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0  structures 6  species 0  interactions 2826  sequences 35  architectures

Family: FBA_2 (PF07735)

Summary: F-box associated

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.

F-box associated Provide feedback

Most of these proteins contain PF00646 at the N terminus, suggesting that they are effectors linked with ubiquitination.

This tab holds annotation information from the InterPro database.

InterPro entry IPR012885

This domain is found is found towards the C terminus of proteins that contain an F-box, INTERPRO , suggesting that they are effectors linked with ubiquitination.

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
(366)
Full
(2826)
Representative proteomes UniProt
(5121)
RP15
(181)
RP35
(194)
RP55
(2822)
RP75
(2822)
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
(366)
Full
(2826)
Representative proteomes UniProt
(5121)
RP15
(181)
RP35
(194)
RP55
(2822)
RP75
(2822)
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
(366)
Full
(2826)
Representative proteomes UniProt
(5121)
RP15
(181)
RP35
(194)
RP55
(2822)
RP75
(2822)
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: Pfam-B128 (Release 14.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Studholme DJ
Number in seed: 366
Number in full: 2826
Average length of the domain: 66.80 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 20.45 %

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 21.6 21.6
Trusted cut-off 21.6 21.6
Noise cut-off 21.5 21.5
Model length: 67
Family (HMM) version: 19
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

