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Conserved domains on  [gi|1417864327|gb|RAV62391|]
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gamma-carboxymuconolactone decarboxylase [Aerococcus mictus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
cupin_HNL-like cd02233
Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This ...
 141-246 6.13e-45

Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This family includes archaeal, eukaryotic, and bacterial proteins homologous to hydroxynitrile lyase from Granulicella tundricola (GtHNL), a novel class of HNLs that does not show any sequence or structural similarity to any other HNL and does not contain conserved motifs typical of HNLs. HNLs comprise a diverse group of enzymes that vary in terms of their substrate specificity, enantioselectivity and the need for a co-factor. In plants, they catalyze the reversible cleavage of cyanohydrins, yielding HCN and aldehydes or ketones. Also included in this family is TM1010 from Thermotoga maritima, a protein of unknown function. Some but not all members of this family have N- or C-terminal carboxymuconolactone decarboxylase domains in addition to the cupin domain. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


:

Pssm-ID: 380361 [Multi-domain]  Cd Length: 106  Bit Score: 146.54  E-value: 6.13e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 141 FIGKSYLAPLSSQQ----VDIHNVTFEPGCRNHWHIHHasqgGGQILIAVAGTGYYQEWGQDPIKLEPGHVINVGAGVKH 216
Cdd:cd02233     1 FTGTVWLDPLFPADepsrVSVANVTFEPGARTAWHTHP----GGQILIVTSGVGWVQEEGGPPQELRPGDVVWIPPGVKH 76

                          90       100       110
                  ....*....|....*....|....*....|
gi 1417864327 217 WHGASKEDWFSHIAIAVPGQDTSNEWCEPV 246
Cdd:cd02233    77 WHGAAPDSAMTHLAITEALDGGGVEWLEPV 106
YurZ COG0599
Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone ...
 7-106 3.92e-26

Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone decarboxylase family [General function prediction only];


:

Pssm-ID: 440364  Cd Length: 114  Bit Score: 98.48  E-value: 3.92e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327   7 TAGRDALGDFAPEFAHFNDDiLFGENWNNESISIKTRCIITLVALMSMGiTDSSLVYHLENAKKHGVSQREIAGIITHLG 86
Cdd:COG0599    12 PRALEALAEFAPEFAEAFEA-LFGDVWARGALDPKTRELITLAALAALG-CEPCLKAHVRAALNAGATREEIAEALLVAA 89

                          90       100
                  ....*....|....*....|
gi 1417864327  87 FYVGWPKAWAVFNLAKDIWA 106
Cdd:COG0599    90 VYAGFPAALNALRAALEVLE 109
 
Name Accession Description Interval E-value
cupin_HNL-like cd02233
Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This ...
 141-246 6.13e-45

Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This family includes archaeal, eukaryotic, and bacterial proteins homologous to hydroxynitrile lyase from Granulicella tundricola (GtHNL), a novel class of HNLs that does not show any sequence or structural similarity to any other HNL and does not contain conserved motifs typical of HNLs. HNLs comprise a diverse group of enzymes that vary in terms of their substrate specificity, enantioselectivity and the need for a co-factor. In plants, they catalyze the reversible cleavage of cyanohydrins, yielding HCN and aldehydes or ketones. Also included in this family is TM1010 from Thermotoga maritima, a protein of unknown function. Some but not all members of this family have N- or C-terminal carboxymuconolactone decarboxylase domains in addition to the cupin domain. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380361 [Multi-domain]  Cd Length: 106  Bit Score: 146.54  E-value: 6.13e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 141 FIGKSYLAPLSSQQ----VDIHNVTFEPGCRNHWHIHHasqgGGQILIAVAGTGYYQEWGQDPIKLEPGHVINVGAGVKH 216
Cdd:cd02233     1 FTGTVWLDPLFPADepsrVSVANVTFEPGARTAWHTHP----GGQILIVTSGVGWVQEEGGPPQELRPGDVVWIPPGVKH 76

                          90       100       110
                  ....*....|....*....|....*....|
gi 1417864327 217 WHGASKEDWFSHIAIAVPGQDTSNEWCEPV 246
Cdd:cd02233    77 WHGAAPDSAMTHLAITEALDGGGVEWLEPV 106
YurZ COG0599
Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone ...
 7-106 3.92e-26

Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone decarboxylase family [General function prediction only];


Pssm-ID: 440364  Cd Length: 114  Bit Score: 98.48  E-value: 3.92e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327   7 TAGRDALGDFAPEFAHFNDDiLFGENWNNESISIKTRCIITLVALMSMGiTDSSLVYHLENAKKHGVSQREIAGIITHLG 86
Cdd:COG0599    12 PRALEALAEFAPEFAEAFEA-LFGDVWARGALDPKTRELITLAALAALG-CEPCLKAHVRAALNAGATREEIAEALLVAA 89

                          90       100
                  ....*....|....*....|
gi 1417864327  87 FYVGWPKAWAVFNLAKDIWA 106
Cdd:COG0599    90 VYAGFPAALNALRAALEVLE 109
CMD pfam02627
Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1. ...
 18-103 4.04e-16

Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain.


