Structure of PDB 8cgd Chain m

Receptor sequence

>8cgdm (length=118) Species: 679895 (Escherichia coli BW25113)

MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEP
LITLAKTDSVANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKC
GFRAGDNAPMAYIELVDR

3D structure

• PDB: 8cgd Structural conservation of antibiotic interaction with ribosomes.
• Chain: m
• 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	m	M1 R2 H3 R4 K5 S6 R8 Q9 L10 N11 R12 N13 S14 H16 R17 A19 M20 R22 N23 M24 S27 H31 I34 K35 T36 T37 P39 K40 K42 R45 R46 E49 P50 T53 R63 R64 F67 A68 R69 R71 N73 E74 A77 R90 A91 G92 G93 T95 R96 K99 R103 A104 G105 D106 N107 A108 V116	M1 R2 H3 R4 K5 S6 R8 Q9 L10 N11 R12 N13 S14 H16 R17 A19 M20 R22 N23 M24 S27 H31 I34 K35 T36 T37 P39 K40 K42 R45 R46 E49 P50 T53 R63 R64 F67 A68 R69 R71 N73 E74 A77 R90 A91 G92 G93 T95 R96 K99 R103 A104 G105 D106 N107 A108 V116

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

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

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• 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: P0AG44|RL17_ECOLI Large ribosomal subunit protein bL17 (Gene Name=rplQ)