Structure of PDB 6ip6 Chain 1D

Receptor sequence

>6ip61D (length=248) Species: 9606 (Homo sapiens) [Search protein sequence]

GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHD
PGRGAPLAKVVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNV
LPVGTMPEGTIVCCLEEKPGDRGKLARASGNYATVISHNPETKKTRVKLP
SGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAYHKYKAKRNCWPRVRG
VAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLRGT

3D structure

PDB

6ip6 HCV IRES Captures an Actively Translating 80S Ribosome.

Chain

Resolution

4.5 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	1D	G2 R3 V4 Q8 R9 G11 A12 V15 R17 A18 H19 K21 H22 R23 K24 G25 A26 R28 F34 R37 Y40 I44 H50 P52 R54 R64 Y67 R68 F69 K70 K71 R72 T84 G85 F87 Y89 A94 Q95 K125 L126 A127 R128 A129 S130 G131 N132 L150 S152 K156 R174 I175 K177 P178 I179 K181 A182 G183 R184 H187 K188 K192 R193 N194 W196 R198 V199 R200 G201 V202 A203 M204 N205 V207 E208 G213 G214 N215 H216 Q217 K221 R226 R227 P230 A231 R233 K234 V235 G236 I238 A239 R241 R242 T243 G244	G1 R2 V3 Q7 R8 G10 A11 V14 R16 A17 H18 K20 H21 R22 K23 G24 A25 R27 F33 R36 Y39 I43 H49 P51 R53 R63 Y66 R67 F68 K69 K70 R71 T83 G84 F86 Y88 A93 Q94 K124 L125 A126 R127 A128 S129 G130 N131 L149 S151 K155 R173 I174 K176 P177 I178 K180 A181 G182 R183 H186 K187 K191 R192 N193 W195 R197 V198 R199 G200 V201 A202 M203 N204 V206 E207 G212 G213 N214 H215 Q216 K220 R225 R226 P229 A230 R232 K233 V234 G235 I237 A238 R240 R241 T242 G243
BS02	rna	1D	G248 T249	G247 T248

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0005515	protein binding
GO:0019843	rRNA binding

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation

	Cellular Component
GO:0005654	nucleoplasm
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
GO:0014069	postsynaptic density
GO:0015934	large ribosomal subunit
GO:0016020	membrane
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0045202	synapse
GO:0098794	postsynapse
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:6ip6, PDBe:6ip6, PDBj:6ip6
PDBsum	6ip6
PubMed	31080011
UniProt	P62917\|RL8_HUMAN Large ribosomal subunit protein uL2 (Gene Name=RPL8)

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