Structure of PDB 7nwi Chain D

Receptor sequence

>7nwiD (length=292) Species: 9986 (Oryctolagus cuniculus)

FVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMI
VRVTNRDIICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTG
LLLARRLLNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLAR
TTTGNKVFGALKGAVDGGLSIPHSTKRFPGYDSESKEFNAEVHRKHIMGQ
NVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMYKKAHAAIRENPV
YEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERA

3D structure

• PDB: 7nwi Blasticidin S inhibits mammalian translation and enhances production of protein encoded by nonsense mRNA.
• Chain: D
• Resolution: 3.13 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	D	F3 K5 Y12 Y16 Q17 R23 T28 D29 R35 Y44 K48 F113 G140 Y145 R152 T153 R179 R268 Q275 D278 R279 Q282 S286 R289	F1 K3 Y10 Y14 Q15 R21 T26 D27 R33 Y42 K46 F111 G138 Y143 R150 T151 R177 R266 Q273 D276 R277 Q280 S284 R287
BS02	rna	D	F13 F20 R21 R22 R24 T28 Y30 R33 N57 R58 D72 I74 N94 N157 K158 Y207 Q222 Q225 Y226 Y253 K255 V261 W266 N267 R268 K270 M271 K277 V280	F11 F18 R19 R20 R22 T26 Y28 R31 N55 R56 D70 I72 N92 N155 K156 Y205 Q220 Q223 Y224 Y251 K253 V259 W264 N265 R266 K268 M269 K275 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

External links

• PDB: RCSB:7nwi, PDBe:7nwi, PDBj:7nwi
• PDBsum: 7nwi
• PubMed: 34157102
• UniProt: P19949|RL5_RABIT Large ribosomal subunit protein uL18 (Gene Name=RPL5)