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90  structures 1965  species 0  interactions 19758  sequences 1287  architectures

Family: ANAPC4_WD40 (PF12894)

Summary: Anaphase-promoting complex subunit 4 WD40 domain

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The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Anaphase-promoting complex subunit 4 WD40 domain Provide feedback

Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilise the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,

Literature references

  1. Peters JM;, Mol Cell. 2002;9:931-943.: The anaphase-promoting complex: proteolysis in mitosis and beyond. PUBMED:12049731 EPMC:12049731

  2. Peters JM;, Nat Rev Mol Cell Biol. 2006;7:644-656.: The anaphase promoting complex/cyclosome: a machine designed to destroy. PUBMED:16896351 EPMC:16896351

  3. Ors A, Grimaldi M, Kimata Y, Wilkinson CR, Jones N, Yamano H;, J Biol Chem. 2009;284:23989-23994.: The transcription factor Atf1 binds and activates the APC/C ubiquitin ligase in fission yeast. PUBMED:19584054 EPMC:19584054


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR024977

This entry represents the N-terminal propeller-shaped WD40 domain of the anaphase-promoting complex subunit 4 (Apc4).

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan Beta_propeller (CL0186), which has the following description:

This large clan contains proteins that contain beta propellers. These are composed of between 6 and 8 repeats. The individual repeats are composed of a four stranded sheet. The clan includes families such as WD40 Pfam:PF00400 where the individual repeats are modeled. The clan also includes families where the entire propeller is modeled such as Pfam:PF02239 usually because the individual repeats are not discernible. These proteins carry out a very wide diversity of functions including catalysis.

The clan contains the following 88 members:

ANAPC4_WD40 APMAP_N Arylesterase Arylsulfotran_2 Arylsulfotrans B_lectin BBS2_Mid Beta_propel Coatomer_WDAD CPSF_A CyRPA Cytochrom_D1 Dpp_8_9_N DPPIV_N DPPIV_rep DUF1513 DUF1668 DUF2415 DUF3748 DUF4221 DUF4933 DUF4934 DUF5046 DUF5050 DUF5122 DUF5128 DUF5711 DUF839 eIF2A FG-GAP FG-GAP_2 FG-GAP_3 Frtz Ge1_WD40 Glu_cyclase_2 Gmad1 GSDH Hyd_WA IKI3 Itfg2 Kelch_1 Kelch_2 Kelch_3 Kelch_4 Kelch_5 Kelch_6 Lactonase Ldl_recept_b LGFP Lgl_C LVIVD Me-amine-dh_H MgpC MRJP Nbas_N Neisseria_PilC NHL nos_propeller nos_propeller_2 Nucleoporin_N Nup160 PALB2_WD40 PD40 Pectate_lyase22 Peptidase_S9_N PHTB1_N Phytase-like PQQ PQQ_2 PQQ_3 RAG2 RCC1 RCC1_2 Reg_prop SBBP SBP56 SdiA-regulated SGL Str_synth TcdB_toxin_midN Tectonin TolB_like VID27 WD40 WD40_2 WD40_3 WD40_4 WD40_like

