Structure of PDB 4d5y Chain A

Receptor sequence

>4d5yA (length=246) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]

GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHD
PGRGAPLAKVVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNV
LPVGTMPEGTIVCCLEEKPGDRGKLARASGNYATVISHNPETKKTRVKLP
SGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAYHKYKAKRNCWPRVRG
VAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLR

3D structure

PDB

4d5y Cryo-Em Structures of Ribosomal 80S Complexes with Termination Factors and Cricket Paralysis Virus Ires Reveal the Ires in the Translocated State

Chain

Resolution

9.0 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

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 R6 Q8 R9 K10 G11 S14 A18 H19 V20 K21 H22 R23 G25 A26 F34 R37 Y40 I44 P52 R54 R64 Y67 R68 F69 T84 G85 F87 Y89 K93 Q95 N97 E118 K119 K125 L126 A127 R128 S130 N132 L150 P151 S152 K156 G172 G173 R174 I175 K177 I179 L180 K181 A182 Y186 H187 R193 N194 W196 R198 V199 R200 G201 V202 M204 N205 P206 V207 E208 H209 F211 G213 G214 N215 H216 H218 G220 K221 P222 S223 T224 R226 R227 D228 P230 A231 G232 R233 K234 V235 G236 L237 I238 A239 A240 R241 T243 G244 R245 L246	G1 R2 R5 Q7 R8 K9 G10 S13 A17 H18 V19 K20 H21 R22 G24 A25 F33 R36 Y39 I43 P51 R53 R63 Y66 R67 F68 T83 G84 F86 Y88 K92 Q94 N96 E117 K118 K124 L125 A126 R127 S129 N131 L149 P150 S151 K155 G171 G172 R173 I174 K176 I178 L179 K180 A181 Y185 H186 R192 N193 W195 R197 V198 R199 G200 V201 M203 N204 P205 V206 E207 H208 F210 G212 G213 N214 H215 H217 G219 K220 P221 S222 T223 R225 R226 D227 P229 A230 G231 R232 K233 V234 G235 L236 I237 A238 A239 R240 T242 G243 R244 L245

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

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Molecular Function

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Biological Process

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Cellular Component

External links

PDB	RCSB:4d5y, PDBe:4d5y, PDBj:4d5y
PDBsum	4d5y
PubMed	25601755
UniProt	G1TT27\|RL8_RABIT Large ribosomal subunit protein uL2 (Gene Name=RPL8)

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