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Conserved domains on  [gi|550766057|ref|WP_022649417|]
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MULTISPECIES: AraC family transcriptional regulator [Enterobacter]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 14388536)

AraC family transcriptional regulator containing a cupin domain as its effector domain and an AraC family helix-turn-helix (HTH) DNA binding domain, controls the expression of genes with diverse biological functions including metabolism, stress response, and virulence

CATH:  2.60.120.10
Gene Ontology:  GO:0003700|GO:0043565|GO:0006355
PubMed:  19478949|14697267|9573603|11282467|33837749|9409145|12270809
SCOP:  3001825

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
190-273 1.17e-24

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 94.16  E-value: 1.17e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057   190 KFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETP 269
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 550766057   270 LQYR 273
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
56-278 9.12e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.46  E-value: 9.12e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  56 RHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTIIHLDQHAVLKILRDFPQTRQRLERLSRRGGEAWVADLAHFHHHID 135
Cdd:COG2207   34 LVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLL 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 136 HLFSCYKPPMNGESIASLLIGLFAMLPDDRDGEPGNSQGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAET 215
Cdd:COG2207  114 LLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEET 193

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 550766057 216 GEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG2207  194 GTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRA 256
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 20-86 1.50e-05

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


:

Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 42.08  E-value: 1.50e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 550766057  20 ASFSRLFANTVRYHHWHQ-CLEILYVEEGFG-VAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIY 86
Cdd:cd02208    1 ISVVTLPPGTSSPPHWHPeQDEIFYVLSGEGeLTLDDGETVELKAGDIVLIPPGVPHSFVNTSDEPAVF 69
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
190-273 1.17e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 94.16  E-value: 1.17e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057   190 KFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETP 269
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 550766057   270 LQYR 273
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
56-278 9.12e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.46  E-value: 9.12e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  56 RHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTIIHLDQHAVLKILRDFPQTRQRLERLSRRGGEAWVADLAHFHHHID 135
Cdd:COG2207   34 LVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLL 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 136 HLFSCYKPPMNGESIASLLIGLFAMLPDDRDGEPGNSQGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAET 215
Cdd:COG2207  114 LLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEET 193

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 550766057 216 GEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG2207  194 GTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRA 256
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 160-278 9.76e-23

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 95.22  E-value: 9.76e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 160 MLPDDRDGepGNSQGIA------------SQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLR 227
Cdd:COG4977  186 VVDPRRPG--GQAQFSPllvplghrdprlARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLR 263

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 550766057 228 LRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG4977  264 LERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRA 314
HTH_18 pfam12833
Helix-turn-helix domain;
196-275 2.24e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 80.33  E-value: 2.24e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  196 LANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLH-TDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRK 274
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 550766057  275 N 275
Cdd:pfam12833  81 R 81
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
34-278 1.45e-13

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 68.94  E-value: 1.45e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFfppftlhkvmVDEQAEAIYRrtiiHLDQHAVLKILRDFPQTRQRLE 113
Cdd:PRK13503  31 HHHDFHEIVIVEHGTGIHVFNGQPYTLSGGTVCF----------VRDHDRHLYE----HTDNLCLTNVLYRSPDAFRFLA 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 114 RLSR-----RGGE---AWVADlAHFHHHIDHLFSCYK---PPMNGESIASLLIGLFAMLPDDRDG----EPGNSQGIASQ 178
Cdd:PRK13503  97 GLNQllpqeQDGQypsHWRVN-QSVLQQVRQLVAQMEqqeESNDLEAIASREILFMQLLVLLRKSslqeNGENSDARLNQ 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 179 VMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFI 258
Cdd:PRK13503 176 LLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFS 255

                        250       260
                 ....*....|....*....|
gi 550766057 259 SAFKKGIGETPLQYRKNHRA 278
Cdd:PRK13503 256 TLFRREFSWSPRDIRQGRDG 275
PRK10371 PRK10371
transcriptional regulator MelR;
154-274 2.16e-11

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 62.91  E-value: 2.16e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 154 LIGLFAMLPDDRDGEPGNS-----QGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRL 228
Cdd:PRK10371 166 LSGWEPILVNKTSRTHKNSvsrhaQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRI 245

