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Conserved domains on  [gi|504698628|ref|WP_014885730|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Enterobacter]

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];
1-70 6.06e-17

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 71.57  E-value: 6.06e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628   1 MTQPISVIAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLEPQ 70
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGA 70
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.61e-10

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


:

Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 53.31  E-value: 8.61e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628 101 PPGARRDVYLLMTQPGADriSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGAR--TPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 6.06e-17

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 71.57  E-value: 6.06e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628   1 MTQPISVIAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLEPQ 70
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGA 70
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 6.39e-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: 60.26  E-value: 6.39e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628   9 AKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-66 4.00e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.60  E-value: 4.00e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 504698628    12 LVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 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 ...
 14-66 2.21e-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: 2.21e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 504698628   14 RERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 66
Cdd:pfam01381   3 ELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.61e-10

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 53.31  E-value: 8.61e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628 101 PPGARRDVYLLMTQPGADriSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGAR--TPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 91-178 1.96e-09

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: 52.12  E-value: 1.96e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628  91 NYEAILLAACPPGARRDVYLLMTQPGADRiSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKAL- 169
Cdd:cd02209    1 GYTYELLSPGLPGRKMEPFLVTLPPGGSG-GEPYSHEGEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNPg 79


                 ....*....
gi 504698628 170 EPDTHALLV 178
Cdd:cd02209   80 DEPARVLWV 88
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 12-68 3.68e-08

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 49.37  E-value: 3.68e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 504698628  12 LVRERlrtGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLE 68
Cdd:PRK13890  13 LLDER---HMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLE 66
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 114-168 3.46e-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: 3.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 504698628  114 QPGADRISQPHsPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKA 168
Cdd:pfam07883   6 PPGESSPPHRH-PGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRN 59
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-70 6.06e-17

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 71.57  E-value: 6.06e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628   1 MTQPISVIAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLEPQ 70
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGA 70
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 6.39e-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: 60.26  E-value: 6.39e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628   9 AKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
8-70 5.36e-12

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 58.32  E-value: 5.36e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504698628   8 IAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLEPQ 70
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELFSLE 67
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
12-66 4.00e-11

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 55.60  E-value: 4.00e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 504698628    12 LVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 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 ...
 14-66 2.21e-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: 2.21e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 504698628   14 RERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARL 66
Cdd:pfam01381   3 ELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
101-178 8.61e-10

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 53.31  E-value: 8.61e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628 101 PPGARRDVYLLMTQPGADriSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLV 178
Cdd:COG1917   18 DGEDELEVVRVTFEPGAR--TPWHSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLV 93
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 91-178 1.96e-09

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: 52.12  E-value: 1.96e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628  91 NYEAILLAACPPGARRDVYLLMTQPGADRiSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKAL- 169
Cdd:cd02209    1 GYTYELLSPGLPGRKMEPFLVTLPPGGSG-GEPYSHEGEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNPg 79


                 ....*....
gi 504698628 170 EPDTHALLV 178
Cdd:cd02209   80 DEPARVLWV 88
PRK13890 PRK13890
conjugal transfer protein TrbA; Provisional
 12-68 3.68e-08

conjugal transfer protein TrbA; Provisional


Pssm-ID: 237547 [Multi-domain]  Cd Length: 120  Bit Score: 49.37  E-value: 3.68e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 504698628  12 LVRERlrtGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLLE 68
Cdd:PRK13890  13 LLDER---HMTKKELSERSGVSISFLSDLTTGKANPSLKVMEAIADALETPLPLLLE 66
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 8-64 6.69e-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: 47.63  E-value: 6.69e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 504698628   8 IAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFA 64
Cdd:COG1813   13 YGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLA 69
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 8-67 6.86e-08

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: 48.09  E-value: 6.86e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628   8 IAKSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLL 67
Cdd:COG3620   18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
13-68 2.54e-07

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 45.90  E-value: 2.54e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 504698628  13 VRERLRT-----GLSLAEIARRAGIAKSTLSQLESGNG-NPSLETLWSLCVALDIPFARLLE 68
Cdd:COG3655    2 IYVKLDEllaerGMTKKELAEATGISRATLSRLKNGKAkAVRLDTLEKICKALDCQPGDLLE 63
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 15-67 6.85e-07

