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24  structures 1267  species 0  interactions 14294  sequences 123  architectures

Family: HCO3_cotransp (PF00955)

Summary: HCO3- transporter family

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 "Bicarbonate transporter proteins". More...

Bicarbonate transporter proteins Edit Wikipedia article

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

HCO3- transporter family Provide feedback

This family contains Band 3 anion exchange proteins that exchange CL-/HCO3- such as P48751. This family also includes cotransporters of Na+/HCO3- such as O15153.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR011531

Bicarbonate (HCO 3 - ) transport mechanisms are the principal regulators of pH in animal cells. Such transport also plays a vital role in acid-base movements in the stomach, pancreas, intestine, kidney, reproductive organs and the central nervous system. Functional studies have suggested four different HCO 3 - transport modes. Anion exchanger proteins exchange HCO 3 - for Cl - in a reversible, electroneutral manner [ PUBMED:2289848 ]. Na + /HCO 3 - co-transport proteins mediate the coupled movement of Na + and HCO 3 - across plasma membranes, often in an electrogenic manner [ PUBMED:9261985 ]. Na - driven Cl - /HCO 3 - exchange and K + /HCO 3 - exchange activities have also been detected in certain cell types, although the molecular identities of the proteins responsible remain to be determined.

Sequence analysis of the two families of HCO 3 - transporters that have been cloned to date (the anion exchangers and Na + /HCO 3 - co-transporters) reveals that they are homologous. This is not entirely unexpected, given that they both transport HCO 3 - and are inhibited by a class of pharmacological agents called disulphonic stilbenes [ PUBMED:9235899 ]. They share around ~25-30% sequence identity, which is distributed along their entire sequence length, and have similar predicted membrane topologies, suggesting they have ~10 transmembrane (TM) domains.

This domain is found at the C terminus of many bicarbonate transport proteins. It is also found in some plant proteins responsible for boron transport [ PUBMED:12447444 ]. In these proteins it covers almost the entire length of the sequence.

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 APC (CL0062), which has the following description:

This large superfamily contains a variety of transporters including amino acid permeases that according to TCDB belong to the APC (Amino acid-Polyamine-organoCation) superfamily.

The clan contains the following 20 members:

AA_permease AA_permease_2 AA_permease_C Aa_trans BCCT BenE Branch_AA_trans CstA HCO3_cotransp K_trans MFS_MOT1 Na_Ala_symp Nramp SNF Spore_permease SSF Sulfate_transp Transp_cyt_pur Trp_Tyr_perm Xan_ur_permease

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
(70)
Full
(14294)
Representative proteomes UniProt
(25393)
RP15
(1723)
RP35
(5592)
RP55
(11548)
RP75
(15784)
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
(70)
Full
(14294)
Representative proteomes UniProt
(25393)
RP15
(1723)
RP35
(5592)
RP55
(11548)
RP75
(15784)
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
(70)
Full
(14294)
Representative proteomes UniProt
(25393)
RP15
(1723)
RP35
(5592)
RP55
(11548)
RP75
(15784)
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_1004 (release 3.0)
Previous IDs: Anion_Exchanger;
Type: Family
Sequence Ontology: SO:0100021
Author: Croning MDR, Finn RD , Bateman A
Number in seed: 70
Number in full: 14294
Average length of the domain: 296.80 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 51.48 %

