Structure of PDB 8cgd Chain v

Receptor sequence

>8cgdv (length=75) Species: 679895 (Escherichia coli BW25113)

RNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLF
AKADGKVKFEVKGPKNRKFISIEAE

3D structure

• PDB: 8cgd Structural conservation of antibiotic interaction with ribosomes.
• Chain: v
• Resolution: 1.98 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	v	N12 R14 D15 S16 E17 A18 K19 R20 K24 F26 G27 E29 L32 A33 G34 S35 I36 R41 G42 T43 K44 H46 G54 R55 D56 H57 T58 F60 F69 K75 R77 K78	N2 R4 D5 S6 E7 A8 K9 R10 K14 F16 G17 E19 L22 A23 G24 S25 I26 R31 G32 T33 K34 H36 G44 R45 D46 H47 T48 F50 F59 K65 R67 K68
BS02	rna	v	K72 G73 P74 N76	K62 G63 P64 N66

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0043022 ribosome binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0001558 regulation of cell growth
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042256 cytosolic ribosome assembly
• GO:0090070 positive regulation of ribosome biogenesis
• GO:1902626 assembly of large subunit precursor of preribosome

Cellular Component

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

External links

• PDB: RCSB:8cgd, PDBe:8cgd, PDBj:8cgd
• PDBsum: 8cgd
• PubMed: 37550453
• UniProt: P0A7L8|RL27_ECOLI Large ribosomal subunit protein bL27 (Gene Name=rpmA)