89999999999999999999999999999999999997766554

>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=99.96  E-value=7.2e-28  Score=182.71  Aligned_cols=121  Identities=30%  Similarity=0.468  Sum_probs=111.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .|||||||++..+..++.+|+..||+|..+.|+.+|++.+....                  |||||+|+.||+++|+++
T Consensus         2 arILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~------------------~dlil~D~~~p~~~G~~~   63 (139)
T d1w25a1           2 ARILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDL------------------PDIILLDVMMPGMDGFTV   63 (139)
T ss_dssp             CEEEEECSSTTHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEEccchhhhhhhhccc------------------ceeeeeeccccCCCchHH
Confidence            58999999999999999999999999999999999999997654                  459999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++.+|......++|||++|+..+.....+|+++||+|||.|||+..+|...+.++++.+
T Consensus        64 ~~~ir~~~~~~~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lr~~  122 (139)
T d1w25a1          64 CRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTRFK  122 (139)
T ss_dssp             HHHHHHSTTTTTSCEEEEECSSCHHHHHHHHHHTCCEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHhhhcccccCCCEEEEEcCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            99999887777999999999999999999999999999999999999987777776554

>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=8.5e-29  Score=183.54  Aligned_cols=119  Identities=26%  Similarity=0.417  Sum_probs=109.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .|||||||++..+..+..+|+..||.|.++.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         2 PkILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~------------------~dlvl~D~~mP~~~G~el   63 (121)
T d1ys7a2           2 PRVLVVDDDSDVLASLERGLRLSGFEVATAVDGAEALRSATENR------------------PDAIVLDINMPVLDGVSV   63 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESSCSSSCHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEEeeccCcccHHH
Confidence            48999999999999999999999999999999999999996554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      +++||+..+  ++|||++|+..+.+...+++++||+|||.|||+.++|...+..+++++
T Consensus        64 ~~~ir~~~~--~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~rr  120 (121)
T d1ys7a2          64 VTALRAMDN--DVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRR  120 (121)
T ss_dssp             HHHHHHTTC--CCCEEEEECCCTTTCCCTTTTTTCSEEEESSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHcC
Confidence            999998754  899999999999999999999999999999999999988777776643

>d1krwa_ c.23.1.1 (A:) NTRC receiver domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: NTRC receiver domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.95  E-value=3e-28  Score=181.07  Aligned_cols=119  Identities=28%  Similarity=0.433  Sum_probs=109.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+||||||++..+..++.+|+..||.|.++.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         3 k~~ILIVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~l~~~~------------------~dlii~D~~mp~~~G~e   64 (123)
T d1krwa_           3 RGIVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKT------------------PDVLLSDIRMPGMDGLA   64 (123)
T ss_dssp             CCEEEEESSSHHHHHHHHHHHHHTTCEEEEESSSHHHHHHHTTCC------------------CSEEEECCSSSSSTTHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhCC------------------CCEEEehhhcCCchHHH
Confidence            468999999999999999999999999999999999999996544                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++++|++..+  ++|||++|+..+.+...+|++.||++||.||++.++|...+.+++.+
T Consensus        65 l~~~l~~~~~--~~piI~~t~~~~~~~~~~a~~~Ga~dyl~KP~~~~eL~~~i~~~l~~  121 (123)
T d1krwa_          65 LLKQIKQRHP--MLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISH  121 (123)
T ss_dssp             HHHHHHHHSS--SCCEEESCCCSCHHHHHHHHHHTEEEECSSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCC--CCeEEEEecCCCHHHHHHHHHcCCCeEEeCcCCHHHHHHHHHHHHHc
Confidence            9999998765  89999999999999999999999999999999999998777666543

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

Probab=99.95  E-value=4.2e-28  Score=179.27  Aligned_cols=115  Identities=28%  Similarity=0.436  Sum_probs=106.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      -|||||||++..+..+..+|...||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         2 krILvVDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~~~------------------~dlillD~~mP~~~G~el   63 (119)
T d1peya_           2 EKILIVDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKER------------------PDLVLLDMKIPGMDGIEI   63 (119)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCTTCCHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHhCC------------------CCEEEEeccCCCCCHHHH
Confidence            38999999999999999999999999999999999999996554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +++||...+  ++|||++|+..+.+...+|+++||++||.|||+.++|...+.++
T Consensus        64 ~~~lr~~~~--~~pvi~lt~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~v~~~  116 (119)
T d1peya_          64 LKRMKVIDE--NIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKY  116 (119)
T ss_dssp             HHHHHHHCT--TCEEEEEESSCCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             HHHHHHhCC--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Confidence            999998765  89999999999999999999999999999999999997766554

>d1kgsa2 c.23.1.1 (A:2-123) PhoB receiver domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: PhoB receiver domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.95  E-value=3e-28  Score=180.82  Aligned_cols=118  Identities=25%  Similarity=0.390  Sum_probs=108.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      +|||||||++..+..++.+|+..||.|.++.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         2 irILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~------------------~dlillD~~mp~~~g~~~   63 (122)
T d1kgsa2           2 VRVLVVEDERDLADLITEALKKEMFTVDVCYDGEEGMYMALNEP------------------FDVVILDIMLPVHDGWEI   63 (122)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEEcchHHHHHHHHhhC------------------ccccccccccccchhHHH
Confidence            79999999999999999999999999999999999999996554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++++|...+  .+|||++|+..+.....+++++||++||.||++.++|...+.+++++
T Consensus        64 ~~~lr~~~~--~~piI~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~l~r  119 (122)
T d1kgsa2          64 LKSMRESGV--NTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRR  119 (122)
T ss_dssp             HHHHHHTTC--CCCEEEEESSCHHHHHHHTCCCCCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--CCcEEEEcCCCCHHHHHHHHHcCCceeecCCCCHHHHHHHHHHHHHH
Confidence            999998764  89999999999999999999999999999999999998777766654

>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=5.9e-28  Score=178.47  Aligned_cols=116  Identities=21%  Similarity=0.403  Sum_probs=107.0

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      +||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|++++
T Consensus         2 nILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~l~~~~------------------~dliilD~~mP~~~G~e~~   63 (119)
T d1zh2a1           2 NVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRK------------------PDLIILDLGLPDGDGIEFI   63 (119)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESEETTEEHHHHH
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEeCCHHHHHHHHHhcC------------------CCEEEeccccCCCCCchHH
Confidence            7999999999999999999999999999999999999997554                  5599999999999999999


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +.||+..   .+|||++|+..+.+...++++.||++||.||++.++|...+..++++
T Consensus        64 ~~ir~~~---~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrr  117 (119)
T d1zh2a1          64 RDLRQWS---AVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR  117 (119)
T ss_dssp             HHHHTTC---CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHhcc---CCcEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHhh
Confidence            9999753   68999999999999999999999999999999999998877777654

>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=2.8e-28  Score=181.23  Aligned_cols=119  Identities=26%  Similarity=0.440  Sum_probs=104.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      -|||||||++..+..+..+|+..||.|..+.+|.+|++.+....                  ||+||+|+.||++||+++
T Consensus         2 krILiVDD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~~~------------------~dlil~D~~mp~~dG~el   63 (123)
T d1mb3a_           2 KKVLIVEDNELNMKLFHDLLEAQGYETLQTREGLSALSIARENK------------------PDLILMDIQLPEISGLEV   63 (123)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHHHHC------------------CSEEEEESBCSSSBHHHH
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhCC------------------CCEEEEEeccCCCcHHHH
Confidence            47999999999999999999999999999999999999996544                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++||+.....++|||++|+........+++++|+++||.||++.++|...+..+++
T Consensus        64 ~~~ir~~~~~~~iPii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~i~~~l~  120 (123)
T d1mb3a_          64 TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLE  120 (123)
T ss_dssp             HHHHHHSTTTTTSCEEEEC------CHHHHHHHTCSEEECSSCCHHHHHHHHHHHHS
T ss_pred             HHHHHhCCCcCCCCeEEEEEecCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHh
Confidence            999999887789999999999888888999999999999999999999877776653

>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=99.95  E-value=8.5e-28  Score=177.06  Aligned_cols=115  Identities=25%  Similarity=0.446  Sum_probs=106.2

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHH
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLL   96 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll   96 (241)
                      |||||||++..+..+..+|+..||+|..+.+|.+|++.+....                  ||+||+|+.||+++|++++
T Consensus         2 rILiVdDd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~------------------~dlillD~~mp~~~G~~~~   63 (117)
T d2a9pa1           2 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQ------------------PDIIILDLMLPEIDGLEVA   63 (117)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEECSSCSSSCHHHHH
T ss_pred             EEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC------------------CCEEEeccccCCCCccHHH
Confidence            7999999999999999999999999999999999999997554                  5599999999999999999


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++|++..   ++|||++|+..+.+...+++++||+|||.|||+.++|...+.++++
T Consensus        64 ~~i~~~~---~~pvI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~lr  116 (117)
T d2a9pa1          64 KTIRKTS---SVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLR  116 (117)
T ss_dssp             HHHHTTC---CCCEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHhCC---CCCEEEEecCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhC
Confidence            9999753   7999999999999999999999999999999999999877776654

>d1p6qa_ c.23.1.1 (A:) CheY protein {Sinorhizobium meliloti, CheY2 [TaxId: 382]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Sinorhizobium meliloti, CheY2 [TaxId: 382]

Probab=99.95  E-value=6.5e-28  Score=180.69  Aligned_cols=122  Identities=20%  Similarity=0.455  Sum_probs=111.2

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ..++|||||||++..+..+...|...||. |..+.++.+|++.+....                  ||+||+|+.||+++
T Consensus         4 ~~~~kILiVDD~~~~~~~l~~~L~~~g~~~v~~a~~~~~al~~l~~~~------------------~dlii~D~~mP~~~   65 (129)
T d1p6qa_           4 AEKIKVLIVDDQVTSRLLLGDALQQLGFKQITAAGDGEQGMKIMAQNP------------------HHLVISDFNMPKMD   65 (129)
T ss_dssp             SSCCCEEEECSSHHHHHHHHHHHHTTTCSCEECCSSHHHHHHHHHTSC------------------CSEEEECSSSCSSC
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHCCCeEEEEECCHHHHHHHHHhCC------------------CCeEEeeeecCCCC
Confidence            35789999999999999999999999995 778999999999996544                  56999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |+++++.||+....+++|||++|+..+.+...++++.|+++||.||++.++|...+.+++.
T Consensus        66 G~el~~~lr~~~~~~~~pii~lt~~~~~~~~~~a~~~G~~~~l~KP~~~~~L~~~i~~vl~  126 (129)
T d1p6qa_          66 GLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVFG  126 (129)
T ss_dssp             HHHHHHHHTTCTTSTTCEEEECCSCCCHHHHHHHHHHTCSCEECCCSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHhCcccCCCeEEEEEecCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999999998877779999999999999999999999999999999999999887777653

>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=99.95  E-value=2.8e-27  Score=180.49  Aligned_cols=129  Identities=26%  Similarity=0.397  Sum_probs=112.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..+||||||++..+..++.+|+..|  |.|.++.||.+|++++......           .....||+||+|+.||+++|
T Consensus         3 pk~ILiVdD~~~~~~~l~~~L~~~g~~~~v~~a~~g~~Al~~l~~~~~~-----------~~~~~pdlIllD~~mP~~~G   71 (144)
T d1i3ca_           3 PKVILLVEDSKADSRLVQEVLKTSTIDHELIILRDGLAAMAFLQQQGEY-----------ENSPRPNLILLDLNLPKKDG   71 (144)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHSCCSCEEEEEECSHHHHHHHHTTCGGG-----------TTCCCCSEEEECSCCSSSCH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHhchhh-----------hccCCCCEEEEECccccccc
Confidence            4689999999999999999998776  5788999999999999753211           12345889999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ++++++||....+.++|||++|+..+.....+|+++||++||.||++.++|.+.+..+...+
T Consensus        72 ~el~~~ir~~~~~~~iPvi~lT~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~l~~~~  133 (144)
T d1i3ca_          72 REVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIESFW  133 (144)
T ss_dssp             HHHHHHHHHCTTTTTSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHhCcccCCCeEEEEECCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            99999999987778999999999999999999999999999999999999988777776554

