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104  structures 1343  species 0  interactions 12509  sequences 323  architectures

Family: BAH (PF01426)

Summary: BAH domain

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This is the Wikipedia entry entitled "BAH domain". More...

BAH domain Edit Wikipedia article

BAH
PDB 1m4z EBI.jpg
crystal structure of the n-terminal bah domain of orc1p
Identifiers
SymbolBAH
PfamPF01426
InterProIPR001025
MEROPSC89
SCOPe1m4z / SUPFAM
CDDcd04370

In molecular biology, the BAH domain (bromo-adjacent homology) domain is found in proteins such as eukaryotic DNA (cytosine-5) methyltransferases, the origin recognition complex 1 (Orc1) proteins, Bromo adjacent homology domain containing 1 (BAHD1), as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH domain might therefore play an important role by linking DNA methylation, replication and transcriptional regulation.[1]

References

  1. ^ Callebaut I, Courvalin JC, Mornon JP (March 1999). "The BAH (bromo-adjacent homology) domain: a link between DNA methylation, replication and transcriptional regulation". FEBS Lett. 446 (1): 189–93. doi:10.1016/S0014-5793(99)00132-5. PMID 10100640.
This article incorporates text from the public domain Pfam and InterPro: IPR001025

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.

BAH domain Provide feedback

This domain has been called BAH (Bromo adjacent homology) domain and has also been called ELM1 and BAM (Bromo adjacent motif) domain. The function of this domain is unknown but may be involved in protein-protein interaction [3].

Literature references

  1. Nicolas RH, Goodwin GH; , Gene 1996;175:233-240.: Molecular cloning of polybromo, a nuclear protein containing multiple domains including five bromodomains, a truncated HMG-box, and two repeats of a novel domain. PUBMED:8917104 EPMC:8917104

  2. Callebaut I, Courvalin J-C, Mornon JP; , FEBS letts 1999;446:189-193.: The BAH (bromo-adjacent homology) domain: a link between DNA methylation, replication and transcriptional regulation. PUBMED:10100640 EPMC:10100640

  3. Oliver AW, Jones SA, Roe SM, Matthews S, Goodwin GH, Pearl LH; , Biochem J. 2005;389:657-664.: Crystal structure of the proximal BAH domain of the polybromo protein. PUBMED:15839835 EPMC:15839835


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001025

The BAH (bromo-adjacent homology) is commonly found in chromatin-associated proteins [ PUBMED:23907388 ]. It is found in proteins such as eukaryotic DNA (cytosine-5) methyltransferases INTERPRO , the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [ PUBMED:10100640 ].

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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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
(25)
Full
(12509)
Representative proteomes UniProt
(20898)
RP15
(1708)
RP35
(5131)
RP55
(10326)
RP75
(14161)
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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
(25)
Full
(12509)
Representative proteomes UniProt
(20898)
RP15
(1708)
RP35
(5131)
RP55
(10326)
RP75
(14161)
Alignment:
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Sequence:
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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
(25)
Full
(12509)
Representative proteomes UniProt
(20898)
RP15
(1708)
RP35
(5131)
RP55
(10326)
RP75
(14161)
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: [2]
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , Aravind L
Number in seed: 25
Number in full: 12509
Average length of the domain: 128.10 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 13.75 %

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 30.8 30.8
Trusted cut-off 30.8 30.8
Noise cut-off 30.7 30.7
Model length: 122
Family (HMM) version: 20
Download: download the raw HMM for this family

