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Conserved domains on  [gi|490251407|ref|WP_004149452|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Klebsiella]

Protein Classification

AraC family transcriptional regulator( domain architecture ID 14398448)

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:0006355|GO:0043565
PubMed:  11282467|33837749|9409145|12270809|19478949|14697267|9573603
SCOP:  3001825

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
cupin_NimR-like_N cd06124
AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This ...
 14-108 8.08e-35

AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This family contains mostly 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 in this family is Escherichia coli HTH-type transcriptional regulator NimR (also called YeaM) that negatively regulates expression of the nimT operon and its own expression. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


:

Pssm-ID: 380379 [Multi-domain]  Cd Length: 95  Bit Score: 120.37  E-value: 8.08e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  14 LVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDPLARADL 93
Cdd:cd06124    1 VLARAADYPAGHRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGL 80

                         90
                 ....*....|....*
gi 490251407  94 PAGCQIVQITPLLRE 108
Cdd:cd06124   81 PAEPCVLAVSPLLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
176-252 9.09e-22

Helix-turn-helix domain;


:

Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.10  E-value: 9.09e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490251407  176 AKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQ--GHSVLRVALELGYGSHSAFSAMFRRVMGVAPSDYFR 252
Cdd:pfam12833   2 AAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
 
Name Accession Description Interval E-value
cupin_NimR-like_N cd06124
AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This ...
 14-108 8.08e-35

AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This family contains mostly 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 in this family is Escherichia coli HTH-type transcriptional regulator NimR (also called YeaM) that negatively regulates expression of the nimT operon and its own expression. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380379 [Multi-domain]  Cd Length: 95  Bit Score: 120.37  E-value: 8.08e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  14 LVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDPLARADL 93
Cdd:cd06124    1 VLARAADYPAGHRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGL 80

                         90
                 ....*....|....*
gi 490251407  94 PAGCQIVQITPLLRE 108
Cdd:cd06124   81 PAEPCVLAVSPLLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
176-252 9.09e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.10  E-value: 9.09e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490251407  176 AKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQ--GHSVLRVALELGYGSHSAFSAMFRRVMGVAPSDYFR 252
Cdd:pfam12833   2 AAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
170-250 1.35e-20

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 82.99  E-value: 1.35e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407   170 WSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQGH-SVLRVALELGYGSHSAFSAMFRRVMGVAPS 248
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 490251407   249 DY 250
Cdd:smart00342  82 EY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
11-252 2.37e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.45  E-value: 2.37e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  11 HRPLVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDPLAR 90
Cdd:COG2207   19 LLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLL 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  91 ADLPAGCQIVQITPLLRELIVSSLALAERYAPASRDERIYELILDEIRGMAILPFGLPEPQSETLRRLCQQvreapgeaw 170
Cdd:COG2207   99 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL--------- 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 171 SSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQG-HSVLRVALELGYGSHSAFSAMFRRVMGVAPSD 249
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ...
gi 490251407 250 YFR 252
Cdd:COG2207  250 YRK 252
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 146-255 4.58e-19

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: 84.44  E-value: 4.58e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 146 GLPEPQSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQG-HSVLRVA 224
Cdd:COG4977  203 VPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTdLSIEEIA 282

                         90       100       110
                 ....*....|....*....|....*....|....
gi 490251407 225 LELGYGSHSAFSAMFRRVMGVAPSDY---FRPPA 255
Cdd:COG4977  283 AACGFGSASHFRRAFRRRFGVSPSAYrrrFRARA 316
ftrA PRK09393
transcriptional activator FtrA; Provisional
 147-250 3.39e-12

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 64.99  E-value: 3.39e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 147 LPEPQSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRL-AQGHSVLRVAL 225
Cdd:PRK09393 212 VASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSALSIDQIAE 291

                         90       100
                 ....*....|....*....|....*
gi 490251407 226 ELGYGSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK09393 292 RAGFGSEESLRHHFRRRAATSPAAY 316
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 28-133 2.05e-06

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: 45.89  E-value: 2.05e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407   28 DWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGN--VAARTLFIDPLARADLPAGCQIV----- 100
Cdd:pfam02311  17 PPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEdgWRYRWLYFEPELLERILADISILaggpl 96

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 490251407  101 ------QITPLLRELIvSSLALAERYAPASRDERIYELI 133
Cdd:pfam02311  97 pllrdpELAALLRALF-RLLEEAGRSDDLLAEALLYQLL 134
 
Name Accession Description Interval E-value
cupin_NimR-like_N cd06124
AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This ...
 14-108 8.08e-35

AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This family contains mostly 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 in this family is Escherichia coli HTH-type transcriptional regulator NimR (also called YeaM) that negatively regulates expression of the nimT operon and its own expression. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380379 [Multi-domain]  Cd Length: 95  Bit Score: 120.37  E-value: 8.08e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  14 LVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDPLARADL 93
Cdd:cd06124    1 VLARAADYPAGHRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGL 80

