SUPERFAMILY 1.75 HMM library and genome assignments server

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LEM domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   LEM/SAP HeH motif [ 63450] (6)
Superfamily:   LEM domain [ 63451]
Families:   LEM domain [ 63452] (2)


Superfamily statistics
Genomes (148) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 843 1,906 6
Proteins 719 1,631 5


Functional annotation
General category General
Detailed category Lipid/membrane binding

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 cellular process 0.0008756 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0002895 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.3858 Least Informative Inherited
Biological Process (BP) organelle organization 0.000000002143 Moderately Informative Direct
Biological Process (BP) animal organ development 0.4738 Moderately Informative Inherited
Biological Process (BP) mitotic cell cycle 0.000000000000001925 Informative Direct
Biological Process (BP) cell cycle process 0.000000000001163 Informative Direct
Biological Process (BP) single-organism membrane organization 0 Informative Direct
Biological Process (BP) nucleus organization 0 Highly Informative Direct
Biological Process (BP) muscle organ development 0.00000497 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0 Highly Informative Direct
Molecular Function (MF) binding 0.0007635 Least Informative Direct
Molecular Function (MF) chromatin binding 0.000000004835 Highly Informative Direct
Cellular Component (CC) membrane 0.00000003293 Least Informative Direct
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.002921 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 0.094 Least Informative Inherited
Cellular Component (CC) endomembrane system 0 Moderately Informative Direct
Cellular Component (CC) organelle inner membrane 0.000001566 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.0004268 Moderately Informative Direct
Cellular Component (CC) nuclear part 0.000002111 Moderately Informative Direct
Cellular Component (CC) nuclear envelope 0 Informative Direct
Cellular Component (CC) chromosome 0.0000311 Informative Direct
Cellular Component (CC) nuclear membrane 0.000000000001382 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.0000002448Moderately InformativeDirect
Biological processMitosis0.000000001588InformativeDirect
Cellular componentNucleus0.00000000000001472Least InformativeDirect
Cellular componentMembrane0.00000001343Least InformativeDirect
Cellular componentChromosome0.000000003817InformativeDirect
DomainTransmembrane0.000005755Least InformativeDirect
DomainANK repeat0.00000001614InformativeDirect
DomainSignal-anchor0.00002497InformativeDirect
Post-translational modificationDNA-binding0.0003761Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.00000000003854Least InformativeDirect
Post-translational modificationAcetylation0.000001001Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR011015 SSF63451 Protein matches
Abstract

The LEM domain is a ~40-residue motif found in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 (LAP2), emerin, MAN1, otefin and Lem-3 [PubMed11792821]. Defects in the emerin gene are a cause of Emery-Dreifuss muscular dystrophy, an X-linked disorder characterised by early contractures, muscle wasting, weakness and cardiomyopathy. The N-terminal LEM domain in emerin mediates binding to BAF (barrier-to-autointegration factor).


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) · 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 3 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 LEM domain 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 3 hidden Markov models representing the LEM domain 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) · UniProtKB KeyWords (KW) · Internal database links ]