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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 eye0.004399Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.01078Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.01236Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.01828Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.05506Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.2583Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.4917Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.539Least InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.00008942Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cerebrum0.000779Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal globe morphology0.0009011Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.001604Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.03286Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.05718Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.1372Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.1756Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the orbital region0.1979Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.219Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0.243Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.4225Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.4843Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.7151Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.8584Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.0288InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.09763InformativeInherited
Phenotypic Abnormality (PA)Abnormality of phalanx of finger0.1127InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral subcortex0.1142InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower urinary tract0.3317InformativeInherited
Phenotypic Abnormality (PA)Morphological abnormality of the gastrointestinal tract0.4262InformativeInherited
Phenotypic Abnormality (PA)Abnormality of pelvic girdle bone morphology0.5092InformativeInherited
Phenotypic Abnormality (PA)Abnormal vertebral morphology0.537InformativeInherited
Phenotypic Abnormality (PA)Abnormal eyebrow morphology0.8625InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the metencephalon1InformativeInherited
Phenotypic Abnormality (PA)Nephronophthisis0.000002857Highly InformativeDirect
Phenotypic Abnormality (PA)Hand polydactyly0.000007025Highly InformativeDirect
Phenotypic Abnormality (PA)Hepatic fibrosis0.00001396Highly InformativeDirect
Phenotypic Abnormality (PA)Medial flaring of the eyebrow0.000631Highly InformativeDirect
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving bones of the thorax0.03651Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ribs0.03913Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal enchondral ossification0.07454Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal larynx morphology0.07734Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal vagina morphology0.2655Highly 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 phenotype0.001587Moderately 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 variant0.00000000003648Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000000001356Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0000000001356Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000000001678Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000004627Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.005207Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.05505Least InformativeInherited
Worm Phenotype (WP)larval growth variant0.5701Least InformativeInherited
Worm Phenotype (WP)larval development variant0.6149Least InformativeInherited
Worm Phenotype (WP)retarded heterochronic variations0.6709Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.00001153Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.000314Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.01242Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.01422Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.04484Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.07311Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.7256Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.8725Moderately InformativeInherited
Worm Phenotype (WP)reduced brood size0.000000855InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00005488InformativeDirect
Worm Phenotype (WP)early larval arrest0.0004101InformativeDirect
Worm Phenotype (WP)organism pathogen response variant0.01698InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.02413InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.1054InformativeInherited
Worm Phenotype (WP)VPC competence variant0.2535InformativeInherited
Worm Phenotype (WP)alimentary system development variant0.3742InformativeInherited
Worm Phenotype (WP)vulva development variant0.7122InformativeInherited
Worm Phenotype (WP)organelle organization biogenesis variant0.9082InformativeInherited
Worm Phenotype (WP)cell proliferation increased0.000007083Highly InformativeDirect
Worm Phenotype (WP)embryonic lethal late emb0.0001034Highly InformativeDirect
Worm Phenotype (WP)osmotic avoidance variant0.0001536Highly InformativeDirect
Worm Phenotype (WP)slow embryonic development0.0004629Highly InformativeDirect
Worm Phenotype (WP)no oocytes0.0009899Highly 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 system0.008787Least InformativeInherited
Zebrafish Anatomy (ZA)compound organ0.1966Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.2726Least InformativeInherited
Zebrafish Anatomy (ZA)organism subdivision0.3539Least InformativeInherited
Zebrafish Anatomy (ZA)sensory system0.01679Moderately InformativeInherited
Zebrafish Anatomy (ZA)head0.2093Moderately InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.2524Moderately InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.423Moderately InformativeInherited
Zebrafish Anatomy (ZA)eye0.01853InformativeInherited
Zebrafish Anatomy (ZA)retinal neural layer0.05268Highly 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 system0.000000000001325Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.0001405Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0.006164Least InformativeInherited
Xenopus ANatomical entity (XAN)testis0.0000000000008082Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.001805Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.1269Moderately InformativeInherited
Xenopus ANatomical entity (XAN)intestine0.00001727InformativeDirect

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)Hydrolases0.007706Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorus-containing groups0.2911Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00000000000002463Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.2925Moderately InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.00000009588InformativeDirect
Enzyme Commission (EC)Carboxylic ester hydrolases0.9609InformativeInherited
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000006135Highly 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 ]