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42  structures 1459  species 0  interactions 18051  sequences 539  architectures

Family: zf-C3HC4_2 (PF13923)

Summary: Zinc finger, C3HC4 type (RING finger)

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Zinc finger, C3HC4 type (RING finger) Provide feedback

No Pfam abstract.

Internal database links

This tab holds annotation information from the InterPro database.

No InterPro data for this Pfam family.

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

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
(9)
Full
(18051)
Representative proteomes UniProt
(32121)
RP15
(3014)
RP35
(7842)
RP55
(14958)
RP75
(20008)
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
(9)
Full
(18051)
Representative proteomes UniProt
(32121)
RP15
(3014)
RP35
(7842)
RP55
(14958)
RP75
(20008)
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
(9)
Full
(18051)
Representative proteomes UniProt
(32121)
RP15
(3014)
RP35
(7842)
RP55
(14958)
RP75
(20008)
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: Jackhmmer:Q5VTB9
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Coggill P
Number in seed: 9
Number in full: 18051
Average length of the domain: 39.50 aa
Average identity of full alignment: 36 %
Average coverage of the sequence by the domain: 7.43 %

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 27.0 27.0
Trusted cut-off 27.0 27.0
Noise cut-off 26.9 26.9
Model length: 40
Family (HMM) version: 8
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 zf-C3HC4_2 domain has been found. There are 42 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
A0A096UWG1 View 3D Structure Click here
A0A0G2JXN2 View 3D Structure Click here
A0A0G2K313 View 3D Structure Click here
A0A0G2K4P8 View 3D Structure Click here
A0A0G2K884 View 3D Structure Click here
A0A0G2K8R7 View 3D Structure Click here
A0A0N7KI10 View 3D Structure Click here
A0A0N7KQ64 View 3D Structure Click here
A0A0P0W0F9 View 3D Structure Click here
A0A0P0WPB2 View 3D Structure Click here
A0A0P0Y3N3 View 3D Structure Click here
A0A0R0E5R9 View 3D Structure Click here
A0A0R0EE58 View 3D Structure Click here
A0A0R0G752 View 3D Structure Click here
A0A0R0KFS1 View 3D Structure Click here
A0A0R4IUS5 View 3D Structure Click here
A0A1D6ESN3 View 3D Structure Click here
A0A1D6FSN7 View 3D Structure Click here
A0A1D6GA59 View 3D Structure Click here
A0A1D6GHX9 View 3D Structure Click here
A0A1D6GVJ7 View 3D Structure Click here
A0A1D6HLL0 View 3D Structure Click here
A0A1D6I813 View 3D Structure Click here
A0A1D6IP40 View 3D Structure Click here
A0A1D6JBW1 View 3D Structure Click here
A0A1D6JF36 View 3D Structure Click here
A0A1D6K627 View 3D Structure Click here
A0A1D6KQK3 View 3D Structure Click here
A0A1D6KXR2 View 3D Structure Click here
A0A1D6L3N1 View 3D Structure Click here
A0A1D6LNS1 View 3D Structure Click here
A0A1D6MRY8 View 3D Structure Click here
A0A1D6N9I9 View 3D Structure Click here
A0A1D6QDP5 View 3D Structure Click here
A0A286Y996 View 3D Structure Click here
A0A2R8PXH8 View 3D Structure Click here
A0A2R8Q387 View 3D Structure Click here
A0A2R8QN57 View 3D Structure Click here
A0A2R8S055 View 3D Structure Click here
A0JPN0 View 3D Structure Click here
A2ATX3 View 3D Structure Click here
A2BGH5 View 3D Structure Click here
A4I3Q9 View 3D Structure Click here
A5WW08 View 3D Structure Click here
A8WHS2 View 3D Structure Click here
B0UY40 View 3D Structure Click here
B0V118 View 3D Structure Click here
B2RZ26 View 3D Structure Click here
B2RZ82 View 3D Structure Click here
B3DK16 View 3D Structure Click here
B4F7B6 View 3D Structure Click here
B4F8N5 View 3D Structure Click here
B4F9K5 View 3D Structure Click here
B5DF45 View 3D Structure Click here
