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110  structures 1491  species 0  interactions 19462  sequences 360  architectures

Family: Adaptin_N (PF01602)

Summary: Adaptin N terminal region

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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.

Adaptin N terminal region Provide feedback

This family consists of the N terminal region of various alpha, beta and gamma subunits of the AP-1, AP-2 and AP-3 adaptor protein complexes. The adaptor protein (AP) complexes are involved in the formation of clathrin-coated pits and vesicles [1]. The N-terminal region of the various adaptor proteins (APs) is constant by comparison to the C-terminal which is variable within members of the AP-2 [2]; and it has been proposed that this constant region interacts with another uniform component of the coated vesicles [2].

Literature references

  1. Kirchhausen T, Bonifacino JS, Riezman H; , Curr Opin Cell Biol 1997;9:488-495.: Linking cargo to vesicle formation: receptor tail interactions with coat proteins. PUBMED:9261055 EPMC:9261055

  2. RAKirchhausen T, Nathanson KL, Matsui W, Vaisberg A, Chow EP, Burne C, Keen JH, Davis AE; , Proc Natl Acad Sci U S A 1989;86:2612-2616.: Structural and functional division into two domains of the large (100- to 115-kDa)chains of the clathrin-associated protein complex AP-2. PUBMED:2495531 EPMC:2495531


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002553

Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer [ PUBMED:15261670 ].

Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [ PUBMED:17449236 ]. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis [ PUBMED:12858162 ].

While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins [ PUBMED:14690497 ]. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes [ PUBMED:17041781 ]. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits.

This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily [ PUBMED:12086608 ]. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity [ PUBMED:2495531 ]. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

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 TPR (CL0020), which has the following description:

Tetratricopeptide-like repeats are found in a numerous and diverse proteins involved in such functions as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding.

The clan contains the following 176 members:

Adaptin_N Alkyl_sulf_dimr ANAPC3 ANAPC5 ANAPC8 APC_rep API5 Arm Arm_2 Arm_3 Arm_vescicular Atx10homo_assoc B56 BAF250_C BTAD CAS_CSE1 ChAPs CHIP_TPR_N CID CLASP_N Clathrin Clathrin-link Clathrin_H_link Clathrin_propel Cnd1 Cnd3 Coatomer_E Cohesin_HEAT Cohesin_load ComR_TPR COPI_C CPL CRM1_C CRM1_repeat CRM1_repeat_3 Cse1 CTK3 DHR-2 DIL DNA_alkylation Dopey_N Drf_FH3 Drf_GBD DUF1822 DUF2019 DUF2225 DUF3385 DUF3458_C DUF3808 DUF3856 DUF4042 DUF5588 DUF5691 DUF6340 DUF6377 DUF924 EAD11 EST1 EST1_DNA_bind FAT Fis1_TPR_C Fis1_TPR_N Foie-gras_1 GUN4_N HAT HEAT HEAT_2 HEAT_EZ HEAT_PBS HEAT_UF HemY_N HrpB1_HrpK HSM3_C HSM3_N IBB IBN_N IFRD Importin_rep Importin_rep_2 Importin_rep_3 Importin_rep_4 Importin_rep_5 Importin_rep_6 Insc_C KAP Leuk-A4-hydro_C LRV LRV_FeS MA3 MIF4G MIF4G_like MIF4G_like_2 MMS19_C Mo25 MRP-S27 Mtf2 NARP1 Neurochondrin Nipped-B_C Nro1 NSF Paf67 ParcG PC_rep PHAT PI3Ka PknG_TPR PPP5 PPR PPR_1 PPR_2 PPR_3 PPR_long PPTA Proteasom_PSMB PUF Rapsyn_N RIX1 RNPP_C RPM2 RPN7 Sel1 SHNi-TPR SNAP SPO22 SRP_TPR_like ST7 Suf SusD-like SusD-like_2 SusD-like_3 SusD_RagB SYCP2_ARLD TAF6_C TAL_effector TAtT Tcf25 TIP120 TOM20_plant TPR_1 TPR_10 TPR_11 TPR_12 TPR_14 TPR_15 TPR_16 TPR_17 TPR_18 TPR_19 TPR_2 TPR_20 TPR_21 TPR_22 TPR_3 TPR_4 TPR_5 TPR_6 TPR_7 TPR_8 TPR_9 TPR_MalT TTC7_N UNC45-central Upf2 V-ATPase_H_C V-ATPase_H_N Vac14_Fab1_bd Vitellogenin_N Vps39_1 W2 WSLR Wzy_C_2 Xpo1 YcaO_C YfiO Zmiz1_N

