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Conserved domains on  [gi|1123900154|ref|WP_074422810|]
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MULTISPECIES: helix-turn-helix domain-containing protein [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 ...
 30-113 2.18e-30

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: 108.81  E-value: 2.18e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  30 RETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPYSGWSVYVSAKACGELPDKPSVLSMTN 109
Cdd:cd06124    12 HRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGLPAEPCVLAVSP 91


                  ....
gi 1123900154 110 LLRE 113
Cdd:cd06124    92 LLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
179-255 2.56e-20

Helix-turn-helix domain;


:

Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.25  E-value: 2.56e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1123900154 179 WAAWAGMSSRTLTRRFRAETGFSFNEWRQRI--RLLRALELLAAGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLrlERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
 
Name Accession Description Interval E-value
cupin_NimR-like_N cd06124
AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This ...
 30-113 2.18e-30

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: 108.81  E-value: 2.18e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  30 RETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPYSGWSVYVSAKACGELPDKPSVLSMTN 109
Cdd:cd06124    12 HRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGLPAEPCVLAVSP 91


                  ....
gi 1123900154 110 LLRE 113
Cdd:cd06124    92 LLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
179-255 2.56e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.25  E-value: 2.56e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1123900154 179 WAAWAGMSSRTLTRRFRAETGFSFNEWRQRI--RLLRALELLAAGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLrlERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-255 1.97e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.83  E-value: 1.97e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154   1 MHDPLIPFEPVFSPQGPTLLVAVRQSEVIRETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSH 80
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  81 GPYSGWSVYVSAKACGELPDKPSVLSMTNLLREAITRAAAWQGVELNASQKRLAGVILDEIGSLPRVNLGLPMPQDSRLL 160
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 161 RIAQALsanpddGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQRIRLLRALEL-LAAGKPVTAIALDLGYDNVSAF 239
Cdd:COG2207   162 LLLLLL------LLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLlAETDLSISEIAYELGFSSQSHF 235

                         250
                  ....*....|....*.
gi 1123900154 240 IALFRRMFGTTPGRYK 255
Cdd:COG2207   236 SRAFKKRFGVTPSEYR 251
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
175-255 3.38e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.82  E-value: 3.38e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  175 RLEEWAAWAGMSSRTLTRRFRAETGFSFNEW-RQRIRLLRALELLAAGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGR 253
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKETGTTPKQYlRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   ..
gi 1123900154  254 YK 255
Cdd:smart00342  83 YR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 149-254 1.83e-15

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: 74.42  E-value: 1.83e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 149 LGLPMPQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEW---------RQrirllralELLA 219
Cdd:COG4977   202 LVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYlqrlrleraRR--------LLET 273

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1123900154 220 AGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRY 254
Cdd:COG4977   274 TDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAY 308
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 161-254 9.20e-09

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 55.00  E-value: 9.20e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 161 RIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFrAETGFSFNEWRQRIRLLRALELLAAGK-PVTAIALDLGYDNVSAF 239
Cdd:PRK15185  210 RVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKL-AEEGTSFSDIYLSARMNQAAKLLRIGNhNVNAVALKCGYDSTSYF 288

                          90
                  ....*....|....*
gi 1123900154 240 IALFRRMFGTTPGRY 254
Cdd:PRK15185  289 IQCFKKYFKTTPSTF 303
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 32-90 5.38e-04

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: 38.96  E-value: 5.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1123900154  32 TPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPySGWSVYV 90
Cdd:pfam02311  16 FPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESE-DGWRYRW 73
 
Name Accession Description Interval E-value
cupin_NimR-like_N cd06124
AraC/XylS family transcriptional regulators similar to NimR, N-terminal cupin domain; This ...
 30-113 2.18e-30

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: 108.81  E-value: 2.18e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  30 RETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPYSGWSVYVSAKACGELPDKPSVLSMTN 109
Cdd:cd06124    12 HRTPWHSHPWGQLLYASSGVMTVETEDGRWLVPPQRAVWIPAGVEHSVRMLGAVELRSLYIDPEAAAGLPAEPCVLAVSP 91


                  ....
gi 1123900154 110 LLRE 113
Cdd:cd06124    92 LLRE 95
HTH_18 pfam12833
Helix-turn-helix domain;
179-255 2.56e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 82.25  E-value: 2.56e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1123900154 179 WAAWAGMSSRTLTRRFRAETGFSFNEWRQRI--RLLRALELLAAGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLrlERARRLLLEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYR 79
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
1-255 1.97e-19

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


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 84.83  E-value: 1.97e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154   1 MHDPLIPFEPVFSPQGPTLLVAVRQSEVIRETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSH 80
Cdd:COG2207     2 RLLILLLLLLLLLALLLLLLLLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  81 GPYSGWSVYVSAKACGELPDKPSVLSMTNLLREAITRAAAWQGVELNASQKRLAGVILDEIGSLPRVNLGLPMPQDSRLL 160
Cdd:COG2207    82 LLALLALLLLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 161 RIAQALsanpddGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQRIRLLRALEL-LAAGKPVTAIALDLGYDNVSAF 239
Cdd:COG2207   162 LLLLLL------LLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLlAETDLSISEIAYELGFSSQSHF 235

                         250
                  ....*....|....*.
gi 1123900154 240 IALFRRMFGTTPGRYK 255
Cdd:COG2207   236 SRAFKKRFGVTPSEYR 251
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
175-255 3.38e-18

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 76.82  E-value: 3.38e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  175 RLEEWAAWAGMSSRTLTRRFRAETGFSFNEW-RQRIRLLRALELLAAGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGR 253
Cdd:smart00342   3 TLEDLAEALGVSPRHLQRLFKKETGTTPKQYlRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSE 82