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(23)
Full
(19758)
Representative proteomes UniProt
(35918)
RP15
(3628)
RP35
(8866)
RP55
(16168)
RP75
(22027)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(23)
Full
(19758)
Representative proteomes UniProt
(35918)
RP15
(3628)
RP35
(8866)
RP55
(16168)
RP75
(22027)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(23)
Full
(19758)
Representative proteomes UniProt
(35918)
RP15
(3628)
RP35
(8866)
RP55
(16168)
RP75
(22027)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: manual
Previous IDs: Apc4_WD40;
Type: Repeat
Sequence Ontology: SO:0001068
Author: Coggill P
Number in seed: 23
Number in full: 19758
Average length of the domain: 84.80 aa
Average identity of full alignment: 17 %
Average coverage of the sequence by the domain: 12.34 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild --amino -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.9 21.1
Trusted cut-off 22.9 21.1
Noise cut-off 22.8 21.0
Model length: 92
Family (HMM) version: 9
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the ANAPC4_WD40 domain has been found. There are 90 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0G2KV24 View 3D Structure Click here
A0A0P0VQD8 View 3D Structure Click here
A0A0P0WZ76 View 3D Structure Click here
A0A0R0E6S3 View 3D Structure Click here
A0A0R0FCF3 View 3D Structure Click here
A0A0R0FCT6 View 3D Structure Click here
A0A0R0HB99 View 3D Structure Click here
A0A0R0KQ85 View 3D Structure Click here
A0A0R4I9S4 View 3D Structure Click here
A0A0R4IU39 View 3D Structure Click here
A0A1D6F7L1 View 3D Structure Click here
A0A1D6GZ36 View 3D Structure Click here
A0A1D6JM40 View 3D Structure Click here
A0A1D6N2Q4 View 3D Structure Click here
A0A1D6NT76 View 3D Structure Click here
A0A1D6P3S7 View 3D Structure Click here
A0A1D6PNQ5 View 3D Structure Click here
A0A1D6QCR7 View 3D Structure Click here
A0A1D6QKV4 View 3D Structure Click here
A0A1D8PGP2 View 3D Structure Click here
A0A1D8PMT3 View 3D Structure Click here
A0A1D8PPK6 View 3D Structure Click here
A0A1D8PQE5 View 3D Structure Click here
A0A1P8B2K0 View 3D Structure Click here
A0A1X7YFP2 View 3D Structure Click here
A0A2C9SN78 View 3D Structure Click here
A0A2R8Q267 View 3D Structure Click here
A0A2R8Q7W9 View 3D Structure Click here
A0A2R8QD67 View 3D Structure Click here
A0A2R8RPA6 View 3D Structure Click here
A0A2R8RPG4 View 3D Structure Click here
A1L112 View 3D Structure Click here
A1ZBM3 View 3D Structure Click here
A3QMB3 View 3D Structure Click here
A4HTQ2 View 3D Structure Click here
A4IC06 View 3D Structure Click here
A4IE52 View 3D Structure Click here
A6H603 View 3D Structure Click here
A6N6J5 View 3D Structure Click here
A9JR96 View 3D Structure Click here
B0S6A9 View 3D Structure Click here
B1WCA1 View 3D Structure Click here
B4FBA5 View 3D Structure Click here
B4FPK4 View 3D Structure Click here
B5DEY5 View 3D Structure Click here
B7F8R8 View 3D Structure Click here
B7ZD88 View 3D Structure Click here
B9G290 View 3D Structure Click here
C0HF73 View 3D Structure Click here
C0PLV0 View 3D Structure Click here
D3Z3I0 View 3D Structure Click here
D3ZGD0 View 3D Structure Click here
D3ZGD0 View 3D Structure Click here
D3ZGD0 View 3D Structure Click here
D3ZN63 View 3D Structure Click here
D3ZQR6 View 3D Structure Click here
D3ZQR6 View 3D Structure Click here
D3ZUB7 View 3D Structure Click here
D4A106 View 3D Structure Click here
D6W4T8 View 3D Structure Click here
E7EZ31 View 3D Structure Click here
E7F4B9 View 3D Structure Click here
E7FF93 View 3D Structure Click here
E9AH79 View 3D Structure Click here
E9QH84 View 3D Structure Click here
E9QIR4 View 3D Structure Click here
F1LRR4 View 3D Structure Click here
F1QAL1 View 3D Structure Click here
F1R3S3 View 3D Structure Click here
F4JF14 View 3D Structure Click here
F4K5R6 View 3D Structure Click here
G3V6T1 View 3D Structure Click here
G3V9M3 View 3D Structure Click here
I1J4A5 View 3D Structure Click here
I1JA18 View 3D Structure Click here
I1JAI7 View 3D Structure Click here
I1JQC1 View 3D Structure Click here
I1K0F5 View 3D Structure Click here
I1KD46 View 3D Structure Click here
I1KVY1 View 3D Structure Click here
I1KZF2 View 3D Structure Click here
I1LCN7 View 3D Structure Click here
I1LD74 View 3D Structure Click here
I1LDJ8 View 3D Structure Click here
I1LG24 View 3D Structure Click here
I1LY25 View 3D Structure Click here
I1MSD9 View 3D Structure Click here
I1MUK8 View 3D Structure Click here
I1N0U4 View 3D Structure Click here
I1N0U4 View 3D Structure Click here
I1NHR3 View 3D Structure Click here
K7K771 View 3D Structure Click here
K7L2M1 View 3D Structure Click here
K7LA18 View 3D Structure Click here
K7LA18 View 3D Structure Click here
