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210  structures 8518  species 0  interactions 19683  sequences 224  architectures

Family: GTP_EFTU_D3 (PF03143)

Summary: Elongation factor Tu C-terminal domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "GTP-binding elongation factor family, EF-Tu/EF-1A subfamily". More...

GTP-binding elongation factor family, EF-Tu/EF-1A subfamily Edit Wikipedia article

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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.

Elongation factor Tu C-terminal domain Provide feedback

Elongation factor Tu consists of three structural domains, this is the third domain. This domain adopts a beta barrel structure. This the third domain is involved in binding to both charged tRNA [1] and binding to EF-Ts PF00889 [2].

Literature references

  1. Nissen P, Kjeldgaard M, Thirup S, Polekhina G, Reshetnikova L, Clark BF, Nyborg J; , Science 1995;270:1464-1472.: Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog. PUBMED:7491491 EPMC:7491491

  2. Wang Y, Jiang Y, Meyering-Voss M, Sprinzl M, Sigler PB; , Nat Struct Biol 1997;4:650-656.: Crystal structure of the EF-Tu.EF-Ts complex from Thermus thermophilus. PUBMED:9253415 EPMC:9253415


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR004160

Elongation factor EF1A (also known as EF-1alpha or EF-Tu) promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis. EF1A consists of three structural domains. Release factor eRF3, which governs translation termination, has a similar overall structure. RF3 has an N-terminal extension and a EF1A-like C-terminal region which comprises a GTP-binding domain (G domain) and two beta-barrel domains that are similar to the three respective domains of elongation factor EF-Tu/eEF1A [ PUBMED:10676813 ]. Archaeal EF1A is both involved in translational elongation and termination, as well as in mRNA surveillance, which explains the lack of an eRF3 orthologue in archaea [ PUBMED:20974926 ].

This entry represents the C-terminal domain of both EF1A and eRF3, which adopts a beta-barrel structure. In EF1A, this domain is involved in binding to both charged tRNA and to EF1B (or EF-Ts, INTERPRO ) [ PUBMED:9253415 ].

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
(50)
Full
(19683)
Representative proteomes UniProt
(104940)
RP15
(3203)
RP35
(9381)
RP55
(17827)
RP75
(27355)
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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
(50)
Full
(19683)
Representative proteomes UniProt
(104940)
RP15
(3203)
RP35
(9381)
RP55
(17827)
RP75
(27355)
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
(50)
Full
(19683)
Representative proteomes UniProt
(104940)
RP15
(3203)
RP35
(9381)
RP55
(17827)
RP75
(27355)
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: PF00009
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 50
Number in full: 19683
Average length of the domain: 98.30 aa
Average identity of full alignment: 37 %
Average coverage of the sequence by the domain: 22.24 %