                   ..
gi 1123900154  254 YK 255
Cdd:smart00342  83 YR 84
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 149-254 1.83e-15

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: 74.42  E-value: 1.83e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 149 LGLPMPQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEW---------RQrirllralELLA 219
Cdd:COG4977   202 LVPLGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYlqrlrleraRR--------LLET 273

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1123900154 220 AGKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRY 254
Cdd:COG4977   274 TDLSIEEIAAACGFGSASHFRRAFRRRFGVSPSAY 308
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 154-255 1.91e-15

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: 74.70  E-value: 1.91e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 154 PQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQRIRLLRALELLAAGKPVTAIALDLGY 233
Cdd:COG2169    81 PRADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQTGLSVTDAAYAAGF 160

                          90       100
                  ....*....|....*....|..
gi 1123900154 234 DNVSAFIALFRRMFGTTPGRYK 255
Cdd:COG2169   161 GSLSRFYEAFKKLLGMTPSAYR 182
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 161-254 9.20e-09

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 55.00  E-value: 9.20e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 161 RIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFrAETGFSFNEWRQRIRLLRALELLAAGK-PVTAIALDLGYDNVSAF 239
Cdd:PRK15185  210 RVYNIISSSPSRQWKLTDVADHIFMSTSTLKRKL-AEEGTSFSDIYLSARMNQAAKLLRIGNhNVNAVALKCGYDSTSYF 288

                          90
                  ....*....|....*
gi 1123900154 240 IALFRRMFGTTPGRY 254
Cdd:PRK15185  289 IQCFKKYFKTTPSTF 303
ftrA PRK09393
transcriptional activator FtrA; Provisional
 152-255 6.17e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 52.66  E-value: 6.17e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 152 PMPQD--SRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQRIRLLRALELLAAGK-PVTAIA 228
Cdd:PRK09393  211 PVASResDRLGPLIDWMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSAlSIDQIA 290

                          90       100
                  ....*....|....*....|....*..
gi 1123900154 229 LDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK09393  291 ERAGFGSEESLRHHFRRRAATSPAAYR 317
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
153-255 7.59e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 49.54  E-value: 7.59e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 153 MPQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEW-RQRIRLLRALELLAAGKPVTAIALDL 231
Cdd:PRK10219    1 MSHQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYiRQRRLLLAAVELRTTERPIFDIAMDL 80

                          90       100
                  ....*....|....*....|....
gi 1123900154 232 GYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK10219   81 GYVSQQTFSRVFRRQFDRTPSDYR 104
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
31-90 7.72e-08

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 49.08  E-value: 7.72e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  31 ETPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPYSGWSVYV 90
Cdd:COG1917    35 RTPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVV 94
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 166-207 2.04e-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: 40.60  E-value: 2.04e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1123900154 166 LSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQ 207
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
AraC_binding pfam02311
AraC-like ligand binding domain; This family represents the arabinose-binding and dimerization ...
 32-90 5.38e-04

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: 38.96  E-value: 5.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1123900154  32 TPRHHHSCGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHGPySGWSVYV 90
Cdd:pfam02311  16 FPPHVHDFYVIGYIERGVGRFRLNGRTYHLGPGDLFLLPPGEPHDYEPESE-DGWRYRW 73
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
151-255 5.40e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.42  E-value: 5.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 151 LPMPQDSRLL-RIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEW-RQRIRLLRALELLAAGKPVTAIA 228
Cdd:PRK13502  169 LPATSRETLLdKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYlRQVRICHAQYLLQHSPLMISEIS 248

                          90       100
                  ....*....|....*....|....*..
gi 1123900154 229 LDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK13502  249 MQCGFEDSNYFSVVFTRETGMTPSQWR 275
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 26-82 9.54e-04

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: 37.08  E-value: 9.54e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154  26 SEVIRETPRHHHSCGQLIGAI---RGLLTVDGGDcRWVVPATHAVWIPPGVPHGLRSHGP 82
Cdd:cd02208     6 LPPGTSSPPHWHPEQDEIFYVlsgEGELTLDDGE-TVELKAGDIVLIPPGVPHSFVNTSD 64
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
152-255 1.35e-03

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 39.31  E-value: 1.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 152 PMPQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEW-RQRIRLLRALELLAAGKPVTAIALD 230
Cdd:PRK13500  201 PTSSETLLDKLITRLAASLKSPFALDKFCDEASCSERVLRQQFRQQTGMTINQYlRQVRVCHAQYLLQHSRLLISDISTE 280

                          90       100
                  ....*....|....*....|....*
gi 1123900154 231 LGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK13500  281 CGFEDSNYFSVVFTRETGMTPSQWR 305
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
154-255 1.39e-03

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 39.19  E-value: 1.39e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1123900154 154 PQDSRLLRIAQALSANPDDGRRLEEWAAWAGMSSRTLTRRFRAETGFSFNEWRQRIRLLRALE-LLAAGKPVTAIALDLG 232
Cdd:PRK10572  180 PMDPRVREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLlLQTTRMPIATIGRNVG 259

                          90       100
                  ....*....|....*....|...
gi 1123900154 233 YDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK10572  260 YDDQLYFSRVFKKCTGASPSEFR 282
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 31-81 3.48e-03

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: 35.31  E-value: 3.48e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1123900154  31 ETPRHHHS-CGQLIGAIRGLLTVDGGDCRWVVPATHAVWIPPGVPHGLRSHG 81
Cdd:pfam07883  10 SSPPHRHPgEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRNTG 61
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 221-255 5.36e-03

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 37.60  E-value: 5.36e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1123900154 221 GKPVTAIALDLGYDNVSAFIALFRRMFGTTPGRYK 255
Cdd:PRK09978  206 GFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTEYQ 240
 
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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