Structure of PDB 5mc6 Chain BD

Receptor sequence

>5mc6BD (length=220) Species: 559292 (Saccharomyces cerevisiae S288C)

ARRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVH
LVSNELEQLSSEALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINK
MLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEG
LRRARYKFPGQQKIILSKKWGFTNLDRPEYLKKREAGEVKDDGAFVKFLS
KKGSLENNIREFPEYFAAQA

3D structure

• PDB: 5mc6 The cryo-EM structure of a ribosome-Ski2-Ski3-Ski8 helicase complex.
• Chain: BD
• 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	BD	R68 I69 N72 K73 C104	R68 I69 N72 K73 C104
BS02	rna	BD	A24 L102 D108 R109 K120	A24 L102 D108 R109 K120
BS03	rna	BD	R3 R6 C7 R9 K12 N13 K14 P15 R20 Y21 Y33 K38 E62 A63 A66 K73 R87 R89 H91 F93 R97 N99 A107 L110 G113 M114 R115 A117 W118 Q132 R153 Y156 K157 P159 F172 D192 G193 K197	R3 R6 C7 R9 K12 N13 K14 P15 R20 Y21 Y33 K38 E62 A63 A66 K73 R87 R89 H91 F93 R97 N99 A107 L110 G113 M114 R115 A117 W118 Q132 R153 Y156 K157 P159 F172 D192 G193 K197
BS04	rna	BD	E55 K201 K202 G203 S204 L205	E55 K201 K202 G203 S204 L205

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006415 translational termination

Cellular Component

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

External links

• PDB: RCSB:5mc6, PDBe:5mc6, PDBj:5mc6
• PDBsum: 5mc6
• PubMed: 27980209
• UniProt: P41805|RL10_YEAST Large ribosomal subunit protein uL16 (Gene Name=RPL10)