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Conserved domains on  [gi|1675157445|ref|WP_138663324|]
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cupin domain-containing protein [Sulfitobacter sabulilitoris]

Protein Classification

cupin domain-containing protein( domain architecture ID 1562428)

cupin domain-containing protein, part of a functionally diverse superfamily with the active site generally located at the center of a conserved domain forming a beta-barrel fold

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
cupin_RmlC-like super family cl40423
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 41-114 6.53e-11

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.


The actual alignment was detected with superfamily member cd02237:

Pssm-ID: 477354 [Multi-domain]  Cd Length: 82  Bit Score: 54.32  E-value: 6.53e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1675157445  41 LDEAAGRGVRTRLIRFLPGTVAPDVFvHDYWEEVYLIDGDLTAAGQDHGAPSYACRPPGTPHGPFASLGGCLFF 114
Cdd:cd02237     6 LLIDPNTGLITAILRMAPGARLPDHE-HVGGEEFYVLDGALTDEDGTAGAGDFVREPPGSRHSAVAPREGCLIL 78
 
Name Accession Description Interval E-value
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 41-114 6.53e-11

2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; cupin domain; This family includes the proteins 2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR. DAD catalyzes the oxidation of 2,4'-dihydroxyacetophenone to 4-hydroxybenzoate and formate as part of the 4-hydroxyacetophenone catabolic pathway. The enzyme is a homotetramer containing one iron per molecule of enzyme. Anti-sigma factor ChrR is a member of the ZAS (Zn2+ anti-sigma) subfamily of group IV anti-sigmas. It inhibits transcriptional activity by binding to the Rsp extra cytoplasmic function (ECF) sigma factor E (sigmaE). Some ChrR members contain tandem repeats of two distinct homologous functional domains. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380365 [Multi-domain]  Cd Length: 82  Bit Score: 54.32  E-value: 6.53e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1675157445  41 LDEAAGRGVRTRLIRFLPGTVAPDVFvHDYWEEVYLIDGDLTAAGQDHGAPSYACRPPGTPHGPFASLGGCLFF 114
Cdd:cd02237     6 LLIDPNTGLITAILRMAPGARLPDHE-HVGGEEFYVLDGALTDEDGTAGAGDFVREPPGSRHSAVAPREGCLIL 78
Cupin_7 pfam12973
ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family ...
 25-114 1.41e-09

ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family includes the transcriptional activator ChrR.


Pssm-ID: 463764 [Multi-domain]  Cd Length: 91  Bit Score: 51.09  E-value: 1.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1675157445  25 VPGGAPGVQQKMLsgaLDEAAGRGVRTRLIRFLPGTVAPDvfvHDYW--EEVYLIDGDLTAAGQDHGAPSYACRPPGTPH 102
Cdd:pfam12973   3 VPSPVPGVERKPL---HRDGGEKARATSLVRYAPGSRFPA---HRHPggEEILVLEGVFSDEHGDYPAGTYLRNPPGSSH 76

                          90
                  ....*....|..
gi 1675157445 103 GPFaSLGGCLFF 114
Cdd:pfam12973  77 APF-SEEGCTIF 87
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
22-105 2.20e-03

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 34.99  E-value: 2.20e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1675157445  22 WEQVPGGAPGVQQKMLSGALDeaaGRGVRTRLIRFLPGTVAPDVFVHDYWEE-VYLIDGDLTA--AGQDH--GAPSYACR 96
Cdd:COG3837     4 LDDLPGPEAGRRYRRLGDALG---LTRLGVNLITLPPGASSSPYHAHSAEEEfVYVLEGELTLriGGEEYvlEPGDSVGF 80


                  ....*....
gi 1675157445  97 PPGTPHGPF 105
Cdd:COG3837    81 PAGVPHRLR 89
 
Name Accession Description Interval E-value
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 41-114 6.53e-11

