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Conserved domains on  [gi|505181852|ref|WP_015368954|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Klebsiella]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 18527266)

helix-turn-helix domain-containing protein such as an XRE (Xenobiotic Response Element) family transcriptional regulator containing a cupin-like domain, controls the expression of genes involved in stress response

Gene Ontology:  GO:0003677
PubMed:  10473770|15808743|10556324

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-74 1.59e-17

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.11  E-value: 1.59e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505181852   1 MTQPISVIAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQANQT 74
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEEL 74
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.23e-09

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


:

Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 50.62  E-value: 8.23e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 505181852 101 PPGARRDIYLLLTQPGADRISHPHPpgSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQALEPDTQALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGARTPWHSHP--GEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-74 1.59e-17

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.11  E-value: 1.59e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505181852   1 MTQPISVIAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQANQT 74
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEEL 74
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 3.84e-13

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 61.03  E-value: 3.84e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505181852   9 AKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-66 1.63e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 56.76  E-value: 1.63e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 505181852    12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 20-66 1.89e-10

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 53.70  E-value: 1.89e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 505181852   20 GLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:pfam01381   9 GLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.23e-09

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 50.62  E-value: 8.23e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 505181852 101 PPGARRDIYLLLTQPGADRISHPHPpgSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQALEPDTQALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGARTPWHSHP--GEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 20-68 2.34e-08

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 50.14  E-value: 2.34e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 505181852  20 GLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLE 68
Cdd:PRK13890  18 HMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLE 66
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 91-178 3.37e-07

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 45.96  E-value: 3.37e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505181852  91 NYQAILLAACPPGARRDIYLLLTQPGADRI-SHPHPpgSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQAL 169
Cdd:cd02209    1 GYTYELLSPGLPGRKMEPFLVTLPPGGSGGePYSHE--GEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNP 78

                         90
                 ....*....|
gi 505181852 170 -EPDTQALLV 178
Cdd:cd02209   79 gDEPARVLWV 88
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 114-166 2.47e-06

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: 43.40  E-value: 2.47e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 505181852  114 QPGADRISHPHPpGSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLF 166
Cdd:pfam07883   6 PPGESSPPHRHP-GEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRF 57
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-74 1.59e-17

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 73.11  E-value: 1.59e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505181852   1 MTQPISVIAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQANQT 74
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEEL 74
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 3.84e-13

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 61.03  E-value: 3.84e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 505181852   9 AKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
8-70 1.52e-12

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 59.86  E-value: 1.52e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 505181852   8 IAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQ 70
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLE 67
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-66 1.63e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 56.76  E-value: 1.63e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 505181852    12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 20-66 1.89e-10

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 53.70  E-value: 1.89e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 505181852   20 GLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARL 66
Cdd:pfam01381   9 GLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 8-67 3.64e-09

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 51.56  E-value: 3.64e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 505181852   8 IAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLL 67
Cdd:COG3620   18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.23e-09

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 50.62  E-value: 8.23e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 505181852 101 PPGARRDIYLLLTQPGADRISHPHPpgSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQALEPDTQALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGARTPWHSHP--GEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 8-64 1.68e-08

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 49.17  E-value: 1.68e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 505181852   8 IAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFA 64
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLA 69
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 20-68 2.34e-08

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 50.14  E-value: 2.34e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 505181852  20 GLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLE 68
Cdd:PRK13890  18 HMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLE 66
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
20-68 3.36e-08

DNA-binding transcriptional regulator, XRE family [Transcription];


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 48.22  E-value: 3.36e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 505181852  20 GLSLAEVARRAGIAKSTLSQLESGNG-NPSLETLWALCVALDIPFARLLE 68
Cdd:COG3655   14 GMTKKELAEATGISRATLSRLKNGKAkAVRLDTLEKICKALDCQPGDLLE 63
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 20-71 1.66e-07

