Structure of PDB 8fzf Chain v

Receptor sequence

>8fzfv (length=493) Species: 83333 (Escherichia coli K-12)

LSPYLQEVAKRRTFAIISHPDAGKTTITEKVLLFGQTTSVMQFPYHDCLV
NLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRD
TPILTFMNKLDRDIRDPMELLDEVENELKIGCAPITWPIGCGKLFKGVYH
LYKDETYLYQSGKGHTIQEVRIVKGLNNPDLDAAVGEDLAQQLRDELELV
KGASNEFDKELFLAGEITPVFFGTALGNFGVDHMLDGLVEWAPAPMPRQT
DTRTVEASEDKFTGFVFKIQANMDPKHRDRVAFMRVVSGKYEKGMKLRQV
RTAKDVVISDALTFMAGDRSHVEEAYPGDILGLHNHGTIQIGDTFTQGEM
MKFTGIPNFAPELFRRIRLKDPLKQKQLLKGLVQLSEEGAVQVFRPISNN
DLIVGAVGVLQFDVVVARLKSEYNVEAVYESVNVATARWVECADAKKFEE
FKRKNESQLALDGGDNLAYIATSMVNLRLAQERYPDVQFHQTR

3D structure

• PDB: 8fzf The ribosome termination complex remodels release factor RF3 and ejects GDP
• Chain: v
• Resolution: 3.2 Å

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	v	K310 H311 R312 H368	K276 H277 R278 H334
BS02	rna	v	K117 R146 D147 K177 S195	K83 R112 D113 K143 S161
BS03	G4P	v	D23 K26 T27 T28 H92 N142 K143 T258 L260	D21 K24 T25 T26 H58 N108 K109 T224 L226

Gene Ontology

Molecular Function

• GO:0003924 GTPase activity
• GO:0005515 protein binding
• GO:0005525 GTP binding
• GO:0016149 translation release factor activity, codon specific
• GO:0016150 translation release factor activity, codon nonspecific
• GO:0019003 GDP binding
• GO:0097216 guanosine tetraphosphate binding

Biological Process

• GO:0006412 translation
• GO:0006415 translational termination
• GO:0006449 regulation of translational termination
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:8fzf, PDBe:8fzf, PDBj:8fzf
• PDBsum: 8fzf
• PubMed: 39030416
• UniProt: P0A7I4|RF3_ECOLI Peptide chain release factor RF3 (Gene Name=prfC)