Structure of PDB 5mc6 Chain AP

Receptor sequence

>5mc6AP (length=105) Species: 559292 (Saccharomyces cerevisiae S288C)

VNVPKTRKTYCKGKTCRKHTQHKVTQYKAGKASLFAQGKRRYDRKQSGFG
GQTKPVFHKKAKTTKKVVLRLECVKCKTRAQLTLKRCKHFELGGEKKQKG
QALQF

3D structure

• PDB: 5mc6 The cryo-EM structure of a ribosome-Ski2-Ski3-Ski8 helicase complex.
• Chain: AP
• Resolution: 3.8 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	AP	L104 Q105 F106	L103 Q104 F105
BS02	rna	AP	V2 N3 P5 R8 K9 T10 Y11 K13 R18 K19 H20 A30 K32 A33 F36 A37 Q38 G39 R41 R42 R45 K46 G49 F50 G51 Q53 T54 K55 P56 V57 F58 K60 K61 A62 K63 T65 K67 R71 R80 Q82 K86 R87 C88 K89 K97 K98 K100	V1 N2 P4 R7 K8 T9 Y10 K12 R17 K18 H19 A29 K31 A32 F35 A36 Q37 G38 R40 R41 R44 K45 G48 F49 G50 Q52 T53 K54 P55 V56 F57 K59 K60 A61 K62 T64 K66 R70 R79 Q81 K85 R86 C87 K88 K96 K97 K99

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0046677 response to antibiotic
• GO:0046898 response to cycloheximide

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0044391 ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5mc6, PDBe:5mc6, PDBj:5mc6
• PDBsum: 5mc6
• PubMed: 27980209
• UniProt: P0CX27|RL44A_YEAST Large ribosomal subunit protein eL42A (Gene Name=RPL42A)