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94  structures 475  species 0  interactions 5110  sequences 52  architectures

Family: IRK (PF01007)

Summary: Inward rectifier potassium channel transmembrane domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Inward-rectifier potassium ion channel". More...

Inward-rectifier potassium ion channel Edit Wikipedia article

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Inward rectifier potassium channel transmembrane domain Provide feedback

No Pfam abstract.

Literature references

  1. Doupnik CA, Davidson N, Lester HA; , Curr Opin Neurobiol 1995;5:268-277.: The inward rectifier potassium channel family. PUBMED:7580148 EPMC:7580148


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR040445

Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release [ PUBMED:10102275 ]. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [ PUBMED:7580148 , PUBMED:10449331 ].

Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. The two 'transmembrane passes' place the C-terminal tail on the cytoplasmic side of the membrane [ PUBMED:7580148 ]. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [ PUBMED:10102275 ].

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 Ion_channel (CL0030), which has the following description:

This superfamily contains a diverse range of ion channels that share a pair of transmembrane helices in common. This clan is classified as the VIC (Voltage-gated Ion Channel) superfamily in TCDB.

The clan contains the following 7 members:

Ion_trans Ion_trans_2 IRK KdpA Lig_chan PKD_channel TrkH

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
(31)
Full
(5110)
Representative proteomes UniProt
(9172)
RP15
(720)
RP35
(1913)
RP55
(4505)
RP75
(5886)
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
(31)
Full
(5110)
Representative proteomes UniProt
(9172)
RP15
(720)
RP35
(1913)
RP55
(4505)
RP75
(5886)
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
(31)
Full
(5110)
Representative proteomes UniProt
(9172)
RP15
(720)
RP35
(1913)
RP55
(4505)
RP75
(5886)
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_18 (release 3.0)
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 31
Number in full: 5110
Average length of the domain: 137.40 aa
Average identity of full alignment: 44 %
Average coverage of the sequence by the domain: 32.95 %

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 22.7 22.7
Trusted cut-off 22.7 22.7
Noise cut-off 22.6 22.6
Model length: 142
Family (HMM) version: 22
Download: download the raw HMM for this family

Species distribution

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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 IRK domain has been found. There are 94 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
A0A0B4KH86 View 3D Structure Click here
A0A0B4LHI9 View 3D Structure Click here
A0A0G2KM96 View 3D Structure Click here
A0A0R4IAD0 View 3D Structure Click here
A0A0R4IAU4 View 3D Structure Click here
A0A0R4ICH9 View 3D Structure Click here
A0A1C3NSK2 View 3D Structure Click here
A0A1C3NSN6 View 3D Structure Click here
A0A2R8Q3V1 View 3D Structure Click here
A5PLA5 View 3D Structure Click here
B7U540 View 3D Structure Click here
B7YZX2 View 3D Structure Click here
B8JKW1 View 3D Structure Click here
E7F1N1 View 3D Structure Click here
E7F2Y9 View 3D Structure Click here
E7F7K0 View 3D Structure Click here
E7F807 View 3D Structure Click here
E7FD27 View 3D Structure Click here
E7FGH1 View 3D Structure Click here
F1Q6H1 View 3D Structure Click here
F1QH85 View 3D Structure Click here
F1QIE6 View 3D Structure Click here
F1QQH0 View 3D Structure Click here
F1QR82 View 3D Structure Click here
F1R1B8 View 3D Structure Click here
F1R7M8 View 3D Structure Click here
O60928 View 3D Structure Click here
O70596 View 3D Structure Click here
O70617 View 3D Structure Click here
O88335 View 3D Structure Click here
O88932 View 3D Structure Click here
P35560 View 3D Structure Click here
P35561 View 3D Structure Click here
P48048 View 3D Structure Click here
P48050 View 3D Structure Click here
P48051 View 3D Structure Click here
P48542 View 3D Structure Click here
P48543 View 3D Structure Click here
P48544 View 3D Structure Click here
P48545 View 3D Structure Click here
P48548 View 3D Structure Click here
P48549 View 3D Structure Click here
P48550 View 3D Structure Click here
P49655 View 3D Structure Click here
P52187 View 3D Structure Click here
P52188 View 3D Structure Click here
P52189 View 3D Structure Click here
P52190 View 3D Structure Click here
P52191 View 3D Structure Click here
P52192 View 3D Structure Click here
P63250 View 3D Structure Click here
P63251 View 3D Structure Click here
P63252 View 3D Structure Click here
P70673 View 3D Structure Click here
P78508 View 3D Structure Click here
P86046 View 3D Structure Click here
P97794 View 3D Structure Click here
Q0KIZ7 View 3D Structure Click here
Q14500 View 3D Structure Click here
Q14654 View 3D Structure Click here
Q15842 View 3D Structure Click here
Q1L8I4 View 3D Structure Click here
Q1L8I5 View 3D Structure Click here
Q1L8I6 View 3D Structure Click here
Q1L8I7 View 3D Structure Click here
Q1L8I8 View 3D Structure Click here
Q1L8I9 View 3D Structure Click here
Q2HX26 View 3D Structure Click here
Q5R205 View 3D Structure Click here
Q5RH88 View 3D Structure Click here
Q61743 View 3D Structure Click here
Q63511 View 3D Structure Click here
Q63664 View 3D Structure Click here
Q64273 View 3D Structure Click here
Q8JZN3 View 3D Structure Click here
Q91ZF1 View 3D Structure Click here
Q92806 View 3D Structure Click here
Q99712 View 3D Structure Click here
Q9JM63 View 3D Structure Click here
Q9NPI9 View 3D Structure Click here
Q9UNX9 View 3D Structure Click here
Q9Z307 View 3D Structure Click here