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Substrate-binding domain of HMG-CoA reductase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Substrate-binding domain of HMG-CoA reductase [ 56541]
Superfamily:   Substrate-binding domain of HMG-CoA reductase [ 56542]
Families:   Substrate-binding domain of HMG-CoA reductase [ 56543]


Superfamily statistics
Genomes (1,145) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,652 7,798 2
Proteins 1,636 7,775 2


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism metabolic process 0.00000000000117 Least Informative Direct
Biological Process (BP) biosynthetic process 0.000001266 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0004797 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.1928 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2418 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.06682 Least Informative Inherited
Biological Process (BP) response to stimulus 0.05929 Least Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) lipid metabolic process 0 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.00000009117 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.00004399 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.0001279 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0001665 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0002029 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000208 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0002466 Moderately Informative Direct
Biological Process (BP) reproduction 0.0003662 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0008408 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.007448 Moderately Informative Inherited
Biological Process (BP) system process 0.001619 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.02377 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.07771 Moderately Informative Inherited
Biological Process (BP) alcohol metabolic process 0 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 0.00000000003653 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 0.00000001334 Informative Direct
Biological Process (BP) single-organism behavior 0.00000005563 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.0000001019 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 0.00000019 Informative Direct
Biological Process (BP) response to light stimulus 0.0000003907 Informative Direct
Biological Process (BP) regulation of kinase activity 0.0000005112 Informative Direct
Biological Process (BP) single organism reproductive process 0.000002883 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 0.00000356 Informative Direct
Biological Process (BP) isoprenoid metabolic process 0.000003621 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.000005282 Informative Direct
Biological Process (BP) negative regulation of signaling 0.00005707 Informative Direct
Biological Process (BP) negative regulation of cell communication 0.000103 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.0002109 Informative Direct
Biological Process (BP) sterol metabolic process 0 Highly Informative Direct
Biological Process (BP) steroid biosynthetic process 0.0000000000002463 Highly Informative Direct
Biological Process (BP) negative regulation of phosphorylation 0.0000000008402 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 0.000000006716 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 0.00000002472 Highly Informative Direct
Biological Process (BP) regulation of MAP kinase activity 0.01004 Highly Informative Inherited
Biological Process (BP) learning or memory 0.002907 Highly Informative Inherited
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on CH-OH group of donors 0 Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor 0 Highly Informative Direct
Cellular Component (CC) intracellular organelle part 0.08723 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.2023 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.2054 Least Informative Inherited
Cellular Component (CC) membrane 0.05235 Least Informative Inherited
Cellular Component (CC) endomembrane system 0.000004539 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 0.00001527 Moderately Informative Direct
Cellular Component (CC) organelle membrane 0.00001936 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.0000001106 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Moderately InformativeDirect
Enzyme Commission (EC)Hydroxymethylglutaryl-CoA reductase (NADPH)0Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on the CH-OH group of donors0Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processLipid metabolism0Moderately InformativeDirect
Biological processLipid biosynthesis0InformativeDirect
Biological processSteroid metabolism0InformativeDirect
Biological processSteroid biosynthesis0Highly InformativeDirect
Biological processSterol biosynthesis0Highly InformativeDirect
Biological processIsoprene biosynthesis0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionNADP0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationIsopeptide bond0.0000007846Moderately InformativeDirect
Post-translational modificationUbl conjugation0.0003213Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)metabolic intermediate biosynthesis0Moderately InformativeDirect
UniPathway (UP)(R)-mevalonate metabolism0Highly InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009029 SSF56542 Protein matches
Abstract

This entry represents the substrate-binding L-domain found in class I and II enzymes. The L-domain has the same structural fold in both classes of enzymes, and is unique to HMG-CoA reductases. Its topology resembles a prism, with a central alpha helix surrounded by three alpha/beta subdomains forming three roughly triangular walls [PubMed10698924, PubMed10377386].


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-coverage) · Enzyme Commission (EC) · 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 2 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 Substrate-binding domain of HMG-CoA reductase 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 2 hidden Markov models representing the Substrate-binding domain of HMG-CoA reductase 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-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]