2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; cupin domain; This family includes the proteins 2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR. DAD catalyzes the oxidation of 2,4'-dihydroxyacetophenone to 4-hydroxybenzoate and formate as part of the 4-hydroxyacetophenone catabolic pathway. The enzyme is a homotetramer containing one iron per molecule of enzyme. Anti-sigma factor ChrR is a member of the ZAS (Zn2+ anti-sigma) subfamily of group IV anti-sigmas. It inhibits transcriptional activity by binding to the Rsp extra cytoplasmic function (ECF) sigma factor E (sigmaE). Some ChrR members contain tandem repeats of two distinct homologous functional domains. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380365 [Multi-domain]  Cd Length: 82  Bit Score: 54.32  E-value: 6.53e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1675157445  41 LDEAAGRGVRTRLIRFLPGTVAPDVFvHDYWEEVYLIDGDLTAAGQDHGAPSYACRPPGTPHGPFASLGGCLFF 114
Cdd:cd02237     6 LLIDPNTGLITAILRMAPGARLPDHE-HVGGEEFYVLDGALTDEDGTAGAGDFVREPPGSRHSAVAPREGCLIL 78
cupin_ChrR_1 cd20303
Marinobacter hydrocarbonoclasticus anti-ECFsigma factor ChrR, and similar proteins; 2 ...
 18-114 5.52e-10

Marinobacter hydrocarbonoclasticus anti-ECFsigma factor ChrR, and similar proteins; 2 heterologous tandem repeats of cupin domain; This family contains bacterial anti-sigma factor such as ChrR from Marinobacter hydrocarbonoclasticus. Anti-sigma factor ChrR is a member of the ZAS (Zn2+ anti-sigma) subfamily of group IV anti-sigmas. It inhibits transcriptional activity by binding to the ECF sigma factor E (sigmaE), an essential factor to mount a transcriptional response to a singlet oxygen and for viability when carotenoids are limiting. This protein family likely contains two distinct homologous functional domains belonging to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380437 [Multi-domain]  Cd Length: 102  Bit Score: 52.21  E-value: 5.52e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1675157445  18 ADTGWeqVPGGAPGVQQKMLSGALDEAagrgvrTRLIRFLPGTVAPDvfvHDYW--EEVYLIDGDLTAAGQDHGAPSYAC 95
Cdd:cd20303    10 RDADW--VPGPVPGVERLPLHRFGAEA------TALVRWAPGTRFPP---HSHPggEEILVLEGTFSDEHGDYPAGTWLR 78

                          90
                  ....*....|....*....
gi 1675157445  96 RPPGTPHGPFaSLGGCLFF 114
Cdd:cd20303    79 NPHGSRHAPF-SEEGCTLF 96
Cupin_7 pfam12973
ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family ...
 25-114 1.41e-09

ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family includes the transcriptional activator ChrR.


Pssm-ID: 463764 [Multi-domain]  Cd Length: 91  Bit Score: 51.09  E-value: 1.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1675157445  25 VPGGAPGVQQKMLsgaLDEAAGRGVRTRLIRFLPGTVAPDvfvHDYW--EEVYLIDGDLTAAGQDHGAPSYACRPPGTPH 102
Cdd:pfam12973   3 VPSPVPGVERKPL---HRDGGEKARATSLVRYAPGSRFPA---HRHPggEEILVLEGVFSDEHGDYPAGTYLRNPPGSSH 76

                          90
                  ....*....|..
gi 1675157445 103 GPFaSLGGCLFF 114
Cdd:pfam12973  77 APF-SEEGCTIF 87
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
22-105 2.20e-03

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 34.99  E-value: 2.20e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1675157445  22 WEQVPGGAPGVQQKMLSGALDeaaGRGVRTRLIRFLPGTVAPDVFVHDYWEE-VYLIDGDLTA--AGQDH--GAPSYACR 96
Cdd:COG3837     4 LDDLPGPEAGRRYRRLGDALG---LTRLGVNLITLPPGASSSPYHAHSAEEEfVYVLEGELTLriGGEEYvlEPGDSVGF 80


                  ....*....
gi 1675157445  97 PPGTPHGPF 105
Cdd:COG3837    81 PAGVPHRLR 89
 
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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