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0  structures 156  species 0  interactions 4103  sequences 37  architectures

Family: HALZ (PF02183)

Summary: Homeobox associated leucine zipper

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.

Homeobox associated leucine zipper Provide feedback

No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003106

This region is a plant specific leucine zipper that is always found associated with a homeobox [ PUBMED:7915839 ].

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
(104)
Full
(4103)
Representative proteomes UniProt
(6145)
RP15
(346)
RP35
(2151)
RP55
(3391)
RP75
(4535)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(104)
Full
(4103)
Representative proteomes UniProt
(6145)
RP15
(346)
RP35
(2151)
RP55
(3391)
RP75
(4535)
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
(104)
Full
(4103)
Representative proteomes UniProt
(6145)
RP15
(346)
RP35
(2151)
RP55
(3391)
RP75
(4535)
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: Alignment kindly provided by SMART & Pfam-B_1492 (Release 7.5)
Previous IDs: none
Type: Coiled-coil
Sequence Ontology: SO:0001080
Author: SMART
Number in seed: 104
Number in full: 4103
Average length of the domain: 39.40 aa
Average identity of full alignment: 43 %
Average coverage of the sequence by the domain: 14.15 %

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 28.1 28.1
Trusted cut-off 28.1 28.1
Noise cut-off 28.0 28.0
Model length: 43
Family (HMM) version: 20
Download: download the raw HMM for this family

Species distribution

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Colour assignments

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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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Tree controls

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The tree shows the occurrence of this domain across different species. 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.

