Structure of PDB 8ifd Chain 1E

Receptor sequence

>8ifd1E (length=402) Species: 9606 (Homo sapiens) [Search protein sequence]

SHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKA
GMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRT
FKTVFAEHISDECKRRFYKNWHKSKKKAFTKYCKKWQDEDGKKQLEKDFS
SMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERL
EQQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKV
ACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIKN
NASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSL
LVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKAFMGPLKKDRIAKEE
GA

3D structure

PDB

8ifd Direct visualization of ribosomes in the cell-free system revealed the functional evolution of aminoglycoside.

Chain

Resolution

2.59 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	1E	S2 H3 R4 K5 S7 A8 P9 R10 H11 G12 S13 L14 G15 F16 L17 P18 R19 K20 R21 S23 H25 R26 K28 K30 S31 M53 T54 H55 R62 G64 S65 A75 Y92 T95 R97 L99 R100 T101 F102 T104 R116 R117 Y119 K120 N121 H123 K124 S125 K126 K128 A129 F130 K132 Y133 Y156 R161 R174 Q175 K176 K177 E182 T223 K224 G225 K226 G227 Y228 G230 R234 K238 K239 R242 K243 T244 H245 R246 G247 L248 R249 K250 A252 C253 I254 G255 A256 W257 H258 A260 R261 V262 S265 R268 A269 Q271 Y274 H276 R277 E279 I280 N281 G318 V321 H322 G324 K334 C336 V337 V338 T340 K341 R343 R348 L352 R357 R358 S372 K373 F374 G375 H376 M382 K385 M389 L392 K393 K394 R396	S1 H2 R3 K4 S6 A7 P8 R9 H10 G11 S12 L13 G14 F15 L16 P17 R18 K19 R20 S22 H24 R25 K27 K29 S30 M52 T53 H54 R61 G63 S64 A74 Y91 T94 R96 L98 R99 T100 F101 T103 R115 R116 Y118 K119 N120 H122 K123 S124 K125 K127 A128 F129 K131 Y132 Y155 R160 R173 Q174 K175 K176 E181 T222 K223 G224 K225 G226 Y227 G229 R233 K237 K238 R241 K242 T243 H244 R245 G246 L247 R248 K249 A251 C252 I253 G254 A255 W256 H257 A259 R260 V261 S264 R267 A268 Q270 Y273 H275 R276 E278 I279 N280 G317 V320 H321 G323 K333 C335 V336 V337 T339 K340 R342 R347 L351 R356 R357 S371 K372 F373 G374 H375 M381 K384 M388 L391 K392 K393 R395
BS02	MG	1E	S2 H3	S1 H2

Gene Ontology

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

	Biological Process
GO:0002181	cytoplasmic translation
GO:0006412	translation
GO:0071353	cellular response to interleukin-4

	Cellular Component
GO:0005634	nucleus
GO:0005730	nucleolus
GO:0005737	cytoplasm
GO:0005829	cytosol
GO:0005840	ribosome
GO:0005925	focal adhesion
GO:0022625	cytosolic large ribosomal subunit
GO:0022626	cytosolic ribosome
GO:0032991	protein-containing complex
GO:0070062	extracellular exosome
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

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Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:8ifd, PDBe:8ifd, PDBj:8ifd
PDBsum	8ifd
PubMed	38227611
UniProt	P39023\|RL3_HUMAN Large ribosomal subunit protein uL3 (Gene Name=RPL3)

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