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783  structures 1446  species 0  interactions 9898  sequences 134  architectures

Family: Histone_H2A_C (PF16211)

Summary: C-terminus of histone H2A

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

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.

C-terminus of histone H2A Provide feedback

No Pfam abstract.

This tab holds annotation information from the InterPro database.

InterPro entry IPR032454

Histone H2A is a small, highly conserved nuclear protein that, together with two molecules each of histones H2B, H3 and H4, forms the eukaryotic nucleosome core [ PUBMED:8121801 ]; the nucleosome octamer winds ~146 DNA base-pairs. In the mouse, histone H2A can be replaced by histone H2A-like 1 [ PUBMED:17261847 ].

This entry represents the C-terminal domain of Histone H2A.

Domain organisation

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

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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
(134)
Full
(9898)
Representative proteomes UniProt
(16010)
RP15
(1794)
RP35
(4610)
RP55
(8246)
RP75
(10701)
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
(134)
Full
(9898)
Representative proteomes UniProt
(16010)
RP15
(1794)
RP35
(4610)
RP55
(8246)
RP75
(10701)
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
(134)
Full
(9898)
Representative proteomes UniProt
(16010)
RP15
(1794)
RP35
(4610)
RP55
(8246)
RP75
(10701)
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: Phmmer:P16104
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Coggill P
Number in seed: 134
Number in full: 9898
Average length of the domain: 34.10 aa
Average identity of full alignment: 59 %
Average coverage of the sequence by the domain: 21.04 %

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 20.0 20.0
Trusted cut-off 20.0 20.0
Noise cut-off 19.9 19.8
Model length: 35
Family (HMM) version: 7
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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Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

