SUPERFAMILY 1.75 HMM library and genome assignments server


2-methylcitrate dehydratase PrpD superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Multi-domain proteins (alpha and beta) [ 56572] (66)
Fold:   2-methylcitrate dehydratase PrpD [ 103377]
Superfamily:   2-methylcitrate dehydratase PrpD [ 103378]
Families:   2-methylcitrate dehydratase PrpD [ 103379]


Superfamily statistics
Genomes (1,122) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,860 7,253 1
Proteins 1,849 7,247 1


Functional annotation
General category Metabolism
Detailed category Redox

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Molecular Function (MF)lyase activity0.00022123.356e-06Moderately InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Molecular Function (MF) lyase activity 3.356e-06 Moderately 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)Hydro-lyases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.06852Moderately InformativeInherited
Enzyme Commission (EC)Carbon-carbon lyases0.4804Moderately InformativeInherited
Enzyme Commission (EC)Carboxy-lyases9.505e-06InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Molecular functionMetal-binding0.005558Least InformativeInherited
Molecular functionIron2.294e-07Moderately InformativeDirect
Molecular function2Fe-2S2.325e-16InformativeDirect
Molecular functionIron-sulfur5.472e-10InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR005656 SSF103378 Protein matches
Abstract

This entry represents proteins from the MmgE/PrpD family, which includes 2-methylcitrate dehydratase (PrpD). PrpD is required for propionate catabolism, catalysing the third step of the 2-methylcitric acid cycle [PubMed11782506]. This enzyme consists of two domains: a large domain with an all-helical fold and a smaller domain that folds into an alpha+beta domain.


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

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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 1 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 2-methylcitrate dehydratase PrpD 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 1 hidden Markov models representing the 2-methylcitrate dehydratase PrpD 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]