Structure of PDB 5jcs Chain C

Receptor sequence

>5jcsC (length=361) Species: 559292 (Saccharomyces cerevisiae S288C)

SRPQVTVHSLTGEATANALPLPAVFSAPIRPDIVHTVFTSVNKNKRQAYA
VSEKAGHQTSAESWGTGRAVARIPRVGGGGTGRSGQGAFGNMCRGGRMFA
PTKTWRKWNVKVNHNEKRYATASAIAATAVASLVLARGHRVEKIPEIPLV
VSTDLESIQKTKEAVAALKAVGAHSDLLKVLKSKKLRAGKGKYRNRRWTQ
RRGPLVVYAEDNGIVKALRNVPGVETANVASLNLLQLAPGAHLGRFVIWT
EAAFTKLDQVWGSETVASSKVGYTLPSHIISTSDVTRIINSSEIQSAIRP
AGQATQKRTHVLKKNPLKNKQVLLRLNPYAKVFAAEKLGSKKAEKTGTKP
AAVFTETLKHD

3D structure

• PDB: 5jcs Architecture of the Rix1-Rea1 checkpoint machinery during pre-60S-ribosome remodeling
• Chain: C
• Resolution: 9.5 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	C	N43 R47 H58 Q59 S61 A72 R73 G78 T82 G83 R84 F90 G91 N92 M93 C94 R95 G96 G97 R98 M99 R107 V111 K112 V113 N114 H115 G139 L179 K186 L187 R188 A189 G190 K191 R202 K217 R220 A231 S232 T287 R309 L318 K321 Q322 R326 G340 S341 T347 G348	N42 R46 H57 Q58 S60 A71 R72 G77 T81 G82 R83 F89 G90 N91 M92 C93 R94 G95 G96 R97 M98 R106 V110 K111 V112 N113 H114 G138 L178 K185 L186 R187 A188 G189 K190 R201 K216 R219 A230 S231 T286 R308 L317 K320 Q321 R325 G339 S340 T346 G347
BS02	rna	C	A49 G192	A48 G191

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5jcs, PDBe:5jcs, PDBj:5jcs
• PDBsum: 5jcs
• PubMed: 26619264
• UniProt: P10664|RL4A_YEAST Large ribosomal subunit protein uL4A (Gene Name=RPL4A)