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 Histone_H2A_C domain has been found. There are 783 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
A0A0R0F3E0 View 3D Structure Click here
A0A0R0H450 View 3D Structure Click here
A0A0R0KK01 View 3D Structure Click here
A0A0R0KNL8 View 3D Structure Click here
A0A0R4IPN8 View 3D Structure Click here
A0A0R4J2W1 View 3D Structure Click here
A0A140LGS2 View 3D Structure Click here
A0A1D6F770 View 3D Structure Click here
A0A1D6FJ21 View 3D Structure Click here
A0A1D6FVI7 View 3D Structure Click here
A0A1D6GZ27 View 3D Structure Click here
A0A1D6J6J4 View 3D Structure Click here
A0A1D6JDH2 View 3D Structure Click here
A0A1D6JPI2 View 3D Structure Click here
A0A1D6KJQ2 View 3D Structure Click here
A0A1D6KWJ8 View 3D Structure Click here
A0A1D6L2M4 View 3D Structure Click here
A0A1D6LHK7 View 3D Structure Click here
A0A1D6LHK8 View 3D Structure Click here
A0A1D6LHK9 View 3D Structure Click here
A0A1D6P087 View 3D Structure Click here
A0A1D6QHX6 View 3D Structure Click here
A0A381MJI1 View 3D Structure Click here
A4FVM2 View 3D Structure Click here
A4HX95 View 3D Structure Click here
A9UMV8 View 3D Structure Click here
B1WC28 View 3D Structure Click here
B4FH55 View 3D Structure Click here
B4FIA6 View 3D Structure Click here
B4FJK0 View 3D Structure Click here
B4FMH5 View 3D Structure Click here
B4FQ57 View 3D Structure Click here
B4FU52 View 3D Structure Click here
B4FXB2 View 3D Structure Click here
B4FZ86 View 3D Structure Click here
B4G237 View 3D Structure Click here
B6SI29 View 3D Structure Click here
B6SJU3 View 3D Structure Click here
B6SQ88 View 3D Structure Click here
B6SYW4 View 3D Structure Click here
B6T101 View 3D Structure Click here
B6T543 View 3D Structure Click here
C0HKE1 View 3D Structure Click here
C0HKE2 View 3D Structure Click here
C0HKE3 View 3D Structure Click here
C0HKE4 View 3D Structure Click here
C0HKE5 View 3D Structure Click here
C0HKE6 View 3D Structure Click here
C0HKE7 View 3D Structure Click here
C0HKE8 View 3D Structure Click here
C0HKE9 View 3D Structure Click here
C6KT18 View 3D Structure Click here
C6SV65 View 3D Structure Click here
C6SWA6 View 3D Structure Click here
C6SYX1 View 3D Structure Click here
C6SYX2 View 3D Structure Click here
C6SZ77 View 3D Structure Click here
C6SZZ2 View 3D Structure Click here
C6SZZ5 View 3D Structure Click here
C6T0M0 View 3D Structure Click here
C6T2B0 View 3D Structure Click here
C6TMV8 View 3D Structure Click here
D3ZVK7 View 3D Structure Click here
D3ZWE0 View 3D Structure Click here
D3ZXP3 View 3D Structure Click here
D4ACV3 View 3D Structure Click here
D4AEC0 View 3D Structure Click here
E7EXD7 View 3D Structure Click here
E7EZX1 View 3D Structure Click here
E7F5W3 View 3D Structure Click here
E7FE07 View 3D Structure Click here
E9AGW1 View 3D Structure Click here
F1QTL1 View 3D Structure Click here
G3V9C0 View 3D Structure Click here
I1LUS3 View 3D Structure Click here
I1M4U3 View 3D Structure Click here
I1MDH5 View 3D Structure Click here
I1MWP3 View 3D Structure Click here
I1N9C6 View 3D Structure Click here
K7LW98 View 3D Structure Click here
K7TYE5 View 3D Structure Click here
K7UU03 View 3D Structure Click here
M0R6X5 View 3D Structure Click here
M0RCL5 View 3D Structure Click here
M0RDM4 View 3D Structure Click here
O04848 View 3D Structure Click here
O23628 View 3D Structure Click here
O75367 View 3D Structure Click here
O81826 View 3D Structure Click here
O97320 View 3D Structure Click here
P02262 View 3D Structure Click here
P04908 View 3D Structure Click here
P04909 View 3D Structure Click here
P04910 View 3D Structure Click here
P04911 View 3D Structure Click here
P04912 View 3D Structure Click here
P08985 View 3D Structure Click here
P09588 View 3D Structure Click here
P0C0S5 View 3D Structure Click here
P0C0S6 View 3D Structure Click here
P0C0S7 View 3D Structure Click here
P0C0S8 View 3D Structure Click here
P0C169 View 3D Structure Click here
P0C170 View 3D Structure Click here
P0CC09 View 3D Structure Click here
P16104 View 3D Structure Click here
P20671 View 3D Structure Click here
P27661 View 3D Structure Click here
P48003 View 3D Structure Click here
P84051 View 3D Structure Click here
Q00728 View 3D Structure Click here
Q02874 View 3D Structure Click here
Q12692 View 3D Structure Click here
Q16777 View 3D Structure Click here
Q1RLR9 View 3D Structure Click here
Q23429 View 3D Structure Click here
Q27485 View 3D Structure Click here
Q27511 View 3D Structure Click here
Q2QPG9 View 3D Structure Click here
Q2QS71 View 3D Structure Click here
Q3THW5 View 3D Structure Click here
Q4AB57 View 3D Structure Click here
Q4CY73 View 3D Structure Click here
Q4CYH8 View 3D Structure Click here
Q4D6V9 View 3D Structure Click here
Q4D6W0 View 3D Structure Click here
Q4DPI0 View 3D Structure Click here
Q4DYA8 View 3D Structure Click here
Q4DYB0 View 3D Structure Click here
Q4DYB1 View 3D Structure Click here
Q4FZT6 View 3D Structure Click here
Q4FZZ7 View 3D Structure Click here
Q4V914 View 3D Structure Click here
Q54HV9 View 3D Structure Click here
Q54HW2 View 3D Structure Click here
Q54LA5 View 3D Structure Click here
Q54WG6 View 3D Structure Click here
Q561S9 View 3D Structure Click here
Q59SU5 View 3D Structure Click here
Q59VP2 View 3D Structure Click here
Q5AEE1 View 3D Structure Click here
Q5XJK2 View 3D Structure Click here
Q64522 View 3D Structure Click here
Q64523 View 3D Structure Click here
Q64598 View 3D Structure Click here
Q6FI13 View 3D Structure Click here
Q6GSS7 View 3D Structure Click here
Q6I8Q6 View 3D Structure Click here
Q6L500 View 3D Structure Click here
Q6ZL42 View 3D Structure Click here
Q6ZL43 View 3D Structure Click here
Q71PD7 View 3D Structure Click here
Q71UI9 View 3D Structure Click here
Q75L11 View 3D Structure Click here
Q7L7L0 View 3D Structure Click here
Q7ZTT0 View 3D Structure Click here
Q7ZUY3 View 3D Structure Click here
Q84MP7 View 3D Structure Click here
Q84NJ4 View 3D Structure Click here
Q8BFU2 View 3D Structure Click here
Q8CCK0 View 3D Structure Click here
Q8CGP4 View 3D Structure Click here
Q8CGP5 View 3D Structure Click here
Q8CGP6 View 3D Structure Click here
Q8CGP7 View 3D Structure Click here
Q8H7Y8 View 3D Structure Click here
Q8IUE6 View 3D Structure Click here
Q8LLP5 View 3D Structure Click here
Q8R1M2 View 3D Structure Click here
Q8S857 View 3D Structure Click here
Q93077 View 3D Structure Click here
Q94E96 View 3D Structure Click here
Q94F49 View 3D Structure Click here
Q96KK5 View 3D Structure Click here
Q96QV6 View 3D Structure Click here
Q99878 View 3D Structure Click here
Q9BTM1 View 3D Structure Click here
Q9C681 View 3D Structure Click here
Q9C944 View 3D Structure Click here
Q9FJE8 View 3D Structure Click here
Q9LD28 View 3D Structure Click here
Q9LHQ5 View 3D Structure Click here
Q9LZ46 View 3D Structure Click here
Q9P0M6 View 3D Structure Click here
Q9QZQ8 View 3D Structure Click here
Q9S9K7 View 3D Structure Click here
Q9SII0 View 3D Structure Click here
R4GE02 View 3D Structure Click here