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172  structures 8707  species 0  interactions 22176  sequences 201  architectures

Family: EFG_III (PF14492)

Summary: Elongation Factor G, domain III

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Elongation Factor G, domain III Provide feedback

This domain is found in Elongation Factor G. It shares a similar structure with domain V (PF00679). Structural studies in drosophila indicate this is domain 3 [1].

Literature references

  1. Anger AM, Armache JP, Berninghausen O, Habeck M, Subklewe M, Wilson DN, Beckmann R;, Nature. 2013;497:80-85.: Structures of the human and Drosophila 80S ribosome. PUBMED:23636399 EPMC:23636399


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR041095

This entry represents domain II of elongation factor G (EFG). It shares a similar structure with domain V.

EF2 (or EFG) participates in the elongation phase of protein synthesis by promoting the GTP-dependent translocation of the peptidyl tRNA of the nascent protein chain from the A-site (acceptor site) to the P-site (peptidyl tRNA site) of the ribosome. EF2 also has a role after the termination phase of translation, where, together with the ribosomal recycling factor, it facilitates the release of tRNA and mRNA from the ribosome, and the splitting of the ribosome into two subunits [ PUBMED:12471894 ]. EF2 is folded into five domains, with domains I and II forming the N-terminal block, domains IV and V forming the C-terminal block, and domain III providing the covalently-linked flexible connection between the two. Domains III and V have the same fold (although they are not completely superimposable and domain III lacks some of the superfamily characteristics), consisting of an alpha/beta sandwich with an antiparallel beta-sheet in a (beta/alpha/beta)x2 topology [ PUBMED:11054294 ]. This double split beta/alpha/beta fold is also seen in a number of ribonucleotide binding proteins. It is the most common motif occurring in the translation system and is referred to as the ribonucleoprotein (RNP) or RNA recognition (RRM) motif.

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 EF-G_C (CL0437), which has the following description:

This superfamily is characterised by being an alpha-beta 2-Layer Sandwich. It is found in EF2 proteins from both prokaryotes and eukaryotes, as well as in some tetracycline resistance proteins, peptide chain release factors ], and in the C-terminal region of the bacterial hypothetical protein, YigZ.

The clan contains the following 5 members:

DUF1949 EFG_C EFG_III RF3_C SBDS_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
(70)
Full
(22176)
Representative proteomes UniProt
(85395)
RP15
(3701)
RP35
(10950)
RP55
(20792)
RP75
(32948)
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
(70)
Full
(22176)
Representative proteomes UniProt
(85395)
RP15
(3701)
RP35
(10950)
RP55
(20792)
RP75
(32948)
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
(70)
Full
(22176)
Representative proteomes UniProt
(85395)
RP15
(3701)
RP35
(10950)
RP55
(20792)
RP75
(32948)
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:A0YMC3
Previous IDs: EFG_II;
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A , El-Gebali S
Number in seed: 70
Number in full: 22176
Average length of the domain: 73.70 aa
Average identity of full alignment: 40 %
Average coverage of the sequence by the domain: 9.81 %

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: 75
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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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 EFG_III domain has been found. There are 172 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
A0A096QR66 View 3D Structure Click here
A0A0R4ITN4 View 3D Structure Click here
A0A1D6E4M0 View 3D Structure Click here
A0A1D6I3L1 View 3D Structure Click here
A0A1D6KZD6 View 3D Structure Click here
A0A1D6LAW0 View 3D Structure Click here
A0A286Y8X9 View 3D Structure Click here
A0JMI9 View 3D Structure Click here
A2CE51 View 3D Structure Click here
A4I3S3 View 3D Structure Click here
A4I843 View 3D Structure Click here
A4ICS8 View 3D Structure Click here
A4ICW8 View 3D Structure Click here
B6U0S1 View 3D Structure Click here
C6KSM4 View 3D Structure Click here
D3ZXJ5 View 3D Structure Click here
F1LM66 View 3D Structure Click here
F1Q6N0 View 3D Structure Click here
F4IW10 View 3D Structure Click here
F4J2T9 View 3D Structure Click here
F4JB05 View 3D Structure Click here
I1J6F0 View 3D Structure Click here
I1K0K6 View 3D Structure Click here
I1KU21 View 3D Structure Click here
I1MJ84 View 3D Structure Click here
I1MJ86 View 3D Structure Click here
K7MDZ1 View 3D Structure Click here
K7UKK5 View 3D Structure Click here
O08810 View 3D Structure Click here
O14460 View 3D Structure Click here
O62278 View 3D Structure Click here
O74945 View 3D Structure Click here
O94429 View 3D Structure Click here
P05197 View 3D Structure Click here
P0A6M8 View 3D Structure Click here
P13060 View 3D Structure Click here
P13639 View 3D Structure Click here
P15112 View 3D Structure Click here
P25039 View 3D Structure Click here
P29691 View 3D Structure Click here
P32324 View 3D Structure Click here
P34811 View 3D Structure Click here
P39677 View 3D Structure Click here
P53893 View 3D Structure Click here
P58252 View 3D Structure Click here
P9WNM7 View 3D Structure Click here
P9WNM9 View 3D Structure Click here
Q07803 View 3D Structure Click here
Q08BB1 View 3D Structure Click here
Q0JBE3 View 3D Structure Click here
Q15029 View 3D Structure Click here
Q1LYG5 View 3D Structure Click here
Q1LYG6 View 3D Structure Click here
Q2G0N1 View 3D Structure Click here
Q2G1Y6 View 3D Structure Click here
Q4CQE3 View 3D Structure Click here
Q4CWR1 View 3D Structure Click here
Q4CXN3 View 3D Structure Click here
Q4D3T1 View 3D Structure Click here
Q4D5X0 View 3D Structure Click here
Q4D7E6 View 3D Structure Click here
Q4DBP8 View 3D Structure Click here
Q4DDK0 View 3D Structure Click here
Q4DE43 View 3D Structure Click here
Q53KX3 View 3D Structure Click here
Q54JK7 View 3D Structure Click here
Q54JV1 View 3D Structure Click here
Q54WF2 View 3D Structure Click here
Q55E94 View 3D Structure Click here
Q55G92 View 3D Structure Click here
Q58448 View 3D Structure Click here
Q59WB7 View 3D Structure Click here
Q5A0M4 View 3D Structure Click here
Q5AAV3 View 3D Structure Click here
Q5AL45 View 3D Structure Click here
Q5BJP6 View 3D Structure Click here
Q5JKU5 View 3D Structure Click here
Q6ESY0 View 3D Structure Click here
Q6H4L2 View 3D Structure Click here
Q7XTK1 View 3D Structure Click here
Q7Z2Z2 View 3D Structure Click here
Q8C0D5 View 3D Structure Click here
Q8I568 View 3D Structure Click here
Q8I592 View 3D Structure Click here
Q8IKW5 View 3D Structure Click here
Q8K0D5 View 3D Structure Click here
Q8R2Q4 View 3D Structure Click here
Q8W0C4 View 3D Structure Click here
Q95Y73 View 3D Structure Click here
Q969S9 View 3D Structure Click here
Q96RP9 View 3D Structure Click here
Q9ASR1 View 3D Structure Click here
Q9C641 View 3D Structure Click here
Q9FE64 View 3D Structure Click here
Q9SI75 View 3D Structure Click here
Q9USZ1 View 3D Structure Click here
Q9VAX8 View 3D Structure Click here
Q9VCX4 View 3D Structure Click here
Q9VM33 View 3D Structure Click here
Q9VV61 View 3D Structure Click here
Q9XV52 View 3D Structure Click here