SUPERFAMILY 1.75 HMM library and genome assignments server


BEACH domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   BEACH domain [ 81836]
Superfamily:   BEACH domain [ 81837]
Families:   BEACH domain [ 81838] (2)


Superfamily statistics
Genomes (471) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,294 2,406 2
Proteins 2,261 2,384 2


Functional annotation
General category Other
Detailed category Unknown function

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 4.572e-05 Least Informative Direct
Biological Process (BP) response to stimulus 0.0001144 Least Informative Direct
Biological Process (BP) localization 0.0003349 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0001497 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.1324 Least Informative Inherited
Biological Process (BP) developmental process 0.387 Least Informative Inherited
Biological Process (BP) immune system process 1.397e-08 Moderately Informative Direct
Biological Process (BP) cellular localization 1.15e-05 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.006343 Moderately Informative Inherited
Biological Process (BP) organ development 0.002632 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.01808 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.1444 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.003876 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.5108 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.2884 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.7416 Moderately Informative Inherited
Biological Process (BP) response to wounding 2.915e-05 Informative Direct
Biological Process (BP) response to bacterium 0.0006573 Informative Direct
Biological Process (BP) protein transport 0.000279 Informative Direct
Biological Process (BP) response to nutrient levels 0.0007492 Informative Direct
Biological Process (BP) hematopoietic or lymphoid organ development 2.121e-06 Informative Direct
Biological Process (BP) regulation of body fluid levels 3.884e-11 Informative Direct
Biological Process (BP) cellular component movement 0.1177 Informative Inherited
Biological Process (BP) localization of cell 0.03979 Informative Inherited
Biological Process (BP) locomotion 0.01329 Informative Inherited
Biological Process (BP) defense response 0.1799 Informative Inherited
Biological Process (BP) immune effector process 0.00895 Informative Inherited
Biological Process (BP) chemotaxis 0.0001499 Highly Informative Direct
Biological Process (BP) hemostasis 3.627e-14 Highly Informative Direct
Biological Process (BP) response to virus 1.972e-06 Highly Informative Direct
Biological Process (BP) vesicle organization 0 Highly Informative Direct
Biological Process (BP) wound healing 0.0009273 Highly Informative Direct
Biological Process (BP) coagulation 1.55e-13 Highly Informative Direct
Biological Process (BP) leukocyte migration 0.0001114 Highly Informative Direct
Biological Process (BP) myeloid cell development 2.076e-09 Highly Informative Direct
Biological Process (BP) leukocyte mediated immunity 0.001429 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0.1764 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.99 Least Informative Inherited
Cellular Component (CC) vesicle 0.00296 Moderately Informative Inherited

Document: GO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of head and neck0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.02673Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of thrombocytes0.0003465InformativeDirect
Phenotypic Abnormality (PA)Thrombocytopenia0.0001435Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0Least InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentMembrane6.437e-05Least InformativeDirect
Cellular componentEndoplasmic reticulum6.249e-06Moderately InformativeDirect
Coding sequence diversityAlternative splicing4.395e-15Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationPhosphoprotein2.766e-05Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000409 SSF81837 Protein matches
Abstract

The "beige" mouse is established as an animal model of Chediak-Higashi Syndrome (CHS) [PubMed8896560]. The BEACH domain was described in the BEIGE protein (D1035670) and in the highly homologous CHS protein . It is also found in distantly related proteins like, for example, and which are factor associated with neutral sphingomyelinase activation [PubMed9620659].

The BEACH domain is usually followed by a series of WD repeats . The function of the BEACH domain is unknown.


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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · 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 BEACH 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 2 hidden Markov models representing the BEACH 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]