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: 44.59  E-value: 6.85e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 504698628   15 ERLRT-----GLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLL 67
Cdd:pfam12844   2 ERLRKareerGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLL 59
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 14-62 3.82e-06

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: 42.52  E-value: 3.82e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 504698628   14 RERLRTGLSLAEIARRAGIAKSTLSQLESG-NGNPSLETLWSLCVALDIP 62
Cdd:pfam13560   8 RLRERAGLSQEALARRLGVSRSTLSRLETGrRGRPSPAVVERLARALGVD 57
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 20-70 5.41e-06

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: 42.14  E-value: 5.41e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 504698628   20 GLSLAEIARRAGIAKSTLSQLESGN-GNPSLETLWSLCVALDIPFARLLEPQ 70
Cdd:pfam13443  10 GISKSDLARATGISRATLSRLRKGKpKRVSLDTLDKICDALGCQPGDLLEYV 61
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 114-168 3.46e-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: 3.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 504698628  114 QPGADRISQPHsPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKA 168
Cdd:pfam07883   6 PPGESSPPHRH-PGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRN 59
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
108-178 4.66e-05

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 40.90  E-value: 4.66e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 504698628 108 VYLLMTQPGADRISQPHsPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLV 178
Cdd:COG0662   29 VKRITVPPGAELSLHVH-PHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLELLE 98
PRK08154 PRK08154
anaerobic benzoate catabolism transcriptional regulator; Reviewed
 13-79 4.95e-05

anaerobic benzoate catabolism transcriptional regulator; Reviewed


Pssm-ID: 236167 [Multi-domain]  Cd Length: 309  Bit Score: 42.63  E-value: 4.95e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 504698628  13 VRE-RLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLL---EPQLPSTQVIRR 79
Cdd:PRK08154  33 VRTlRARRGMSRKVLAQASGVSERYLAQLESGQGNVSILLLRRVARALGCSLADLLgdvDTSSPDWLLIRE 103
cupin_HP0902-like cd02230
Helicobacter pylori HP0902 and related proteins, cupin domain; This family includes ...
 132-179 5.17e-05

Helicobacter pylori HP0902 and related proteins, cupin domain; This family includes prokaryotic and archaeal proteins homologous to HP0902, a functionally uncharacterized protein from Helicobacter pylori and Spy1581, a protein of unknown function from Streptococcus pyogenes. These proteins demonstrate all-beta cupin folds that cannot bind metal ions due to the absence of a metal-binding histidine that is conserved in many metallo-cupins. HP0902 is able to bind bacterial endotoxin lipopolysaccharides (LPS) through its surface-exposed loops, where metal-binding sites are usually found in other metallo-cupins, and thus may have a putative role in H. pylori pathogenicity.


Pssm-ID: 380358 [Multi-domain]  Cd Length: 83  Bit Score: 40.19  E-value: 5.17e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 504698628 132 IIVMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLVA 179
Cdd:cd02230   35 VQVLEGEAEFTIGGETVTLKAGELIVMPANVPHALKAEEDFKMLLTLI 82
COG1395 COG1395
Predicted transcriptional regulator [Transcription];
12-51 3.49e-04

Predicted transcriptional regulator [Transcription];


Pssm-ID: 441005 [Multi-domain]  Cd Length: 313  Bit Score: 40.21  E-value: 3.49e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 504698628  12 LVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLET 51
Cdd:COG1395  132 LRELREERGLSLGELASELGVSRRTISKYERGEMDASIEV 171
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
108-166 4.30e-04

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 38.07  E-value: 4.30e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628 108 VYLLMTQPGAdRISQPHS-PGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPHIF 166
Cdd:COG3837   30 VNLITLPPGA-SSSPYHAhSAEEEFVYVLEGELTLRIGGEEYVLEPGDSVGFPAGVPHRL 88
cupin_DRT102 cd06989
Arabidopsis thaliana DRT102 and related proteins, cupin domain; This family includes bacterial ...
 101-165 4.32e-04