>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=6.7e-28  Score=181.53  Aligned_cols=121  Identities=29%  Similarity=0.551  Sum_probs=111.0

Q ss_pred             hcCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           12 AESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        12 ~~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      ....++||||||++..+..+..+|...||.|.++.+|.+|++.+....                  ||+||+|+.||+++
T Consensus         5 ~~~~~~ILiVDD~~~~~~~l~~~L~~~g~~v~~a~~g~ea~~~~~~~~------------------~dlillD~~mP~~d   66 (133)
T d2ayxa1           5 DNDDMMILVVDDHPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNH------------------IDIVLSDVNMPNMD   66 (133)
T ss_dssp             CCCCCEEEEEESSHHHHHHHHHHHHHHTSEEEEECCSHHHHHHHHHSC------------------CSEEEEEESSCSSC
T ss_pred             CCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEECcHHHHHHHHhccC------------------ceEEEEeccCCCCC
Confidence            456799999999999999999999999999999999999999996544                  56999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      |++++++||+..+  .+|||++|+..+.+...+++++||++||.|||+.++|...+..+++
T Consensus        67 G~el~~~ir~~~~--~~pii~lt~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~~  125 (133)
T d2ayxa1          67 GYRLTQRIRQLGL--TLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAE  125 (133)
T ss_dssp             CHHHHHHHHHHHC--CSCEEEEESSTTSHHHHHHHHCCCEEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC--CCCEEEEeccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999999998765  8999999999999999999999999999999999999887776654

>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=99.95  E-value=1.5e-27  Score=182.94  Aligned_cols=134  Identities=25%  Similarity=0.419  Sum_probs=116.3

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCC--EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSY--QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ....+||||||++..+..++.+|+..||  .|..+.+|.+|++++........        ......||+||+|+.||++
T Consensus         4 ~~~~~ILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~--------~~~~~~pdlillD~~mP~~   75 (149)
T d1k66a_           4 NATQPLLVVEDSDEDFSTFQRLLQREGVVNPIYRCITGDQALDFLYQTGSYCN--------PDIAPRPAVILLDLNLPGT   75 (149)
T ss_dssp             CTTSCEEEECCCHHHHHHHHHHHHHTTBCSCEEEECSHHHHHHHHHTCCSSSC--------GGGCCCCSEEEECSCCSSS
T ss_pred             CCCCcEEEEECCHHHHHHHHHHHHHcCCceEEEEECChHHHHHHHHhhccccc--------cccccCCCeEEccccccCC
Confidence            4456899999999999999999999997  78899999999999975432210        0123468999999999999


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHH
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTK  154 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~  154 (241)
                      ||++++++||+...++++|||++|+..+.+...+|+++||++||.||++.++|...+..+++.+
T Consensus        76 ~G~el~~~ir~~~~~~~ipiI~lT~~~~~~~~~~~~~~Ga~~~l~KP~~~~~L~~~i~~~l~~~  139 (149)
T d1k66a_          76 DGREVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIKYW  139 (149)
T ss_dssp             CHHHHHHHHTTSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHhccccCCCeEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH
Confidence            9999999999887777999999999999999999999999999999999999988888777654

>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=99.95  E-value=1.9e-27  Score=180.51  Aligned_cols=129  Identities=24%  Similarity=0.374  Sum_probs=113.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      -|||||||++..+..+...|+..|  |.|..+.+|.+|++++......           .....||+||+|+.||++||+
T Consensus         3 krILiVDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~-----------~~~~~pdlillD~~mP~~dG~   71 (140)
T d1k68a_           3 KKIFLVEDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEY-----------ANASRPDLILLDLNLPKKDGR   71 (140)
T ss_dssp             CEEEEECCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGG-----------GSCCCCSEEEECSSCSSSCHH
T ss_pred             CcEEEEECCHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHhHHh-----------hccCCCCEEEEeeccccccCh
Confidence            589999999999999999998776  6899999999999999653211           123468899999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKTKI  155 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~~~  155 (241)
                      +++++||....++++|||++|+..+.+...+|+++||++||.||++.++|...+..+.+.+.
T Consensus        72 el~~~ir~~~~~~~iPvI~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~i~~i~~~~~  133 (140)
T d1k68a_          72 EVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEEFWL  133 (140)
T ss_dssp             HHHHHHHHSTTGGGSCEEEEESCCCHHHHHHHHHTTCSEEEECCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccCCCcEEEEeCCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHHh
Confidence            99999999877778999999999999999999999999999999999999888887766553

>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=99.95  E-value=1e-27  Score=177.61  Aligned_cols=117  Identities=22%  Similarity=0.400  Sum_probs=107.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      -|||||||++..+..++.+|+..||+|.++.+|.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         3 krILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~------------------~dlillD~~mp~~~G~~~   64 (121)
T d1mvoa_           3 KKILVVDDEESIVTLLQYNLERSGYDVITASDGEEALKKAETEK------------------PDLIVLDVMLPKLDGIEV   64 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHC------------------CSEEEEESSCSSSCHHHH
T ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHhccc------------------ccEEEecccccCCCCchh
Confidence            48999999999999999999999999999999999999996554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++|...+  .+|||++|+..+.+...+|+++||++||.|||+.++|...+.++++
T Consensus        65 ~~~~r~~~~--~~~ii~lt~~~~~~~~~~~~~~Ga~~yl~KP~~~~~L~~~i~~~lr  119 (121)
T d1mvoa_          65 CKQLRQQKL--MFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILR  119 (121)
T ss_dssp             HHHHHHTTC--CCCEEEEECTTCCCCHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             hhhhhccCC--CCEEEEEEeeCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHc
Confidence            999998764  7899999999988889999999999999999999999877777654

>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=3.4e-27  Score=174.84  Aligned_cols=117  Identities=23%  Similarity=0.472  Sum_probs=107.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .+||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         3 p~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~------------------~dlii~D~~mp~~~G~~~   64 (121)
T d1xhfa1           3 PHILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYD------------------INLVIMDINLPGKNGLLL   64 (121)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSC------------------CSEEEECSSCSSSCHHHH
T ss_pred             CEEEEEECCHHHHHHHHHHHHHCCCEEEEECChHHHHHHHHhcC------------------CCEEEeecccCCccCcHH
Confidence            59999999999999999999999999999999999999996544                  569999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.+++..   ++|||++|+..+.....+++++||+|||.|||++++|...+..++++
T Consensus        65 ~~~~r~~~---~~pii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~v~~~l~R  119 (121)
T d1xhfa1          65 ARELREQA---NVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR  119 (121)
T ss_dssp             HHHHHHHC---CCEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC---CCcEEEEECCCCHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHhc
Confidence            99999863   79999999999999999999999999999999999998777777653

>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=1.3e-27  Score=178.71  Aligned_cols=122  Identities=22%  Similarity=0.411  Sum_probs=107.6

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +|||||||++..+..+..+|+..||. |..+.||.+|++.+.....             ...+||+||+|+.||++||++
T Consensus         2 irVLvVDD~~~~~~~l~~~L~~~g~~~v~~a~~g~eAl~~l~~~~~-------------~~~~~dlillD~~mP~~dG~e   68 (128)
T d2r25b1           2 VKILVVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTS-------------KGENYNMIFMDVQMPKVDGLL   68 (128)
T ss_dssp             SCEEEECSCHHHHHHHHHHHHHTTCCCEEEESSHHHHHHHHHHHHH-------------HTCCCSEEEECSCCSSSCHHH
T ss_pred             eEEEEEeCCHHHHHHHHHHHHHcCCeEEEEEcChHHHHHHHHhhhh-------------ccCCCCEEEEEeCCCCCCHHH
Confidence            69999999999999999999999995 7789999999999864211             134578999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      ++++||+... ..+|||++|+..+.....+|+++||++||.||++.++|..++.+++
T Consensus        69 l~~~ir~~~~-~~~piI~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~~  124 (128)
T d2r25b1          69 STKMIRRDLG-YTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFC  124 (128)
T ss_dssp             HHHHHHHHSC-CCSCEEEEESCCSHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHC
T ss_pred             HHHHHHHccC-CCCeEEEEECCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHH
Confidence            9999997643 4789999999999999999999999999999999999988776654

>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=3.1e-27  Score=176.68  Aligned_cols=119  Identities=27%  Similarity=0.401  Sum_probs=108.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.+|||||||+..+..+..+|+..||.|.++.++.+|++.+..                  ..||+||+|+.||+++|++
T Consensus         2 kP~ILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~~~~------------------~~~dliilD~~mp~~~G~~   63 (128)
T d1yioa2           2 KPTVFVVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRP------------------EQHGCLVLDMRMPGMSGIE   63 (128)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHCCT------------------TSCEEEEEESCCSSSCHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHHcCCCccccccHHHHHHHHHh------------------cCCCEeehhhhcccchhHH
Confidence            3599999999999999999999999999999999999999854                  3467999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++.++...+  .+|||++|+..+.+...++++.||+|||.|||+.++|...+.++++.
T Consensus        64 ~~~~i~~~~~--~~~ii~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~~  120 (128)
T d1yioa2          64 LQEQLTAISD--GIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL  120 (128)
T ss_dssp             HHHHHHHTTC--CCCEEEEESCTTSCCCHHHHHTTEEEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhCC--CCeEEEEEEECCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
Confidence            9999998765  89999999999888899999999999999999999998777766643

>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=2.8e-27  Score=174.50  Aligned_cols=115  Identities=23%  Similarity=0.427  Sum_probs=105.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .|||||||++..+..++.+|+..||.|. ++.++.+|++.+....                  ||+||+|+.||+++|++
T Consensus         2 krILivDD~~~~~~~l~~~L~~~g~~v~~~a~~~~~al~~~~~~~------------------~dliilD~~mp~~~G~e   63 (118)
T d1u0sy_           2 KRVLIVDDAAFMRMMLKDIITKAGYEVAGEATNGREAVEKYKELK------------------PDIVTMDITMPEMNGID   63 (118)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHC------------------CSEEEEECSCGGGCHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHHhcc------------------CCEEEEecCCCCCCHHH
Confidence            5899999999999999999999999987 7899999999997554                  55999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHL  150 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l  150 (241)
                      +++.||+..+  ++|||++|+..+.+...++++.||++||.||++.++|...++++
T Consensus        64 ~~~~ir~~~~--~~pvi~ls~~~~~~~~~~a~~~Ga~~yl~KP~~~~~L~~~l~~v  117 (118)
T d1u0sy_          64 AIKEIMKIDP--NAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV  117 (118)
T ss_dssp             HHHHHHHHCT--TCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCC--CCcEEEEEccCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHh
Confidence            9999998765  89999999999999999999999999999999999997766543

>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=8.4e-27  Score=172.39  Aligned_cols=117  Identities=21%  Similarity=0.399  Sum_probs=107.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDL   95 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~l   95 (241)
                      .|||||||++..+..+..+|+..||.|..+.++.+|++.+....                  ||+||+|+.||+++|+++
T Consensus         2 ~rILiVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~a~~~~~~~~------------------~dliilD~~mp~~~g~~~   63 (120)
T d1zgza1           2 HHIVIVEDEPVTQARLQSYFTQEGYTVSVTASGAGLREIMQNQS------------------VDLILLDINLPDENGLML   63 (120)
T ss_dssp             CEEEEECSSHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSC------------------CSEEEEESCCSSSCHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHhcC------------------CCEEeeehhhccchhHHH
Confidence            68999999999999999999999999999999999999996554                  559999999999999999


Q ss_pred             HHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           96 LKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        96 l~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ++.++...   .+|||++|+..+.....+|+++||+|||.||++.++|...+.+++++
T Consensus        64 ~~~~~~~~---~~piI~lt~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~lrR  118 (120)
T d1zgza1          64 TRALRERS---TVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWR  118 (120)
T ss_dssp             HHHHHTTC---CCEEEEEESSCCHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHH
T ss_pred             HHHHhccC---CCeEEEEEccCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHcc
Confidence            99998753   78999999999999999999999999999999999998777776643