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
(30)
Full
(19462)
Representative proteomes UniProt
(34434)
RP15
(3503)
RP35
(8741)
RP55
(15388)
RP75
(20590)
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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
(30)
Full
(19462)
Representative proteomes UniProt
(34434)
RP15
(3503)
RP35
(8741)
RP55
(15388)
RP75
(20590)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(30)
Full
(19462)
Representative proteomes UniProt
(34434)
RP15
(3503)
RP35
(8741)
RP55
(15388)
RP75
(20590)
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: Pfam-B_491 (release 4.0)
Previous IDs: none
Type: Repeat
Sequence Ontology: SO:0001068
Author: Bashton M , Bateman A
Number in seed: 30
Number in full: 19462
Average length of the domain: 473.30 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 58.31 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 37.0 37.0
Trusted cut-off 37.0 37.0
Noise cut-off 36.9 36.9
Model length: 524
Family (HMM) version: 22
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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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 Adaptin_N domain has been found. There are 110 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
A0A0G2JWD6 View 3D Structure Click here
A0A0G2KCY3 View 3D Structure Click here
A0A0G2L8C2 View 3D Structure Click here
A0A0P0V375 View 3D Structure Click here
A0A0P0VC43 View 3D Structure Click here
A0A0P0VSF7 View 3D Structure Click here
A0A0R4IQI7 View 3D Structure Click here
A0A0R4IU05 View 3D Structure Click here
A0A1D6EHK5 View 3D Structure Click here
A0A1D6ER71 View 3D Structure Click here
A0A1D6F7R0 View 3D Structure Click here
A0A1D6F8L7 View 3D Structure Click here
A0A1D6FAY4 View 3D Structure Click here
A0A1D6FZU7 View 3D Structure Click here
A0A1D6G6A5 View 3D Structure Click here
A0A1D6HL69 View 3D Structure Click here
A0A1D6HV44 View 3D Structure Click here
A0A1D6IW44 View 3D Structure Click here
A0A1D6J6G0 View 3D Structure Click here
A0A1D6JKY6 View 3D Structure Click here
A0A1D6K3D9 View 3D Structure Click here
A0A1D6KEQ6 View 3D Structure Click here
A0A1D6KPH9 View 3D Structure Click here
A0A1D6LED5 View 3D Structure Click here
A0A1D6LLN3 View 3D Structure Click here
A0A1D6MR41 View 3D Structure Click here
A0A1D6N3A1 View 3D Structure Click here
A0A1D6NI64 View 3D Structure Click here
A0A1D6PL97 View 3D Structure Click here
A0A1D8PDE3 View 3D Structure Click here
A0A1D8PE70 View 3D Structure Click here
A0A1D8PFU6 View 3D Structure Click here
A0A1D8PJI6 View 3D Structure Click here
A0A1D8PJJ8 View 3D Structure Click here
A0A1D8PLU9 View 3D Structure Click here
A0A1D8PSB0 View 3D Structure Click here
A0A2R8Q6M9 View 3D Structure Click here
A0A2R8QR37 View 3D Structure Click here
A4HT27 View 3D Structure Click here
A4HTF9 View 3D Structure Click here
A4HV08 View 3D Structure Click here
A4HYX7 View 3D Structure Click here
A4I3Z5 View 3D Structure Click here
A4IAG8 View 3D Structure Click here
A4ICB7 View 3D Structure Click here
A4IDU7 View 3D Structure Click here
B0R024 View 3D Structure Click here
B5DFK6 View 3D Structure Click here
B7ZUU8 View 3D Structure Click here
B7ZXB7 View 3D Structure Click here
C4J5M2 View 3D Structure Click here
C6KSX7 View 3D Structure Click here
C6KSX7 View 3D Structure Click here
C6KT12 View 3D Structure Click here
C6KT12 View 3D Structure Click here
D3ZGW2 View 3D Structure Click here
D3ZUY8 View 3D Structure Click here
D3ZX21 View 3D Structure Click here
D4ABY2 View 3D Structure Click here
D4AD35 View 3D Structure Click here
D4AE00 View 3D Structure Click here
F1QV11 View 3D Structure Click here
F4I7P0 View 3D Structure Click here
I1J5B0 View 3D Structure Click here
I1J870 View 3D Structure Click here
I1JAF7 View 3D Structure Click here
I1JSP6 View 3D Structure Click here
I1JUR7 View 3D Structure Click here
I1K5M5 View 3D Structure Click here
I1K778 View 3D Structure Click here
I1KG56 View 3D Structure Click here
I1KQA1 View 3D Structure Click here
I1KVR6 View 3D Structure Click here
I1KXI7 View 3D Structure Click here
I1L5C0 View 3D Structure Click here
I1LG61 View 3D Structure Click here
I1LIM0 View 3D Structure Click here
I1LIM0 View 3D Structure Click here
I1LJE2 View 3D Structure Click here
I1LPD3 View 3D Structure Click here
I1LQ46 View 3D Structure Click here
I1LTQ5 View 3D Structure Click here
I1MLZ0 View 3D Structure Click here
I1MS73 View 3D Structure Click here
K7K676 View 3D Structure Click here
K7KAL6 View 3D Structure Click here
