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	PROSITE documentation PDOC51363

Translation initiation is a sophisticated, well regulated and highly coordinated cellular process in eukaryotes, in which at least 11 eukayrotic initiation factors (eIFs) are included. The W2 domain (two invariant tryptophans) is a region of ~165 amino acids which is found in the C-terminus of the following eIFs [1,2,3,4,5]:

• Eukaryotic translation initiation factor 2B epsilon (eIF-2B-epsilon).
• Eukaryotic translation initiation factor 4 γ (eIF-4-γ).
• Eukaryotic translation initiation factor 5 (eIF-5), a GTPase-activating protein (GAP) specific for eIF2.

The W2 domain has a globular fold and is exclusively composed out of α-helices (see <PDB:2FUL>) [3,4,5]. The structure can be divided into a structural C-terminal core onto which the two N-terminal helices are attached. The core contains two aromatic/acidic residue-rich regions (AA boxes), which are important for mediating protein-protein interactions.

The profile we developed covers the entire W2 domain.

Last update:

March 2008 / First entry.

PROSITE method (with tools and information) covered by this documentation:

W2, PS51363; W2 domain profile  (MATRIX)

• Sequences in UniProtKB/Swiss-Prot known to belong to this class: 49
  • detected by PS51363: 49 (true positives)
  • undetected by PS51363: 0 (false negative or 'partial')
• Other sequence(s) in UniProtKB/Swiss-Prot detected by PS51363:
  NONE.
• Domain architecture view of Swiss-Prot proteins matching PS51363
  
• Retrieve an alignment of UniProtKB/Swiss-Prot true positive hits:
  Clustal format, color, condensed view  /  Clustal format, color  /  Clustal format, plain text  /  Fasta format
• Retrieve the sequence logo from the alignment
• Taxonomic distribution of all UniProtKB (Swiss-Prot + TrEMBL) entries matching PS51363
• Retrieve a list of all UniProtKB (Swiss-Prot + TrEMBL) entries matching PS51363
• Scan UniProtKB (Swiss-Prot and/or TrEMBL) entries against PS51363
• View ligand binding statistics of PS51363
• Matching PDB structures: 1PAQ 1UG3 2FUL 2IU1 ... [ALL]

1	Authors	Koonin E.V.
	Title	Multidomain organization of eukaryotic guanine nucleotide exchange translation initiation factor eIF-2B subunits revealed by analysis of conserved sequence motifs.
	Source	Protein Sci. 4:1608-1617(1995).
	PubMed ID	8520487

2	Authors	Aravind L., Koonin E.V.
	Title	Eukaryote-specific domains in translation initiation factors: implications for translation regulation and evolution of the translation system.
	Source	Genome Res. 10:1172-1184(2000).
	PubMed ID	10958635

3	Authors	Boesen T., Mohammad S.S., Pavitt G.D., Andersen G.R.
	Title	Structure of the catalytic fragment of translation initiation factor 2B and identification of a critically important catalytic residue.
	Source	J. Biol. Chem. 279:10584-10592(2004).
	PubMed ID	14681227
	DOI	10.1074/jbc.M311055200

4	Authors	Wei Z., Xue Y., Xu H., Gong W.
	Title	Crystal structure of the C-terminal domain of S.cerevisiae eIF5.
	Source	J. Mol. Biol. 359:1-9(2006).
	PubMed ID	16616930
	DOI	10.1016/j.jmb.2006.03.037

5	Authors	Bieniossek C., Schuetz P., Bumann M., Limacher A., Uson I., Baumann U.
	Title	The crystal structure of the carboxy-terminal domain of human translation initiation factor eIF5.
	Source	J. Mol. Biol. 360:457-465(2006).
	PubMed ID	16781736
	DOI	10.1016/j.jmb.2006.05.021

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