>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=5.5e-27  Score=173.43  Aligned_cols=115  Identities=22%  Similarity=0.335  Sum_probs=103.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      +.|||||||++..+..+..+|+..|+ |.++.+|.+|+..                    ...||+||+|+.||+++|++
T Consensus         2 M~kILiVDDd~~~~~~l~~~L~~~g~-v~~~~~~~~al~~--------------------~~~~dlillD~~mP~~~G~~   60 (120)
T d1p2fa2           2 MWKIAVVDDDKNILKKVSEKLQQLGR-VKTFLTGEDFLND--------------------EEAFHVVVLDVMLPDYSGYE   60 (120)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTTEE-EEEESSHHHHHHC--------------------CSCCSEEEEESBCSSSBHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhCCE-EEEECCHHHHHhc--------------------CCCCCEEEEeCcccccchhH
Confidence            37999999999999999999999886 8889999999762                    12467999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++|...+  .+|||++|+..+.+...+|+++||+|||.||+++++|...+.++++
T Consensus        61 ~~~~lr~~~~--~~~ii~it~~~~~~~~~~a~~~Ga~dyl~KP~~~~~L~~~i~~~l~  116 (120)
T d1p2fa2          61 ICRMIKETRP--ETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLE  116 (120)
T ss_dssp             HHHHHHHHCT--TSEEEEEESCCSHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCC--CCcEEEEecCCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHH
Confidence            9999998765  8999999999999999999999999999999999999877766654

>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=6.6e-27  Score=186.26  Aligned_cols=118  Identities=25%  Similarity=0.423  Sum_probs=107.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +.|||||||++..|..+..+|+..||.|+ ++++|.+|++.+....|                  ||||+|++||+|||+
T Consensus         3 p~kILiVDD~~~~r~~l~~~L~~~g~~vv~~a~~g~eal~~~~~~~p------------------DlvllDi~mP~~dG~   64 (190)
T d1s8na_           3 PRRVLIAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAELHKP------------------DLVIMDVKMPRRDGI   64 (190)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHCC------------------SEEEEESSCSSSCHH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHhcCCC------------------CEEEEeccccCcchH
Confidence            58999999999999999999999999876 79999999999976554                  599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      +++++||+..   ++|||++|++.+.+.+.+|+++||+|||.||+++++|...+...+..
T Consensus        65 e~~~~ir~~~---~~pIi~lTa~~~~~~~~~al~~Ga~~yl~KP~~~~~L~~~i~~~~~~  121 (190)
T d1s8na_          65 DAASEIASKR---IAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSR  121 (190)
T ss_dssp             HHHHHHHHTT---CSCEEEEEEGGGHHHHHTTGGGSCEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC---CCCEEEEeCCCCHHHHHHHHHcCCCEeccCCCCHHHHHHHHHHHHHh
Confidence            9999999853   68999999999999999999999999999999999997766555543

>d1dcfa_ c.23.1.2 (A:) Receiver domain of the ethylene receptor {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: Receiver domain of the ethylene receptor
domain: Receiver domain of the ethylene receptor
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.94  E-value=1.7e-26  Score=174.00  Aligned_cols=120  Identities=27%  Similarity=0.477  Sum_probs=107.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +++|||||||++..+..+..+|+..||.|.++.||.+|++.+..                   .||+||+|+.||++||+
T Consensus         6 ~g~rILvVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~-------------------~~dlillD~~mP~~dG~   66 (134)
T d1dcfa_           6 TGLKVLVMDENGVSRMVTKGLLVHLGCEVTTVSSNEECLRVVSH-------------------EHKVVFMDVCMPGVENY   66 (134)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHCCT-------------------TCSEEEEECCSSTTTTT
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHhhc-------------------CCCeEEEEeccCCCchH
Confidence            56899999999999999999999999999999999999998742                   36799999999999999


Q ss_pred             HHHHHHHhc---CCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKES---SSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~---~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      +++++||+.   .....+|||++|+..+.+...+++++|+++||.||++.++|...+..++.
T Consensus        67 el~~~ir~~~~~~~~~~~~ii~lT~~~~~~~~~~~~~~G~~~~l~KP~~~~~L~~~l~~~l~  128 (134)
T d1dcfa_          67 QIALRIHEKFTKQRHQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLE  128 (134)
T ss_dssp             HHHHHHHHHHC-CCSCCCEEEEEESCCSHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcccccCCCCeEEEEeCCCCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHhh
Confidence            999999853   23346889999999999999999999999999999999999887766653

>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=2.1e-26  Score=177.22  Aligned_cols=119  Identities=19%  Similarity=0.278  Sum_probs=103.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...|||||||++..+..+...|...||.|..  ++.+++..+...                  .|||||+|+.||++||+
T Consensus        12 ~~~rILiVDD~~~~~~~l~~~L~~~g~~v~~--~~~~~~~~~~~~------------------~~DlillD~~mP~~dG~   71 (153)
T d1w25a2          12 LGGRVLIVDDNERQAQRVAAELGVEHRPVIE--SDPEKAKISAGG------------------PVDLVIVNAAAKNFDGL   71 (153)
T ss_dssp             CSCEEEEECSCHHHHHHHHHHHTTTSEEEEE--CCHHHHHHHHHS------------------SCSEEEEETTCSSSCHH
T ss_pred             CCCeEEEEeCCHHHHHHHHHHHHHCCCEEEE--ccHHHHHHHhcC------------------CCCEEEEECccccccch
Confidence            4679999999999999999999999998743  566777776543                  46699999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++.||.....+++|||++|+..+.....+|+++||+|||.|||+..+|...+..+++
T Consensus        72 el~~~ir~~~~~~~iPiI~lt~~~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~  130 (153)
T d1w25a2          72 RFTAALRSEERTRQLPVLAMVDPDDRGRMVKALEIGVNDILSRPIDPQELSARVKTQIQ  130 (153)
T ss_dssp             HHHHHHHTSGGGTTCCEEEEECTTCHHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccceeEEeecCCCHHHHHHHHhcCcceEEECCCCHHHHHHHHHHHHH
Confidence            99999998766679999999999999999999999999999999999999766655554

>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=99.94  E-value=4.3e-26  Score=172.55  Aligned_cols=118  Identities=25%  Similarity=0.409  Sum_probs=106.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      .++||||||++..+..++.+|+..|  +.|..+.++.+|++.+....                  ||+||+|+.||+++|
T Consensus         2 Pi~VLiVDD~~~~r~~l~~~L~~~~~~~~v~~a~~~~~al~~~~~~~------------------~DlvllD~~mP~~~G   63 (138)
T d1a04a2           2 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLD------------------PDLILLDLNMPGMNG   63 (138)
T ss_dssp             CEEEEEECSCHHHHHHHHHHHTTCTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEETTSTTSCH
T ss_pred             CCEEEEECCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC------------------CCEEEEecCCCCCCH
Confidence            5799999999999999999998776  45668999999999996554                  559999999999999


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMK  152 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~  152 (241)
                      ++++++||+..+  ++|||++|+..+.....+|+++||++||.||++.++|...+..+++
T Consensus        64 ~el~~~ir~~~~--~~~vivlt~~~~~~~~~~a~~~Ga~~yl~Kp~~~~~L~~~i~~v~~  121 (138)
T d1a04a2          64 LETLDKLREKSL--SGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA  121 (138)
T ss_dssp             HHHHHHHHHSCC--CSEEEEEECCCCHHHHHHHHHTTCSEEEETTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCC--CCCEEEEEEECCHHHHHHHHHcCCCEEEECCCCHHHHHHHHHHHHC
Confidence            999999998765  8999999999999999999999999999999999999887776654

>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=3.3e-26  Score=169.88  Aligned_cols=117  Identities=20%  Similarity=0.366  Sum_probs=103.1

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCC-CE-EEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSS-YQ-VTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g-~~-v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +|||||||++..+..+..+|...| +. |.++.+|.+|++.+....                  ||+||+|+.||+|||+
T Consensus         2 irILivDD~~~~~~~l~~~L~~~~~~~~v~~a~~g~~al~~~~~~~------------------~dlillD~~mP~~dG~   63 (123)
T d1dz3a_           2 IKVCIADDNRELVSLLDEYISSQPDMEVIGTAYNGQDCLQMLEEKR------------------PDILLLDIIMPHLDGL   63 (123)
T ss_dssp             EEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEESCCSSSCHH
T ss_pred             cEEEEEeCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHhcC------------------CCEEEEcCCCCCCCHH
Confidence            799999999999999999998776 44 458999999999997554                  5599999999999999


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHH
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLM  151 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~  151 (241)
                      +++++||+..+ ..+|||++|+..+.....+++++||++||.||++.++|...+..++
T Consensus        64 e~~~~ir~~~~-~~~~ii~~t~~~~~~~~~~a~~~Ga~~~l~KP~~~~~L~~~i~~v~  120 (123)
T d1dz3a_          64 AVLERIRAGFE-HQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVY  120 (123)
T ss_dssp             HHHHHHHHHCS-SCCEEEEEEETTCHHHHHHHHHTTCEEEEECSSCCTTHHHHHHHHH
T ss_pred             HHHHHHHhcCC-CCCeEEEEECcCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHH
Confidence            99999997654 3467999999999999999999999999999999999987776654

>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=2e-25  Score=164.43  Aligned_cols=112  Identities=22%  Similarity=0.296  Sum_probs=95.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      .+|||||||++..+..+..+|+..||.|.++.++.+|++.+..                 ...||+||+|+.||+++|++
T Consensus         2 p~rILvVdDd~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~-----------------~~~~dliilD~~lp~~~G~e   64 (118)
T d2b4aa1           2 PFRVTLVEDEPSHATLIQYHLNQLGAEVTVHPSGSAFFQHRSQ-----------------LSTCDLLIVSDQLVDLSIFS   64 (118)
T ss_dssp             CCEEEEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHTGGG-----------------GGSCSEEEEETTCTTSCHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCCeEEECCHHHHHHHHHh-----------------cCCCCEEEEeCCCCCCCHHH
Confidence            5899999999999999999999999999999999999987642                 23467999999999999999


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhH
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKP  148 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~  148 (241)
                      ++++||+..+  ++|||++|+..+.  ...++..|+ |||.|||+.++|...+.
T Consensus        65 l~~~ir~~~~--~~pii~lt~~~~~--~~~~~~~~~-dyl~KP~~~~eL~~~i~  113 (118)
T d2b4aa1          65 LLDIVKEQTK--QPSVLILTTGRHE--LIESSEHNL-SYLQKPFAISELRAAID  113 (118)
T ss_dssp             HHHHHTTSSS--CCEEEEEESCC----CCCCSSSCE-EEEESSCCHHHHHHHHH
T ss_pred             HHHHHHhcCC--CCcEEEEECCccH--HHHHhhcCC-CEEECCCCHHHHHHHHH
Confidence            9999998754  8999999987643  335666777 89999999999865443

>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=4.8e-24  Score=161.53  Aligned_cols=106  Identities=28%  Similarity=0.365  Sum_probs=89.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      +++|||||||++..|..+..+|+..|  +.|.++.||.+|++.+....                  ||+||+|+.||+||
T Consensus         2 ~kirVLiVDD~~~~r~~l~~~L~~~g~~~~v~~a~~g~~al~~~~~~~------------------pDlvllDi~MP~~d   63 (140)
T d1a2oa1           2 SKIRVLSVDDSALMRQIMTEIINSHSDMEMVATAPDPLVARDLIKKFN------------------PDVLTLDVEMPRMD   63 (140)
T ss_dssp             CCEEEEEECSCHHHHHHHHHHHHTSTTEEEEEEESSHHHHHHHHHHHC------------------CSEEEEECCCSSSC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHHHhCCCeEEEEEECCHHHHHHHHHhcC------------------CCEEEEcCCCCCCC
Confidence            36899999999999999999999888  45668999999999997655                  45999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCC-ChHHHHHHHHhcccccccCCCC
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSEN-VPSRISRCLEEGAEEFFLKPVR  139 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~-~~~~~~~~l~~Ga~~~l~KP~~  139 (241)
                      |+++++.|++..+  ..+|++++... ..+...+|++.||++||.||+.
T Consensus        64 G~e~~~~ir~~~~--~~~i~i~~~~~~~~~~~~~al~~Ga~~yl~KP~~  110 (140)
T d1a2oa1          64 GLDFLEKLMRLRP--MPVVMVSSLTGKGSEVTLRALELGAIDFVTKPQL  110 (140)
T ss_dssp             HHHHHHHHHHSSC--CCEEEEECCTHHHHHHHHHHHHHTCCEEEECSSS
T ss_pred             HHHHHHHHHHhCC--CCcEEEEEecCCChHHHHHHHHcCCCEEEECCCC
Confidence            9999999998765  45555555443 3456778999999999999974