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 46.38  E-value: 1.66e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 505181852   20 GLSLAEVARRAGIAKSTLSQLESGN-GNPSLETLWALCVALDIPFARLLEPQA 71
Cdd:pfam13443  10 GISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPGDLLEYVP 62
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 91-178 3.37e-07

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 45.96  E-value: 3.37e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505181852  91 NYQAILLAACPPGARRDIYLLLTQPGADRI-SHPHPpgSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQAL 169
Cdd:cd02209    1 GYTYELLSPGLPGRKMEPFLVTLPPGGSGGePYSHE--GEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNP 78

                         90
                 ....*....|
gi 505181852 170 -EPDTQALLV 178
Cdd:cd02209   79 gDEPARVLWV 88
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-62 3.53e-07

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 45.60  E-value: 3.53e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 505181852   12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESG-NGNPSLETLWALCVALDIP 62
Cdd:pfam13560   6 LRRLRERAGLSQEALARRLGVSRSTLSRLETGrRGRPSPAVVERLARALGVD 57
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 16-67 2.20e-06

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 43.43  E-value: 2.20e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 505181852   16 RSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLL 67
Cdd:pfam12844   8 REERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 114-166 2.47e-06

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: 43.40  E-value: 2.47e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 505181852  114 QPGADRISHPHPpGSVEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLF 166
Cdd:pfam07883   6 PPGESSPPHRHP-GEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRF 57
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 16-123 1.54e-05

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 44.17  E-value: 1.54e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505181852  16 RSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQANQT---QVIRRgegtkvvaeqany 92
Cdd:PRK08154  37 RARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLGDVDTSSpdwLLIRE------------- 103

                         90       100       110
                 ....*....|....*....|....*....|....
gi 505181852  93 qaiLLAACPPGARRDIYLLLTQ---PGADRISHP 123
Cdd:PRK08154 104 ---LLEQASPAQLARVRDALSGmlgAGRRAARRR 134
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
114-178 2.99e-05

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 41.28  E-value: 2.99e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 505181852 114 QPGADRISHPHPPGSvEHIIITQGRARVGLTEAPEELGEGDYICYPADREHLFQALEPDTQALLV 178
Cdd:COG0662   35 PPGAELSLHVHPHRD-EFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLE 98
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 108-178 2.61e-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: 37.85  E-value: 2.61e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 505181852 108 IYLLLTQPGADRISHPHPPGSvEHIIITQGRARVGL-TEAPEELGEGDYICYPADREHLFQALEPDTQALLV 178
Cdd:cd02208    1 ISVVTLPPGTSSPPHWHPEQD-EIFYVLSGEGELTLdDGETVELKAGDIVLIPPGVPHSFVNTSDEPAVFLV 71
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 12-67 3.80e-04

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 37.48  E-value: 3.80e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 505181852  12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESGN------GNPSLETLWALCVALDIPFARLL 67
Cdd:COG1426   10 LRQAREAKGLSLEDVAERTKISVSYLEAIEEGDfdalpgPVYVRGFLRSYARALGLDPEELL 71
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
16-62 4.43e-04

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 37.22  E-value: 4.43e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 505181852  16 RSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIP 62
Cdd:COG2944   15 RERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHP 61
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
12-51 6.59e-04

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 39.05  E-value: 6.59e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 505181852  12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLET 51
Cdd:COG1395  132 LRELREERGLSLGELASELGVSRRTISKYERGEMDASIEV 171
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
8-61 2.05e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 35.73  E-value: 2.05e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 505181852   8 IAKSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDI 61
Cdd:PRK09726  13 LANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLEL 66
PRK04140 PRK04140
transcriptional regulator;
12-69 2.16e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 37.53  E-value: 2.16e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 505181852  12 LTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFAR---LLEP 69
Cdd:PRK04140 131 LREAREELGLSLGELASELGVSRRTISKYENGGMNASIEVAIKLEEILDVPLTKpidILEK 191
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 20-72 3.65e-03