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 550766057 229 RKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRK 274
Cdd:PRK10371 246 NHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 20-86 1.50e-05

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 42.08  E-value: 1.50e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 550766057  20 ASFSRLFANTVRYHHWHQ-CLEILYVEEGFG-VAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIY 86
Cdd:cd02208    1 ISVVTLPPGTSSPPHWHPeQDEIFYVLSGEGeLTLDDGETVELKAGDIVLIPPGVPHSFVNTSDEPAVF 69
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 20-109 3.35e-05

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 42.81  E-value: 3.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057   20 ASFSRLFANTVRYH---HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEaiYRRTIIHLDQH 96
Cdd:pfam02311   2 PGLEGIEARYPGHSfppHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDG--WRYRWLYFEPE 79

                          90
                  ....*....|...
gi 550766057   97 AVLKILRDFPQTR 109
Cdd:pfam02311  80 LLERILADISILA 92
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 34-76 6.72e-05

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 40.32  E-value: 6.72e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 550766057   34 HWH-QCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV 76
Cdd:pfam07883  14 HRHpGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRF 57
bicupin_oxalic TIGR03404
bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins ...
 24-83 4.55e-03

bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.


Pssm-ID: 274565 [Multi-domain]  Cd Length: 367  Bit Score: 38.07  E-value: 4.55e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 550766057   24 RLFANTVRYHHWHQCLEILYVEEG-FGVAIVDN--RHY--TMRPGRLFFFPPFTLHKVM-VDEQAE 83
Cdd:TIGR03404  73 RLEPGAIRELHWHKEAEWAYVLYGsCRITAVDEngRNYidDVGAGDLWYFPPGIPHSLQgLDEGCE 138
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 34-92 5.24e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 35.06  E-value: 5.24e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTIIH 92
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINIW 76
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
32-76 9.50e-03

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 35.12  E-value: 9.50e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 550766057  32 YHHWHQclEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV 76
Cdd:COG0662   44 VHPHRD--EFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRL 86
 
Name Accession Description Interval E-value
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
190-273 1.17e-24

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 94.16  E-value: 1.17e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057   190 KFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETP 269
Cdd:smart00342   1 PLTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTP 80


                   ....
gi 550766057   270 LQYR 273
Cdd:smart00342  81 SEYR 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
56-278 9.12e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 94.46  E-value: 9.12e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  56 RHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTIIHLDQHAVLKILRDFPQTRQRLERLSRRGGEAWVADLAHFHHHID 135
Cdd:COG2207   34 LVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLLLLLLLLLLLLLL 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 136 HLFSCYKPPMNGESIASLLIGLFAMLPDDRDGEPGNSQGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAET 215
Cdd:COG2207  114 LLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEET 193

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 550766057 216 GEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG2207  194 GTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKRLRA 256
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 160-278 9.76e-23

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 95.22  E-value: 9.76e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 160 MLPDDRDGepGNSQGIA------------SQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLR 227
Cdd:COG4977  186 VVDPRRPG--GQAQFSPllvplghrdprlARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLR 263

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 550766057 228 LRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG4977  264 LERARRLLETTDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAYRRRFRA 314
HTH_18 pfam12833
Helix-turn-helix domain;
196-275 2.24e-19

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 80.33  E-value: 2.24e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  196 LANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLH-TDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRK 274
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80


                  .
gi 550766057  275 N 275
Cdd:pfam12833  81 R 81
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 162-278 1.14e-18

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 84.33  E-value: 1.14e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 162 PDDRDGEPGNSQGIAsQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACEcLLHTDSS 241
Cdd:COG2169   73 PDLAPGSPPRADLVA-RACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQ-LLQTGLS 150

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 550766057 242 VRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:COG2169  151 VTDAAYAAGFGSLSRFYEAFKKLLGMTPSAYRRGGAG 187
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
34-278 1.45e-13

