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Conserved domains on  [gi|1109610942|emb|SHG85814|]
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anti-ECFsigma factor, ChrR [Bradyrhizobium erythrophlei]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 34-119 1.04e-29

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: 103.24  E-value: 1.04e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  34 CEAKTLLFDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEGPAqgiacKSGEFIWREPGSRHAAWCP-DGA 112
Cdd:cd02237     1 VEQRPLLIDPNTGLITAILRMAPGARLPDHEHVGGEEFYVLDGALTDEDGTA-----GAGDFVREPPGSRHSAVAPrEGC 75


                  ....*..
gi 1109610942 113 LLLAMFQ 119
Cdd:cd02237    76 LILVILQ 82
 
Name Accession Description Interval E-value
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 34-119 1.04e-29

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: 103.24  E-value: 1.04e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  34 CEAKTLLFDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEGPAqgiacKSGEFIWREPGSRHAAWCP-DGA 112
Cdd:cd02237     1 VEQRPLLIDPNTGLITAILRMAPGARLPDHEHVGGEEFYVLDGALTDEDGTA-----GAGDFVREPPGSRHSAVAPrEGC 75


                  ....*..
gi 1109610942 113 LLLAMFQ 119
Cdd:cd02237    76 LILVILQ 82
Cupin_7 pfam12973
ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family ...
 25-115 4.57e-11

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: 55.71  E-value: 4.57e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  25 EWQKTRFSGCEAKTLL-FDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEG--PAqgiacksGEFIWREPG 101
Cdd:pfam12973   1 PWVPSPVPGVERKPLHrDGGEKARATSLVRYAPGSRFPAHRHPGGEEILVLEGVFSDEHGdyPA-------GTYLRNPPG 73

                          90
                  ....*....|....
gi 1109610942 102 SRHAAWCPDGALLL 115
Cdd:pfam12973  74 SSHAPFSEEGCTIF 87
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
24-119 1.34e-08

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 49.46  E-value: 1.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  24 MEWQKTRFSGCEAKTLLFDRTTgLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSL-VDKEGPAqgIACKSGEFIWREPGS 102
Cdd:COG1917     1 MRLAEIALTGVSVRVLADGEDE-LEVVRVTFEPGARTPWHSHPGEELIYVLEGEGeVEVGGEE--YELKPGDVVFIPPGV 77

                          90
                  ....*....|....*....
gi 1109610942 103 RHAAWC--PDGALLLAMFQ 119
Cdd:COG1917    78 PHAFRNlgDEPAVLLVVFS 96
 
Name Accession Description Interval E-value
cupin_DAD_ChrR cd02237
2,4'-Dihydroxyacetophenone dioxygenase (DAD) and anti-sigma factor ChrR, and similar proteins; ...
 34-119 1.04e-29

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: 103.24  E-value: 1.04e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  34 CEAKTLLFDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEGPAqgiacKSGEFIWREPGSRHAAWCP-DGA 112
Cdd:cd02237     1 VEQRPLLIDPNTGLITAILRMAPGARLPDHEHVGGEEFYVLDGALTDEDGTA-----GAGDFVREPPGSRHSAVAPrEGC 75


                  ....*..
gi 1109610942 113 LLLAMFQ 119
Cdd:cd02237    76 LILVILQ 82
cupin_ChrR_1 cd20303
Marinobacter hydrocarbonoclasticus anti-ECFsigma factor ChrR, and similar proteins; 2 ...
 19-115 4.70e-13

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: 61.07  E-value: 4.70e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  19 VQPQNMEWQKTRFSGCEAKTLlfDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEG--PAqgiacksGEFI 96
Cdd:cd20303     7 IDTRDADWVPGPVPGVERLPL--HRFGAEATALVRWAPGTRFPPHSHPGGEEILVLEGTFSDEHGdyPA-------GTWL 77

                          90
                  ....*....|....*....
gi 1109610942  97 WREPGSRHAAWCPDGALLL 115
Cdd:cd20303    78 RNPHGSRHAPFSEEGCTLF 96
Cupin_7 pfam12973
ChrR Cupin-like domain; Members of this family are part of the cupin superfamily. This family ...
 25-115 4.57e-11

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: 55.71  E-value: 4.57e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  25 EWQKTRFSGCEAKTLL-FDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEG--PAqgiacksGEFIWREPG 101
Cdd:pfam12973   1 PWVPSPVPGVERKPLHrDGGEKARATSLVRYAPGSRFPAHRHPGGEEILVLEGVFSDEHGdyPA-------GTYLRNPPG 73