K7LIT2 View 3D Structure Click here
K7LN56 View 3D Structure Click here
K7N3V2 View 3D Structure Click here
K7VM25 View 3D Structure Click here
K8ESK9 View 3D Structure Click here
M0RAY7 View 3D Structure Click here
M0RBV9 View 3D Structure Click here
O17939 View 3D Structure Click here
O42839 View 3D Structure Click here
O62477 View 3D Structure Click here
O62477 View 3D Structure Click here
O65418 View 3D Structure Click here
O74865 View 3D Structure Click here
O75717 View 3D Structure Click here
O96622 View 3D Structure Click here
P0DPA1 View 3D Structure Click here
P34441 View 3D Structure Click here
P53621 View 3D Structure Click here
P59328 View 3D Structure Click here
Q05BV3 View 3D Structure Click here
Q05BV3 View 3D Structure Click here
Q09649 View 3D Structure Click here
Q0IUV5 View 3D Structure Click here
Q0JAG9 View 3D Structure Click here
Q10437 View 3D Structure Click here
Q10SH0 View 3D Structure Click here
Q12834 View 3D Structure Click here
Q18859 View 3D Structure Click here
Q2R037 View 3D Structure Click here
Q2R1C4 View 3D Structure Click here
Q3E906 View 3D Structure Click here
Q3TAQ9 View 3D Structure Click here
Q3U3T8 View 3D Structure Click here
Q494K2 View 3D Structure Click here
Q4D008 View 3D Structure Click here
Q4D4X6 View 3D Structure Click here
Q4DEX0 View 3D Structure Click here
Q4DKP1 View 3D Structure Click here
Q4DQZ3 View 3D Structure Click here
Q4DV51 View 3D Structure Click here
Q4DXR2 View 3D Structure Click here
Q4DY65 View 3D Structure Click here
Q4E1P1 View 3D Structure Click here
Q4E3K5 View 3D Structure Click here
Q54CB5 View 3D Structure Click here
Q54CB5 View 3D Structure Click here
Q54KM3 View 3D Structure Click here
Q54MH6 View 3D Structure Click here
Q54MT0 View 3D Structure Click here
Q54MZ3 View 3D Structure Click here
Q54NI1 View 3D Structure Click here
Q54S59 View 3D Structure Click here
Q54SA5 View 3D Structure Click here
Q54UB2 View 3D Structure Click here
Q54XN8 View 3D Structure Click here
Q54Y96 View 3D Structure Click here
Q550V0 View 3D Structure Click here
Q55D32 View 3D Structure Click here
Q55FJ2 View 3D Structure Click here
Q5ACY4 View 3D Structure Click here
Q5ACY4 View 3D Structure Click here
Q5AI86 View 3D Structure Click here
Q5JJP8 View 3D Structure Click here
Q5PR93 View 3D Structure Click here
Q5SQM0 View 3D Structure Click here
Q5SQM0 View 3D Structure Click here
Q62623 View 3D Structure Click here
Q69VQ7 View 3D Structure Click here
Q6AXK9 View 3D Structure Click here
Q6DRF9 View 3D Structure Click here
Q6ED65 View 3D Structure Click here
Q6ED65 View 3D Structure Click here
Q6K699 View 3D Structure Click here
Q6QEF8 View 3D Structure Click here
Q6Z8D3 View 3D Structure Click here
Q6ZMW3 View 3D Structure Click here
Q6ZMW3 View 3D Structure Click here
Q7Z5U6 View 3D Structure Click here
Q7ZUP9 View 3D Structure Click here
Q7ZVF0 View 3D Structure Click here
Q869X0 View 3D Structure Click here
Q86BY9 View 3D Structure Click here
Q86K39 View 3D Structure Click here
Q8BND3 View 3D Structure Click here
Q8BQM8 View 3D Structure Click here
Q8BQM8 View 3D Structure Click here
Q8BX17 View 3D Structure Click here
Q8BX17 View 3D Structure Click here
Q8BX17 View 3D Structure Click here
Q8CGF6 View 3D Structure Click here
Q8CIE6 View 3D Structure Click here
Q8H3V0 View 3D Structure Click here
Q8I3K2 View 3D Structure Click here
Q8IBT2 View 3D Structure Click here
Q8IJD7 View 3D Structure Click here
Q8IJD7 View 3D Structure Click here
Q8IZU2 View 3D Structure Click here
Q8NI36 View 3D Structure Click here
Q8RXQ4 View 3D Structure Click here
Q8T088 View 3D Structure Click here
Q8TEQ6 View 3D Structure Click here
Q8TEQ6 View 3D Structure Click here
Q8VE80 View 3D Structure Click here
Q91W96 View 3D Structure Click here
Q93YS7 View 3D Structure Click here
Q94A40 View 3D Structure Click here
Q96J01 View 3D Structure Click here
Q9C107 View 3D Structure Click here
Q9CX97 View 3D Structure Click here
Q9H6Y2 View 3D Structure Click here
Q9JJ66 View 3D Structure Click here
Q9P2L0 View 3D Structure Click here
Q9R1K5 View 3D Structure Click here
Q9S7H3 View 3D Structure Click here
Q9S7I8 View 3D Structure Click here
Q9SJT9 View 3D Structure Click here
Q9SJW6 View 3D Structure Click here
Q9SZA4 View 3D Structure Click here
Q9SZQ5 View 3D Structure Click here
Q9UJX5 View 3D Structure Click here
Q9UM11 View 3D Structure Click here
Q9UNX4 View 3D Structure Click here
Q9V9V0 View 3D Structure Click here
Q9VCN9 View 3D Structure Click here
Q9VFV8 View 3D Structure Click here
Q9W097 View 3D Structure Click here
Q9W1F6 View 3D Structure Click here
Q9W395 View 3D Structure Click here
Q9W4H9 View 3D Structure Click here
X1WCH2 View 3D Structure Click here
X1WCH2 View 3D Structure Click here