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8  structures 7496  species 0  interactions 18290  sequences 84  architectures

Family: UVR (PF02151)

Summary: UvrB/uvrC motif

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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.

UvrB/uvrC motif Provide feedback

No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001943

During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products [ PUBMED:8466476 ]. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [ PUBMED:8530482 ].

A conserved region similar to the UVR domain is also found in the ATP-binding subunit of bacterial and chloroplastic Clp ATPases [ PUBMED:15554981 ], which suggest that the UVR domain is not only involved in the interaction between uvrB and uvrC.

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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Pfam Clan

This family is a member of clan AAA_lid (CL0671), which has the following description:

Many AAA+ proteins have a C-terminal alpha-helical bundle in addition to the AAA core [1]. The functional roles of the helical bundle are varied and include the formation of a lid over the nucleotide binding site and mediation of subunit interactions in oligomeric protein complexes [1].

The clan contains the following 23 members:

AAA_assoc_2 AAA_lid_1 AAA_lid_10 AAA_lid_11 AAA_lid_2 AAA_lid_3 AAA_lid_4 AAA_lid_5 AAA_lid_6 AAA_lid_7 AAA_lid_8 AAA_lid_9 CbbQ_C ClpB_D2-small Dpoe2NT LonB_AAA-LID MCM_lid Mg_chelatase_C ORC4_C PCP_red TIP49_C UVR Vps4_C

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
(69)
Full
(18290)
Representative proteomes UniProt
(91759)
RP15
(2735)
RP35
(9423)
RP55
(18835)
RP75
(31434)
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
(69)
Full
(18290)
Representative proteomes UniProt
(91759)
RP15
(2735)
RP35
(9423)
RP55
(18835)
RP75
(31434)
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
(69)
Full
(18290)
Representative proteomes UniProt
(91759)
RP15
(2735)
RP35
(9423)
RP55
(18835)
RP75
(31434)
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: IPR001943
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Mian N , Bateman A
Number in seed: 69
Number in full: 18290
Average length of the domain: 35.30 aa
Average identity of full alignment: 36 %
Average coverage of the sequence by the domain: 6.03 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 21.5 21.5
Trusted cut-off 21.5 21.5
Noise cut-off 21.4 21.4
Model length: 36
Family (HMM) version: 22
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 UVR domain has been found. There are 8 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
A0A0P0V8D0 View 3D Structure Click here
A0A0R0JQ96 View 3D Structure Click here
A0A0R0L6X0 View 3D Structure Click here
A0A1D6FM46 View 3D Structure Click here
A0A1D6HMU7 View 3D Structure Click here
A0A1D6KJ41 View 3D Structure Click here
A0A1D6MLL7 View 3D Structure Click here
A4HY47 View 3D Structure Click here
C0PDI3 View 3D Structure Click here
F4IZV9 View 3D Structure Click here
I1J735 View 3D Structure Click here
I1JB16 View 3D Structure Click here
I1JEB0 View 3D Structure Click here
I1JLW7 View 3D Structure Click here
I1JX82 View 3D Structure Click here
I1LI65 View 3D Structure Click here
I1MTG3 View 3D Structure Click here
K7KVS0 View 3D Structure Click here
K7V8I9 View 3D Structure Click here
P0A8F8 View 3D Structure Click here
P0A8G0 View 3D Structure Click here
P9WFC5 View 3D Structure Click here
P9WFC7 View 3D Structure Click here
Q0DWX6 View 3D Structure Click here
Q22249 View 3D Structure Click here
Q2FV74 View 3D Structure Click here
Q2FZD0 View 3D Structure Click here
Q2G047 View 3D Structure Click here
Q2G0P7 View 3D Structure Click here
Q550K0 View 3D Structure Click here
Q65XS0 View 3D Structure Click here
Q67Y99 View 3D Structure Click here
Q6YYJ6 View 3D Structure Click here
Q93VH2 View 3D Structure Click here
Q93YW0 View 3D Structure Click here
Q9FWS6 View 3D Structure Click here