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 20.3 20.3
Trusted cut-off 20.3 20.3
Noise cut-off 20.2 20.2
Model length: 498
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
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 HCO3_cotransp domain has been found. There are 24 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
A0A0G2KM71 View 3D Structure Click here
A0A0G2KM71 View 3D Structure Click here
A0A0R0G158 View 3D Structure Click here
A0A0R0G158 View 3D Structure Click here
A0A0R0G158 View 3D Structure Click here
A0A0R0GYS7 View 3D Structure Click here
A0A0R0GYS7 View 3D Structure Click here
A0A0R0GYS7 View 3D Structure Click here
A0A0R4IUL4 View 3D Structure Click here
A0A1D6EHS7 View 3D Structure Click here
A0A1D6FF25 View 3D Structure Click here
A0A1D6FM15 View 3D Structure Click here
A0A1D6FM15 View 3D Structure Click here
A0A1D6FM15 View 3D Structure Click here
A0A1D6FQE1 View 3D Structure Click here
A0A1D6KBT2 View 3D Structure Click here
A0A1D6MJY4 View 3D Structure Click here
A0A1D6MJY4 View 3D Structure Click here
A0A1D6MJY4 View 3D Structure Click here
A0A1D6N7V7 View 3D Structure Click here
A0A1D6N7V7 View 3D Structure Click here
A0A1D6N7V7 View 3D Structure Click here
A0A1D6PKM6 View 3D Structure Click here
A0A1D6PKM6 View 3D Structure Click here
A0A1D6PKM6 View 3D Structure Click here
A0A286YA89 View 3D Structure Click here
A0A2R8PYB9 View 3D Structure Click here
A0A2R8Q9J0 View 3D Structure Click here
A0A2R8QJJ4 View 3D Structure Click here
A0A3B1E616 View 3D Structure Click here
A0A494BA31 View 3D Structure Click here
A2AJN7 View 3D Structure Click here
B0S7B8 View 3D Structure Click here
B3WFV9 View 3D Structure Click here
B6U4C0 View 3D Structure Click here
B6U4C0 View 3D Structure Click here
B6U4C0 View 3D Structure Click here
C0HFY5 View 3D Structure Click here
C0HFY5 View 3D Structure Click here
C0HFY5 View 3D Structure Click here
D1FTM8 View 3D Structure Click here
D3ZVP9 View 3D Structure Click here
E7FGE7 View 3D Structure Click here
E9Q3M5 View 3D Structure Click here
F1Q5R4 View 3D Structure Click here
F1QGN4 View 3D Structure Click here
F1R0Y5 View 3D Structure Click here
F6NGR0 View 3D Structure Click here
G5EGB9 View 3D Structure Click here
G5EGB9 View 3D Structure Click here
I1JQV1 View 3D Structure Click here
I1JQV1 View 3D Structure Click here
I1JQV1 View 3D Structure Click here
I1K011 View 3D Structure Click here
I1K011 View 3D Structure Click here
I1K011 View 3D Structure Click here
I1K8Y2 View 3D Structure Click here
I1K8Y2 View 3D Structure Click here
I1K8Y2 View 3D Structure Click here
I1L0M1 View 3D Structure Click here
I1L0M1 View 3D Structure Click here
I1L0M1 View 3D Structure Click here
I1MCI9 View 3D Structure Click here
I1MCI9 View 3D Structure Click here
I1MCI9 View 3D Structure Click here
I1MTG6 View 3D Structure Click here
I1MTG6 View 3D Structure Click here
I1MTG6 View 3D Structure Click here
I1NBG2 View 3D Structure Click here
I1NBG2 View 3D Structure Click here
I1NBG2 View 3D Structure Click here
K7KIL3 View 3D Structure Click here
K7KIL3 View 3D Structure Click here
K7KIL3 View 3D Structure Click here
K7KKY0 View 3D Structure Click here
K7KKY0 View 3D Structure Click here
K7KKY0 View 3D Structure Click here
K7KVS5 View 3D Structure Click here
K7KVS5 View 3D Structure Click here
K7KVS5 View 3D Structure Click here
K7MMY8 View 3D Structure Click here
K7MMY8 View 3D Structure Click here
K7MMY8 View 3D Structure Click here
O88343 View 3D Structure Click here
P02730 View 3D Structure Click here
P02730 View 3D Structure Click here
P04919 View 3D Structure Click here
P04919 View 3D Structure Click here
P04920 View 3D Structure Click here
P13808 View 3D Structure Click here
P16283 View 3D Structure Click here
P23347 View 3D Structure Click here
P23348 View 3D Structure Click here
P23562 View 3D Structure Click here
P23562 View 3D Structure Click here
P48751 View 3D Structure Click here
P53838 View 3D Structure Click here
P53838 View 3D Structure Click here
Q0JQ90 View 3D Structure Click here
Q0JQ90 View 3D Structure Click here
Q0JQ90 View 3D Structure Click here
Q1ZYR6 View 3D Structure Click here
Q1ZYR6 View 3D Structure Click here
Q1ZYR6 View 3D Structure Click here
Q1ZYR7 View 3D Structure Click here
Q1ZYR7 View 3D Structure Click here
Q1ZYR7 View 3D Structure Click here
Q2QNH0 View 3D Structure Click here
Q2QNH0 View 3D Structure Click here
Q2QNH0 View 3D Structure Click here
Q2Y0W8 View 3D Structure Click here
Q3E954 View 3D Structure Click here
Q3E954 View 3D Structure Click here
Q3E954 View 3D Structure Click here
Q55BP1 View 3D Structure Click here
Q55BP1 View 3D Structure Click here
Q58QG8 View 3D Structure Click here
Q58QG8 View 3D Structure Click here
Q5A1C1 View 3D Structure Click here
Q5A1C1 View 3D Structure Click here
Q5DTL9 View 3D Structure Click here
Q6RI88 View 3D Structure Click here
Q6RVG2 View 3D Structure Click here
Q6U841 View 3D Structure Click here
Q7ZZJ7 View 3D Structure Click here
Q80ZA5 View 3D Structure Click here
Q8BTY2 View 3D Structure Click here
Q8BTY2 View 3D Structure Click here
Q8IPI3 View 3D Structure Click here
Q8JZR6 View 3D Structure Click here
Q8K4V2 View 3D Structure Click here
Q8NBS3 View 3D Structure Click here
Q8VYR7 View 3D Structure Click here
Q8VYR7 View 3D Structure Click here
Q8VYR7 View 3D Structure Click here
Q93Z13 View 3D Structure Click here
Q93Z13 View 3D Structure Click here
Q93Z13 View 3D Structure Click here
Q96Q91 View 3D Structure Click here
Q9BY07 View 3D Structure Click here
Q9HGM6 View 3D Structure Click here
Q9HGM6 View 3D Structure Click here
Q9JI66 View 3D Structure Click here
Q9M1P7 View 3D Structure Click here
Q9M1P7 View 3D Structure Click here
Q9M1P7 View 3D Structure Click here
Q9R1N3 View 3D Structure Click here
Q9SSG5 View 3D Structure Click here
Q9SSG5 View 3D Structure Click here
Q9SSG5 View 3D Structure Click here
Q9SUU1 View 3D Structure Click here
Q9SUU1 View 3D Structure Click here
Q9SUU1 View 3D Structure Click here
Q9VT48 View 3D Structure Click here
Q9XI23 View 3D Structure Click here
Q9XI23 View 3D Structure Click here
Q9XI23 View 3D Structure Click here
Q9Y6M7 View 3D Structure Click here
Q9Y6R1 View 3D Structure Click here