K7KWW2 View 3D Structure Click here
K7M5C1 View 3D Structure Click here
K7MGK0 View 3D Structure Click here
K7U510 View 3D Structure Click here
K7VAA4 View 3D Structure Click here
K7WDG3 View 3D Structure Click here
O00203 View 3D Structure Click here
O13939 View 3D Structure Click here
O14617 View 3D Structure Click here
O16637 View 3D Structure Click here
O35643 View 3D Structure Click here
O43747 View 3D Structure Click here
O45718 View 3D Structure Click here
O54774 View 3D Structure Click here
O75843 View 3D Structure Click here
O81742 View 3D Structure Click here
O88512 View 3D Structure Click here
O94973 View 3D Structure Click here
O95782 View 3D Structure Click here
P17426 View 3D Structure Click here
P17427 View 3D Structure Click here
P18484 View 3D Structure Click here
P22892 View 3D Structure Click here
P23514 View 3D Structure Click here
P27351 View 3D Structure Click here
P32074 View 3D Structure Click here
P36000 View 3D Structure Click here
P38065 View 3D Structure Click here
P41810 View 3D Structure Click here
P45437 View 3D Structure Click here
P46682 View 3D Structure Click here
P52303 View 3D Structure Click here
P53618 View 3D Structure Click here
P54362 View 3D Structure Click here
P62944 View 3D Structure Click here
P63010 View 3D Structure Click here
P87140 View 3D Structure Click here
P91926 View 3D Structure Click here
Q08951 View 3D Structure Click here
Q0DRT9 View 3D Structure Click here
Q0DWN8 View 3D Structure Click here
Q0JFL8 View 3D Structure Click here
Q0JL39 View 3D Structure Click here
Q0JNK5 View 3D Structure Click here
Q0WW26 View 3D Structure Click here
Q10567 View 3D Structure Click here
Q12028 View 3D Structure Click here
Q13367 View 3D Structure Click here
Q22498 View 3D Structure Click here
Q22601 View 3D Structure Click here
Q23924 View 3D Structure Click here
Q24253 View 3D Structure Click here
Q4AEF8 View 3D Structure Click here
Q4CLN6 View 3D Structure Click here
Q4CW60 View 3D Structure Click here
Q4D6C6 View 3D Structure Click here
Q4DDP3 View 3D Structure Click here
Q4DHL5 View 3D Structure Click here
Q4DIK0 View 3D Structure Click here
Q4DK33 View 3D Structure Click here
Q4DNF0 View 3D Structure Click here
Q4DQP3 View 3D Structure Click here
Q4DTP4 View 3D Structure Click here
Q4DU60 View 3D Structure Click here
Q4DVU3 View 3D Structure Click here
Q4DX30 View 3D Structure Click here
Q4DZ85 View 3D Structure Click here
Q4E0Q1 View 3D Structure Click here
Q4E3P4 View 3D Structure Click here
Q53PC7 View 3D Structure Click here
Q54HL0 View 3D Structure Click here
Q54R84 View 3D Structure Click here
Q54VE0 View 3D Structure Click here
Q54WN0 View 3D Structure Click here
Q54X82 View 3D Structure Click here
Q556J8 View 3D Structure Click here
Q556J8 View 3D Structure Click here
Q5A6M6 View 3D Structure Click here
Q5WAB3 View 3D Structure Click here
Q66HV4 View 3D Structure Click here
Q6NYJ9 View 3D Structure Click here
Q6Z382 View 3D Structure Click here
Q7KVR8 View 3D Structure Click here
Q80V94 View 3D Structure Click here
Q84K16 View 3D Structure Click here
Q86KI1 View 3D Structure Click here
Q8H852 View 3D Structure Click here
Q8I0G5 View 3D Structure Click here
Q8I3A8 View 3D Structure Click here
Q8I3I6 View 3D Structure Click here
Q8I8U2 View 3D Structure Click here
Q8IBF8 View 3D Structure Click here
Q8IHR6 View 3D Structure Click here
Q8IKS3 View 3D Structure Click here
Q8ILG6 View 3D Structure Click here
Q8L7A9 View 3D Structure Click here
Q8LPK4 View 3D Structure Click here
Q8LPL6 View 3D Structure Click here
Q8WQB3 View 3D Structure Click here
Q9C0W7 View 3D Structure Click here
Q9C744 View 3D Structure Click here
Q9DBG3 View 3D Structure Click here
Q9JIF7 View 3D Structure Click here
Q9JME5 View 3D Structure Click here
Q9LDK9 View 3D Structure Click here
Q9M2T1 View 3D Structure Click here
Q9N4F3 View 3D Structure Click here
Q9PUE4 View 3D Structure Click here
Q9QXK3 View 3D Structure Click here
Q9QZE5 View 3D Structure Click here
Q9SUS3 View 3D Structure Click here
Q9SV20 View 3D Structure Click here
Q9SV21 View 3D Structure Click here
Q9TYL9 View 3D Structure Click here
Q9UBF2 View 3D Structure Click here
Q9UPM8 View 3D Structure Click here
Q9UTL8 View 3D Structure Click here
Q9UU81 View 3D Structure Click here
Q9UUF7 View 3D Structure Click here
Q9W4K1 View 3D Structure Click here
Q9WV76 View 3D Structure Click here
Q9Y678 View 3D Structure Click here
Q9Y6B7 View 3D Structure Click here
Q9Z1T1 View 3D Structure Click here
Q9ZUI6 View 3D Structure Click here
X1WD71 View 3D Structure Click here