Arabidopsis thaliana DRT102 and related proteins, cupin domain; This family includes bacterial and eukaryotic proteins homologous to DNA-damage-repair/toleration protein DRT102 found in Arabidopsis thaliana. DRT102 may be involved in DNA repair from UV damage. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380394  Cd Length: 97  Bit Score: 37.90  E-value: 4.32e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628 101 PPGARR----------DVYLLMTQPGADRISQPHSPGSVEHIIVMQGRALVGLLD-----AAEELAAGDYICYPADQPHI 165
Cdd:cd06989    1 PPGAKAavlegdpskpGPFVVRLKFPAGYKIPPHTHPDDERVTVISGTFYLGMGDkfdeaKAKALPAGSFFTLPAGTPHF 80
cupin_DddK cd06988
Dimethylsulfoniopropionate lyase DddK and related proteins, cupin domain; This family includes ...
 115-164 6.69e-04

Dimethylsulfoniopropionate lyase DddK and related proteins, cupin domain; This family includes mostly bacterial proteins homologous to dimethylsulfoniopropionate lyase DddK from marine bacterium Pelagibacter. DddK cleaves dimethylsulfoniopropionate (DMSP), the organic osmolyte and antioxidant produced in marine environments, and yields acrylate and the climate-active gas dimethyl sulfide (DMS). DddK contains a double-stranded beta-helical motif which utilizes various divalent metal ions as cofactors for catalytic activity; however, nickel, an abundant metal ion in marine environments, confers the highest DMSP lyase activity. Also included in this family is Plu4264, a Photorhabdus luminescens manganese-containing cupin shown to have similar metal binding site to TM1287 decarboxylase, but two very different substrate binding pockets. The Plu4264 binding pocket shows a cavity and substrate entry point more than twice as large as and more hydrophobic than TM1287, suggesting that Plu4264 accepts a substrate that is significantly larger than that of TM1287, a putative oxalate decarboxylase. Thus, the function of Plu4264 could be similar to that of TM1287 but with a larger, less charged substrate. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380393 [Multi-domain]  Cd Length: 76  Bit Score: 36.83  E-value: 6.69e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 504698628 115 PGADriSQPHSPGSVEHIIVMQGRALVGLLDAAEELAAGDYICYPADQPH 164
Cdd:cd06988   11 PGTT--STPHSHHEYEIFIVISGKGIVVVDGEREPVKAGDVVYIPPGTEH 58
PA5055 COG3636
Uncharacterized Zn-binding protein, DUF971 domain [Mobilome: prophages, transposons];
23-61 1.23e-03

Uncharacterized Zn-binding protein, DUF971 domain [Mobilome: prophages, transposons];


Pssm-ID: 442853  Cd Length: 92  Bit Score: 36.30  E-value: 1.23e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 504698628  23 LAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDI 61
Cdd:COG3636   50 MSQLAKEAGLSRESLYKALSPKGNPTLDTLLKVLKALGL 88
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
16-62 1.49e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 35.68  E-value: 1.49e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 504698628  16 RLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIP 62
Cdd:COG2944   15 RERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAALKLLRLLEKHP 61
cupin_QDO_N_C cd02215
quercetinase, N- and C-terminal cupin domains; This family contains quercetinase (also known ...
 76-178 1.84e-03

quercetinase, N- and C-terminal cupin domains; This family contains quercetinase (also known as quercetin 2,3-dioxygenase, 2,3QD, QDO and YxaG; EC 1.13.11.24), a mononuclear copper-dependent dioxygenase that catalyzes the cleavage of the flavonol quercetin (5,7,3',4'-tetrahydroxyflavonol) heterocyclic ring to produce 2-protocatechuoyl-phloroglucinol carboxylic acid and carbon monoxide. Bacillus subtilis quercetin 2,3-dioxygenase (QDO) is a homodimer that shows oxygenase activity with several divalent metals such as Mn2+, Co2+, Fe2+, and Cu2+, although the preferred one appears to be Mn2+. The dioxygen binds to the metal ion of the Cu-QDO-quercetin complex, yielding a Cu2+-superoxo quercetin radical intermediate, which then forms a Cu2+-alkylperoxo complex which then evolves into endoperoxide intermediate that decomposes to the product. Quercetinase is a bicupin with two tandem cupin beta-barrel domains, both of which are included in this alignment model. The pirins, which also belong to the cupin domain family, have been shown to catalyze a reaction involving quercetin and may have a function similar to that of quercetinase.