>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=2.9e-22  Score=158.60  Aligned_cols=116  Identities=12%  Similarity=0.073  Sum_probs=100.1

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      -..+|||||||++..+..+...|+..||.|..+.++.+|+.                      .+||+||+|+.||+++|
T Consensus         9 l~~~~iLvvdd~~~~~~~l~~~L~~~G~~v~~~~~~~~al~----------------------~~~Dlvl~D~~mp~~~~   66 (189)
T d1qo0d_           9 LRELQVLVLNPPGEVSDALVLQLIRIGCSVRQCWPPPEAFD----------------------VPVDVVFTSIFQNRHHD   66 (189)
T ss_dssp             GGGCEEEEESCTTHHHHHHHHHHHHHTCEEEEECSCCSSCS----------------------SCCSEEEEECCSSTHHH
T ss_pred             ccCCEEEEEeCCHHHHHHHHHHHHHcCCcceecCCHHHhcc----------------------CCCCEEEEcCCCCCcHH
Confidence            34689999999999999999999999999999999888763                      23779999999999888


Q ss_pred             HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHHHHHH
Q 026239           93 YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPHLMKT  153 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~l~~~  153 (241)
                      ..+.+. +...  +++|||++|++.+.+.+.+|++.||+|||.|||+..+|...+..++..
T Consensus        67 ~~~~~~-~~~~--p~~pvI~lta~~~~~~~~~al~~Ga~~yL~KP~~~~~L~~~i~~~~~~  124 (189)
T d1qo0d_          67 EIAALL-AAGT--PRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRI  124 (189)
T ss_dssp             HHHHHH-HHSC--TTCEEEEEECCCSHHHHHHHHHHTCSEEEESSCCGGGHHHHHHHHHHH
T ss_pred             HHHHHH-HHcC--CCCCEEEEeccchHHHHHHHHHcCCcEEEEecchhhHHHHHHhhcccc
Confidence            766554 4444  389999999999999999999999999999999999998777665543

>d1ccwa_ c.23.6.1 (A:) Glutamate mutase, small subunit {Clostridium cochlearium [TaxId: 1494]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Glutamate mutase, small subunit
species: Clostridium cochlearium [TaxId: 1494]

Probab=96.63  E-value=0.015  Score=41.48  Aligned_cols=114  Identities=10%  Similarity=0.080  Sum_probs=76.4

Q ss_pred             ceEEE--E--eCCHHHHHHHHHHhhcCCCEEEE---ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCC
Q 026239           16 FHVLA--V--DDSIIDRKLIERLLKTSSYQVTT---VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMP   88 (241)
Q Consensus        16 ~~ILi--V--dd~~~~~~~l~~~L~~~g~~v~~---~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp   88 (241)
                      .+|++  +  |-+..-...+..+|+..||+|..   ..+.++.++.+....|                  |+|.+...|.
T Consensus         4 ~kVvi~~~~gD~H~lG~~mva~~l~~~G~~V~~LG~~~p~e~iv~a~~~~~~------------------d~v~lS~~~~   65 (137)
T d1ccwa_           4 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNIGVLSPQELFIKAAIETKA------------------DAILVSSLYG   65 (137)
T ss_dssp             CEEEEEEETTCCCCHHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTC------------------SEEEEEECSS
T ss_pred             CEEEEEecCCChhHHHHHHHHHHHHHCCCeEEecccccCHHHHHHHHHhcCC------------------CEEEEeeccc
Confidence            45555  4  45556677889999999999984   3578888888866554                  4999998887


Q ss_pred             CCC--HHHHHHHHHhcCCCCCCcEEEEccC----CC-hHHHHHHHHhcccccccCCCCHHHHHHhhH
Q 026239           89 GMT--GYDLLKKIKESSSLRDIPVVIMSSE----NV-PSRISRCLEEGAEEFFLKPVRLSDLNKLKP  148 (241)
Q Consensus        89 ~~~--g~~ll~~ir~~~~~~~ipvIils~~----~~-~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~  148 (241)
                      ...  --++++.|++.. ..++||++=..-    .. +....+..+.|++.++....+++++...+.
T Consensus        66 ~~~~~~~~~~~~l~~~~-~~~i~iivGG~~~~~~~~~~~~~~~l~~~Gv~~if~~~t~~~~~~~~l~  131 (137)
T d1ccwa_          66 QGEIDCKGLRQKCDEAG-LEGILLYVGGNIVVGKQHWPDVEKRFKDMGYDRVYAPGTPPEVGIADLK  131 (137)
T ss_dssp             THHHHHTTHHHHHHHTT-CTTCEEEEEESCSSSSCCHHHHHHHHHHTTCSEECCTTCCHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhc-cCCCEEEEeCCcCCCccccHHHHHHHHHcCCCEEECCCCCHHHHHHHHH
Confidence            531  224566777654 357887754322    22 334445567899998887777777655443

>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=96.38  E-value=0.062  Score=39.56  Aligned_cols=110  Identities=13%  Similarity=0.093  Sum_probs=73.4

Q ss_pred             cCcceEEEE----eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC
Q 026239           13 ESQFHVLAV----DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY   85 (241)
Q Consensus        13 ~~~~~ILiV----dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~   85 (241)
                      ..+.+||+.    |-+..-...+..+|+..||+|...   .+.++..+......+                  |+|.+..
T Consensus        35 gr~pkVlla~~g~D~Hd~G~~~va~~l~~~G~eVi~lg~~~~~e~iv~aa~~~~a------------------dvI~iSs   96 (168)
T d7reqa2          35 GRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADV------------------HVVGVSS   96 (168)
T ss_dssp             SSCCEEEEECBTTCCCCHHHHHHHHHHHHTTCEEEECCTTBCHHHHHHHHHHHTC------------------SEEEEEE
T ss_pred             CCCCeEEEEeCCccHHHHHHHHHHHHHHhCCcceecCCCcCcHHHHHHHHHccCC------------------CEEEEec
Confidence            346788776    556677788999999999999864   478888888865544                  4888876


Q ss_pred             CCCCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHH
Q 026239           86 CMPGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSD  142 (241)
Q Consensus        86 ~mp~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~  142 (241)
                      .+...  .--++++.|++.. ..+++|+ +.+...........+.|++++|..--...+
T Consensus        97 ~~~~~~~~~~~l~~~L~~~g-~~~v~Vi-vGG~ip~~d~~~l~~~Gv~~iF~pgt~~~e  153 (168)
T d7reqa2          97 LAGGHLTLVPALRKELDKLG-RPDILIT-VGGVIPEQDFDELRKDGAVEIYTPGTVIPE  153 (168)
T ss_dssp             CSSCHHHHHHHHHHHHHHTT-CTTSEEE-EEESCCGGGHHHHHHHTEEEEECTTCCHHH
T ss_pred             CcccchHHHHHHHHHHHhcC-CCCeEEE-EeCCCCHHHHHHHHhCCCCEEECcCCCHHH
Confidence            55431  2335667777765 2455554 444434455567789999997754344333

>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=96.21  E-value=0.087  Score=38.38  Aligned_cols=114  Identities=8%  Similarity=0.019  Sum_probs=73.1

Q ss_pred             cceEEEE----eCCHHHHHHHHHHhhcCC---------CEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccc
Q 026239           15 QFHVLAV----DDSIIDRKLIERLLKTSS---------YQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGV   78 (241)
Q Consensus        15 ~~~ILiV----dd~~~~~~~l~~~L~~~g---------~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~   78 (241)
                      +.+|++.    |-+..=.+.+..+|+..|         |+|...   -+.++.++.+....                  +
T Consensus        19 ~~~vv~~~~g~D~HdiG~~iv~~~l~~~G~~~~~~~~~~eVi~LG~~vp~e~~v~~a~e~~------------------~   80 (160)
T d1xrsb1          19 KIVVVGASTGTDAHTVGIDAIMNMKGYAGHYGLERYEMIDAYNLGSQVANEDFIKKAVELE------------------A   80 (160)
T ss_dssp             CEEEEEEEBTTCCCCHHHHHHHSTTCBTTBCCGGGCTTEEEEECCSSBCHHHHHHHHHHTT------------------C
T ss_pred             CcEEEEEEeCCcHHHHHHHHHHHHHHHcCCcccccccceEEEeCCCCCCHHHHHHHHHhcC------------------C
Confidence            4555533    455566677888999989         888743   37788888886554                  5


Q ss_pred             cEEEEeCCCCCCCH-----HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHHHhhHH
Q 026239           79 NLVITDYCMPGMTG-----YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLNKLKPH  149 (241)
Q Consensus        79 dlIilD~~mp~~~g-----~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~~~~~~  149 (241)
                      |+|-+...|....+     -++++.+++.....++|||+=....+.+   .+.+.||+.|+..-.+..++...+..
T Consensus        81 d~VglS~l~t~~~~h~~~~~~~i~~l~~~g~~d~v~vivGG~~~~~~---~a~~~GaD~~f~~g~~a~~~a~~l~~  153 (160)
T d1xrsb1          81 DVLLVSQTVTQKNVHIQNMTHLIELLEAEGLRDRFVLLCGGPRINNE---IAKELGYDAGFGPGRFADDVATFAVK  153 (160)
T ss_dssp             SEEEEECCCCTTSHHHHHHHHHHHHHHHTTCGGGSEEEEECTTCCHH---HHHTTTCSEEECTTCCHHHHHHHHHH
T ss_pred             CEEEEeecccccchhHHHHHHHHHHHHHcCCCCceEEEEcCCCCCHH---HHHHcCCCEEcCCCCCHHHHHHHHHH
Confidence            59999988875433     2566777776532234444333333333   35578999998877777776544333

>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=95.95  E-value=0.086  Score=37.16  Aligned_cols=84  Identities=17%  Similarity=0.220  Sum_probs=65.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      +.+.|.+.=.++.....++.+|...-|.+..++++++.++++..++                ..+|++|+--.  +.+-.
T Consensus         3 s~LtI~l~l~s~~L~q~~~q~L~~dRY~l~~~~s~~ef~~~le~~~----------------e~iDcLVl~~~--~~~l~   64 (135)
T d1r8ja2           3 SQIAICIWVESTAILQDCQRALSADRYQLQVCESGEMLLEYAQTHR----------------DQIDCLILVAA--NPSFR   64 (135)
T ss_dssp             CCEEEEEECCCHHHHHHHHHHTCSTTEEEEEECSHHHHHHHHHHST----------------TSCSEEEEETT--STTHH
T ss_pred             ceEEEEEEeCCHHHHHHHHHhcCCCceEEEEcCCHHHHHHHHHhCc----------------ccCCEEEEEec--CCccH
Confidence            4577888888899999999999887899999999999999998754                34889886222  23445


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCC
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSEN  117 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~  117 (241)
                      .+...+.+.+.  -+|+|++.+..
T Consensus        65 ~l~~qL~~~Gl--LlPaViv~~~~   86 (135)
T d1r8ja2          65 AVVQQLCFEGV--VVPAIVVGDRD   86 (135)
T ss_dssp             HHHHHHHHTTC--CCCEEEESCCC
T ss_pred             HHHHHHHhcCc--cccEEEEecCC
Confidence            67788988775  68999996544

>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=94.70  E-value=0.16  Score=36.70  Aligned_cols=80  Identities=14%  Similarity=0.220  Sum_probs=55.9