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 68.94  E-value: 1.45e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFfppftlhkvmVDEQAEAIYRrtiiHLDQHAVLKILRDFPQTRQRLE 113
Cdd:PRK13503  31 HHHDFHEIVIVEHGTGIHVFNGQPYTLSGGTVCF----------VRDHDRHLYE----HTDNLCLTNVLYRSPDAFRFLA 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 114 RLSR-----RGGE---AWVADlAHFHHHIDHLFSCYK---PPMNGESIASLLIGLFAMLPDDRDG----EPGNSQGIASQ 178
Cdd:PRK13503  97 GLNQllpqeQDGQypsHWRVN-QSVLQQVRQLVAQMEqqeESNDLEAIASREILFMQLLVLLRKSslqeNGENSDARLNQ 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 179 VMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFI 258
Cdd:PRK13503 176 LLAWLEDHFAEEVNWEALADQFSLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSDASVTDIAYRCGFGDSNHFS 255

                        250       260
                 ....*....|....*....|
gi 550766057 259 SAFKKGIGETPLQYRKNHRA 278
Cdd:PRK13503 256 TLFRREFSWSPRDIRQGRDG 275
PRK10371 PRK10371
transcriptional regulator MelR;
154-274 2.16e-11

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 62.91  E-value: 2.16e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 154 LIGLFAMLPDDRDGEPGNS-----QGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRL 228
Cdd:PRK10371 166 LSGWEPILVNKTSRTHKNSvsrhaQFYVSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRI 245

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 550766057 229 RKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRK 274
Cdd:PRK10371 246 NHVRALLSDTDKSILDIALTAGFRSSSRFYSTFGKYVGMSPQQYRK 291
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
11-273 4.25e-11

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 62.43  E-value: 4.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  11 ELIALNDTVASFSRLFANTVRYHHWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV-----MVDEQAEAI 85
Cdd:PRK13500  41 DFFASDQQAVAVADRYPQDVFAEHTHDFCELVIVWRGNGLHVLNDRPYRITRGDLFYIHADDKHSYasvndLVLQNIIYC 120

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  86 YRRTIIHLD-QHAVLKILRDFPQTRQRLerlsrrgGEAWVADLAHFHHHIDHLFSCYKPPMNgeSIASLLIGLFAMLPDD 164
Cdd:PRK13500 121 PERLKLNLDwQGAIPGFSASAGQPHWRL-------GSVGMAQARQVIGQLEHESSQHVPFAN--EMAELLFGQLVMLLNR 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 165 R-----DGEPGNSQGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTD 239
Cdd:PRK13500 192 HrytsdSLPPTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSR 271

                        250       260       270
                 ....*....|....*....|....*....|....
gi 550766057 240 SSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYR 273
Cdd:PRK13500 272 LLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
173-273 1.76e-10

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 56.86  E-value: 1.76e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 173 QGIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFS 252
Cdd:PRK10219   4 QKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYV 83

                         90       100
                 ....*....|....*....|.
gi 550766057 253 DVTWFISAFKKGIGETPLQYR 273
Cdd:PRK10219  84 SQQTFSRVFRRQFDRTPSDYR 104
ftrA PRK09393
transcriptional activator FtrA; Provisional
 161-278 1.87e-10

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 60.36  E-value: 1.87e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 161 LPDDRDGepGNSQGIA-----------SQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLR 229
Cdd:PRK09393 196 VPPHRDG--GQAQFVPrpvasresdrlGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLA 273

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 550766057 230 KACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHRA 278
Cdd:PRK09393 274 RARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAAYRKRFGR 322
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
 139-277 7.41e-10

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 58.50  E-value: 7.41e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 139 SCYKPPMNGESIASLLIGLFAML-P--DDRDGEPGNSQGIASQVMFWLDEHYQ-EKFRLDALANELGKSRSYVSRKFhAE 214
Cdd:PRK09685 159 SMNGPALSETESEALLEALIALLrPalHQRESVQPRRERQFQKVVALIDQSIQeEILRPEWIAGELGISVRSLYRLF-AE 237

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 550766057 215 TGEKIHDYLNTLRLRKACECL--LHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHR 277
Cdd:PRK09685 238 QGLVVAQYIRNRRLDRCADDLrpAADDEKITSIAYKWGFSDSSHFSTAFKQRFGVSPGEYRRKFR 302
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
34-273 1.21e-09

