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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 eye0.002484Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.004103Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.01242Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.02382Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.07676Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.36Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.3939Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.4988Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.0001177Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.000739Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.01003Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.03685Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.04409Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.1055Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.1131Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.121Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal anterior segment morphology0.1649Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the orbital region0.1837Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.2151Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.2382Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.4328Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.4608Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.5173Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.017InformativeInherited
Phenotypic Abnormality (PA)Abnormality of hindbrain morphology0.0178InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb bone0.06932InformativeInherited
Phenotypic Abnormality (PA)Abnormality of phalanx of finger0.102InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.1073InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral subcortex0.1076InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lens0.162InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.5737InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.7099InformativeInherited
Phenotypic Abnormality (PA)Abnormal eyebrow morphology0.8505InformativeInherited
Phenotypic Abnormality (PA)Nephronophthisis0.000002474Highly InformativeDirect
Phenotypic Abnormality (PA)Hand polydactyly0.00000512Highly InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the cerebellar vermis0.00001261Highly InformativeDirect
Phenotypic Abnormality (PA)Hepatic fibrosis0.00001506Highly InformativeDirect
Phenotypic Abnormality (PA)Medial flaring of the eyebrow0.0006387Highly InformativeDirect
Phenotypic Abnormality (PA)Widened posterior fossa0.0008284Highly InformativeDirect
Phenotypic Abnormality (PA)Cataract0.0008635Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the ribs0.03008Highly InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving bones of the thorax0.05036Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal larynx morphology0.06781Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal enchondral ossification0.07933Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vagina0.263Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.00204Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.04975Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.001572Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell morphology0.03038Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal primary cilium morphology0.2207Highly InformativeInherited
Mammalian Phenotype (MP)abnormal primitive streak morphology0.262Highly 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 variant0.00000000003427Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0000000001217Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.00000000013Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000000001557Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000004288Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.005101Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.05374Least InformativeInherited
Worm Phenotype (WP)larval growth variant0.5731Least InformativeInherited
Worm Phenotype (WP)larval development variant0.6172Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations0.6747Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.00001092Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0003021Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0119Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01407Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.04421Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.07374Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.7242Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.8779Moderately InformativeInherited
Worm Phenotype (WP)reduced brood size0.0000008453InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00005317InformativeDirect
Worm Phenotype (WP)early larval arrest0.0003998InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.0168InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.02381InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.1059InformativeInherited
Worm Phenotype (WP)VPC competence variant0.2536InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.373InformativeInherited
Worm Phenotype (WP)vulva development variant0.7102InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.9082InformativeInherited
Worm Phenotype (WP)cell proliferation increased0.000006918Highly InformativeDirect
Worm Phenotype (WP)embryonic lethal late emb0.0001017Highly InformativeDirect
Worm Phenotype (WP)osmotic avoidance variant0.0001511Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0004557Highly InformativeDirect
Worm Phenotype (WP)no oocytes0.0009681Highly InformativeDirect
Worm Phenotype (WP)cytoplasmic appearance defective early emb0.1225Highly InformativeInherited

Document: WP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0.006926Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.1951Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.2633Least InformativeInherited
Zebrafish Anatomy (ZA)organism subdivision0.3218Least InformativeInherited
Zebrafish Anatomy (ZA)sensory system0.01539Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.1409Moderately InformativeInherited
Zebrafish Anatomy (ZA)head0.2376Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.4155Moderately InformativeInherited
Zebrafish Anatomy (ZA)eye0.01918InformativeInherited
Zebrafish Anatomy (ZA)retinal neural layer0.05215Highly 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 system0.000000000001333Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.0001343Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0.006117Least InformativeInherited
Xenopus ANatomical entity (XAN)testis0.0000000000007886Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.001782Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.1264Moderately InformativeInherited
Xenopus ANatomical entity (XAN)intestine0.00001717InformativeDirect

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 cell0.00000906Least InformativeDirect
Plant ANatomical entity (PAN)gamete0.00003656InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.0002199Least InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.0002292Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.007342Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups0.2926Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00000000000002412Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.2947Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.00000009008InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.96InformativeInherited
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000006679Highly 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 14 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 14 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 ]