B7EMU6 View 3D Structure Click here
C0P3Y2 View 3D Structure Click here
C4J8T3 View 3D Structure Click here
C4JC41 View 3D Structure Click here
C6T066 View 3D Structure Click here
C6TK36 View 3D Structure Click here
D3YY23 View 3D Structure Click here
D3Z8X6 View 3D Structure Click here
D3ZAB6 View 3D Structure Click here
D3ZI70 View 3D Structure Click here
D3ZJQ8 View 3D Structure Click here
D3ZRH6 View 3D Structure Click here
D3ZTB4 View 3D Structure Click here
D3ZTN5 View 3D Structure Click here
D3ZX48 View 3D Structure Click here
D4AA66 View 3D Structure Click here
D4ABZ6 View 3D Structure Click here
D4AE11 View 3D Structure Click here
E7EYP4 View 3D Structure Click here
E7F1A2 View 3D Structure Click here
E7FDW2 View 3D Structure Click here
E7FEA4 View 3D Structure Click here
E7FGS6 View 3D Structure Click here
E9QIP2 View 3D Structure Click here
F1LY78 View 3D Structure Click here
F1QJQ0 View 3D Structure Click here
F1QTJ5 View 3D Structure Click here
F1QVG9 View 3D Structure Click here
F1R5N4 View 3D Structure Click here
F4HTG1 View 3D Structure Click here
F4I443 View 3D Structure Click here
F4ICB5 View 3D Structure Click here
F4J2R0 View 3D Structure Click here
F6ZE64 View 3D Structure Click here
G3V730 View 3D Structure Click here
H2KYH3 View 3D Structure Click here
I1J8Z2 View 3D Structure Click here
I1JF39 View 3D Structure Click here
I1JII2 View 3D Structure Click here
I1JNL8 View 3D Structure Click here
I1JP01 View 3D Structure Click here
I1KCV7 View 3D Structure Click here
I1L770 View 3D Structure Click here
I1L8A4 View 3D Structure Click here
I1LBM4 View 3D Structure Click here
I1LC47 View 3D Structure Click here
I1LFB1 View 3D Structure Click here
I1LHM2 View 3D Structure Click here
I1LIV9 View 3D Structure Click here
I1LS58 View 3D Structure Click here
I1M7I6 View 3D Structure Click here
I1N9N3 View 3D Structure Click here
I1NF59 View 3D Structure Click here
K7KY18 View 3D Structure Click here
K7LAP4 View 3D Structure Click here
K7LEA7 View 3D Structure Click here
K7LIU5 View 3D Structure Click here
K7LW36 View 3D Structure Click here
K7M0C4 View 3D Structure Click here
K7M147 View 3D Structure Click here
K7M2N0 View 3D Structure Click here
K7MIW9 View 3D Structure Click here
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K7N522 View 3D Structure Click here
K7VNR4 View 3D Structure Click here
K7W477 View 3D Structure Click here
O35730 View 3D Structure Click here
O60106 View 3D Structure Click here
O64425 View 3D Structure Click here
O64824 View 3D Structure Click here
O74563 View 3D Structure Click here
O74747 View 3D Structure Click here
O88846 View 3D Structure Click here
O96182 View 3D Structure Click here
P15918 View 3D Structure Click here
P23798 View 3D Structure Click here
P25916 View 3D Structure Click here
P35226 View 3D Structure Click here
P35227 View 3D Structure Click here
P35820 View 3D Structure Click here
P43254 View 3D Structure Click here
P53769 View 3D Structure Click here
P68907 View 3D Structure Click here
P70196 View 3D Structure Click here
P78317 View 3D Structure Click here
P93744 View 3D Structure Click here
Q06554 View 3D Structure Click here
Q0D646 View 3D Structure Click here
Q0DGU0 View 3D Structure Click here
Q0DHF0 View 3D Structure Click here
Q0WX00 View 3D Structure Click here
Q14527 View 3D Structure Click here
Q17RB8 View 3D Structure Click here
Q18199 View 3D Structure Click here
Q19336 View 3D Structure Click here
Q1JPS1 View 3D Structure Click here
Q1L5Z9 View 3D Structure Click here
Q2KHN1 View 3D Structure Click here
Q3KNV8 View 3D Structure Click here
Q3U9F6 View 3D Structure Click here
Q3UF64 View 3D Structure Click here
Q3UIR3 View 3D Structure Click here
Q3UK78 View 3D Structure Click here
Q496Y0 View 3D Structure Click here