                         90
                 ....*....|....*
gi 490251407  94 PAGCQIVQITPLLRE 108
Cdd:cd06124   81 PAEPCVLAVSPLLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
176-252 9.09e-22

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 86.10  E-value: 9.09e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 490251407  176 AKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQ--GHSVLRVALELGYGSHSAFSAMFRRVMGVAPSDYFR 252
Cdd:pfam12833   2 AAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLLEdtGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
170-250 1.35e-20

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 82.99  E-value: 1.35e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407   170 WSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQGH-SVLRVALELGYGSHSAFSAMFRRVMGVAPS 248
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDlSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ..
gi 490251407   249 DY 250
Cdd:smart00342  82 EY 83
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
11-252 2.37e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.45  E-value: 2.37e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  11 HRPLVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDPLAR 90
Cdd:COG2207   19 LLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLL 98

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407  91 ADLPAGCQIVQITPLLRELIVSSLALAERYAPASRDERIYELILDEIRGMAILPFGLPEPQSETLRRLCQQvreapgeaw 170
Cdd:COG2207   99 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL--------- 169

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 171 SSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQG-HSVLRVALELGYGSHSAFSAMFRRVMGVAPSD 249
Cdd:COG2207  170 TLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETdLSISEIAYELGFSSQSHFSRAFKKRFGVTPSE 249


                 ...
gi 490251407 250 YFR 252
Cdd:COG2207  250 YRK 252
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 146-255 4.58e-19

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: 84.44  E-value: 4.58e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 146 GLPEPQSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQG-HSVLRVA 224
Cdd:COG4977  203 VPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTdLSIEEIA 282

                         90       100       110
                 ....*....|....*....|....*....|....
gi 490251407 225 LELGYGSHSAFSAMFRRVMGVAPSDY---FRPPA 255
Cdd:COG4977  283 AACGFGSASHFRRAFRRRFGVSPSAYrrrFRARA 316
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 149-250 2.30e-16

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: 77.40  E-value: 2.30e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 149 EPQSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQGHSVLRVALELG 228
Cdd:COG2169   80 PPRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVTDAAYAAG 159

                         90       100
                 ....*....|....*....|..
gi 490251407 229 YGSHSAFSAMFRRVMGVAPSDY 250
Cdd:COG2169  160 FGSLSRFYEAFKKLLGMTPSAY 181
ftrA PRK09393
transcriptional activator FtrA; Provisional
 147-250 3.39e-12

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 64.99  E-value: 3.39e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 147 LPEPQSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRL-AQGHSVLRVAL 225
Cdd:PRK09393 212 VASRESDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLeSSALSIDQIAE 291

                         90       100
                 ....*....|....*....|....*
gi 490251407 226 ELGYGSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK09393 292 RAGFGSEESLRHHFRRRAATSPAAY 316
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
14-87 4.38e-12

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 61.02  E-value: 4.38e-12
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 490251407  14 LVPFAHDYAHGDQEDWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFIDP 87
Cdd:COG1917   23 LEVVRVTFEPGARTPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVFS 96
PRK13503 PRK13503
HTH-type transcriptional activator RhaS;
180-249 4.97e-08

HTH-type transcriptional activator RhaS;


Pssm-ID: 184094 [Multi-domain]  Cd Length: 278  Bit Score: 52.37  E-value: 4.97e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490251407 180 SMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQG-HSVLRVALELGYGSHSAFSAMFRRVMGVAPSD 249
Cdd:PRK13503 198 SLSLRTLHRQLKQQTGLTPQRYLNRLRLLKARHLLRHSdASVTDIAYRCGFGDSNHFSTLFRREFSWSPRD 268
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
151-250 3.91e-07

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 47.23  E-value: 3.91e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 151 QSETLRRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQGHS-VLRVALELGY 229
Cdd:PRK10219   3 HQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERpIFDIAMDLGY 82

                         90       100
                 ....*....|....*....|.
gi 490251407 230 GSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK10219  83 VSQQTFSRVFRRQFDRTPSDY 103
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
24-85 1.44e-06

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 45.90  E-value: 1.44e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 490251407  24 GDQEDWHQH-DCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGNVAARTLFI 85
Cdd:COG0662   37 GAELSLHVHpHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLEV 99
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
181-250 1.50e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 48.36  E-value: 1.50e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490251407 181 MSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRL-AQGHSVLRVALELGYGSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK13501 204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLrGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDY 274
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 28-133 2.05e-06

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: 45.89  E-value: 2.05e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407   28 DWHQHDCAQLLHILSGVVRVATPVGYWVVPPGRGVWLPAGTPHALRMTGN--VAARTLFIDPLARADLPAGCQIV----- 100
Cdd:pfam02311  17 PPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESEdgWRYRWLYFEPELLERILADISILaggpl 96

