Structure of PDB 8xsz Chain LB

Receptor sequence

>8xszLB (length=402) Species: 9606 (Homo sapiens)

SHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKA
GMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRT
FKTVFAEHISDECKRRFYKNWHKSKKKAFTKYCKKWQDEDGKKQLEKDFS
SMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERL
EQQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKV
ACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIKN
NASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSL
LVQTKRRALEKIDLKFIDTTSKFGHGRFQTMEEKKAFMGPLKKDRIAKEE
GA

3D structure

• PDB: 8xsz Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Chain: LB
• Resolution: 3.2 Å

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	LB	S2 H3 R4 K5 F6 S7 P9 R10 H11 G12 S13 L14 G15 F16 L17 P18 R19 K20 R21 S23 H25 R26 K28 K30 S31 K50 M53 T54 H55 R62 G64 S65 A75 Y92 T95 P96 R97 L99 R100 T101 F102 K103 T104 R116 R117 Y119 K120 N121 H123 K124 S125 K126 K128 A129 F130 K132 Y133 Y156 R161 R174 Q175 K176 K177 M181 E182 T223 K224 G225 K226 G227 Y228 K229 G230 R234 K238 K239 R242 K243 T244 H245 R246 G247 R249 K250 A252 C253 I254 G255 A256 W257 H258 R261 V262 S265 R268 A269 Q271 Y274 H276 R277 T278 E279 I280 N281 L317 G318 V321 H322 G324 K334 C336 V337 V338 G339 T340 K342 R343 L351 R357 R358 S372 K373 F374 G375 H376 R378 K385 M389 L392 K393	S1 H2 R3 K4 F5 S6 P8 R9 H10 G11 S12 L13 G14 F15 L16 P17 R18 K19 R20 S22 H24 R25 K27 K29 S30 K49 M52 T53 H54 R61 G63 S64 A74 Y91 T94 P95 R96 L98 R99 T100 F101 K102 T103 R115 R116 Y118 K119 N120 H122 K123 S124 K125 K127 A128 F129 K131 Y132 Y155 R160 R173 Q174 K175 K176 M180 E181 T222 K223 G224 K225 G226 Y227 K228 G229 R233 K237 K238 R241 K242 T243 H244 R245 G246 R248 K249 A251 C252 I253 G254 A255 W256 H257 R260 V261 S264 R267 A268 Q270 Y273 H275 R276 T277 E278 I279 N280 L316 G317 V320 H321 G323 K333 C335 V336 V337 G338 T339 K341 R342 L350 R356 R357 S371 K372 F373 G374 H375 R377 K384 M388 L391 K392

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

External links

• PDB: RCSB:8xsz, PDBe:8xsz, PDBj:8xsz
• PDBsum: 8xsz
• PubMed: 38942792
• UniProt: P39023|RL3_HUMAN Large ribosomal subunit protein uL3 (Gene Name=RPL3)