Structure of PDB 5juo Chain DC

Receptor sequence

>5juoDC (length=841) Species: 4932 (Saccharomyces cerevisiae)

VAFTVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKA
GEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLIN
LIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERI
KPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTYADEVLGDVQ
VYPARGTVAFGSGLHGWAFTIRQFATRYAKKFGVDKAKMMDRLWGDSFFN
PKTKKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEIPVLLE
KLEIVLKGDEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAY
RAEQLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVF
AGTVKSGQKVRIQGPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAG
NIIGLVGIDQFLLKTGTLTTSETAHNMKVMKFSVSPVVQVAVEVKNANDL
PKLVEGLKRLSKSDPCVLTYMSESGEHIVAGTGELHLEICLQDLEHDHAG
VPLKISPPVVAYRETVESESSQTALSKSPNKHNRIYLKAEPIDEEVSLAI
ENGIINPRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQTK
AVQYLHEIKDSVVAAFQWATKEGPIFGEEMRSVRVNILDVTLHADAIHRG
GGQIIPTMRRATYAGFLLADPKIQEPVFLVEIQCPEQAVGGIYSVLNKKR
GQVVSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHW
STLGSDPLDPTSKAGEIVLAARKRHGMKEEVPGWQEYYDKL

3D structure

• PDB: 5juo Ensemble cryo-EM uncovers inchworm-like translocation of a viral IRES through the ribosome.
• Chain: DC
• Resolution: 4.0 Å

Enzymatic activity

• 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	rna	DC	E53 T57 K391 Q432 R433 P444 X699	E52 T56 K390 Q431 R432 P443 X698
BS02	rna	DC	V28 V137 R162 N581 E737 V740 G741 Y744 N748 G752 V754 S756 E757 Q786 G790	V27 V136 R161 N580 E736 V739 G740 Y743 N747 G751 V753 S755 E756 Q785 G789
BS03	rna	DC	H583 A695 L842	H582 A694 L841
BS04	GDP	DC	D29 H30 G31 K32 S33 R55 K159 D161	D28 H29 G30 K31 S32 R54 K158 D160
BS05	SO1	DC	L519 Y521 S523 E524 I529 A562 V797 F798	L518 Y520 S522 E523 I528 A561 V796 F797

Gene Ontology

Molecular Function

• GO:0003746 translation elongation factor activity
• GO:0003924 GTPase activity
• GO:0005515 protein binding
• GO:0005525 GTP binding
• GO:0016787 hydrolase activity
• GO:0019843 rRNA binding
• GO:0042802 identical protein binding
• GO:0043022 ribosome binding
• GO:0051087 protein-folding chaperone binding

Biological Process

• GO:0006412 translation
• GO:0006414 translational elongation
• GO:0045901 positive regulation of translational elongation
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5juo, PDBe:5juo, PDBj:5juo
• PDBsum: 5juo
• PubMed: 27159452
• UniProt: P32324|EF2_YEAST Elongation factor 2 (Gene Name=EFT1)