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 57.76  E-value: 1.21e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV-----MVDEQAEAIYRRTIIHLDQHAVLKilrDFPQT 108
Cdd:PRK13502  34 HTHEFCELVMVWRGNGLHVLNERPYRITRGDLFYIRAEDKHSYtsvndLVLQNIIYCPERLKLNVNWQAMIP---GFQGA 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 109 RQ----RLERLSRRGGEAWVADLAHFHHHIDHLfscykppmnGESIASLLIGLFAM-LPDDR---DGEPGNS-QGIASQV 179
Cdd:PRK13502 111 QWhphwRLGSMGMNQARQVINQLEHESNGRDPL---------ANEMAELLFGQLVMtLKRHRyatDDLPATSrETLLDKL 181

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 180 MFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFIS 259
Cdd:PRK13502 182 ITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSV 261

                        250
                 ....*....|....
gi 550766057 260 AFKKGIGETPLQYR 273
Cdd:PRK13502 262 VFTRETGMTPSQWR 275
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
174-275 2.93e-09

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 56.56  E-value: 2.93e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 174 GIASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSD 253
Cdd:PRK15121   5 GIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFDS 84

                         90       100
                 ....*....|....*....|..
gi 550766057 254 VTWFISAFKKGIGETPLQYRKN 275
Cdd:PRK15121  85 QQTFTRAFKKQFAQTPALYRRS 106
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 186-275 2.99e-08

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 53.61  E-value: 2.99e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 186 HYQEKFRLDALANEL---GKSRSYVSR---KFHAETGEKIhdyLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFIS 259
Cdd:PRK10296 181 HDKEQFSESALENMVrlsGKSQEYLTRatrRYYGKTPMQI---INEIRINFAKKQLEMTNYSVTDIAFEAGYSSPSLFIK 257

                         90
                 ....*....|....*.
gi 550766057 260 AFKKGIGETPLQYRKN 275
Cdd:PRK10296 258 TFKKLTSFTPGSYRKK 273
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 183-224 1.97e-07

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 46.38  E-value: 1.97e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 550766057  183 LDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLN 224
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
34-86 2.12e-07

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 48.31  E-value: 2.12e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIY 86
Cdd:COG1917   39 HSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVL 91
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
34-274 4.97e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 46.82  E-value: 4.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPF------TLHKVMVDEqaeAIYRRTIIHLDQHAVLKILRDFPQ 107
Cdd:PRK13501  34 HTHQFCEIVIVWRGNGLHVLNDHPYRITCGDVFYIQAAdhhsyeSVHDLVLDN---IIYCPERLHLNAQWHKLLPPLGPE 110

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 108 TRQRLERLSRRG---GEAWVADLAHFHHHIDhlfscykpPMNGESIASLLIGLFAMLPDDR----------DGEPgnsqg 174
Cdd:PRK13501 111 QNQGYWRLTTQGmaqARPIIQQLAQESRKTD--------SWSIQLTEVLLLQLAIVLKRHRyraeqahllpDGEQ----- 177

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 175 iASQVMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKAcECLLHT-DSSVRDIAAQTGFSD 253
Cdd:PRK13501 178 -LDLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHA-KCLLRGsEHRISDIAARCGFED 255

                        250       260
                 ....*....|....*....|.
gi 550766057 254 VTWFISAFKKGIGETPLQYRK 274
Cdd:PRK13501 256 SNYFSAVFTREAGMTPRDYRQ 276
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 20-86 1.50e-05

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 42.08  E-value: 1.50e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 550766057  20 ASFSRLFANTVRYHHWHQ-CLEILYVEEGFG-VAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIY 86
Cdd:cd02208    1 ISVVTLPPGTSSPPHWHPeQDEIFYVLSGEGeLTLDDGETVELKAGDIVLIPPGVPHSFVNTSDEPAVF 69
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 20-109 3.35e-05

AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization domain of the bacterial gene regulatory protein AraC. The domain is found in conjunction with the helix-turn-helix (HTH) DNA-binding motif pfam00165. This domain is distantly related to the Cupin domain pfam00190.