Q ss_pred             eCCHHHHHHHHHHhhcCCCEEEEE---CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CC-HHHHH
Q 026239           22 DDSIIDRKLIERLLKTSSYQVTTV---DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MT-GYDLL   96 (241)
Q Consensus        22 dd~~~~~~~l~~~L~~~g~~v~~~---~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~-g~~ll   96 (241)
                      |-+..=..++..+|+..||+|+..   -..++.++.+....|                  |+|.+...|.. +. -.+++
T Consensus        17 D~HdiG~~iv~~~l~~~G~~Vi~LG~~~p~e~~~~~~~~~~~------------------d~i~lS~l~~~~~~~~~~~~   78 (156)
T d3bula2          17 DVHDIGKNIVGVVLQCNNYEIVDLGVMVPAEKILRTAKEVNA------------------DLIGLSGLITPSLDEMVNVA   78 (156)
T ss_dssp             CCCCHHHHHHHHHHHTTTCEEEECCSSBCHHHHHHHHHHHTC------------------SEEEEECCSTHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHhhCC------------------CEEEEecccccchHHHHHHH
Confidence            455666778889999999999864   367888888865554                  49999988874 22 34567


Q ss_pred             HHHHhcCCCCCCcEEEEccCCChHH
Q 026239           97 KKIKESSSLRDIPVVIMSSENVPSR  121 (241)
Q Consensus        97 ~~ir~~~~~~~ipvIils~~~~~~~  121 (241)
                      +.+++...  ++|||+-.+......
T Consensus        79 ~~l~~~g~--~~~vivGG~~~~~~~  101 (156)
T d3bula2          79 KEMERQGF--TIPLLIGGATTSKAH  101 (156)
T ss_dssp             HHHHHTTC--CSCEEEESTTCCHHH
T ss_pred             HHHHhccc--cceEEEecccccchH
Confidence            77777654  677776655544443

>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=93.38  E-value=0.16  Score=39.22  Aligned_cols=54  Identities=24%  Similarity=0.279  Sum_probs=43.1

Q ss_pred             EEEEeCCCCCCCH-----HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           80 LVITDYCMPGMTG-----YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        80 lIilD~~mp~~~g-----~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      .+++-+..|-.+|     ...++.|++..   ++|||+=.+-..++.+..+++.|+|++|.-
T Consensus       148 ~avMPlgsPIGSg~Gl~n~~~l~~i~~~~---~vPvIvDAGIG~pSdAa~AMElG~daVLvN  206 (251)
T d1xm3a_         148 HAIMPGASPIGSGQGILNPLNLSFIIEQA---KVPVIVDAGIGSPKDAAYAMELGADGVLLN  206 (251)
T ss_dssp             SCBEECSSSTTCCCCCSCHHHHHHHHHHC---SSCBEEESCCCSHHHHHHHHHTTCSEEEES
T ss_pred             hhHHHhhhhhhcCCCcCChHHHHHHHhcC---CccEEEecCCCCHHHHHHHHHccCCEEEec
Confidence            4566666664333     46778888763   799999999999999999999999999764

>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=93.34  E-value=0.8  Score=35.50  Aligned_cols=99  Identities=17%  Similarity=0.160  Sum_probs=67.6

Q ss_pred             HHHHhhcCC--CEEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHHHHhcCCCCCC
Q 026239           31 IERLLKTSS--YQVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKKIKESSSLRDI  108 (241)
Q Consensus        31 l~~~L~~~g--~~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~ir~~~~~~~i  108 (241)
                      ++..|+...  +-++.........+.+..                  ..||.|++|+.-...+--++...++.... ..+
T Consensus         7 lk~~l~~g~~~~G~~~~~~~p~~~ei~a~------------------~G~Dfv~iD~EHg~~~~~~~~~~i~a~~~-~g~   67 (253)
T d1dxea_           7 FKAALAAKQVQIGCWSALSNPISTEVLGL------------------AGFDWLVLDGEHAPNDISTFIPQLMALKG-SAS   67 (253)
T ss_dssp             HHHHHHTTCCEEEEEECSCSHHHHHHHTT------------------SCCSEEEEESSSSSCCHHHHHHHHHHTTT-CSS
T ss_pred             HHHHHHCCCCEEEEEecCCCHHHHHHHHc------------------CCCCEEEEecccCCCChhHHHHHHHHHhc-cCC
Confidence            455555432  223333445566677753                  34679999999888888787777776544 356


Q ss_pred             cEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhH
Q 026239          109 PVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKP  148 (241)
Q Consensus       109 pvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~  148 (241)
                      +.++=....++..+.++++.||++++.--+ +.++..+++.
T Consensus        68 ~~~VRvp~~~~~~i~~~LD~Ga~GIivP~v~s~eea~~~v~  108 (253)
T d1dxea_          68 APVVRVPTNEPVIIKRLLDIGFYNFLIPFVETKEEAELAVA  108 (253)
T ss_dssp             EEEEECSSSCHHHHHHHHHTTCCEEEESCCCSHHHHHHHHH
T ss_pred             CceecCCCCCHHHHHHHHhcCccEEEecccCCHHHHHHHHH
Confidence            666666678999999999999999988666 4555555443

>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=93.17  E-value=0.36  Score=37.30  Aligned_cols=64  Identities=14%  Similarity=0.164  Sum_probs=48.4

Q ss_pred             EEEEeCCCCC-----CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc-----CCCCHHHHHHh
Q 026239           80 LVITDYCMPG-----MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL-----KPVRLSDLNKL  146 (241)
Q Consensus        80 lIilD~~mp~-----~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~-----KP~~~~~L~~~  146 (241)
                      .+++-+.-|-     ......++.|++..   ++|||+=.+-..++++..+++.|+|++|.     |--++..+.+.
T Consensus       150 ~~vMplgsPIGsg~Gi~n~~~l~~i~~~~---~vpvivdAGIg~psdaa~AMElG~dgVLvnsaIa~A~dP~~mA~A  223 (243)
T d1wv2a_         150 IAVMPLAGLIGSGLGICNPYNLRIILEEA---KVPVLVDAGVGTASDAAIAMELGCEAVLMNTAIAHAKDPVMMAEA  223 (243)
T ss_dssp             SEEEECSSSTTCCCCCSCHHHHHHHHHHC---SSCBEEESCCCSHHHHHHHHHHTCSEEEESHHHHTSSSHHHHHHH
T ss_pred             eeeeecccccccccccccHHHHHhccccC---CcceEeecccCCHHHHHHHHHccCCEEEechHhhcCCCHHHHHHH
Confidence            4677777773     33345677777753   79999999999999999999999999975     55566666443

>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=91.42  E-value=0.15  Score=37.44  Aligned_cols=93  Identities=13%  Similarity=0.088  Sum_probs=60.2

Q ss_pred             EEEEeCCHHHHHHHHHHhh----cC-CC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           18 VLAVDDSIIDRKLIERLLK----TS-SY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~----~~-g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      |||-|.+......+...++    .. .. -.+.+++.+++.+.+..                   .+|+|++|- |...+
T Consensus        53 ilikdNHi~~~g~i~~~i~~~k~~~~~~~I~VEv~s~~q~~~a~~~-------------------~~diImLDN-~sp~~  112 (169)
T d1qpoa1          53 ALIKDNHVAAAGSVVDALRAVRNAAPDLPCEVEVDSLEQLDAVLPE-------------------KPELILLDN-FAVWQ  112 (169)
T ss_dssp             EEECHHHHHHHSSHHHHHHHHHHHCTTSCEEEEESSHHHHHHHGGG-------------------CCSEEEEET-CCHHH
T ss_pred             EEeehhHHhHhcchhhhhhhhhhhcCCCceEEEeccHHHhhhhhhc-------------------CCcEEEecC-cChHh
Confidence            6777766655444444432    22 22 33478999999998743                   367999994 43333


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF  133 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~  133 (241)
                      --++++.++...   .-.++-.|+.-+.+.+......|+|-+
T Consensus       113 ~k~~v~~~~~~~---~~i~lEaSGgI~~~ni~~ya~~GvD~I  151 (169)
T d1qpoa1         113 TQTAVQRRDSRA---PTVMLESSGGLSLQTAATYAETGVDYL  151 (169)
T ss_dssp             HHHHHHHHHHHC---TTCEEEEESSCCTTTHHHHHHTTCSEE
T ss_pred             HHHHHHHhhccC---CeeEEEEeCCCCHHHHHHHHHcCCCEE
Confidence            445566666544   335666888888888988889998643

>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=90.91  E-value=0.73  Score=32.36  Aligned_cols=100  Identities=13%  Similarity=0.072  Sum_probs=56.9

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCCEEEEEC-CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVD-SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT   91 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~   91 (241)
                      +....|++||.++.........+...|+.+...+ +-.+.|+..+-..                  .+.||+-..- +..
T Consensus        24 ~~~~~v~vId~d~~~~~~~~~~~~~~~~~vi~Gd~~d~~~L~~a~i~~------------------a~~vi~~~~~-d~~   84 (153)
T d1id1a_          24 QRGQNVTVISNLPEDDIKQLEQRLGDNADVIPGDSNDSSVLKKAGIDR------------------CRAILALSDN-DAD   84 (153)
T ss_dssp             HTTCCEEEEECCCHHHHHHHHHHHCTTCEEEESCTTSHHHHHHHTTTT------------------CSEEEECSSC-HHH
T ss_pred             HcCCCEEEEeccchhHHHHHHHhhcCCcEEEEccCcchHHHHHhcccc------------------CCEEEEcccc-HHH
Confidence            3457788888776543333333344577776543 3345556554332                  3467664322 233


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      -..++-.+|+..+  .++||+.+..  ++.......+|++.++.
T Consensus        85 n~~~~~~~r~~~~--~~~iia~~~~--~~~~~~l~~~Gad~vi~  124 (153)
T d1id1a_          85 NAFVVLSAKDMSS--DVKTVLAVSD--SKNLNKIKMVHPDIILS  124 (153)
T ss_dssp             HHHHHHHHHHHTS--SSCEEEECSS--GGGHHHHHTTCCSEEEC
T ss_pred             HHHHHHHHHHhCC--CCceEEEEcC--HHHHHHHHHCCCCEEEC
Confidence            4555666777654  7788877644  45555667889976543

>d1xi3a_ c.1.3.1 (A:) Thiamin phosphate synthase {Archaeon (Pyrococcus furiosus) [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Thiamin phosphate synthase
family: Thiamin phosphate synthase
domain: Thiamin phosphate synthase
species: Archaeon (Pyrococcus furiosus) [TaxId: 2261]

Probab=90.60  E-value=1.6  Score=32.33  Aligned_cols=63  Identities=22%  Similarity=0.359  Sum_probs=45.1

Q ss_pred             cccEEEEeCCCCC-------CCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccc-----ccCCCCHHHH
Q 026239           77 GVNLVITDYCMPG-------MTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEF-----FLKPVRLSDL  143 (241)
Q Consensus        77 ~~dlIilD~~mp~-------~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~-----l~KP~~~~~L  143 (241)
                      .+|.|++.-..+.       .-|++.++++.+..   .+||+++.+- +.+.+..+++.||+++     |...-++...
T Consensus       119 g~DYi~~gpvf~T~tk~~~~~~g~~~l~~~~~~~---~~Pv~AiGGI-~~~ni~~~~~~Ga~gvAvis~I~~~~dp~~~  193 (206)
T d1xi3a_         119 GADYLGAGSVFPTKTKEDARVIGLEGLRKIVESV---KIPVVAIGGI-NKDNAREVLKTGVDGIAVISAVMGAEDVRKA  193 (206)
T ss_dssp             TCSEEEEECSSCC----CCCCCHHHHHHHHHHHC---SSCEEEESSC-CTTTHHHHHTTTCSEEEESHHHHTSSSHHHH
T ss_pred             CCCEEEeccccccccccccccccHHHHHHHHHhc---CCCEEEECCC-CHHHHHHHHHhCCCEEEEhHHHHCCCCHHHH
Confidence            3568888765542       13899999998764   6899999884 4556888999999988     5444444433

>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=90.43  E-value=2.2  Score=33.72  Aligned_cols=105  Identities=13%  Similarity=0.148  Sum_probs=65.9