Species distribution

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Colour assignments

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 BAH domain has been found. There are 104 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
A0A0G2JTK6 View 3D Structure Click here
A0A0P0VUY4 View 3D Structure Click here
A0A0P0XTY1 View 3D Structure Click here
A0A0R0F8E4 View 3D Structure Click here
A0A0R0G0C9 View 3D Structure Click here
A0A0R0GDC4 View 3D Structure Click here
A0A0R0GUL1 View 3D Structure Click here
A0A0R0HEG0 View 3D Structure Click here
A0A0R0IST9 View 3D Structure Click here
A0A1D6E622 View 3D Structure Click here
A0A1D6EPI9 View 3D Structure Click here
A0A1D6FJ28 View 3D Structure Click here
A0A1D6HTR3 View 3D Structure Click here
A0A1D6HTR3 View 3D Structure Click here
A0A1D6I3R9 View 3D Structure Click here
A0A1D6IZB0 View 3D Structure Click here
A0A1D6K095 View 3D Structure Click here
A0A1D6KPB6 View 3D Structure Click here
A0A1D6KPI8 View 3D Structure Click here
A0A1D6LTU1 View 3D Structure Click here
A0A1D6NTH3 View 3D Structure Click here
A0A1D8PCV8 View 3D Structure Click here
A0A1D8PME5 View 3D Structure Click here
A0A1I9LTA1 View 3D Structure Click here
A0A2R8QDP7 View 3D Structure Click here
A0A2R8QIG9 View 3D Structure Click here
A0A2R8QIG9 View 3D Structure Click here
A0A2R8RTX5 View 3D Structure Click here
A0A2R8RYB8 View 3D Structure Click here
B1Q3J6 View 3D Structure Click here
B1Q3J6 View 3D Structure Click here
B2GV01 View 3D Structure Click here
B4F9Z3 View 3D Structure Click here
B6U670 View 3D Structure Click here
B6UGC3 View 3D Structure Click here
C0SQ89 View 3D Structure Click here
C6T2S0 View 3D Structure Click here
D3ZHT3 View 3D Structure Click here
D3ZT52 View 3D Structure Click here
D3ZT52 View 3D Structure Click here
D3ZX10 View 3D Structure Click here
E7EY37 View 3D Structure Click here
E7EY65 View 3D Structure Click here
E7F226 View 3D Structure Click here
E7F8D8 View 3D Structure Click here
E7F8D8 View 3D Structure Click here
E7FG09 View 3D Structure Click here
F1QLG2 View 3D Structure Click here
F1RCN0 View 3D Structure Click here
F1RCN0 View 3D Structure Click here
F4IRK4 View 3D Structure Click here
F4JCS8 View 3D Structure Click here
F4JGB7 View 3D Structure Click here
F4JL28 View 3D Structure Click here
G5EEY5 View 3D Structure Click here
G5EEY5 View 3D Structure Click here
I1J8E3 View 3D Structure Click here
I1JA76 View 3D Structure Click here
I1JXB2 View 3D Structure Click here
I1JXB2 View 3D Structure Click here
I1K6I8 View 3D Structure Click here
I1K738 View 3D Structure Click here
I1K982 View 3D Structure Click here
I1KCC0 View 3D Structure Click here
I1KCC0 View 3D Structure Click here
I1KPA5 View 3D Structure Click here
I1LGF4 View 3D Structure Click here
I1LSW2 View 3D Structure Click here
I1LV46 View 3D Structure Click here
I1M331 View 3D Structure Click here
I1M507 View 3D Structure Click here
I1MDB1 View 3D Structure Click here
K7K2M6 View 3D Structure Click here
K7K579 View 3D Structure Click here
K7KVT9 View 3D Structure Click here
K7KWV8 View 3D Structure Click here
K7LAA9 View 3D Structure Click here
K7LB84 View 3D Structure Click here
K7MQK5 View 3D Structure Click here
K7MVW7 View 3D Structure Click here
K7MY56 View 3D Structure Click here
K7TNK0 View 3D Structure Click here
K7TWB9 View 3D Structure Click here
O16810 View 3D Structure Click here
O23273 View 3D Structure Click here
O23273 View 3D Structure Click here
O44757 View 3D Structure Click here
O49139 View 3D Structure Click here
O61907 View 3D Structure Click here
O65464 View 3D Structure Click here
O74964 View 3D Structure Click here
O94776 View 3D Structure Click here
P06701 View 3D Structure Click here
P13864 View 3D Structure Click here
P13864 View 3D Structure Click here
P26358 View 3D Structure Click here
P26358 View 3D Structure Click here
P34881 View 3D Structure Click here
P34881 View 3D Structure Click here
P53127 View 3D Structure Click here
P53236 View 3D Structure Click here
P54784 View 3D Structure Click here
P54789 View 3D Structure Click here
Q06488 View 3D Structure Click here
Q09228 View 3D Structure Click here
Q10077 View 3D Structure Click here
Q13330 View 3D Structure Click here
Q13415 View 3D Structure Click here
Q3LHL9 View 3D Structure Click here
Q3UHR0 View 3D Structure Click here
Q497V6 View 3D Structure Click here
Q5KQL9 View 3D Structure Click here
Q5QLH2 View 3D Structure Click here
Q5SMU7 View 3D Structure Click here
Q5Z4Z5 View 3D Structure Click here
Q5ZE12 View 3D Structure Click here
Q62599 View 3D Structure Click here
Q62901 View 3D Structure Click here
Q6H591 View 3D Structure Click here
Q6ZKB4 View 3D Structure Click here
Q710E8 View 3D Structure Click here
Q7EYS4 View 3D Structure Click here
Q7XI22 View 3D Structure Click here
Q7Y1I7 View 3D Structure Click here
Q7Y1I7 View 3D Structure Click here
Q80TZ9 View 3D Structure Click here
Q80Z32 View 3D Structure Click here
Q851Q5 View 3D Structure Click here
Q86U86 View 3D Structure Click here
Q86U86 View 3D Structure Click here
Q8BSQ9 View 3D Structure Click here
Q8BSQ9 View 3D Structure Click here
Q8K4B0 View 3D Structure Click here
Q8L7Q0 View 3D Structure Click here
Q8LPU5 View 3D Structure Click here
Q8RXT5 View 3D Structure Click here
Q8TBE0 View 3D Structure Click here
Q8W109 View 3D Structure Click here
Q924K8 View 3D Structure Click here
Q94F87 View 3D Structure Click here
Q94F88 View 3D Structure Click here
Q9ARI6 View 3D Structure Click here
Q9AXT8 View 3D Structure Click here
Q9BTC8 View 3D Structure Click here
Q9FEN9 View 3D Structure Click here
Q9LXW1 View 3D Structure Click here
Q9LYE3 View 3D Structure Click here
Q9M0S8 View 3D Structure Click here
Q9M0S8 View 3D Structure Click here
Q9P281 View 3D Structure Click here
Q9P2R6 View 3D Structure Click here
Q9R190 View 3D Structure Click here
Q9SU24 View 3D Structure Click here
Q9T0I1 View 3D Structure Click here
Q9T0I1 View 3D Structure Click here
Q9VC36 View 3D Structure Click here
Q9VC36 View 3D Structure Click here
Q9VW15 View 3D Structure Click here
Q9VWC0 View 3D Structure Click here
Q9Z1N2 View 3D Structure Click here
Q9Z330 View 3D Structure Click here
Q9Z330 View 3D Structure Click here
U3JAH0 View 3D Structure Click here