Pssm-ID: 460628 [Multi-domain]  Cd Length: 84  Bit Score: 71.19  E-value: 4.04e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327  18 PEFAHFNDDILFGENWNNeSISIKTRCIITLVALMSMGiTDSSLVYHLENAKKHGVSQREIAGIITHLGFYVGWPKAWAV 97
Cdd:pfam02627   1 PELLAALTALAFGLLWDG-GLDPKTRELIALAVSAANG-CAYCLDAHTRAALKAGVTEEEIAEVLAWAAAYAGGPAARAA 78


                  ....*.
gi 1417864327  98 FNLAKD 103
Cdd:pfam02627  79 LAAAEE 84
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
153-235 7.77e-13

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 62.94  E-value: 7.77e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 153 QQVDIHNVTFEPGCRNHWHIHhasqGGGQILIAVAGTGYYQeWGQDPIKLEPGHVINVGAGVKHWHGASKEDWFSHIAIA 232
Cdd:COG1917    21 DELEVVRVTFEPGARTPWHSH----PGEELIYVLEGEGEVE-VGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVF 95


                  ...
gi 1417864327 233 VPG 235
Cdd:COG1917    96 SPG 98
 
Name Accession Description Interval E-value
cupin_HNL-like cd02233
Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This ...
 141-246 6.13e-45

Granulicella tundricola hydroxynitrile lyase (GtHNL) and related proteins, cupin domain; This family includes archaeal, eukaryotic, and bacterial proteins homologous to hydroxynitrile lyase from Granulicella tundricola (GtHNL), a novel class of HNLs that does not show any sequence or structural similarity to any other HNL and does not contain conserved motifs typical of HNLs. HNLs comprise a diverse group of enzymes that vary in terms of their substrate specificity, enantioselectivity and the need for a co-factor. In plants, they catalyze the reversible cleavage of cyanohydrins, yielding HCN and aldehydes or ketones. Also included in this family is TM1010 from Thermotoga maritima, a protein of unknown function. Some but not all members of this family have N- or C-terminal carboxymuconolactone decarboxylase domains in addition to the cupin domain. Members of this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380361 [Multi-domain]  Cd Length: 106  Bit Score: 146.54  E-value: 6.13e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 141 FIGKSYLAPLSSQQ----VDIHNVTFEPGCRNHWHIHHasqgGGQILIAVAGTGYYQEWGQDPIKLEPGHVINVGAGVKH 216
Cdd:cd02233     1 FTGTVWLDPLFPADepsrVSVANVTFEPGARTAWHTHP----GGQILIVTSGVGWVQEEGGPPQELRPGDVVWIPPGVKH 76

                          90       100       110
                  ....*....|....*....|....*....|
gi 1417864327 217 WHGASKEDWFSHIAIAVPGQDTSNEWCEPV 246
Cdd:cd02233    77 WHGAAPDSAMTHLAITEALDGGGVEWLEPV 106
YurZ COG0599
Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone ...
 7-106 3.92e-26

Uncharacterized conserved protein YurZ, alkylhydroperoxidase/carboxymuconolactone decarboxylase family [General function prediction only];


Pssm-ID: 440364  Cd Length: 114  Bit Score: 98.48  E-value: 3.92e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327   7 TAGRDALGDFAPEFAHFNDDiLFGENWNNESISIKTRCIITLVALMSMGiTDSSLVYHLENAKKHGVSQREIAGIITHLG 86
Cdd:COG0599    12 PRALEALAEFAPEFAEAFEA-LFGDVWARGALDPKTRELITLAALAALG-CEPCLKAHVRAALNAGATREEIAEALLVAA 89

                          90       100
                  ....*....|....*....|
gi 1417864327  87 FYVGWPKAWAVFNLAKDIWA 106
Cdd:COG0599    90 VYAGFPAALNALRAALEVLE 109
CMD pfam02627
Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1. ...
 18-103 4.04e-16

Carboxymuconolactone decarboxylase family; Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain.


Pssm-ID: 460628 [Multi-domain]  Cd Length: 84  Bit Score: 71.19  E-value: 4.04e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327  18 PEFAHFNDDILFGENWNNeSISIKTRCIITLVALMSMGiTDSSLVYHLENAKKHGVSQREIAGIITHLGFYVGWPKAWAV 97
Cdd:pfam02627   1 PELLAALTALAFGLLWDG-GLDPKTRELIALAVSAANG-CAYCLDAHTRAALKAGVTEEEIAEVLAWAAAYAGGPAARAA 78


                  ....*.
gi 1417864327  98 FNLAKD 103
Cdd:pfam02627  79 LAAAEE 84
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
153-235 7.77e-13

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


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 62.94  E-value: 7.77e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 153 QQVDIHNVTFEPGCRNHWHIHhasqGGGQILIAVAGTGYYQeWGQDPIKLEPGHVINVGAGVKHWHGASKEDWFSHIAIA 232
Cdd:COG1917    21 DELEVVRVTFEPGARTPWHSH----PGEELIYVLEGEGEVE-VGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVLLVVF 95


                  ...
gi 1417864327 233 VPG 235
Cdd:COG1917    96 SPG 98
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
135-217 3.81e-05

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


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 42.05  E-value: 3.81e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1417864327 135 TAFAQYFIGKSYLAPLSSQQVDIHNVTFEPGCRNHWHIHHasqGGGQILIAVAGTGYYqEWGQDPIKLEPGHVINVGAGV 214
Cdd:COG0662     7 EELKAIGWGSYEVLGEGGERLSVKRITVPPGAELSLHVHP---HRDEFFYVLEGTGEV-TIGDEEVELKAGDSVYIPAGV 82


                  ...
gi 1417864327 215 KHW 217
Cdd:COG0662    83 PHR 85
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 157-217 3.55e-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: 38.23  E-value: 3.55e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1417864327 157 IHNVTFEPGCRNHWHIHHASQgggQILIAVAGTGYYQEWGQDPIKLEPGHVINVGAGVKHW 217
Cdd:cd02208     1 ISVVTLPPGTSSPPHWHPEQD---EIFYVLSGEGELTLDDGETVELKAGDIVLIPPGVPHS 58
 
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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