Structure of PDB 8yop Chain LR

Receptor sequence

>8yopLR (length=187) Species: 9606 (Homo sapiens)

SMLRLQKRLASSVLRCGKKKVWLDPNETNEIANANSRQQIRKLIKDGLII
RKPVTVHSRARCRKNTLARRKGRHMGIGKRKGTANARMPEKVTWMRRMRI
LRRLLRRYRESKKIDRHMYHSLYLKVKGNVFKNKRILMEHIHKLKADKAR
KKLLADQAEARRSKTKEARKRREERLQAKKEEIIKTL

3D structure

• PDB: 8yop Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
• Chain: LR
• Resolution: 2.2 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	LR	M3 L4 R5 K8 R9 R16 G18 K19 K20 K21 W23 L24 P26 S37 R38 Q39 Q40 R42 K43 K46 V55 T56 V57 H58 S59 R60 R62 C63 R64 R70 R71 R74 H75 G77 I78 G79 K80 R81 K82 G83 T84 N86 A87 R88 P90 E91 K92 V93 W95 M96 R97 R100 I101 R103 R104 R107 R108 R110 R117 H118 Y120 H121 Y124 L125 K128 G129 N130 N134 K135 R136 H143	M2 L3 R4 K7 R8 R15 G17 K18 K19 K20 W22 L23 P25 S36 R37 Q38 Q39 R41 K42 K45 V54 T55 V56 H57 S58 R59 R61 C62 R63 R69 R70 R73 H74 G76 I77 G78 K79 R80 K81 G82 T83 N85 A86 R87 P89 E90 K91 V92 W94 M95 R96 R99 I100 R102 R103 R106 R107 R109 R116 H117 Y119 H120 Y123 L124 K127 G128 N129 N133 K134 R135 H142
BS02	rna	LR	R162 R163 K165 T166 R172 R176	R161 R162 K164 T165 R171 R175

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

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8yop, PDBe:8yop, PDBj:8yop
• PDBsum: 8yop
• PubMed: 38942792
• UniProt: P84098|RL19_HUMAN Large ribosomal subunit protein eL19 (Gene Name=RPL19)