                          90
                  ....*....|....
gi 1109610942 102 SRHAAWCPDGALLL 115
Cdd:pfam12973  74 SSHAPFSEEGCTIF 87
cupin_DAD cd20302
2,4'-Dihydroxyacetophenone dioxygenase (DAD), cupin domain; 2,4'-Dihydroxyacetophenone ...
 33-132 6.43e-11

2,4'-Dihydroxyacetophenone dioxygenase (DAD), cupin domain; 2,4'-Dihydroxyacetophenone dioxygenase (DAD) catalyzes the oxidation of 2,4'-dihydroxyacetophenone to 4-hydroxybenzoate and formate as part of the 4-hydroxyacetophenone catabolic pathway. This enzyme is a homo-tetramer containing one iron per molecule of enzyme. This enzyme is an unusual dioxygenase in that it cleaves a C-C bond in a substituent of the aromatic ring rather than within the ring itself. As a bacterial dioxygenase, DAD plays an important environmental role in the aerobic catabolism of aromatic compounds; expression of this enzyme in appropriately engineered microorganisms has the potential to use these aromatic pollutants as a carbon source and thus remove them from the environment. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380436 [Multi-domain]  Cd Length: 123  Bit Score: 56.00  E-value: 6.43e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  33 GCEAKTLLFDRTTGLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEGPaqGIAcKSGEFIWREPGSRHAAWCPD-- 110
Cdd:cd20302    11 GVWFKPLRFDPETGEWVVLLRVPPGGSLPRHRHTGPVHAYTLSGSWRYLEHD--WVA-TAGSYVYEPAGSIHTLVVPEee 87

                          90       100
                  ....*....|....*....|..
gi 1109610942 111 GALLLAMFQVPNKFFEADGRVV 132
Cdd:cd20302    88 ETIVLFIVQGALIFLDEDGNVI 109
cupin_KdgF cd02238
pectin degradation protein KdgF and related proteins, cupin domain; This family includes ...
 33-118 6.41e-09

pectin degradation protein KdgF and related proteins, cupin domain; This family includes bacterial and archaeal pectin degradation protein KdgF that catalyzes the linearization of unsaturated uronates from both pectin and alginate, which are polysaccharides found in the cell walls of plants and brown algae, respectively, and represent an important source of carbon. These polysaccharides, mostly consisting of chains of uronates, can be metabolized by bacteria through a pathway of enzymatic steps to the key metabolite 2-keto-3-deoxygluconate (KDG). Pectin degradation is used by many plant-pathogenic bacteria during infection, and also, pectin and alginate can both represent abundant sources of carbohydrate for the production of biofuels. These proteins belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380366 [Multi-domain]  Cd Length: 104  Bit Score: 50.16  E-value: 6.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  33 GCEAKTLLFDRttGLMTALMRFAPGSVLPDHEHVNiEQ-TYVLEGSL---VDKEgpaqGIACKSGEFIWREPGSRHAAWC 108
Cdd:cd02238    15 GVRRKILAGGE--KLMLVEVRFEKGAVVPLHSHPH-EQiGYVLSGRFeftIGGE----TRILKPGDSYYIPPNVPHGAEA 87

                          90
                  ....*....|
gi 1109610942 109 PDGALLLAMF 118
Cdd:cd02238    88 LEDSVLLDVF 97
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
24-119 1.34e-08

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 49.46  E-value: 1.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  24 MEWQKTRFSGCEAKTLLFDRTTgLMTALMRFAPGSVLPDHEHVNIEQTYVLEGSL-VDKEGPAqgIACKSGEFIWREPGS 102
Cdd:COG1917     1 MRLAEIALTGVSVRVLADGEDE-LEVVRVTFEPGARTPWHSHPGEELIYVLEGEGeVEVGGEE--YELKPGDVVFIPPGV 77

                          90
                  ....*....|....*....
gi 1109610942 103 RHAAWC--PDGALLLAMFQ 119
Cdd:COG1917    78 PHAFRNlgDEPAVLLVVFS 96
ChrR COG3806
Anti-sigma factor ChrR, cupin superfamily [Signal transduction mechanisms];
49-124 3.14e-08

Anti-sigma factor ChrR, cupin superfamily [Signal transduction mechanisms];


Pssm-ID: 443019  Cd Length: 157  Bit Score: 49.55  E-value: 3.14e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  49 TALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEG--PAqgiacksGEFIWREPGSRHA--AWCPDGALLLAMFQVPNKF 124
Cdd:COG3806    69 TSLLRIAPGSAFPEHTHRGGEETLVLEGAFSDEHGdyGA-------GDFIRADPGSEHQpvADPDEGCICLVVLDAPLRF 141
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
22-133 8.22e-05

