Structure of PDB 5lyb Chain l2

Receptor sequence

>5lybl2 (length=252) Species: 4932 (Saccharomyces cerevisiae)

GRVIRNQRKGAGSIFTSHTRLRQGAAKLRTLDYAERHGYIRGIVKQIVHD
SGRGAPLAKVVFRDPYKYRLREEIFIANEGVHTGQFIYAGKKASLNVGNV
LPLGSVPEGTIVSNVEEKPGDRGALARASGNYVIIIGHNPDENKTRVRLP
SGAKKVISSDARGVIGVIAGGGRVDKPLLKAGRAFHKYRLKRNSWPKTRG
VAMNPVDHPHGGGNHQHIGKASTISRGAVSGQKAGLIAARRTGLLRGSQK
TQ

3D structure

• PDB: 5lyb ?
• Chain: l2
• Resolution: 3.25 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	l2	D176 R247 S249	D175 R246 S248
BS02	rna	l2	G2 R3 V4 N7 Q8 R9 K10 G11 G13 S14 I15 T17 S18 H19 T20 R21 L22 R23 Q24 G25 A26 Y34 R37 H38 G39 Y40 H50 S52 R54 R64 Y67 K68 Y69 R70 L71 R72 T84 G85 F87 Y89 S95 E118 K119 A125 L126 A127 R128 A129 S130 N132 L150 P151 S152 K156 G172 R174 V175 K177 P178 L179 L180 K181 A182 G183 F186 H187 K188 L191 K192 R193 N194 W196 P197 K198 T199 R200 G201 V202 A203 M204 N205 P206 V207 D208 H211 G213 G214 N215 H216 Q217 H218 G220 K221 A222 S223 T224 I225 S226 R227 V230 S231 G232 Q233 K234 A235 G236 L237 I238 A239 A240 R241 R242 T243 G244 L245 L246	G1 R2 V3 N6 Q7 R8 K9 G10 G12 S13 I14 T16 S17 H18 T19 R20 L21 R22 Q23 G24 A25 Y33 R36 H37 G38 Y39 H49 S51 R53 R63 Y66 K67 Y68 R69 L70 R71 T83 G84 F86 Y88 S94 E117 K118 A124 L125 A126 R127 A128 S129 N131 L149 P150 S151 K155 G171 R173 V174 K176 P177 L178 L179 K180 A181 G182 F185 H186 K187 L190 K191 R192 N193 W195 P196 K197 T198 R199 G200 V201 A202 M203 N204 P205 V206 D207 H210 G212 G213 N214 H215 Q216 H217 G219 K220 A221 S222 T223 I224 S225 R226 V229 S230 G231 Q232 K233 A234 G235 L236 I237 A238 A239 R240 R241 T242 G243 L244 L245
BS03	MG	l2	K198 R200	K197 R199
BS04	MG	l2	S231 G232 K234	S230 G231 K233
BS05	MG	l2	F16 T17 H19 R193 N194	F15 T16 H18 R192 N193

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5lyb, PDBe:5lyb, PDBj:5lyb
• PDBsum: 5lyb
• PubMed: 27827794
• UniProt: P0CX45|RL2A_YEAST Large ribosomal subunit protein uL2A (Gene Name=RPL2A)