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 35.17  E-value: 3.65e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 505181852  20 GLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLLEPQAN 72
Cdd:COG3093   22 GLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTSAEFWLNLQAA 74
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
10-81 4.41e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 36.31  E-value: 4.41e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505181852  10 KSLTRERSRTGLSLAEVARRAGIAKSTLSQLESGNGNPSLETLWALCVALDIPFARLL-EPQANQT-QVIRRGE 81
Cdd:PRK09943  10 KRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFsEPEKPDEpQVVINQD 83
cupin_TM1459-like cd02222
Thermotoga maritima TM1459 and related proteins, cupin domain; This family includes bacterial ...
 121-168 7.20e-03

Thermotoga maritima TM1459 and related proteins, cupin domain; This family includes bacterial and archaeal proteins homologous to Thermotoga maritima TM1459, a manganese-containing cupin that has been shown to cleave C=C bonds in the presence of alkylperoxide as oxidant in vitro. Its biological function is still unknown. This family also includes Halorhodospira halophila Hhal_0468. Structures of these proteins show a cupin fold with a conserved "jelly roll-like" beta-barrel fold that form a homodimer.


Pssm-ID: 380351 [Multi-domain]  Cd Length: 91  Bit Score: 34.35  E-value: 7.20e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 505181852 121 SHPHppgsvEH-IIITQGRARVGLTEAPEELGEGDYICYPADREHLFQA 168
Cdd:cd02222   34 THPW-----EHeVYVLRGKGVVVIGGEEYPVKPGDVVYIPPNEPHQFRN 77
cupin_UGlyAH_N cd02211
(S)-ureidoglycine aminohydrolase and related proteins, N-terminal cupin domain; This family ...
 109-181 8.39e-03

(S)-ureidoglycine aminohydrolase and related proteins, N-terminal cupin domain; This family includes the N-terminal cupin domain of (S)-ureidoglycine aminohydrolase (UGlyAH), an enzyme that converts (S)-ureidoglycine into (S)-ureidoglycolate and ammonia, providing the final substrate to the ureide pathway. The ureide pathway has recently been identified as the metabolic route of purine catabolism in plants and some bacteria where, uric acid, which is a major product of the early stage of purine catabolism, is degraded into glyoxylate and ammonia via stepwise reactions by seven different enzymes. Thus, this pathway has a possible physiological role in mobilization of purine ring nitrogen for further assimilation. This enzyme from Arabidopsis thaliana(AtUGlyAH) has been shown to bind a Mn2+ ion, via the C-terminal cupin domain, which acts as a molecular anchor to bind (S)-ureidoglycine, and its binding mode dictates the enantioselectivity of the reaction. The structure of AtUGlyAH shows a bi-cupin fold with a conserved "jelly roll-like" beta-barrel fold and an octameric functional unit. Several structural homologs of UGlyAH, including the Escherichia coli ortholog YlbA (also known as GlxB6), also exhibit similar features.


Pssm-ID: 380341 [Multi-domain]  Cd Length: 117  Bit Score: 34.80  E-value: 8.39e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 505181852 109 YLLLTQPGAdRISHPHPPGSVEHII-ITQGRARVGLTEAPEELGEGDYICYPADREHLFQALEPDTQALLVAEQ 181
Cdd:cd02211   28 YLVEVEPGG-GSTAPEGGEGIERFLyVLEGEVELTVGGETHTLTAGGYAYLPPGTKHSLRNAGDEPARLLWYKK 100
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
85-166 8.45e-03

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 34.61  E-value: 8.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505181852  85 VVAEQANYQAILLAACPPGARRDIYLLLTQPGAdRISHPH-PPGSVEHIIITQGRARVGLTEAPEELGEGDYICYPADRE 163
Cdd:COG3837    7 LPGPEAGRRYRRLGDALGLTRLGVNLITLPPGA-SSSPYHaHSAEEEFVYVLEGELTLRIGGEEYVLEPGDSVGFPAGVP 85


                 ...
gi 505181852 164 HLF 166
Cdd:COG3837   86 HRL 88
 
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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