Structure of PDB 6p5j Chain AD

Receptor sequence

>6p5jAD (length=293) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]

FVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMI
VRVTNRDIICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTG
LLLARRLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLAR
TTTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQ
NVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMYKKAHAAIRENPV
YEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAA

3D structure

PDB

6p5j The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs.

Chain

Resolution

3.1 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	AD	F3 V4 K5 K8 Y12 R15 Y16 Q17 K19 R23 T28 D29 Y31 R35 L36 K43 Y44 K48 Y49 F113 M115 G140 Y145 L150 R152 T153 F160 P174 H175 S176 K178 R179 R268 Q275 D278 R279 Q282 K283 S286 F287 R289	F1 V2 K3 K6 Y10 R13 Y14 Q15 K17 R21 T26 D27 Y29 R33 L34 K41 Y42 K46 Y47 F111 M113 G138 Y143 L148 R150 T151 F158 P172 H173 S174 K176 R177 R266 Q273 D276 R277 Q280 K281 S284 F285 R287
BS02	rna	AD	K8 F13 K14 Y16 V18 F20 R21 R22 R24 K27 T28 Y30 R33 R50 R54 T56 N57 R58 I61 Q63 I69 E70 G71 D72 M73 I74 N94 Y95 A151 R152 T154 T155 G156 N157 K158 H198 N203 V204 Y207 Y210 Q222 F223 S224 Y226 Y253 K255 K256 R265 W266 N267 R268 K270 M271 L273 K276 R279 V280	K6 F11 K12 Y14 V16 F18 R19 R20 R22 K25 T26 Y28 R31 R48 R52 T54 N55 R56 I59 Q61 I67 E68 G69 D70 M71 I72 N92 Y93 A149 R150 T152 T153 G154 N155 K156 H196 N201 V202 Y205 Y208 Q220 F221 S222 Y224 Y251 K253 K254 R263 W264 N265 R266 K268 M269 L271 K274 R277 V278

Gene Ontology

	Molecular Function
GO:0003735	structural constituent of ribosome
GO:0008097	5S rRNA binding
GO:0019843	rRNA binding

	Biological Process
GO:0000027	ribosomal large subunit assembly
GO:0006412	translation

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005840	ribosome
GO:0022625	cytosolic large ribosomal subunit
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:6p5j, PDBe:6p5j, PDBj:6p5j
PDBsum	6p5j
PubMed	31609474
UniProt	P19949\|RL5_RABIT Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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