Pssm-ID: 396749 [Multi-domain]  Cd Length: 134  Bit Score: 42.81  E-value: 3.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057   20 ASFSRLFANTVRYH---HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEaiYRRTIIHLDQH 96
Cdd:pfam02311   2 PGLEGIEARYPGHSfppHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEDG--WRYRWLYFEPE 79

                          90
                  ....*....|...
gi 550766057   97 AVLKILRDFPQTR 109
Cdd:pfam02311  80 LLERILADISILA 92
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 236-274 5.58e-05

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 39.83  E-value: 5.58e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 550766057  236 LHTDSSVRDIAAQTGFSdVTWFISAFKKGIGETPLQYRK 274
Cdd:pfam00165   5 LSTNLTIADIADELGFS-RSYFSRLFKKYTGVTPSQYRH 42
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 34-76 6.72e-05

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 40.32  E-value: 6.72e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 550766057   34 HWH-QCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV 76
Cdd:pfam07883  14 HRHpGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRF 57
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 193-273 7.20e-05

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 43.38  E-value: 7.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 193 LDALANELGKSRSYVSRKFHAEtGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQY 272
Cdd:PRK09978 161 LARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEY 239


                 .
gi 550766057 273 R 273
Cdd:PRK09978 240 Q 240
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 190-276 7.86e-05

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 43.45  E-value: 7.86e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 190 KFRLDALANELGKSRSYVSRKFhAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETP 269
Cdd:PRK15185 222 QWKLTDVADHIFMSTSTLKRKL-AEEGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTP 300


                 ....*....
gi 550766057 270 LQYRK--NH 276
Cdd:PRK15185 301 STFIKmaNH 309
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
179-273 1.25e-04

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 40.86  E-value: 1.25e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 179 VMFWLDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFI 258
Cdd:PRK11511  14 ILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLT 93

                         90
                 ....*....|....*
gi 550766057 259 SAFKKGIGETPLQYR 273
Cdd:PRK11511  94 RTFKNYFDVPPHKYR 108
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
183-277 1.70e-04

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 42.27  E-value: 1.70e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 183 LDEHYQEKFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTLRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFK 262
Cdd:PRK10572 192 ISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVFK 271

                         90
                 ....*....|....*
gi 550766057 263 KGIGETPLQYRKNHR 277
Cdd:PRK10572 272 KCTGASPSEFRARCE 286
cupin_HpaA-like_N cd06999
AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members ...
 18-74 1.47e-03

AraC/XylS family transcriptional regulators similar to HpaA, N-terminal cupin domain; Members of this family contain an N-terminal cupin domain and a C-terminal AraC/XylS family helix-turn-helix (HTH) DNA-binding domain, similar to Escherichia coli 4-hydroxyphenylacetate catabolism regulatory protein HpaA (also known as 4HPA). HpaA is encoded by the hpaA gene which is located upstream of hpaBC. It is activated by 4-HPA, 3-HPA and phenylacetate, and represents a member of the AraC/XylS family of regulators that recognizes aromatic effectors. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380403 [Multi-domain]  Cd Length: 98  Bit Score: 37.09  E-value: 1.47e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 550766057  18 TVASFSRLFANTVRYHHWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLH 74
Cdd:cd06999   23 TIAARSRLHDWEIAPHRHADLFQVLYIESGGGEVRLDGRTHPLSAPALVVVPPGVVH 79
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 190-272 2.56e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 38.51  E-value: 2.56e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 550766057 190 KFRLDALANELGKSRSYVSRKFHAETGEKIHDYLNTlRLRKACECLLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETP 269
Cdd:PRK15186 197 KWALKDISDSLYMSCSTLKRKLKQENTSFSEVYLNA-RMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTP 275


                 ...
gi 550766057 270 LQY 272
Cdd:PRK15186 276 SEF 278
cupin_OxDC-like cd20306
Oxalate decarboxylase (OxDC)-like cupin domain; This subfamily contains bacterial and ...
 21-74 4.08e-03

