SUPERFAMILY 1.75 HMM library and genome assignments server


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 (1,098) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,487 3,006 2
Proteins 1,480 2,987 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 1.189e-12 Least Informative Direct
Biological Process (BP) biosynthetic process 1.17e-06 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0005092 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.324 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1757 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.06468 Least Informative Inherited
Biological Process (BP) developmental process 0.01302 Least Informative Inherited
Biological Process (BP) response to stimulus 0.05723 Least Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) lipid biosynthetic process 1.179e-10 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 8.481e-08 Moderately Informative Direct
Biological Process (BP) cellular lipid metabolic process 2.284e-05 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.0001249 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0001445 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.0001902 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0001935 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0002506 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0002599 Moderately Informative Direct
Biological Process (BP) reproduction 0.000369 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.0007052 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.006566 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.003186 Moderately Informative Inherited
Biological Process (BP) system process 0.001514 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.02435 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.07656 Moderately Informative Inherited
Biological Process (BP) alcohol metabolic process 0 Informative Direct
Biological Process (BP) steroid metabolic process 0 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 3.734e-11 Informative Direct
Biological Process (BP) single-organism behavior 4.012e-08 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 1.01e-07 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 1.667e-07 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 1.964e-07 Informative Direct
Biological Process (BP) response to light stimulus 3.866e-07 Informative Direct
Biological Process (BP) regulation of kinase activity 5.361e-07 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 1.462e-06 Informative Direct
Biological Process (BP) single organism reproductive process 2.624e-06 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 3.214e-06 Informative Direct
Biological Process (BP) isoprenoid metabolic process 3.643e-06 Informative Direct
Biological Process (BP) negative regulation of signaling 8.258e-06 Informative Direct
Biological Process (BP) negative regulation of cell communication 1.515e-05 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.000232 Informative Direct
Biological Process (BP) sterol metabolic process 0 Highly Informative Direct
Biological Process (BP) steroid biosynthetic process 4.939e-13 Highly Informative Direct
Biological Process (BP) negative regulation of phosphorylation 5.783e-10 Highly Informative Direct
Biological Process (BP) alcohol biosynthetic process 9.784e-10 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 4.776e-09 Highly Informative Direct
Biological Process (BP) isoprenoid biosynthetic process 2.576e-08 Highly Informative Direct
Biological Process (BP) regulation of MAP kinase activity 0.002719 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 0.06506 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1645 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 0.1898 Least Informative Inherited
Cellular Component (CC) membrane 0.03584 Least Informative Inherited
Cellular Component (CC) endomembrane system 2.337e-06 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum 1.362e-05 Moderately Informative Direct
Cellular Component (CC) organelle membrane 1.716e-05 Moderately Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 1.002e-07 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 processIsoprene biosynthesis0Highly InformativeDirect
Biological processSteroid biosynthesis0Highly InformativeDirect
Biological processSterol biosynthesis0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionNADP0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationIsopeptide bond6.242e-07Moderately InformativeDirect
Post-translational modificationUbl conjugation0.0002766Moderately InformativeDirect

Document: KW 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) ]

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) · Internal database links ]