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WD40 repeat-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   7-bladed beta-propeller [ 50964] (14)
Superfamily:   WD40 repeat-like [ 50978] (2)
Families:   WD40-repeat [ 50979] (10)
  Cell cycle arrest protein BUB3 [ 110289]


Superfamily statistics
Genomes (1,133) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 117,265 350,512 21
Proteins 107,099 318,914 19


Functional annotation
General category General
Detailed category General

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds2.368e-16Least InformativeDirect
Enzyme Commission (EC)Isomerases0.08889Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000003824InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the eye0.02458Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.02758Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.03615Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.04828Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.1582Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.3676Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.6678Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.0001188Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the skull0.0429Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.2429Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.3383Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.349Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.5465Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.5811Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.7357Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.8914Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.9158Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb bone0.02718InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.04034InformativeInherited
Phenotypic Abnormality (PA)Abnormality of eye movement0.05009InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.1048InformativeInherited
Phenotypic Abnormality (PA)Abnormal bone structure0.2161InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower urinary tract0.3161InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.5215InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the metencephalon1InformativeInherited
Phenotypic Abnormality (PA)Nephronophthisis0.000005681Highly InformativeDirect
Phenotypic Abnormality (PA)Hepatic fibrosis0.000031Highly InformativeDirect
Phenotypic Abnormality (PA)Widened posterior fossa0.0005652Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal larynx morphology0.03912Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ribs0.07144Highly InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving bones of the thorax0.07606Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal enchondral ossification0.1008Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal vagina morphology0.2728Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.002048Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.04965Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.001588Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.03039Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal primary cilium morphology0.2207Highly InformativeInherited
Mammalian Phenotype (MP)abnormal primitive streak morphology0.2614Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.000000000004316Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0000000001428Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000000001955Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.00000000164Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000002248Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00555Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.05759Least InformativeInherited
Worm Phenotype (WP)larval growth variant0.5775Least InformativeInherited
Worm Phenotype (WP)larval development variant0.6212Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations0.6779Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.000011Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.000317Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.009568Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01959Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.04767Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.07195Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.8298Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.9099Moderately InformativeInherited
Worm Phenotype (WP)reduced brood size0.0000008743InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.0000555InformativeDirect
Worm Phenotype (WP)early larval arrest0.0004021InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.01648InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.1126InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.3763InformativeInherited
Worm Phenotype (WP)VPC competence variant0.3809InformativeInherited
Worm Phenotype (WP)vulva development variant0.7164InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.909InformativeInherited
Worm Phenotype (WP)cell proliferation increased0.000008283Highly InformativeDirect
Worm Phenotype (WP)embryonic lethal late emb0.000102Highly InformativeDirect
Worm Phenotype (WP)osmotic avoidance variant0.0001514Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0004578Highly InformativeDirect
Worm Phenotype (WP)no oocytes0.0009382Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.1211Highly InformativeInherited

Document: WP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.009038Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.1925Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.2709Least InformativeInherited
Zebrafish Anatomy (ZA)organism subdivision0.3392Least InformativeInherited
Zebrafish Anatomy (ZA)sensory system0.01541Moderately InformativeInherited
Zebrafish Anatomy (ZA)head0.1935Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.2583Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.4426Moderately InformativeInherited
Zebrafish Anatomy (ZA)eye0.01682InformativeInherited
Zebrafish Anatomy (ZA)retinal neural layer0.06071Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0.000000000001184Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.0001477Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0.005939Least InformativeInherited
Xenopus ANatomical entity (XAN)testis0.0000000000007484Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.001913Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.1254Moderately InformativeInherited
Xenopus ANatomical entity (XAN)intestine0.0000169InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0.000009147Least InformativeDirect
Plant ANatomical entity (PAN)gamete0.00003695InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.00022Least InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.0002308Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.003032Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups0.2904Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases2.543e-16Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.2957Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.0000001086InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.9557InformativeInherited
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000006054Highly InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR011046 SSF50978 Protein matches
Abstract

The WD40 motif is found in a multitude of eukaryotic proteins involved in a variety of cellular processes [PubMed11814058, PubMed10322433]. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. In Arabidopsis sp., several WD40-containig proteins act as key regulators of plant-specific developmental events. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units.

The structures of several WD40 repeat-containing proteins have been determined, including the beta-1 subunit of the signal-transducing G protein heterotrimer, the C-terminal domain of yeast Tup1, the C-terminal domain of Groucho/tle1, the Cdc4 propeller domain, the bovine Arp2/3 complex 41 kDa subunit ARPC1, and actin interacting protein 1.


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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 35 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 WD40 repeat-like 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 35 hidden Markov models representing the WD40 repeat-like 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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]