Pssm-ID: 380345 [Multi-domain]  Cd Length: 122  Bit Score: 36.75  E-value: 1.84e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628  76 VIRRGEGTKVVAGQANYEAILLAAcppgARRDVYLLMTQ--PGADRISqPHS-PGSVEHIIVMQGRALVGLLDAAEELAA 152
Cdd:cd02215    3 VLRAGEGERYLVGGQLFTVLATGE----STGGAFTLVTTegPKGDAIP-PHYhKRHHETFYVLEGRLQLWLDGESRLLTP 77

                         90       100
                 ....*....|....*....|....*.
gi 504698628 153 GDYICYPADQPHIFKALEPDTHALLV 178
Cdd:cd02215   78 GDFASVPPGTIHAYRMLSPDTRFLGV 103
cupin_SPO2919-like cd02224
Silicibacter pomeroyi SPO2919 and related proteins, uncharacterized sugar phosphate isomerase ...
 114-163 1.99e-03

Silicibacter pomeroyi SPO2919 and related proteins, uncharacterized sugar phosphate isomerase with a cupin domain; This family includes proteins similar to sugar phosphate isomerase SPO2919 from Silicibacter pomeroyi and Afe_0303 from Acidithiobacillus ferrooxidans, but are as yet uncharacterized. Structures of these proteins show a cupin fold with a conserved "jelly roll-like" beta-barrel fold that form a homodimer.


Pssm-ID: 380353 [Multi-domain]  Cd Length: 105  Bit Score: 36.31  E-value: 1.99e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 504698628 114 QPGAdRISQPHSPgSV--EHIIVMQGRALVGLLDAAEELAAGDYICYPADQP 163
Cdd:cd02224   25 PPGA-RSSPRHWH-SAeeEFVYVLSGEGTLRLDGEEVLPRPGDFVGFPAGTG 74
cupin_UGlyAH_N cd02211
(S)-ureidoglycine aminohydrolase and related proteins, N-terminal cupin domain; This family ...
 109-181 2.24e-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: 36.34  E-value: 2.24e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504698628 109 YLLMTQPGAdRISQPHSPGSVEHII-VMQGRALVGLLDAAEELAAGDYICYPADQPHIFKALEPDTHALLVAEQ 181
Cdd:cd02211   28 YLVEVEPGG-GSTAPEGGEGIERFLyVLEGEVELTVGGETHTLTAGGYAYLPPGTKHSLRNAGDEPARLLWYKK 100
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
16-61 3.52e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 35.34  E-value: 3.52e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 504698628  16 RLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDI 61
Cdd:PRK09726  21 RQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLEL 66
PRK04140 PRK04140
transcriptional regulator;
13-69 4.22e-03

transcriptional regulator;


Pssm-ID: 235224 [Multi-domain]  Cd Length: 317  Bit Score: 36.76  E-value: 4.22e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 504698628  13 VRERLrtGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFAR---LLEP 69
Cdd:PRK04140 134 AREEL--GLSLGELASELGVSRRTISKYENGGMNASIEVAIKLEEILDVPLTKpidILEK 191
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
10-81 6.52e-03

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 35.93  E-value: 6.52e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504698628  10 KSLVRERLRTGLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIPFARLL-EPQLPST-QVIRRGE 81
Cdd:PRK09943  10 KRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFsEPEKPDEpQVVINQD 83
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 20-62 8.53e-03

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


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 34.01  E-value: 8.53e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 504698628  20 GLSLAEIARRAGIAKSTLSQLESGNGNPSLETLWSLCVALDIP 62
Cdd:COG3093   22 GLSQTELAKALGVSRQRISEILNGKRAITADTALRLARAFGTS 64
 
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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