Structure of PDB 5izm Chain B

Receptor sequence

>5izmB (length=495) Species: 9606 (Homo sapiens)

RRVNVNVGVLGHIDSGKTALARALSTTAGITLDLGFSCFSVPLPARLRSS
LEPLLQVTLVDCPGHASLIRTIIGGAQIIDLMMLVIDVTKGMQTQSAECL
VIGQIACQKLVVVLNKIDLLPERQAAIDKMTKKMQKTLENTKFRGAPIIP
VAAKPGGPQGIPELIELLTSQISIPTRDPSGPFLMSVDHCFSIKGQGTVM
TGTILSGSISLGDSVEIPALKVVKKVKSMQMFHMPITSAMQGDRLGICVT
QFDPKLLERGLVCAPESLHTVHAALISVEKIPYFRGPLQTKAKFHITVGH
ETVMGRLMFFSPAPDNFDQEPILDSFNFSQEYLFQEQYLSPRQQWALVEF
EKPVTCPRLCLVIGSRLDAHTNTCRLAFHGILLHGLEDRNYADSFLPRLK
VYKLKHKHGLVERAMDDYSVIGRSLFETNIQLFVGLKVHLSTGELGIIDS
AFGKFKIHIPGGLSPESKKILSQHVVLSLTFKRYVFDTHKRMVQS

3D structure

• PDB: 5izm Crystal structures of the human elongation factor eEFSec suggest a non-canonical mechanism for selenocysteine incorporation.
• Chain: B
• Resolution: 3.4 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): D17 K20 T21 T48 H96
• Catalytic site (residue number reindexed from 1): D14 K17 T18 T31 H65
• Enzyme Commision number: 3.6.5.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	MN	B	T21 T48	T18 T31
BS02	GNP	B	I16 S18 G19 K20 T21 A22 T48 K147 D149 K187	I13 S15 G16 K17 T18 A19 T31 K116 D118 K154

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003746 translation elongation factor activity
• GO:0003924 GTPase activity
• GO:0005525 GTP binding
• GO:0016787 hydrolase activity
• GO:0035368 selenocysteine insertion sequence binding
• GO:0043021 ribonucleoprotein complex binding

Biological Process

• GO:0001514 selenocysteine incorporation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5izm, PDBe:5izm, PDBj:5izm
• PDBsum: 5izm
• PubMed: 27708257
• UniProt: P57772|SELB_HUMAN Selenocysteine-specific elongation factor (Gene Name=EEFSEC)