Q4CY74 View 3D Structure Click here
Q4CZE8 View 3D Structure Click here
Q4D8Z5 View 3D Structure Click here
Q4DDL9 View 3D Structure Click here
Q4DYQ0 View 3D Structure Click here
Q4KLY4 View 3D Structure Click here
Q54IP3 View 3D Structure Click here
Q54IY4 View 3D Structure Click here
Q54ND8 View 3D Structure Click here
Q54SL8 View 3D Structure Click here
Q54XR0 View 3D Structure Click here
Q55CL1 View 3D Structure Click here
Q5A4N5 View 3D Structure Click here
Q5A4X0 View 3D Structure Click here
Q5JLM3 View 3D Structure Click here
Q5PQJ8 View 3D Structure Click here
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Q5VTB9 View 3D Structure Click here
Q5W0B1 View 3D Structure Click here
Q5XI70 View 3D Structure Click here
Q5ZBT1 View 3D Structure Click here
Q5ZCG4 View 3D Structure Click here
Q653G4 View 3D Structure Click here
Q69ZI1 View 3D Structure Click here
Q69ZS0 View 3D Structure Click here
Q6DLV9 View 3D Structure Click here
Q6IWL4 View 3D Structure Click here
Q6J1I7 View 3D Structure Click here
Q6MGB6 View 3D Structure Click here
Q6PCN7 View 3D Structure Click here
Q6PDX6 View 3D Structure Click here
Q6Z9U5 View 3D Structure Click here
Q6ZHH4 View 3D Structure Click here
Q6ZMN7 View 3D Structure Click here
Q71F54 View 3D Structure Click here
Q7K4D1 View 3D Structure Click here
Q7KRW1 View 3D Structure Click here
Q7T308 View 3D Structure Click here
Q7T3E6 View 3D Structure Click here
Q7TNM2 View 3D Structure Click here
Q7XU27 View 3D Structure Click here
Q7YWU1 View 3D Structure Click here
Q7Z4K8 View 3D Structure Click here
Q7Z6J0 View 3D Structure Click here
Q7ZW16 View 3D Structure Click here
Q7ZYZ7 View 3D Structure Click here
Q803I4 View 3D Structure Click here
Q80V91 View 3D Structure Click here
Q810L3 View 3D Structure Click here
Q86KL1 View 3D Structure Click here
Q86SE9 View 3D Structure Click here
Q8BH75 View 3D Structure Click here
Q8BTQ0 View 3D Structure Click here
Q8I1S9 View 3D Structure Click here
Q8JIR0 View 3D Structure Click here
Q8K2Y0 View 3D Structure Click here
Q8LPN7 View 3D Structure Click here
Q8N448 View 3D Structure Click here
Q8N9I9 View 3D Structure Click here
Q8NHY2 View 3D Structure Click here
Q8R023 View 3D Structure Click here
Q8RXD4 View 3D Structure Click here
Q8TDB6 View 3D Structure Click here
Q8TFH8 View 3D Structure Click here
Q8WVD3 View 3D Structure Click here
Q91W86 View 3D Structure Click here
Q91XL2 View 3D Structure Click here
Q94AY3 View 3D Structure Click here
Q95Y82 View 3D Structure Click here
Q96A37 View 3D Structure Click here
Q96EP1 View 3D Structure Click here
Q96EQ8 View 3D Structure Click here
Q96EX2 View 3D Structure Click here
Q99496 View 3D Structure Click here
Q99NA9 View 3D Structure Click here
Q99PD2 View 3D Structure Click here
Q9BSM1 View 3D Structure Click here
Q9BYE7 View 3D Structure Click here
Q9CQ29 View 3D Structure Click here
Q9CQE0 View 3D Structure Click here
Q9CQJ4 View 3D Structure Click here
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Q9FKW0 View 3D Structure Click here
Q9H270 View 3D Structure Click here
Q9H4P4 View 3D Structure Click here
Q9LS86 View 3D Structure Click here
Q9M9Y4 View 3D Structure Click here
Q9NS91 View 3D Structure Click here
Q9P3U8 View 3D Structure Click here
Q9QXK2 View 3D Structure Click here
Q9QZS2 View 3D Structure Click here
Q9R1A8 View 3D Structure Click here
Q9UPQ7 View 3D Structure Click here
Q9UTL9 View 3D Structure Click here
Q9VB08 View 3D Structure Click here
Q9VCV3 View 3D Structure Click here
Q9VJW5 View 3D Structure Click here
Q9VNJ0 View 3D Structure Click here
Q9VUV7 View 3D Structure Click here
Q9VV77 View 3D Structure Click here
Q9W3I9 View 3D Structure Click here
Q9Y4K3 View 3D Structure Click here
X1WG91 View 3D Structure Click here