Align selected sequences to HMM

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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
A0A0M7RF51 View 3D Structure Click here
A0A0M7RFF2 View 3D Structure Click here
A0A0S4XR30 View 3D Structure Click here
A0A0S4XR53 View 3D Structure Click here
A0A0S4XR53 View 3D Structure Click here
A0A0S4XRX8 View 3D Structure Click here
A0A131MBD1 View 3D Structure Click here
A0A3B1DQT0 View 3D Structure Click here
A0A3P6PCM3 View 3D Structure Click here
A0A5S9MMF1 View 3D Structure Click here
A0A5S9MNN1 View 3D Structure Click here
A3RMT5 View 3D Structure Click here
A7DT43 View 3D Structure Click here
A7DT44 View 3D Structure Click here
A9DCC2 View 3D Structure Click here
B1Q275 View 3D Structure Click here
B5BM39 View 3D Structure Click here
B5BM42 View 3D Structure Click here
D0G909 View 3D Structure Click here
E1B6V8 View 3D Structure Click here
E7EM25 View 3D Structure Click here
F8Y416 View 3D Structure Click here
G1K0Y9 View 3D Structure Click here
G3MU12 View 3D Structure Click here
G4RXN1 View 3D Structure Click here
G5ECQ5 View 3D Structure Click here
G8JLX0 View 3D Structure Click here
H2L087 View 3D Structure Click here
I2HAL4 View 3D Structure Click here
I7K4I5 View 3D Structure Click here
O02110 View 3D Structure Click here
O02111 View 3D Structure Click here
O02112 View 3D Structure Click here
O16211 View 3D Structure Click here
O16550 View 3D Structure Click here
O16577 View 3D Structure Click here
O16742 View 3D Structure Click here
O16743 View 3D Structure Click here
O16745 View 3D Structure Click here
O17120 View 3D Structure Click here
O17165 View 3D Structure Click here
O17178 View 3D Structure Click here
O17183 View 3D Structure Click here
O17228 View 3D Structure Click here
O17229 View 3D Structure Click here
O17231 View 3D Structure Click here
O17333 View 3D Structure Click here
O17774 View 3D Structure Click here
O17817 View 3D Structure Click here
O18004 View 3D Structure Click here
O18134 View 3D Structure Click here
O18135 View 3D Structure Click here
O18136 View 3D Structure Click here
O18137 View 3D Structure Click here
O18309 View 3D Structure Click here
O44475 View 3D Structure Click here
O44493 View 3D Structure Click here
O44725 View 3D Structure Click here
O44863 View 3D Structure Click here
O44864 View 3D Structure Click here
O44865 View 3D Structure Click here
O44866 View 3D Structure Click here
O44868 View 3D Structure Click here
O44869 View 3D Structure Click here
O45224 View 3D Structure Click here
O45397 View 3D Structure Click here
O45535 View 3D Structure Click here
O45536 View 3D Structure Click here
O45576 View 3D Structure Click here
O45748 View 3D Structure Click here
O45772 View 3D Structure Click here
O61798 View 3D Structure Click here
O61804 View 3D Structure Click here
O61844 View 3D Structure Click here
O62111 View 3D Structure Click here
O62453 View 3D Structure Click here
O62473 View 3D Structure Click here
O76637 View 3D Structure Click here
O76691 View 3D Structure Click here
O76692 View 3D Structure Click here
O76693 View 3D Structure Click here
O76694 View 3D Structure Click here
P34483 View 3D Structure Click here
P34484 View 3D Structure Click here
P34510 View 3D Structure Click here
P46500 View 3D Structure Click here
P90944 View 3D Structure Click here
P91222 View 3D Structure Click here
P91225 View 3D Structure Click here
P91229 View 3D Structure Click here
P91231 View 3D Structure Click here
P91232 View 3D Structure Click here
P91233 View 3D Structure Click here
P91234 View 3D Structure Click here
P91449 View 3D Structure Click here
P91538 View 3D Structure Click here
P91539 View 3D Structure Click here
P91540 View 3D Structure Click here
P91541 View 3D Structure Click here
Q09291 View 3D Structure Click here
Q19588 View 3D Structure Click here
Q20132 View 3D Structure Click here
Q20182 View 3D Structure Click here
Q20225 View 3D Structure Click here
Q21761 View 3D Structure Click here
Q21842 View 3D Structure Click here
Q21935 View 3D Structure Click here
Q22946 View 3D Structure Click here
Q23182 View 3D Structure Click here
Q2V072 View 3D Structure Click here
Q2V078 View 3D Structure Click here
Q2V079 View 3D Structure Click here
Q2V080 View 3D Structure Click here
Q2V081 View 3D Structure Click here
Q4R178 View 3D Structure Click here
Q4W513 View 3D Structure Click here
Q564T5 View 3D Structure Click here
Q564T6 View 3D Structure Click here
Q5R3S7 View 3D Structure Click here
Q688B6 View 3D Structure Click here
Q7JKV5 View 3D Structure Click here
Q86MH2 View 3D Structure Click here
Q86S48 View 3D Structure Click here
Q8I4G2 View 3D Structure Click here
Q8WQD4 View 3D Structure Click here
Q8WTM1 View 3D Structure Click here
Q95QS7 View 3D Structure Click here
Q95X85 View 3D Structure Click here
Q95Y47 View 3D Structure Click here
Q95Y48 View 3D Structure Click here
Q95YC2 View 3D Structure Click here
Q965L5 View 3D Structure Click here
Q965V6 View 3D Structure Click here
Q9GYR8 View 3D Structure Click here
Q9N3J6 View 3D Structure Click here
Q9N3J7 View 3D Structure Click here
Q9N4K5 View 3D Structure Click here
Q9N4U7 View 3D Structure Click here
Q9N5E7 View 3D Structure Click here
Q9N5K6 View 3D Structure Click here
Q9N5T3 View 3D Structure Click here
Q9NA67 View 3D Structure Click here
Q9NAQ6 View 3D Structure Click here
Q9NAQ7 View 3D Structure Click here
Q9TXT8 View 3D Structure Click here
Q9TYK5 View 3D Structure Click here
Q9TZF7 View 3D Structure Click here
Q9TZG3 View 3D Structure Click here
Q9TZG4 View 3D Structure Click here
Q9TZG6 View 3D Structure Click here
Q9TZG9 View 3D Structure Click here
Q9U219 View 3D Structure Click here
Q9U231 View 3D Structure Click here
Q9U232 View 3D Structure Click here
Q9U2B3 View 3D Structure Click here
Q9U2X5 View 3D Structure Click here
Q9XUT7 View 3D Structure Click here
Q9XUY7 View 3D Structure Click here
Q9XUZ1 View 3D Structure Click here
Q9XUZ3 View 3D Structure Click here
Q9XUZ4 View 3D Structure Click here
Q9XUZ6 View 3D Structure Click here
Q9XV73 View 3D Structure Click here
Q9XVB8 View 3D Structure Click here
Q9XVI8 View 3D Structure Click here
Q9XWG1 View 3D Structure Click here
Q9XWG4 View 3D Structure Click here
Q9XWP5 View 3D Structure Click here
Q9XX13 View 3D Structure Click here
Q9XXS3 View 3D Structure Click here
U4PEC7 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;