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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 (3,023) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,410 28,203 7
Proteins 5,377 28,154 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 process0.00000034270.0000001291Least InformativeDirect
Biological Process (BP)cellular nitrogen compound metabolic process0.10160.009469Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.16830.009308Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.16610.0006115Least InformativeInherited
Biological Process (BP)single-organism cellular process0.1590.01746Least InformativeInherited
Biological Process (BP)organonitrogen compound metabolic process0.029560.00001348Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.0062260.00000003846Least InformativeInherited
Biological Process (BP)primary metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.14170.0003484Least InformativeInherited
Biological Process (BP)response to stimulus0.44520.8821Least InformativeInherited
Biological Process (BP)nucleoside phosphate metabolic process0.0000018310.0000002123Moderately InformativeDirect
Biological Process (BP)ribose phosphate metabolic process0.00000019030.00000001901Moderately InformativeDirect
Biological Process (BP)nucleobase-containing compound biosynthetic process0.00012580.0000001015Moderately InformativeDirect
Biological Process (BP)cofactor metabolic process0.00000022060.000000000000632Moderately InformativeDirect
Biological Process (BP)purine-containing compound metabolic process0.0000075040.000000002559Moderately InformativeDirect
Biological Process (BP)glycosyl compound metabolic process0.00010670.00000001397Moderately InformativeDirect
Biological Process (BP)organophosphate biosynthetic process0.0013830.0000000004983Moderately InformativeInherited
Biological Process (BP)response to stress0.056270.1104Moderately InformativeInherited
Biological Process (BP)carbohydrate derivative biosynthetic process0.0036660.0000005105Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.0032740.002765Moderately InformativeInherited
Biological Process (BP)coenzyme biosynthetic process0.0000000000003780InformativeDirect
Biological Process (BP)nucleotide biosynthetic process0.0000000085420InformativeDirect
Biological Process (BP)ribose phosphate biosynthetic process0.00000000054350.000000006752InformativeDirect
Biological Process (BP)purine-containing compound biosynthetic process0.00000067080.00000000001219InformativeDirect
Biological Process (BP)glycosyl compound biosynthetic process0.000024360.0000000001114InformativeDirect
Biological Process (BP)response to salt stress0.0000061390.0000002286Highly InformativeDirect
Biological Process (BP)coenzyme A metabolic process0.00000022160Highly InformativeDirect
Biological Process (BP)ribonucleoside bisphosphate biosynthetic process0.000000000000049350Highly InformativeDirect
Biological Process (BP)purine nucleoside bisphosphate biosynthetic process0.000000000000049350Highly InformativeDirect
Molecular Function (MF)lyase activity0.000000020390Moderately InformativeDirect
Molecular Function (MF)carbon-carbon lyase activity0.000000000000027170InformativeDirect
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 0.0006115 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0000001291 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00000003846 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0003484 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00001348 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.009469 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.009308 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01746 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8821 Least Informative Inherited
Biological Process (BP) nucleoside phosphate metabolic process 0.0000002123 Moderately Informative Direct
Biological Process (BP) ribose phosphate metabolic process 0.00000001901 Moderately Informative Direct
Biological Process (BP) nucleobase-containing compound biosynthetic process 0.0000001015 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.000000000000632 Moderately Informative Direct
Biological Process (BP) purine-containing compound metabolic process 0.000000002559 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.0000000004983 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative biosynthetic process 0.0000005105 Moderately Informative Direct
Biological Process (BP) glycosyl compound metabolic process 0.00000001397 Moderately Informative Direct
Biological Process (BP) response to stress 0.1104 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.002765 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 0.000000006752 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0.00000000001219 Informative Direct
Biological Process (BP) glycosyl compound biosynthetic process 0.0000000001114 Informative Direct
Biological Process (BP) response to salt stress 0.0000002286 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 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)Lyases0.0000006302Least InformativeDirect
Enzyme Commission (EC)Carbon-carbon lyases9.758e-16Moderately InformativeDirect
Enzyme Commission (EC)Ligases0.03771Moderately InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.00000000002091InformativeDirect
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 functionFMN0InformativeDirect
Post-translational modificationTransferase0.00000005229Least InformativeDirect
Post-translational modificationLyase0.000000000007424Moderately InformativeDirect
Post-translational modificationDecarboxylase0InformativeDirect

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 ]