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 39.74  E-value: 8.22e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  22 QNMEWQKTRFSGCEAKTLLFDRTTGLMTALMRFAPGSVLPDHEHVNIEQT-YVLEGSLV----DKEGPAqgiacKSGEFI 96
Cdd:COG0662     2 QDVNIEELKAIGWGSYEVLGEGGERLSVKRITVPPGAELSLHVHPHRDEFfYVLEGTGEvtigDEEVEL-----KAGDSV 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1109610942  97 WREPGSRHAAWCP-DGALLLAMFQVPNKFFEADGRVVD 133
Cdd:COG0662    77 YIPAGVPHRLRNPgDEPLELLEVQAPAYLGEDDIVRED 114
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 51-111 1.11e-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: 38.62  E-value: 1.11e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1109610942  51 LMRFAPGSVLPDHEHVNIEQT-YVLEGSLVDKEGPAQGIACKSGEFIWREPGSRHAAWCPDG 111
Cdd:cd02208     3 VVTLPPGTSSPPHWHPEQDEIfYVLSGEGELTLDDGETVELKAGDIVLIPPGVPHSFVNTSD 64
cupin_ChrR cd20301
anti-ECFsigma factor, ChrR , cupin domain; This family contains bacterial anti-sigma factor ...
 51-104 2.69e-04

anti-ECFsigma factor, ChrR , cupin domain; This family contains bacterial anti-sigma factor ChrR from the photosynthetic bacterium Rhodobacter sphaeroides (Rsp) and similar proteins. 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), an essential factor to mount a transcriptional response to a singlet oxygen and for viability when carotenoids are limiting. ChrR comprises two structural and functional modules; the N-terminal anti-sigma domain (ASD) binds a Zn(2+) ion, contacts sigma(E), and is sufficient to inhibit sigma(E)-dependent transcription. The ChrR C-terminal domain adopts a cupin fold, can coordinate an additional Zn(2+), and is required for the transcriptional response to singlet oxygen, a potent oxidant that damages cellular biomolecules and can kill cells. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold.


Pssm-ID: 380435 [Multi-domain]  Cd Length: 161  Bit Score: 39.04  E-value: 2.69e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1109610942  51 LMRFAPGSVLPDHEHVNIEQTYVLEGSLVDKEGpaqgiACKSGEFIWREPGSRH 104
Cdd:cd20301    96 LLRIAPGTRVPEHTHKGSELTLVLSGAFSDETG-----RYGRGDFAEADEDVEH 144
cupin_BLL4011-like cd02235
Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes ...
 48-79 7.65e-04

Bradyrhizobium diazoefficiens BLL4011 and related proteins, cupin domain; This family includes bacterial and fungal proteins homologous to BLL4011, a Bradyrhizobium diazoefficiens protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380363 [Multi-domain]  Cd Length: 100  Bit Score: 36.79  E-value: 7.65e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1109610942  48 MTALMRFAPGSVLPDHEHVNIEQTYVLEGSLV 79
Cdd:cd02235    20 VQVRVEIPPGAVAGRHTHPGEESGYVLEGSLE 51
DMSP_lyase pfam16867
Dimethlysulfonioproprionate lyase; Breaks down into dimethylsulfoniopropionate (DMSP) into ...
 51-115 1.22e-03

Dimethlysulfonioproprionate lyase; Breaks down into dimethylsulfoniopropionate (DMSP) into acrylate and dimethyl sulfide.


Pssm-ID: 435615  Cd Length: 162  Bit Score: 37.01  E-value: 1.22e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1109610942  51 LMRFAPGSVLPDHEHVNIEQTYVLEGSLVdKEGPAQGIACKSGEFIWREPGSRHAAWCPDGALLL 115
Cdd:pfam16867  99 FVLLGPHVRYPDHHHPPEESYLVLSGGEW-RQGEADWFPPGIGEIIHNPPGIVHAMRSVETPLLA 162
cupin_BLR7677-like cd02234
Bradyrhizobium japonicum BLR7677 and related proteins, cupin domain; This family includes ...
 47-104 7.71e-03

Bradyrhizobium japonicum BLR7677 and related proteins, cupin domain; This family includes bacterial and fungal proteins homologous to BLR7677, a Bradyrhizobium japonicum protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380362 [Multi-domain]  Cd Length: 103  Bit Score: 34.02  E-value: 7.71e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1109610942  47 LMTALMRFAPGSVLPDHEHVNIEQTYVLEGSLVDK--EGPAQGIacKSGEFIWREPGSRH 104
Cdd:cd02234    19 VTVLLVTYPPGAASPPHRHPGFVFAYVLEGEVRSQvnGGPPRVY--KAGESFYEPPGAHH 76
 
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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