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239  structures 2217  species 0  interactions 5239  sequences 70  architectures

Family: Chal_sti_synt_N (PF00195)

Summary: Chalcone and stilbene synthases, N-terminal domain

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Chalcone and stilbene synthases, N-terminal domain Provide feedback

The C-terminal domain of Chalcone synthase is reported to be structurally similar to domains in thiolase and beta-ketoacyl synthase. The differences in activity are accounted for by differences in this N-terminal domain.

Literature references

  1. Ferrer JL, Jez JM, Bowman ME, Dixon RA, Noel JP; , Nat Struct Biol 1999;6:775-784.: Structure of chalcone synthase and the molecular basis of plant polyketide biosynthesis. PUBMED:10426957 EPMC:10426957


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001099

Chalcone synthases (CHS) ( EC ) and stilbene synthases (STS) (formerly known as resveratrol synthases) are related plant enzymes, members of the plant polyketide synthase superfamily. CHS is an important enzyme in flavonoid biosynthesis and STS is a key enzyme in stilbene-type phyloalexin biosynthesis. Both enzymes catalyse the addition of three molecules of malonyl-CoA to a starter CoA ester (a typical example is 4-coumaroyl-CoA), producing either a chalcone (with CHS) or stilbene (with STS) [ PUBMED:2184816 ].

These enzymes have a conserved cysteine residue, located in the central section of the protein sequence, which is essential for the catalytic activity of both enzymes and probably represents the binding site for the 4-coumaryl-CoA group [ PUBMED:2033084 , PUBMED:21909286 ].

This entry represents the N-terminal domain of chalcone and stilbene synthases and related proteins.

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 Thiolase (CL0046), which has the following description:

Thiolases are ubiquitous and form a large superfamily. Thiolases can function either degradatively, in the beta-oxidation pathway of fatty acids, or biosynthetically. Biosynthetic thiolases catalyse the formation of acetoacetyl-CoA from two molecules of acetyl-CoA . This is one of the fundamental categories of carbon skeletal assembly patterns in biological systems and is the first step in a wide range of biosynthetic pathways [1]. Thiolase are usually dimeric or tetrameric enzymes. Within each monomer there are two similar domains related by pseudo dyad. The N-terminal of these two domains contains a large insertion of about 100 amino acids.

The clan contains the following 14 members:

ACP_syn_III ACP_syn_III_C Chal_sti_synt_C Chal_sti_synt_N FAE1_CUT1_RppA HMG_CoA_synt_C HMG_CoA_synt_N KAsynt_C_assoc ketoacyl-synt Ketoacyl-synt_2 Ketoacyl-synt_C SpoVAD Thiolase_C Thiolase_N

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...

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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
(5)
Full
(5239)
Representative proteomes UniProt
(16838)
RP15
(443)
RP35
(2313)
RP55
(4704)
RP75
(7321)
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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
(5)
Full
(5239)
Representative proteomes UniProt
(16838)
RP15
(443)
RP35
(2313)
RP55
(4704)
RP75
(7321)
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
(5)
Full
(5239)
Representative proteomes UniProt
(16838)
RP15
(443)
RP35
(2313)
RP55
(4704)
RP75
(7321)
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: Prosite
Previous IDs: Chal_stil_synt;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Griffiths-Jones SR
Number in seed: 5
Number in full: 5239
Average length of the domain: 189.80 aa
Average identity of full alignment: 31 %
Average coverage of the sequence by the domain: 52.50 %

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 20.2 20.2
Trusted cut-off 20.2 20.2
Noise cut-off 20.1 20.1
Model length: 225
Family (HMM) version: 21
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 Chal_sti_synt_N domain has been found. There are 239 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
A0A0N7KKC2 View 3D Structure Click here
A0A0P0V4Z5 View 3D Structure Click here
A0A0P0WJ73 View 3D Structure Click here
A0A0P0WJ73 View 3D Structure Click here
A0A0P0WP82 View 3D Structure Click here
A0A0P0XS00 View 3D Structure Click here
A0A0P0XSB0 View 3D Structure Click here
A0A0P0XSB0 View 3D Structure Click here
A0A0P0XSC7 View 3D Structure Click here
A0A0P0XSS6 View 3D Structure Click here
A0A0P0Y2P6 View 3D Structure Click here
A0A0P0Y383 View 3D Structure Click here
A0A0P0Y385 View 3D Structure Click here
A0A0R0GII5 View 3D Structure Click here
A0A0R0GII5 View 3D Structure Click here
A0A0R0IQ64 View 3D Structure Click here
A0A0R0IQ64 View 3D Structure Click here
A0A0R0JFR0 View 3D Structure Click here
A0A0R0JK88 View 3D Structure Click here
A0A0R0JVW7 View 3D Structure Click here
A0A0R0JVW7 View 3D Structure Click here
A0A0R4J3D3 View 3D Structure Click here
A0A1D6F615 View 3D Structure Click here
A0A1D6F8B4 View 3D Structure Click here
A0A1D6GPA6 View 3D Structure Click here
A0A1D6H540 View 3D Structure Click here
A0A1D6MR13 View 3D Structure Click here
A0A1D6MR15 View 3D Structure Click here
A0A1D6MR24 View 3D Structure Click here
A0A1D6QIP7 View 3D Structure Click here
A0A1D6QKV2 View 3D Structure Click here
A0A1D6QKV3 View 3D Structure Click here
A0A1D6QKV3 View 3D Structure Click here
B3F5J6 View 3D Structure Click here
B4F9D7 View 3D Structure Click here
B4FUZ6 View 3D Structure Click here
B4G105 View 3D Structure Click here
B6T9S4 View 3D Structure Click here
B9FEC8 View 3D Structure Click here
B9GC48 View 3D Structure Click here
I1J6D7 View 3D Structure Click here
I1J6T1 View 3D Structure Click here
I1JER5 View 3D Structure Click here
I1LG10 View 3D Structure Click here
I1LIQ0 View 3D Structure Click here
I1LPG2 View 3D Structure Click here
I1N828 View 3D Structure Click here
K7LCC7 View 3D Structure Click here
K7UML1 View 3D Structure Click here
O23674 View 3D Structure Click here
O81305 View 3D Structure Click here
P13114 View 3D Structure Click here
P17957 View 3D Structure Click here
P19168 View 3D Structure Click here
P24824 View 3D Structure Click here
P24825 View 3D Structure Click here
P24826 View 3D Structure Click here
P30080 View 3D Structure Click here
P30081 View 3D Structure Click here
P48406 View 3D Structure Click here
P9WPF1 View 3D Structure Click here
P9WPF3 View 3D Structure Click here
P9WPF5 View 3D Structure Click here
Q0DJY7 View 3D Structure Click here
Q2R2G0 View 3D Structure Click here
Q2R3A1 View 3D Structure Click here
Q2R3A5 View 3D Structure Click here
Q2R3A8 View 3D Structure Click here
Q69UA9 View 3D Structure Click here
Q69UB7 View 3D Structure Click here
Q6L4H9 View 3D Structure Click here
Q6X0M9 View 3D Structure Click here
Q6X0N0 View 3D Structure Click here
Q6Z4M0 View 3D Structure Click here
Q6ZIJ3 View 3D Structure Click here
Q7X795 View 3D Structure Click here
Q7XGM8 View 3D Structure Click here
Q7XMR1 View 3D Structure Click here
Q8H305 View 3D Structure Click here
Q8H4L3 View 3D Structure Click here
Q8LDM2 View 3D Structure Click here
Q8LIL0 View 3D Structure Click here
Q8LM05 View 3D Structure Click here