Q ss_pred             HHHHHHHHhhcCCC---EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHHHHHH---HH
Q 026239           27 DRKLIERLLKTSSY---QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYDLLKK---IK  100 (241)
Q Consensus        27 ~~~~l~~~L~~~g~---~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~ll~~---ir  100 (241)
                      ++..|+..+...+-   -++..-......+.+...                  .||.|++|+.-...|--++...   ++
T Consensus        27 ~r~~l~~~~~~~~~~~~G~~~~~~s~~~~e~~a~~------------------g~D~v~iD~EHg~~~~~~~~~~i~a~~   88 (299)
T d1izca_          27 LRQALKDAMADPSKTLMGVAHGIPSTFVTKVLAAT------------------KPDFVWIDVEHGMFNRLELHDAIHAAQ   88 (299)
T ss_dssp             HHHHHHHHHHCGGGCEEEEEECSCCHHHHHHHHHT------------------CCSEEEEETTTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccCCceeeeeccCCCHHHHHHHHcC------------------CCCEEEEcCCCCCCCHHHHHHHHHHHH
Confidence            57777777764332   223223344555666443                  4669999999877775555444   44


Q ss_pred             hcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCC-CHHHHHHhhHHH
Q 026239          101 ESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPV-RLSDLNKLKPHL  150 (241)
Q Consensus       101 ~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~-~~~~L~~~~~~l  150 (241)
                      .... ..++.++=....+...+.++|+.||++++.-=+ +.++..+++...
T Consensus        89 ~~~~-~~~~~iVRvp~~~~~~I~~~LD~Ga~GIivP~V~s~eea~~~v~~~  138 (299)
T d1izca_          89 HHSE-GRSLVIVRVPKHDEVSLSTALDAGAAGIVIPHVETVEEVREFVKEM  138 (299)
T ss_dssp             HHTT-TCSEEEEECCTTCHHHHHHHHHHTCSEEEETTCCCHHHHHHHHHHH
T ss_pred             HhCC-CCCCeEEeCCCCChHHHHHHHHhCcCeeeccccccHHHHHHHHHhh
Confidence            3332 134445555667889999999999999987545 456666655543

>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=88.32  E-value=0.14  Score=37.53  Aligned_cols=92  Identities=18%  Similarity=0.208  Sum_probs=58.7

Q ss_pred             EEEEeCCHHHHHHHHHHhhc----CCC---EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           18 VLAVDDSIIDRKLIERLLKT----SSY---QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        18 ILiVdd~~~~~~~l~~~L~~----~g~---~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      |||-|.+......+...++.    .++   -.+.+++.+++++++..                   .+|+|++|- |...
T Consensus        51 ilikdNHi~~~g~~~~~~~~~~~~~~~~~~I~VEv~~~~e~~~a~~~-------------------g~d~i~LDn-~~pe  110 (170)
T d1o4ua1          51 VMIKDNHLKMYGSAERAVQEVRKIIPFTTKIEVEVENLEDALRAVEA-------------------GADIVMLDN-LSPE  110 (170)
T ss_dssp             EEECHHHHHHHSSHHHHHHHHHTTSCTTSCEEEEESSHHHHHHHHHT-------------------TCSEEEEES-CCHH
T ss_pred             eEEcccHHHHhccHHHHHHHHHhhCCCCceEEEEeCcHHHHHHHHhc-------------------CccEEEEcC-cChh
Confidence            67777766655445554432    222   34478999999998742                   367999994 3322


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEE  132 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~  132 (241)
                      +--++.+.++...+  . ..|-.|+.-..+.+......|+|-
T Consensus       111 ~~k~~~~~lk~~~~--~-i~lEaSGGI~~~ni~~~a~~GVD~  149 (170)
T d1o4ua1         111 EVKDISRRIKDINP--N-VIVEVSGGITEENVSLYDFETVDV  149 (170)
T ss_dssp             HHHHHHHHHHHHCT--T-SEEEEEECCCTTTGGGGCCTTCCE
T ss_pred             hHhHHHHHHHhhCC--c-EEEEEECCCCHHHHHHHHHcCCCE
Confidence            33345566776543  3 456677777778777777788863

>d7reqb2 c.23.6.1 (B:476-638) Methylmalonyl-CoA mutase beta subunit, C-terminal domain {Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Cobalamin (vitamin B12)-binding domain
family: Cobalamin (vitamin B12)-binding domain
domain: Methylmalonyl-CoA mutase beta subunit, C-terminal domain
species: Propionibacterium freudenreichii, subsp. shermanii [TaxId: 1744]

Probab=87.30  E-value=0.49  Score=34.25  Aligned_cols=109  Identities=7%  Similarity=0.004  Sum_probs=63.7

Q ss_pred             CcceEEEE--eCCH---HHHHHHHHHhhcCCCEEEEE--CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCC
Q 026239           14 SQFHVLAV--DDSI---IDRKLIERLLKTSSYQVTTV--DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYC   86 (241)
Q Consensus        14 ~~~~ILiV--dd~~---~~~~~l~~~L~~~g~~v~~~--~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~   86 (241)
                      .+.+|+++  ....   .-......+|...||+|...  -+..++.+.+....                  .|+|++-..
T Consensus        34 ~rP~v~la~lG~~a~h~ara~f~~n~f~~gGfev~~~~~~~~~e~v~aa~~~~------------------a~vvvicss   95 (163)
T d7reqb2          34 ERPKVFLACLGTRRDFGGREGFSSPVWHIAGIDTPQVEGGTTAEIVEAFKKSG------------------AQVADLCSS   95 (163)
T ss_dssp             SCCBCEEEECSCHHHHHHHHHHHHHHHHHTTCBCCEEESCCHHHHHHHHHHHT------------------CSEEEEECC
T ss_pred             CCCeEEEEcCCChhhhhhHHHHHHHHHHccCeeeccCCCCCcHHHHHHHHhCC------------------CCEEEEecC
Confidence            34666654  3332   23456788899999987642  35566666665443                  346665333


Q ss_pred             CCCC--CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239           87 MPGM--TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        87 mp~~--~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      +...  -+-++++.||+...  +.. |++.+.........+.+.|+++||.--.+.-+.
T Consensus        96 d~~y~~~~~~~~~aLk~ag~--~~~-vlaGg~~~~~d~~~l~~aGVd~~i~~G~d~~~~  151 (163)
T d7reqb2          96 AKVYAQQGLEVAKALKAAGA--KAL-YLSGAFKEFGDDAAEAEKLIDGRLFMGMDVVDT  151 (163)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC--SEE-EEESCGGGGGGGHHHHHHHCCEEECTTCCHHHH
T ss_pred             ccchHHHHHHHHHHHHhccc--cee-EEEecCCCcccHHHHHhCCCCeEecCCCcHHHH
Confidence            2211  12368899998653  333 223333334445567789999999887765544

>d1thfd_ c.1.2.1 (D:) Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF {Thermotoga maritima [TaxId: 2336]}

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: Thermotoga maritima [TaxId: 2336]

Probab=86.17  E-value=1.2  Score=34.16  Aligned_cols=53  Identities=11%  Similarity=0.317  Sum_probs=43.6

Q ss_pred             EEEEeCCCCCC-CH--HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM-TG--YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~g--~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +|++|+.--|+ .|  +++++.++...   ++|+|+-.+-.+.+.+.+++..|+++.+.
T Consensus       168 ii~tdI~~dGt~~G~d~~ll~~i~~~~---~~pvi~~GGv~s~~di~~l~~~g~~gviv  223 (253)
T d1thfd_         168 ILLTSIDRDGTKSGYDTEMIRFVRPLT---TLPIIASGGAGKMEHFLEAFLAGADAALA  223 (253)
T ss_dssp             EEEEETTTTTSCSCCCHHHHHHHGGGC---CSCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             EEEEEecccCccCCccccccccccccc---cceEEEecCCCCHHHHHHHHHCCCCEEEE
Confidence            99999987763 44  78899997653   78999888888899999999999988754

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=85.99  E-value=1.6  Score=31.64  Aligned_cols=82  Identities=15%  Similarity=0.118  Sum_probs=52.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCC-EEEEECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSY-QVTTVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG   92 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~-~v~~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g   92 (241)
                      ..-+|..||-+......+..-++..+. .+.+...  +++.++..                ....||+|++|---.....
T Consensus        65 Ga~~v~~VE~~~~a~~~~k~N~~~~~~~~~~ii~~--d~~~~l~~----------------~~~~fDlIf~DPPY~~~~~  126 (183)
T d2fpoa1          65 YAAGATLIEMDRAVSQQLIKNLATLKAGNARVVNS--NAMSFLAQ----------------KGTPHNIVFVDPPFRRGLL  126 (183)
T ss_dssp             TCSEEEEECSCHHHHHHHHHHHHHTTCCSEEEECS--CHHHHHSS----------------CCCCEEEEEECCSSSTTTH
T ss_pred             CcceeEEEEEeechhhHHHHHHhhccccceeeeee--cccccccc----------------cccccCEEEEcCccccchH
Confidence            345899999999999999988876654 3333221  35666642                2346899999943234456


Q ss_pred             HHHHHHHHhcCCCCCCcEEEE
Q 026239           93 YDLLKKIKESSSLRDIPVVIM  113 (241)
Q Consensus        93 ~~ll~~ir~~~~~~~ipvIil  113 (241)
                      ..++..|.+...+..--+|++
T Consensus       127 ~~~l~~l~~~~~L~~~~iIii  147 (183)
T d2fpoa1         127 EETINLLEDNGWLADEALIYV  147 (183)
T ss_dssp             HHHHHHHHHTTCEEEEEEEEE
T ss_pred             HHHHHHHHHCCCCCCCeEEEE
Confidence            678888876543333335554

>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=85.77  E-value=1.1  Score=34.53  Aligned_cols=53  Identities=19%  Similarity=0.344  Sum_probs=43.8

Q ss_pred             EEEEeCCCCCC-CH--HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhccccccc
Q 026239           80 LVITDYCMPGM-TG--YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFL  135 (241)
Q Consensus        80 lIilD~~mp~~-~g--~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~  135 (241)
                      +|++|+.--|+ .|  +++++.+....   ++|+|+..+-.+.+.+.++++.|+++.+.
T Consensus       168 ii~tdi~~dG~~~G~d~~l~~~i~~~~---~~pii~~GGv~~~~dl~~l~~~g~~gvii  223 (251)
T d1ka9f_         168 ILLTSMDRDGTKEGYDLRLTRMVAEAV---GVPVIASGGAGRMEHFLEAFQAGAEAALA  223 (251)
T ss_dssp             EEEEETTTTTTCSCCCHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEE
T ss_pred             EEEEeecccCccCCcchhHHHHHHhhc---ceeEEEecCCCCHHHHHHHHHCCCCEEEE
Confidence            99999987663 34  78899988754   68999988888999999999999988754

>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=85.67  E-value=1.3  Score=33.39  Aligned_cols=56  Identities=18%  Similarity=0.286  Sum_probs=33.3

Q ss_pred             eCCCCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHH
Q 026239           84 DYCMPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDL  143 (241)
Q Consensus        84 D~~mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L  143 (241)
                      .+.|-.-..++.++.+++..+  ++ +|-..+-.+.+.+..+.++||+ |+.-|....++
T Consensus        45 Eitl~tp~a~~~I~~l~~~~p--~~-~vGaGTV~~~~~~~~a~~aGa~-FivSP~~~~~v  100 (213)
T d1wbha1          45 NVTLRTECAVDAIRAIAKEVP--EA-IVGAGTVLNPQQLAEVTEAGAQ-FAISPGLTEPL  100 (213)
T ss_dssp             EEESCSTTHHHHHHHHHHHCT--TS-EEEEESCCSHHHHHHHHHHTCS-CEEESSCCHHH
T ss_pred             EEeCCChhHHHHHHHHHHHCC--CC-eeeccccccHHHHHHHHHCCCc-EEECCCCCHHH
Confidence            334444456777777776543  43 3444455567777778888874 66666544444