Oxalate decarboxylase (OxDC)-like cupin domain; This subfamily contains bacterial and eukaryotic cupin domains of proteins homologous to oxalate decarboxylase (OxDC; EC 4.1.1.2) such as MSMEG_2254, a putative OxDC from Mycobacterium smegmatis. OxDC is a manganese-dependent bicupin that catalyzes the conversion of oxalate to formate and carbon dioxide, utilizing dioxygen as a cofactor. It is evolutionarily related to oxalate oxidase (OxOx or germin; EC 1.2.3.4) which, in contrast, converts oxalate and dioxygen to carbon dioxide and hydrogen peroxide. OxDC is classified as a bicupin because it contains two cupin folds with each domain containing one manganese binding site, with four manganese binding residues (three histidines and one glutamate) conserved as well as a number of hydrophobic residues.


Pssm-ID: 380440 [Multi-domain]  Cd Length: 151  Bit Score: 36.80  E-value: 4.08e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 550766057  21 SFSRLF--ANTVRYHHWHQ-CLEILYVEEGFG-VAIVDNR----HYTMRPGRLFFFPPFTLH 74
Cdd:cd20306   35 SIYRLRlsPGGIREPHWHPnANELGYVISGEArVSILDPTgsldTFTVKPGQVVFIPQGWLH 96
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 235-277 4.41e-03

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 37.76  E-value: 4.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 550766057 235 LLHTDSSVRDIAAQTGFSDVTWFISAFKKGIGETPLQYRKNHR 277
Cdd:PRK09940 193 LIRVEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPKRVSKEYR 235
bicupin_oxalic TIGR03404
bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins ...
 24-83 4.55e-03

bicupin, oxalate decarboxylase family; Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.


Pssm-ID: 274565 [Multi-domain]  Cd Length: 367  Bit Score: 38.07  E-value: 4.55e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 550766057   24 RLFANTVRYHHWHQCLEILYVEEG-FGVAIVDN--RHY--TMRPGRLFFFPPFTLHKVM-VDEQAE 83
Cdd:TIGR03404  73 RLEPGAIRELHWHKEAEWAYVLYGsCRITAVDEngRNYidDVGAGDLWYFPPGIPHSLQgLDEGCE 138
cupin_YbfI-like_N cd07001
AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal ...
 34-92 5.24e-03

AraC/XylS family transcriptional regulators similar to Bacillus subtilis YbfI, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators, including YbfI, an uncharacterized Bacillus subtilis. In Pseudomonas putida, this protein is thought to regulate the expression of phenylserine aldolase. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380405 [Multi-domain]  Cd Length: 76  Bit Score: 35.06  E-value: 5.24e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 550766057  34 HWHQCLEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKVMVDEQAEAIYRRTIIH 92
Cdd:cd07001   18 HFHDFYVIGFIESGQRTLFCEGKEYTVEPGDLLLINPRDVHSCIQISGRRLDYERINIW 76
cupin_MmsR-like_N cd06986
AraC/XylS family transcriptional regulators similar to MmsR, N-terminal cupin domain; This ...
 41-74 5.62e-03

AraC/XylS family transcriptional regulators similar to MmsR, N-terminal cupin domain; This family contains bacterial proteins containing an AraC/XylS family helix-turn-helix (HTH) DNA-binding domain C-terminal to a cupin domain, and may be possible transcriptional regulators. Included is MmsR, a bacterial transcriptional regulator thought to positively regulate the expression of the mmsAB operon. The mmsAB operon contains two structural genes involved in valine metabolism: mmsA which encodes methylmalonate-semialdehyde dehydrogenase, and mmsB which encodes 3-hydroxyisobutyrate dehydrogenase. The cupin domain of members of this subfamily does not contain a metal binding site.


Pssm-ID: 380391 [Multi-domain]  Cd Length: 84  Bit Score: 35.15  E-value: 5.62e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 550766057  41 ILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLH 74
Cdd:cd06986   31 LHYVLSGKGTFSVNGKTYHLKAGQGFLIPPGEPH 64
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
32-76 9.50e-03

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 35.12  E-value: 9.50e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 550766057  32 YHHWHQclEILYVEEGFGVAIVDNRHYTMRPGRLFFFPPFTLHKV 76
Cdd:COG0662   44 VHPHRD--EFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRL 86
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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