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Homo-oligomeric flavin-containing Cys decarboxylases, HFCD superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Homo-oligomeric flavin-containing Cys decarboxylases, HFCD [ 52506]
Superfamily:   Homo-oligomeric flavin-containing Cys decarboxylases, HFCD [ 52507]
Families:   Homo-oligomeric flavin-containing Cys decarboxylases, HFCD [ 52508] (4)


Superfamily statistics
Genomes (3,027) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 5,412 28,847 7
Proteins 5,379 28,772 7


Functional annotation
General category Metabolism
Detailed category Secondary metabolism

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)biosynthetic process0.00000033290.00000009517Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.083780.005405Least InformativeInherited
Biological Process (BP)single-organism cellular process0.087650.004109Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.16120.0005066Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.0068330.00000003335Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.27450.08746Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.16320.007919Least InformativeInherited
Biological Process (BP)response to stimulus0.50040.8933Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.14680.0003346Least InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.0000021990.0000003089Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process0.00000022380.0000000000007143Moderately InformativeDirect
Biological Process (BP)purine-containing compound metabolic process0.0000014090.00000000002289Moderately InformativeDirect
Biological Process (BP)organic cyclic compound biosynthetic process0.024790.00003009Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.0014120.0000000006787Moderately InformativeInherited
Biological Process (BP)heterocycle biosynthetic process0.033030.000003389Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative metabolic process0.0020690.00000008786Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.0039460.002884Moderately InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.014380.0000113Moderately InformativeInherited
Biological Process (BP)coenzyme biosynthetic process0.00000000000041580InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.0000000090720InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00000000048250.000000005896InformativeDirect
Biological Process (BP)purine-containing compound biosynthetic process0.00000043360.000000000004066InformativeDirect
Biological Process (BP)response to osmotic stress0.000018990.000003983Highly InformativeDirect
Biological Process (BP)coenzyme A metabolic process0.00000029920Highly InformativeDirect
Biological Process (BP)ribonucleoside bisphosphate biosynthetic process0.000000000000045140Highly InformativeDirect
Biological Process (BP)purine nucleoside bisphosphate biosynthetic process0.000000000000045140Highly InformativeDirect
Molecular Function (MF)lyase activity0.00000019940.000000000000006357Moderately InformativeDirect
Molecular Function (MF)carbon-carbon lyase activity0.0000000000031040InformativeDirect
Molecular Function (MF)carboxy-lyase activity00Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular aromatic compound metabolic process 0.0005066 Least Informative Direct
Biological Process (BP) biosynthetic process 0.00000009517 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00000003335 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0003346 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.005405 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.004109 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.007919 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.08746 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8933 Least Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.0000003089 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.000003389 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0000113 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.0000000000007143 Moderately Informative Direct
Biological Process (BP) purine-containing compound metabolic process 0.00000000002289 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.0000000006787 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00000008786 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.00003009 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.002884 Moderately Informative Inherited
Biological Process (BP) coenzyme biosynthetic process 0 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.000000005896 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.000000000004066 Informative Direct
Biological Process (BP) response to osmotic stress 0.000003983 Highly Informative Direct
Biological Process (BP) coenzyme A metabolic process 0 Highly Informative Direct
Biological Process (BP) ribonucleoside bisphosphate biosynthetic process 0 Highly Informative Direct
Biological Process (BP) purine nucleoside bisphosphate biosynthetic process 0 Highly Informative Direct
Molecular Function (MF) lyase activity 0.000000000000006357 Moderately Informative Direct
Molecular Function (MF) carbon-carbon lyase activity 0 Informative Direct
Molecular Function (MF) carboxy-lyase activity 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Ligases0.0000005415Least InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0Moderately InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds0.000000000003428Moderately InformativeDirect
Enzyme Commission (EC)Acid--D-amino-acid ligases (peptide synthases)0InformativeDirect

Document: EC annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0.0000006883Least InformativeDirect
Enzyme Commission (EC)Carbon-carbon lyases9.829e-16Moderately InformativeDirect
Enzyme Commission (EC)Ligases0.03497Moderately InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.00000000001851InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionFMN0InformativeDirect
Post-translational modificationTransferase0.0000000167Least InformativeDirect
Post-translational modificationLyase0.000000000003267Moderately InformativeDirect
Post-translational modificationDecarboxylase0Highly InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)cofactor metabolism0Least InformativeDirect
UniPathway (UP)coenzyme A biosynthesis0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR003382 SSF52507 Protein matches
Abstract This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN [PubMed1644762]. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance [PubMed8345520]. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase [PubMed8181743].

InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 5 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Homo-oligomeric flavin-containing Cys decarboxylases, HFCD domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 5 hidden Markov models representing the Homo-oligomeric flavin-containing Cys decarboxylases, HFCD superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]