>d1kzyc2 c.15.1.4 (C:1867-1972) 53BP1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: BRCT domain
superfamily: BRCT domain
family: 53BP1
domain: 53BP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.55  E-value=0.28  Score=32.84  Aligned_cols=82  Identities=26%  Similarity=0.296  Sum_probs=53.4

Q ss_pred             CcceEEEEeCCH-HHHHHHHHHhhcCCCEEEEE--CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCC
Q 026239           14 SQFHVLAVDDSI-IDRKLIERLLKTSSYQVTTV--DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGM   90 (241)
Q Consensus        14 ~~~~ILiVdd~~-~~~~~l~~~L~~~g~~v~~~--~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~   90 (241)
                      ..++||++.|.. .+++....+|...|..++..  .+..+      .   |           .....+|+|++|-.+|. 
T Consensus         4 ~~l~vl~vs~~~~~F~e~Ws~IL~~~Ga~vV~~~~~~~~~------s---d-----------~~~~~~DVvvTD~scp~-   62 (106)
T d1kzyc2           4 QNLKVLLVSDQQQNFLELWSEILMTGGAASVKQHHSSAHN------K---D-----------IALGVFDVVVTDPSCPA-   62 (106)
T ss_dssp             TTCEEEEEESCTTTTHHHHHHHHHHTTCSEEEEEESSSSC------C---C-----------SCGGGCSEEEECTTCCH-
T ss_pred             cceEEEEEecccccHHHHHHHHHHhCCceEeeccccchhh------c---c-----------CccccccEEEeCCCCCH-
Confidence            468999998854 57899999999999865532  22111      0   0           12345889999998774 


Q ss_pred             CHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc
Q 026239           91 TGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG  129 (241)
Q Consensus        91 ~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G  129 (241)
                         ++++.....    ++|||      ..+-+..++=.|
T Consensus        63 ---~vl~~a~~~----~ipvV------S~EWVIQsLI~G   88 (106)
T d1kzyc2          63 ---SVLKCAEAL----QLPVV------SQEWVIQCLIVG   88 (106)
T ss_dssp             ---HHHHHHHHH----TCCEE------CHHHHHHHHHHT
T ss_pred             ---HHHHHHHHc----CCcEe------eHHHHHHHHHcc
Confidence               556655543    67886      345666666554

>d2f1ka2 c.2.1.6 (A:1-165) Prephenate dehydrogenase TyrA {Synechocystis sp. pcc 6803 [TaxId: 1148]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: 6-phosphogluconate dehydrogenase-like, N-terminal domain
domain: Prephenate dehydrogenase TyrA
species: Synechocystis sp. pcc 6803 [TaxId: 1148]

Probab=84.54  E-value=4.8  Score=28.02  Aligned_cols=104  Identities=11%  Similarity=-0.019  Sum_probs=53.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEEEECCHHHHHHHhcccC-CCCCCCCCCCCCCcccccccEEEEeCCCCCCCHHH
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLHE-DDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGYD   94 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~-~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~~   94 (241)
                      |||.||.- ..+-..+...|...||+|+.++...+.++.+.... -|.     .......-.+.|+||+  ..|...-.+
T Consensus         1 MkI~iIG~-G~mG~~lA~~l~~~g~~V~~~d~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~DiIil--avp~~~~~~   72 (165)
T d2f1ka2           1 MKIGVVGL-GLIGASLAGDLRRRGHYLIGVSRQQSTCEKAVERQLVDE-----AGQDLSLLQTAKIIFL--CTPIQLILP   72 (165)
T ss_dssp             CEEEEECC-SHHHHHHHHHHHHTTCEEEEECSCHHHHHHHHHTTSCSE-----EESCGGGGTTCSEEEE--CSCHHHHHH
T ss_pred             CEEEEEee-cHHHHHHHHHHHHCCCEEEEEECCchHHHHHHHhhccce-----eeeecccccccccccc--cCcHhhhhh
Confidence            46666654 33444556667777888887765444444433211 010     0001112245789997  456555567


Q ss_pred             HHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhc
Q 026239           95 LLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEG  129 (241)
Q Consensus        95 ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~G  129 (241)
                      +++.+.....  .-.+|+-++...........+..
T Consensus        73 vl~~l~~~l~--~~~iv~~~~s~~~~~~~~~~~~~  105 (165)
T d2f1ka2          73 TLEKLIPHLS--PTAIVTDVASVKTAIAEPASQLW  105 (165)
T ss_dssp             HHHHHGGGSC--TTCEEEECCSCCHHHHHHHHHHS
T ss_pred             hhhhhhhhcc--cccceeeccccchHHHHHHHHhh
Confidence            8888876533  44455545444444444433443

>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=84.04  E-value=2.9  Score=30.22  Aligned_cols=85  Identities=15%  Similarity=0.168  Sum_probs=55.4

Q ss_pred             cCcceEEEEeCCHHHHHHHHHHhhcCCC--EEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC
Q 026239           13 ESQFHVLAVDDSIIDRKLIERLLKTSSY--QVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG   89 (241)
Q Consensus        13 ~~~~~ILiVdd~~~~~~~l~~~L~~~g~--~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~   89 (241)
                      ...-+|..||-+......+..-++..+.  .+. ...+..++++.+..                ....||+|++|---..
T Consensus        62 rGa~~v~~ve~~~~a~~~~~~N~~~~~~~~~~~i~~~D~~~~l~~~~~----------------~~~~fDlIflDPPY~~  125 (182)
T d2fhpa1          62 RGMDKSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYE----------------EKLQFDLVLLDPPYAK  125 (182)
T ss_dssp             TTCSEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHH----------------TTCCEEEEEECCCGGG
T ss_pred             cchhHHHHHHHHHHHHHHHHHHhhhhhcccccccccccchhhhhhhcc----------------cCCCcceEEechhhhh
Confidence            3345899999999999998888765543  333 56788888876532                2345899999842223


Q ss_pred             CCHHHHHHHHHhcCCCCCCcEEEE
Q 026239           90 MTGYDLLKKIKESSSLRDIPVVIM  113 (241)
Q Consensus        90 ~~g~~ll~~ir~~~~~~~ipvIil  113 (241)
                      .....++..|.+......--+|++
T Consensus       126 ~~~~~~l~~i~~~~~L~~~giIi~  149 (182)
T d2fhpa1         126 QEIVSQLEKMLERQLLTNEAVIVC  149 (182)
T ss_dssp             CCHHHHHHHHHHTTCEEEEEEEEE
T ss_pred             hHHHHHHHHHHHCCCCCCCEEEEE
Confidence            456788888865433223334544

>d1geqa_ c.1.2.4 (A:) Trp synthase alpha-subunit {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=83.60  E-value=3.8  Score=31.37  Aligned_cols=99  Identities=19%  Similarity=0.286  Sum_probs=62.9

Q ss_pred             eEEEEeCCHHHHHHHHHHhhcCCCEEE-E-E-CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCH-
Q 026239           17 HVLAVDDSIIDRKLIERLLKTSSYQVT-T-V-DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTG-   92 (241)
Q Consensus        17 ~ILiVdd~~~~~~~l~~~L~~~g~~v~-~-~-~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g-   92 (241)
                      -++++|........+...++..|...+ . + .+..+-++.+......                  .|-+ ..+.|.+| 
T Consensus       111 GliipDLP~eE~~~~~~~~~~~gl~~I~lvaPtt~~~ri~~i~~~s~g------------------FiY~-vs~~GvTG~  171 (248)
T d1geqa_         111 GILVVDLPVFHAKEFTEIAREEGIKTVFLAAPNTPDERLKVIDDMTTG------------------FVYL-VSLYGTTGA  171 (248)
T ss_dssp             EEEETTCCGGGHHHHHHHHHHHTCEEEEEECTTCCHHHHHHHHHHCSS------------------EEEE-ECCC-----
T ss_pred             EEeccCCcHHHHHHHHhhccccCcceEEEecccchhHHHHHHHhcCCC------------------eEEE-Eeccccccc
Confidence            355666666667777788887887654 2 2 3555666555433222                  2322 13334433 


Q ss_pred             --------HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           93 --------YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        93 --------~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                              .++++++|+..   ++||++=-+-.+++.+..+++.|||+.+.-.
T Consensus       172 ~~~~~~~~~~~v~~vk~~t---~~Pv~vGFGI~~~e~v~~~~~~~ADGvIVGS  221 (248)
T d1geqa_         172 REEIPKTAYDLLRRAKRIC---RNKVAVGFGVSKREHVVSLLKEGANGVVVGS  221 (248)
T ss_dssp             --CCCHHHHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEECH
T ss_pred             chhhhhhHHHHHHHHhhhc---ccceeeecccCCHHHHHHHHhcCCCEEEECH
Confidence                    56788888863   7899986666778888888999999998865

>d1h5ya_ c.1.2.1 (A:) Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

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: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=83.48  E-value=1.6  Score=33.60  Aligned_cols=54  Identities=19%  Similarity=0.375  Sum_probs=44.4

Q ss_pred             EEEEeCCCCCC-CH--HHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239           80 LVITDYCMPGM-TG--YDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus        80 lIilD~~mp~~-~g--~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      ++++|+.--|+ .|  +++++.++...   ++|+++-.+-...+.+..+...|+++.+.-
T Consensus       170 ii~tdI~~dG~~~G~d~~~~~~i~~~~---~~pii~~GGv~~~~di~~l~~~g~~gv~~g  226 (252)
T d1h5ya_         170 ILLTSIDRDGTGLGYDVELIRRVADSV---RIPVIASGGAGRVEHFYEAAAAGADAVLAA  226 (252)
T ss_dssp             EEEEETTTTTTCSCCCHHHHHHHHHHC---SSCEEEESCCCSHHHHHHHHHTTCSEEEES
T ss_pred             EEEEeecccCccCCcCHHHHHHHHHhc---CCCEEEecCCCCHHHHHHHHHCCCCEEEEh
Confidence            99999987663 45  78999998754   689998888888899999999999887553

>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=83.46  E-value=1.7  Score=32.75  Aligned_cols=54  Identities=17%  Similarity=0.249  Sum_probs=32.9

Q ss_pred             CCCCCHHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCCCCHHHHH
Q 026239           87 MPGMTGYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKPVRLSDLN  144 (241)
Q Consensus        87 mp~~~g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP~~~~~L~  144 (241)
                      +..-+.++.++.+++..+  ++ +|-..+--+.+.+..+.++|| +|+.-|....++.
T Consensus        50 l~~p~a~~~i~~l~~~~p--~~-~vGaGTV~~~~~~~~a~~aGa-~FivsP~~~~~v~  103 (216)
T d1mxsa_          50 LRSQHGLKAIQVLREQRP--EL-CVGAGTVLDRSMFAAVEAAGA-QFVVTPGITEDIL  103 (216)
T ss_dssp             SSSTHHHHHHHHHHHHCT--TS-EEEEECCCSHHHHHHHHHHTC-SSEECSSCCHHHH
T ss_pred             CCChhHHHHHHHHHHhCC--Cc-ceeeeeeecHHHHHHHHhCCC-CEEECCCCcHHHH
Confidence            334456677777776543  43 344444556777778888888 5666676555543

>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=82.67  E-value=3.1  Score=27.91  Aligned_cols=93  Identities=14%  Similarity=0.144  Sum_probs=55.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhhcCCCEEEEEC-CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCCHH
Q 026239           15 QFHVLAVDDSIIDRKLIERLLKTSSYQVTTVD-SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMTGY   93 (241)
Q Consensus        15 ~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~g~   93 (241)
                      ...|.+||.++.....+    ...|+.+...+ +..+.|+..+-..                  .+.+|+-.. .+...+
T Consensus        21 ~~~i~vi~~d~~~~~~~----~~~~~~~i~Gd~~~~~~L~~a~i~~------------------A~~vi~~~~-~d~~n~   77 (129)
T d2fy8a1          21 GSEVFVLAEDENVRKKV----LRSGANFVHGDPTRVSDLEKANVRG------------------ARAVIVNLE-SDSETI   77 (129)
T ss_dssp             GGGEEEEESCTTHHHHH----HHTTCEEEESCTTSHHHHHHTTCTT------------------CSEEEECCS-SHHHHH
T ss_pred             CCCCEEEEcchHHHHHH----HhcCccccccccCCHHHHHHhhhhc------------------CcEEEEecc-chhhhH
Confidence            45677888777655433    44677776543 2345566554332                  336666332 123455