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 24.7 7.3
Trusted cut-off 24.7 7.6
Noise cut-off 24.6 7.2
Model length: 108
Family (HMM) version: 19
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 GTP_EFTU_D3 domain has been found. There are 210 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
A0A096MJE3 View 3D Structure Click here
A0A0G2KAQ4 View 3D Structure Click here
A0A0N7KIR1 View 3D Structure Click here
A0A0P0UXG8 View 3D Structure Click here
A0A0R0ESZ8 View 3D Structure Click here
A0A0R0EV63 View 3D Structure Click here
A0A0R0FCD2 View 3D Structure Click here
A0A0R0FER5 View 3D Structure Click here
A0A0R0FKF0 View 3D Structure Click here
A0A0R0FM97 View 3D Structure Click here
A0A0R0JTV5 View 3D Structure Click here
A0A0R0JWG1 View 3D Structure Click here
A0A0R0K0Z8 View 3D Structure Click here
A0A0R4J384 View 3D Structure Click here
A0A0R4J4C3 View 3D Structure Click here
A0A140KXW6 View 3D Structure Click here
A0A1D6DT68 View 3D Structure Click here
A0A1D6EEC1 View 3D Structure Click here
A0A1D6EY66 View 3D Structure Click here
A0A1D6FMI2 View 3D Structure Click here
A0A1D6FMY0 View 3D Structure Click here
A0A1D6GD78 View 3D Structure Click here
A0A1D6H625 View 3D Structure Click here
A0A1D6ITY7 View 3D Structure Click here
A0A1D6J4Q5 View 3D Structure Click here
A0A1D6JDE8 View 3D Structure Click here
A0A1D6KTT6 View 3D Structure Click here
A0A1D6MS45 View 3D Structure Click here
A0A2R8RKC7 View 3D Structure Click here
A0A2R8RZF5 View 3D Structure Click here
A1Z9E3 View 3D Structure Click here
A4HV24 View 3D Structure Click here
A4HX73 View 3D Structure Click here
A4I9C0 View 3D Structure Click here
A4IBV5 View 3D Structure Click here
B4FVB2 View 3D Structure Click here
B6TPG0 View 3D Structure Click here
B6TWN7 View 3D Structure Click here
B6UHJ4 View 3D Structure Click here
C0P699 View 3D Structure Click here
E9AGP5 View 3D Structure Click here
E9AGP7 View 3D Structure Click here
E9AGQ3 View 3D Structure Click here
F1M6C2 View 3D Structure Click here
F1QJC3 View 3D Structure Click here
F1QQW9 View 3D Structure Click here
G5ECM6 View 3D Structure Click here
G5EDF5 View 3D Structure Click here
I1JNR3 View 3D Structure Click here
I1JXC1 View 3D Structure Click here
I1KCA8 View 3D Structure Click here
I1KQH1 View 3D Structure Click here
I1M167 View 3D Structure Click here
I1MFC8 View 3D Structure Click here
I1N9E6 View 3D Structure Click here
K7KMT9 View 3D Structure Click here
K7L669 View 3D Structure Click here
M0R757 View 3D Structure Click here
O45622 View 3D Structure Click here
O64937 View 3D Structure Click here
O74718 View 3D Structure Click here
P02992 View 3D Structure Click here
P02994 View 3D Structure Click here
P05303 View 3D Structure Click here
P05453 View 3D Structure Click here
P08736 View 3D Structure Click here
P0CE47 View 3D Structure Click here
P0CE48 View 3D Structure Click here
P0CT31 View 3D Structure Click here
P0CT32 View 3D Structure Click here
P0CT53 View 3D Structure Click here
P0CT54 View 3D Structure Click here
P0CT55 View 3D Structure Click here
P0CY35 View 3D Structure Click here
P0DH99 View 3D Structure Click here
P10126 View 3D Structure Click here
P15170 View 3D Structure Click here
P17745 View 3D Structure Click here
P25698 View 3D Structure Click here
P46280 View 3D Structure Click here
P49411 View 3D Structure Click here
P53013 View 3D Structure Click here
P62630 View 3D Structure Click here
P62631 View 3D Structure Click here
P62632 View 3D Structure Click here
P68104 View 3D Structure Click here
P85834 View 3D Structure Click here
P90922 View 3D Structure Click here
P9WNN1 View 3D Structure Click here
Q05639 View 3D Structure Click here
Q0J905 View 3D Structure Click here
Q0JAJ0 View 3D Structure Click here
Q0WL56 View 3D Structure Click here
Q149F3 View 3D Structure Click here
Q25820 View 3D Structure Click here
Q2G0N0 View 3D Structure Click here
Q41803 View 3D Structure Click here
Q43467 View 3D Structure Click here
Q4CRF5 View 3D Structure Click here
Q4CRF6 View 3D Structure Click here
Q4CRF7 View 3D Structure Click here
Q4CXI1 View 3D Structure Click here
Q4CXI2 View 3D Structure Click here
Q4CXW9 View 3D Structure Click here
Q4DY24 View 3D Structure Click here
Q4DYF9 View 3D Structure Click here
Q4E0N9 View 3D Structure Click here
Q4E4V1 View 3D Structure Click here
Q4E5I8 View 3D Structure Click here
Q54HB2 View 3D Structure Click here
Q54QJ0 View 3D Structure Click here
Q57770 View 3D Structure Click here
Q59QD6 View 3D Structure Click here
Q59YE8 View 3D Structure Click here
Q5ABC3 View 3D Structure Click here
Q5BJ17 View 3D Structure Click here
Q5VTE0 View 3D Structure Click here
Q69ZS7 View 3D Structure Click here
Q6AXM7 View 3D Structure Click here
Q6AYD5 View 3D Structure Click here
Q6P969 View 3D Structure Click here
Q6ZI53 View 3D Structure Click here
Q7K3V6 View 3D Structure Click here
Q7T358 View 3D Structure Click here
Q7YZN9 View 3D Structure Click here
Q851Y8 View 3D Structure Click here
Q8BFR5 View 3D Structure Click here
Q8GTY0 View 3D Structure Click here
Q8I0P6 View 3D Structure Click here
Q8IE20 View 3D Structure Click here
Q8IIC9 View 3D Structure Click here
Q8IYD1 View 3D Structure Click here
Q8R050 View 3D Structure Click here
Q8W4H7 View 3D Structure Click here
Q92005 View 3D Structure Click here
Q9LMS7 View 3D Structure Click here
Q9VK85 View 3D Structure Click here
Q9W074 View 3D Structure Click here
Q9Y450 View 3D Structure Click here
Q9Y700 View 3D Structure Click here
Q9ZT91 View 3D Structure Click here