Structure of PDB 6xzb Chain M2

Receptor sequence

>6xzbM2 (length=136) Species: 83333 (Escherichia coli K-12)

MLQPKRTKFRKMHKGRNRGLAQGTDVSFGSFGLKAVGRGRLTARQIEAAR
RAMTRAVKRQGKIWIRVFPDKPITEKPLAVRMGKGKGNVEYWVALIQPGK
VLYEMDGVPEELAREAFKLAAAKLPIKTTFVTKTVM

3D structure

• PDB: 6xzb Insights into the improved macrolide inhibitory activity from the high-resolution cryo-EM structure of dirithromycin bound to the E. coli 70S ribosome.
• Chain: M2
• Resolution: 2.54 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	M2	P4 K5 R6 K8 F9 R10 K11 M12 H13 K14 G15 R16 Q22 G23 R40 R44 Q45 A48 R55 K62 W64 R66 F68 D70 K76 A79 X81 M82 G83 K84 G85 K86 K100 A122 K123 P125	P4 K5 R6 K8 F9 R10 K11 M12 H13 K14 G15 R16 Q22 G23 R40 R44 Q45 A48 R55 K62 W64 R66 F68 D70 K76 A79 X81 M82 G83 K84 G85 K86 K100 A122 K123 P125
BS02	rna	M2	R16 R18 G19 R38	R16 R18 G19 R38
BS03	rna	M2	R50 R55 R59	R50 R55 R59

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6xzb, PDBe:6xzb, PDBj:6xzb
• PDBsum: 6xzb
• PubMed: 32144191
• UniProt: P0ADY7|RL16_ECOLI Large ribosomal subunit protein uL16 (Gene Name=rplP)