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
A0A060CYX6 View 3D Structure Click here
A0A060D8B1 View 3D Structure Click here
A0A060D8N7 View 3D Structure Click here
A0A096S6J0 View 3D Structure Click here
A0A0K2CTB0 View 3D Structure Click here
A0A0P0VVB0 View 3D Structure Click here
A0A0R0EGJ9 View 3D Structure Click here
A0A0R0F4D3 View 3D Structure Click here
A0A0R0FAI0 View 3D Structure Click here
A0A0R0FLD2 View 3D Structure Click here
A0A0R0HLM6 View 3D Structure Click here
A0A0R0JYK1 View 3D Structure Click here
A0A0R0KY17 View 3D Structure Click here
A0A0R0LDX5 View 3D Structure Click here
A0A1D6ERD2 View 3D Structure Click here
A0A1D6ERN8 View 3D Structure Click here
A0A1D6GUM4 View 3D Structure Click here
A0A1D6GUM5 View 3D Structure Click here
A0A1D6GUM6 View 3D Structure Click here
A0A1D6HER1 View 3D Structure Click here
A0A1D6JBA8 View 3D Structure Click here
A0A1D6JQ50 View 3D Structure Click here
A0A1D6K8L3 View 3D Structure Click here
A0A1D6KCV0 View 3D Structure Click here
A0A1D6KL48 View 3D Structure Click here
A0A1D6KVR5 View 3D Structure Click here
A0A1D6LKS2 View 3D Structure Click here
A0A1D6PIK5 View 3D Structure Click here
A0A1D6Q3J0 View 3D Structure Click here
A0A368UI65 View 3D Structure Click here
A3BYC1 View 3D Structure Click here
B4FAW9 View 3D Structure Click here
B4FF66 View 3D Structure Click here
B4FH59 View 3D Structure Click here
B4FVH6 View 3D Structure Click here
B6T3Y6 View 3D Structure Click here
B6TAL5 View 3D Structure Click here
B6UCL5 View 3D Structure Click here
B7ZYZ9 View 3D Structure Click here
C0PAE8 View 3D Structure Click here
C0PNY4 View 3D Structure Click here
C4J8W1 View 3D Structure Click here
C4JBN7 View 3D Structure Click here
C6T7V9 View 3D Structure Click here
I1J403 View 3D Structure Click here
I1J5K2 View 3D Structure Click here
I1J9H4 View 3D Structure Click here
I1JBM6 View 3D Structure Click here
I1JBR7 View 3D Structure Click here
I1JNL9 View 3D Structure Click here
I1JYL0 View 3D Structure Click here
I1JZS9 View 3D Structure Click here
I1K2H5 View 3D Structure Click here
I1KCP4 View 3D Structure Click here
I1KHS0 View 3D Structure Click here
I1KM50 View 3D Structure Click here
I1KSY3 View 3D Structure Click here
I1KXR8 View 3D Structure Click here
I1L2K9 View 3D Structure Click here
I1L5Z0 View 3D Structure Click here
I1L615 View 3D Structure Click here
I1L961 View 3D Structure Click here
I1LH34 View 3D Structure Click here
I1LNH7 View 3D Structure Click here
I1LVK0 View 3D Structure Click here
I1LWJ5 View 3D Structure Click here
I1LZD7 View 3D Structure Click here
I1M021 View 3D Structure Click here
I1M8Y0 View 3D Structure Click here
I1MH62 View 3D Structure Click here
I1MJJ6 View 3D Structure Click here
I1MKF3 View 3D Structure Click here
I1MTP8 View 3D Structure Click here
I1MYP2 View 3D Structure Click here
I1N172 View 3D Structure Click here
I1N4C2 View 3D Structure Click here
I1N639 View 3D Structure Click here
I1ND77 View 3D Structure Click here
K7K4Y9 View 3D Structure Click here
K7KEF0 View 3D Structure Click here
K7KFW7 View 3D Structure Click here
K7L195 View 3D Structure Click here
K7L6T0 View 3D Structure Click here
K7L9Q7 View 3D Structure Click here
K7LC40 View 3D Structure Click here
K7MRP5 View 3D Structure Click here
K7MYG7 View 3D Structure Click here
K7MZ57 View 3D Structure Click here
K7U8D5 View 3D Structure Click here
K7VB56 View 3D Structure Click here
K7VEZ8 View 3D Structure Click here
K7WFM4 View 3D Structure Click here
P0CJ65 View 3D Structure Click here
P46600 View 3D Structure Click here
P46601 View 3D Structure Click here
P46602 View 3D Structure Click here
P46603 View 3D Structure Click here
P46604 View 3D Structure Click here
P46665 View 3D Structure Click here
P46667 View 3D Structure Click here
P46668 View 3D Structure Click here
P46897 View 3D Structure Click here
P92953 View 3D Structure Click here
Q00466 View 3D Structure Click here
Q02283 View 3D Structure Click here
Q05466 View 3D Structure Click here
Q0E0A6 View 3D Structure Click here
Q0JB92 View 3D Structure Click here
Q0JKX1 View 3D Structure Click here
Q10QP3 View 3D Structure Click here
Q338Z7 View 3D Structure Click here
Q5VPE3 View 3D Structure Click here
Q5VPE5 View 3D Structure Click here
Q5Z6F6 View 3D Structure Click here
Q651Z5 View 3D Structure Click here
Q67UE2 View 3D Structure Click here
Q67UX6 View 3D Structure Click here
Q6H6S3 View 3D Structure Click here
Q6K498 View 3D Structure Click here
Q6YPD0 View 3D Structure Click here
Q6YWR4 View 3D Structure Click here
Q6Z248 View 3D Structure Click here
Q6ZA74 View 3D Structure Click here
Q7G737 View 3D Structure Click here
Q7XC54 View 3D Structure Click here
Q7XUJ5 View 3D Structure Click here
Q8GRL4 View 3D Structure Click here
Q8GXM7 View 3D Structure Click here
Q8LAT0 View 3D Structure Click here
Q8LC03 View 3D Structure Click here
Q8LFD3 View 3D Structure Click here
Q8S7W9 View 3D Structure Click here
Q8S9N6 View 3D Structure Click here
Q940J1 View 3D Structure Click here
Q94GL5 View 3D Structure Click here
Q9M276 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;