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 490251407  101 ------QITPLLRELIvSSLALAERYAPASRDERIYELI 133
Cdd:pfam02311  97 pllrdpELAALLRALF-RLLEEAGRSDDLLAEALLYQLL 134
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
106-250 4.50e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 46.59  E-value: 4.50e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 106 LRELIVSSLALA-ERYAPASRDERI--YELILDEIrgMAILPFGLPEPQSetLRRLCQQvreapgeawssgqaaKACSms 182
Cdd:PRK13502 147 MAELLFGQLVMTlKRHRYATDDLPAtsRETLLDKL--ITALANSLECPFA--LDAFCQQ---------------EQCS-- 205

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490251407 183 ERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAqgHSVL---RVALELGYGSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK13502 206 ERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQ--HSPLmisEISMQCGFEDSNYFSVVFTRETGMTPSQW 274
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 22-85 5.28e-06

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: 43.24  E-value: 5.28e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 490251407  22 AHGDQEDWHQHDCA-QLLHILSGVVRVATPVGYWV-VPPGRGVWLPAGTPHALRMTGNVAARTLFI 85
Cdd:cd02208    7 PPGTSSPPHWHPEQdEIFYVLSGEGELTLDDGETVeLKAGDIVLIPPGVPHSFVNTSDEPAVFLVV 72
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
147-250 5.64e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 46.63  E-value: 5.64e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 147 LPEPQSETL-RRLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSLTWSEWVRRAKLMEALVRLAQGHSVLR-VA 224
Cdd:PRK13500 199 LPPTSSETLlDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISdIS 278

                         90       100
                 ....*....|....*....|....*.
gi 490251407 225 LELGYGSHSAFSAMFRRVMGVAPSDY 250
Cdd:PRK13500 279 TECGFEDSNYFSVVFTRETGMTPSQW 304
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 157-250 9.45e-06

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 45.69  E-value: 9.45e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 157 RLCQQVREAPGEAWSSGQAAKACSMSERTLNRHFQQQTSlTWSEWVRRAKLMEALVRLA-QGHSVLRVALELGYGSHSAF 235
Cdd:PRK09978 146 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLREEET-SYSQLLTECRMQRALQLIViHGFSIKRVAVSCGYHSVSYF 224

                         90
                 ....*....|....*
gi 490251407 236 SAMFRRVMGVAPSDY 250
Cdd:PRK09978 225 IYVFRNYYGMTPTEY 239
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 165-252 1.68e-05

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 44.99  E-value: 1.68e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 165 APGEAWSSGQAAKACSMSERTLNRHFQQQTSlTWSEWVRRAKLMEA--LVRLAQgHSVLRVALELGYGSHSAFSAMFRRV 242
Cdd:PRK15185 218 SPSRQWKLTDVADHIFMSTSTLKRKLAEEGT-SFSDIYLSARMNQAakLLRIGN-HNVNAVALKCGYDSTSYFIQCFKKY 295

                         90
                 ....*....|
gi 490251407 243 MGVAPSDYFR 252
Cdd:PRK15185 296 FKTTPSTFIK 305
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 21-85 6.23e-04

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: 37.24  E-value: 6.23e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490251407   21 YAHGDQEDWHQH-DCAQLLHILSGVVRVAtpVG--YWVVPPGRGVWLPAGTPHALRMTGNVAARTLFI 85
Cdd:pfam07883   5 LPPGESSPPHRHpGEDEFFYVLEGEGELT--VDgeEVVLKAGDSVYFPAGVPHRFRNTGDEPARLLDV 70
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 170-251 2.33e-03

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 38.51  E-value: 2.33e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 170 WSSGQAAKACSMSERTLNRHFQQQTSlTWSEWVRRAKLMEA--LVRLAQgHSVLRVALELGYGSHSAFSAMFRRVMGVAP 247
Cdd:PRK15186 198 WALKDISDSLYMSCSTLKRKLKQENT-SFSEVYLNARMNKAtkLLRNSE-YNITRVAYMCGYDSASYFTCVFKKHFKTTP 275


                 ....
gi 490251407 248 SDYF 251
Cdd:PRK15186 276 SEFL 279
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
175-250 2.63e-03

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 38.42  E-value: 2.63e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490251407 175 AAKACsMSERTLNRHFQQQTSLT---WSEWVR--RAKLMEALVRLaqghSVLRVALELGYGSHSAFSAMFRRVMGVAPSD 249
Cdd:PRK10572 206 AQHVC-LSPSRLAHLFRQQLGISvlrWREDQRisRAKLLLQTTRM----PIATIGRNVGYDDQLYFSRVFKKCTGASPSE 280


                 .
gi 490251407 250 Y 250
Cdd:PRK10572 281 F 281
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 219-252 4.00e-03

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: 34.44  E-value: 4.00e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 490251407  219 SVLRVALELGYgSHSAFSAMFRRVMGVAPSDYFR 252
Cdd:pfam00165  10 TIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
 
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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