Structure of PDB 8rjd Chain D

Receptor sequence

>8rjdD (length=293) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]

FVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMI
VRVTNRDIICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTG
LLLARRLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLAR
TTTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQ
NVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMYKKAHAAIRENPV
YEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAA

3D structure

PDB

8rjd UCSF ChimeraX: Meeting modern challenges in visualization and analysis.

Chain

Resolution

2.78574 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	D	F3 V4 K5 K8 K10 Y12 K14 R15 Y16 Q17 K19 R23 T28 Y31 R35 L36 Y44 K48 F113 M115 P139 G140 F142 Y145 L150 R152 T153 F160 P174 H175 S176 R179 R268 S272 A274 Q275 D278 R279 Q282 S286 R289 A290	F1 V2 K3 K6 K8 Y10 K12 R13 Y14 Q15 K17 R21 T26 Y29 R33 L34 Y42 K46 F111 M113 P137 G138 F140 Y143 L148 R150 T151 F158 P172 H173 S174 R177 R266 S270 A272 Q273 D276 R277 Q280 S284 R287 A288
BS02	rna	D	K8 K10 F13 K14 V18 F20 R21 R22 R24 T28 Y30 R33 R50 R54 T56 N57 R58 I61 Q63 I69 G71 D72 M73 I74 N94 R152 T155 N157 K158 N203 V204 Y207 K221 Q222 F223 S224 Q225 Y226 Y253 K255 K256 R259 E260 V261 K262 K264 R265 W266 N267 R268 K270 M271 L273 K277 R279 V280	K6 K8 F11 K12 V16 F18 R19 R20 R22 T26 Y28 R31 R48 R52 T54 N55 R56 I59 Q61 I67 G69 D70 M71 I72 N92 R150 T153 N155 K156 N201 V202 Y205 K219 Q220 F221 S222 Q223 Y224 Y251 K253 K254 R257 E258 V259 K260 K262 R263 W264 N265 R266 K268 M269 L271 K275 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:8rjd, PDBe:8rjd, PDBj:8rjd
PDBsum	8rjd
PubMed	38896445
UniProt	P19949\|RL5_RABIT Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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