Structure of PDB 5lzw Chain A

Receptor sequence

>5lzwA (length=248) Species: 9986 (Oryctolagus cuniculus)

GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHD
PGRGAPLAKVVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNV
LPVGTMPEGTIVCCLEEKPGDRGKLARASGNYATVISHNPETKKTRVKLP
SGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAYHKYKAKRNCWPRVRG
VAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLRGT

3D structure

• PDB: 5lzw Decoding Mammalian Ribosome-mRNA States by Translational GTPase Complexes.
• Chain: A
• Resolution: 3.53 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	A	G2 R3 V4 G7 Q8 R9 K10 G11 S14 V15 R17 A18 H19 V20 K21 H22 R23 K24 G25 R28 F34 H38 G39 Y40 H50 R54 R64 Y67 R68 F69 K71 R72 T84 G85 F87 Y89 Q95 E118 K119 D122 R123 K125 L126 A127 R128 A129 S130 G131 N132 P151 S152 S154 K156 G172 G173 R174 I175 K177 P178 I179 L180 K181 A182 G183 Y186 H187 K188 K190 K192 R193 N194 W196 R198 V199 R200 G201 V202 M204 N205 P206 V207 E208 H209 F211 G213 G214 N215 H216 Q217 H218 I219 G220 K221 P222 S223 T224 I225 R226 R227 D228 P230 A231 R233 K234 V235 G236 L237 I238 A239 A240 R241 R242 T243 G244 R245 L246	G1 R2 V3 G6 Q7 R8 K9 G10 S13 V14 R16 A17 H18 V19 K20 H21 R22 K23 G24 R27 F33 H37 G38 Y39 H49 R53 R63 Y66 R67 F68 K70 R71 T83 G84 F86 Y88 Q94 E117 K118 D121 R122 K124 L125 A126 R127 A128 S129 G130 N131 P150 S151 S153 K155 G171 G172 R173 I174 K176 P177 I178 L179 K180 A181 G182 Y185 H186 K187 K189 K191 R192 N193 W195 R197 V198 R199 G200 V201 M203 N204 P205 V206 E207 H208 F210 G212 G213 N214 H215 Q216 H217 I218 G219 K220 P221 S222 T223 I224 R225 R226 D227 P229 A230 R232 K233 V234 G235 L236 I237 A238 A239 R240 R241 T242 G243 R244 L245
BS02	rna	A	R247 G248	R246 G247
BS03	MG	A	N194 P197	N193 P196

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

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5lzw, PDBe:5lzw, PDBj:5lzw
• PDBsum: 5lzw
• PubMed: 27863242
• UniProt: G1TT27|RL8_RABIT Large ribosomal subunit protein uL2 (Gene Name=RPL8)