Q ss_pred             HHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           94 DLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        94 ~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      .++..+|...+  ++++|+.+..  ++.......+|++..+
T Consensus        78 ~~~~~~r~~~~--~~~iia~~~~--~~~~~~l~~~G~d~vi  114 (129)
T d2fy8a1          78 HCILGIRKIDE--SVRIIAEAER--YENIEQLRMAGADQVI  114 (129)
T ss_dssp             HHHHHHHHHCS--SSCEEEECSS--GGGHHHHHHHHCSEEE
T ss_pred             HHHHHHHHHCC--CceEEEEEcC--HHHHHHHHHCCCCEEE
Confidence            56777777654  7788877653  4556667788998765

>d1qopa_ c.1.2.4 (A:) Trp synthase alpha-subunit {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Trp synthase alpha-subunit
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.65  E-value=2.8  Score=32.49  Aligned_cols=100  Identities=15%  Similarity=0.140  Sum_probs=66.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcCCCEEE-EE--CCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCCCC-
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTSSYQVT-TV--DSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPGMT-   91 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~g~~v~-~~--~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~~~-   91 (241)
                      --++|+|-.+.....+...++..|.... .+  .+..+-+..+......                | +..+-  +.|.+ 
T Consensus       124 ~GliipDlP~ee~~~~~~~~~~~~l~~I~lvaPtt~~~Ri~~i~~~a~g----------------F-iY~vs--~~GvTG  184 (267)
T d1qopa_         124 DSVLVADVPVEESAPFRQAALRHNIAPIFICPPNADDDLLRQVASYGRG----------------Y-TYLLS--RSGVTG  184 (267)
T ss_dssp             CEEEETTCCGGGCHHHHHHHHHTTCEEECEECTTCCHHHHHHHHHHCCS----------------C-EEEES--SSSCCC
T ss_pred             CceeccchhhhhhHHHHHhhhccCceEEEEecccccHHHHHHHHhhCch----------------h-hhhhc--ccccCC
Confidence            3467777777777778888888887655 22  3455556666543322                1 22332  22322 


Q ss_pred             --------HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccccCC
Q 026239           92 --------GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLKP  137 (241)
Q Consensus        92 --------g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~KP  137 (241)
                              -.++++++|+..   ++||++=-+-.+++.+..+++.|||+++.-.
T Consensus       185 ~~~~~~~~~~~~i~~ik~~t---~~Pv~vGFGI~~~e~v~~~~~~~ADGvIVGS  235 (267)
T d1qopa_         185 AENRGALPLHHLIEKLKEYH---AAPALQGFGISSPEQVSAAVRAGAAGAISGS  235 (267)
T ss_dssp             SSSCC--CCHHHHHHHHHTT---CCCEEEESSCCSHHHHHHHHHTTCSEEEECH
T ss_pred             cccccchhHHHHHHHHhhhc---cCCceeecccCCHHHHHHHHhcCCCEEEECH
Confidence                    257888998753   7999987777788888888999999998764

>d1xeaa1 c.2.1.3 (A:2-122,A:267-312) Putative oxidoreductase VCA1048 {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: Putative oxidoreductase VCA1048
species: Vibrio cholerae [TaxId: 666]

Probab=82.17  E-value=1.5  Score=31.11  Aligned_cols=40  Identities=15%  Similarity=0.130  Sum_probs=22.4

Q ss_pred             ceEEEEeCCHHHHHHHHHHhhcC-CCEEEEECCHHHHHHHh
Q 026239           16 FHVLAVDDSIIDRKLIERLLKTS-SYQVTTVDSGSKALEFL   55 (241)
Q Consensus        16 ~~ILiVdd~~~~~~~l~~~L~~~-g~~v~~~~~~~~al~~l   55 (241)
                      +||.||.--..........|... ++++..++...+..+.+
T Consensus         2 irvgiiG~G~~~~~~~~~~l~~~~~~~~~~~d~~~~~~~~~   42 (167)
T d1xeaa1           2 LKIAMIGLGDIAQKAYLPVLAQWPDIELVLCTRNPKVLGTL   42 (167)
T ss_dssp             EEEEEECCCHHHHHTHHHHHTTSTTEEEEEECSCHHHHHHH
T ss_pred             eEEEEEcCCHHHHHHHHHHHHhCCCcEEEEEECCHHHHHHH
Confidence            67778876655444344455443 56666665554444444

>d2basa1 c.1.33.1 (A:2-262) Hypothetical protein YkuI, N-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: EAL domain-like
family: EAL domain
domain: Hypothetical protein YkuI, N-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=82.09  E-value=1.8  Score=33.10  Aligned_cols=91  Identities=11%  Similarity=0.147  Sum_probs=54.4

Q ss_pred             HHHHHhhcCCCEEEE--ECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCC----C-CCCHHHHHHHHHhc
Q 026239           30 LIERLLKTSSYQVTT--VDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCM----P-GMTGYDLLKKIKES  102 (241)
Q Consensus        30 ~l~~~L~~~g~~v~~--~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~m----p-~~~g~~ll~~ir~~  102 (241)
                      .+-..|+..||.+..  +.++...++.+...                  ++|.|=+|..+    . +..+-.+++.|-..
T Consensus       136 ~~l~~L~~~G~~lalddfG~~~~sl~~L~~l------------------~~d~IKld~s~i~~~~~~~~~~~~l~~l~~~  197 (261)
T d2basa1         136 HMLAYYRTYGIKIAVDNIGKESSNLDRIALL------------------SPDLLKIDLQALKVSQPSPSYEHVLYSISLL  197 (261)
T ss_dssp             HHHHHHHTTTCEEEEEEETTTBCCHHHHHHH------------------CCSEEEEECTTTC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCceeeecCCccCccchhHHhhh------------------hhhhhhcccccccccccchhhHHHHHHHHHH
Confidence            334456778987764  55554445555333                  35589999663    2 23344455555322


Q ss_pred             CCCCCCcEEEEccCCChHHHHHHHHhcccc----cccCCCC
Q 026239          103 SSLRDIPVVIMSSENVPSRISRCLEEGAEE----FFLKPVR  139 (241)
Q Consensus       103 ~~~~~ipvIils~~~~~~~~~~~l~~Ga~~----~l~KP~~  139 (241)
                      ....+++|| .++-.+......+.+.|++.    |+.||..
T Consensus       198 a~~~~~~vI-aeGVE~~~~~~~l~~lg~d~~QG~~~~~P~~  237 (261)
T d2basa1         198 ARKIGAALL-YEDIEANFQLQYAWRNGGRYFQGYYLVSPSE  237 (261)
T ss_dssp             HHHHTCEEE-EECCCSHHHHHHHHHTTEEEECSTTTCCCBS
T ss_pred             HHHcCCEEE-EEeCCcHHHHHHHHHcCCCEEECCcccccCC
Confidence            111145544 66767788888899999875    6888865

>d1lssa_ c.2.1.9 (A:) Ktn Mja218 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

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: Ktn Mja218
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=80.51  E-value=6.1  Score=26.42  Aligned_cols=93  Identities=14%  Similarity=-0.013  Sum_probs=45.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhhcCCCEEEEEC-CHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeCCCCC-CC
Q 026239           14 SQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVD-SGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDYCMPG-MT   91 (241)
Q Consensus        14 ~~~~ILiVdd~~~~~~~l~~~L~~~g~~v~~~~-~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~~mp~-~~   91 (241)
                      ....|++||.|+.....+..   ..++.+...+ +..+.|+.++-..                  .|.+++=  .++ ..
T Consensus        22 ~g~~v~vid~d~~~~~~~~~---~~~~~vi~Gd~~~~~~l~~~~i~~------------------a~~vv~~--t~~d~~   78 (132)
T d1lssa_          22 KGHDIVLIDIDKDICKKASA---EIDALVINGDCTKIKTLEDAGIED------------------ADMYIAV--TGKEEV   78 (132)
T ss_dssp             TTCEEEEEESCHHHHHHHHH---HCSSEEEESCTTSHHHHHHTTTTT------------------CSEEEEC--CSCHHH
T ss_pred             CCCCcceecCChhhhhhhhh---hhhhhhccCcccchhhhhhcChhh------------------hhhhccc--CCcHHH
Confidence            34667777777665544332   2345444322 2334555443222                  3466652  222 12


Q ss_pred             HHHHHHHHHhcCCCCCCcEEEEccCCChHHHHHHHHhcccccc
Q 026239           92 GYDLLKKIKESSSLRDIPVVIMSSENVPSRISRCLEEGAEEFF  134 (241)
Q Consensus        92 g~~ll~~ir~~~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l  134 (241)
                      .+-++...+..+.   ..+|+.+..  ........++|++..+
T Consensus        79 N~~~~~~~k~~~~---~~iI~~~~~--~~~~~~l~~~G~d~vi  116 (132)
T d1lssa_          79 NLMSSLLAKSYGI---NKTIARISE--IEYKDVFERLGVDVVV  116 (132)
T ss_dssp             HHHHHHHHHHTTC---CCEEEECSS--TTHHHHHHHTTCSEEE
T ss_pred             HHHHHHHHHHcCC---ceEEEEecC--HHHHHHHHHCCCCEEE
Confidence            2333444455432   256555443  4455667789997554

>d1a53a_ c.1.2.4 (A:) Indole-3-glycerophosphate synthase, IPGS {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: Indole-3-glycerophosphate synthase, IPGS
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=80.11  E-value=10  Score=28.76  Aligned_cols=89  Identities=9%  Similarity=0.063  Sum_probs=55.8

Q ss_pred             HHHHHHHHhhcCCCEEE-EECCHHHHHHHhcccCCCCCCCCCCCCCCcccccccEEEEeC-CC--CCCCHHHHHHHHHhc
Q 026239           27 DRKLIERLLKTSSYQVT-TVDSGSKALEFLGLHEDDGQSSHSVYPNMHQEVGVNLVITDY-CM--PGMTGYDLLKKIKES  102 (241)
Q Consensus        27 ~~~~l~~~L~~~g~~v~-~~~~~~~al~~l~~~~~d~~~~~~~~~~~~~~~~~dlIilD~-~m--p~~~g~~ll~~ir~~  102 (241)
                      ....+...-...|.++. .+.+.+|+-..+...                   .++|=++- ++  ...|--...+.+...
T Consensus       140 ~l~~l~~~a~~lgl~~LvEvh~~~El~~a~~~~-------------------a~iIGINnRnL~t~~vd~~~~~~L~~~i  200 (247)
T d1a53a_         140 ELESLLEYARSYGMEPLIEINDENDLDIALRIG-------------------ARFIGINSRDLETLEINKENQRKLISMI  200 (247)
T ss_dssp             HHHHHHHHHHTTTCCCEEEECSHHHHHHHHHTT-------------------CSEEEEESBCTTTCCBCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhhhHHhhcCCHHHHHHHHhCC-------------------CCeEeeeccChhhhhhhhhHHHHHHhhC
Confidence            33444455556787654 788988887776432                   22544432 22  233433333333333


Q ss_pred             CCCCCCcEEEEccCCChHHHHHHHHhcccccccC
Q 026239          103 SSLRDIPVVIMSSENVPSRISRCLEEGAEEFFLK  136 (241)
Q Consensus       103 ~~~~~ipvIils~~~~~~~~~~~l~~Ga~~~l~K  136 (241)
                      +  .+..+|.-|+-...+.+.++.++|+++||.-
T Consensus       201 p--~~~~~IaESGI~t~~dv~~l~~~G~davLIG  232 (247)
T d1a53a_         201 P--SNVVKVAESGISERNEIEELRKLGVNAFLIG  232 (247)
T ss_dssp             C--TTSEEEEESCCCCHHHHHHHHHTTCCEEEEC
T ss_pred             C--CCCeEEEecCCCCHHHHHHHHHCCCCEEEEC
Confidence            2  3678888888889999999999999999864