Structure of PDB 4w2e Chain y

Receptor sequence

>4w2ey (length=644) Species: 300852 (Thermus thermophilus HB8)

MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEAR
IRAQAKRLAERKAEAERLKEILENLSRIRNFSIIAHVDHGKSTLADRILE
LTHSAVRVTYRAKDGEEYVFHLIDTPGHVDFTYEVSRALAAVEGVLLVVD
ASQGVEAETLAKFYMALEHGHVIIPVINKIDLPNARPLEVALEVEEVLGL
PADEAIFASGKTGEGVEEILEAIVQRIPPPKGDPEAPLKALIFDSVYDAY
QGVIPYLRLFEGRVRPGDRIRIYSTGKEFTVDKVGVFTPQGLVATEALEA
GEVGWLVAAIRDIHDVQVGDTITLADRPTPSPYPGFRPAKPVVFAGLYPV
DSGDYGKLRDALEKLKLNDAALTFEPESSTALGFGFRCGFLGLLHAEIVQ
ERLEREFGLSLIATAPSVVYKVRLKSGEEVEVHNPADLPDPTRIEEILEP
YVKLTIFTPEEYVGSLMQLLQEKRGRLVNMNYLPGAQKRVELVYEAPFAE
ILYDFHDRLKSVSRGYASMDYEQAGYRPGDLVKVNVLVHGEVVDALTFIA
HREKAYTMARAIVDKLAEVIPRQLFEVPIQAAIGGKIIARATVKALRKDV
LAKCYGGDVTRKKKLLEKQKEGKKRLKAIGKVEVPQEAFLAVLS

3D structure

• PDB: 4w2e Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.
• Chain: y
• Resolution: 2.9 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): K22 S23 H86
• Catalytic site (residue number reindexed from 1): K91 S92 H128
• Enzyme Commision number:
  3.6.5.n1: elongation factor 4.

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	rna	y	H17 E114 G422 Q426 Q429 E430 D465 K468 R472 G473 R555 D557 K561 C562 Y563 R569 K570 K576 G580 K581 R583	H86 E156 G464 Q468 Q471 E472 D507 K510 R514 G515 R597 D599 K603 C604 Y605 R611 K612 K618 G622 K623 R625
BS02	rna	y	Y563 D566 T568 R569 K571 K572 E575	Y605 D608 T610 R611 K613 K614 E617
BS03	MG	y	Q111 E114	Q153 E156
BS04	GDP	y	V18 D19 K22 S23 T24 K137 L140 G168 K169	V87 D88 K91 S92 T93 K179 L182 G210 K211

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0003746 translation elongation factor activity
• GO:0003924 GTPase activity
• GO:0005525 GTP binding
• GO:0016787 hydrolase activity
• GO:0043022 ribosome binding

Biological Process

• GO:0006412 translation
• GO:0006414 translational elongation
• GO:0045727 positive regulation of translation

Cellular Component

• GO:0005840 ribosome
• GO:0005886 plasma membrane

External links

• PDB: RCSB:4w2e, PDBe:4w2e, PDBj:4w2e
• PDBsum: 4w2e
• PubMed: 25104389
• UniProt: Q5SKA7|LEPA_THET8 Elongation factor 4 (Gene Name=lepA);
  Q5SLQ1|RL9_THET8 Large ribosomal subunit protein bL9 (Gene Name=rplI)