Structure of PDB 5gag Chain P

Receptor sequence

>5gagP (length=117) Species: 562 (Escherichia coli)

MDKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVA
ASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYH
GRVQALADAAREAGLQF

3D structure

• PDB: 5gag Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
• Chain: P
• Resolution: 3.8 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	P	R9 R10 T12 R13 R16 K17 L18 S91 R94 Q98 Y99 R111 F117	R9 R10 T12 R13 R16 K17 L18 S91 R94 Q98 Y99 R111 F117
BS02	rna	P	K3 R15 R25 H29 R30 T31 P32 R33 H34 Y36 G44 S45 V47 E55 K63 Y64 N67 K68 H100 G101 R102	K3 R15 R25 H29 R30 T31 P32 R33 H34 Y36 G44 S45 V47 E55 K63 Y64 N67 K68 H100 G101 R102

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• 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:5gag, PDBe:5gag, PDBj:5gag
• PDBsum: 5gag
• PubMed: 26804923
• UniProt: P0C018|RL18_ECOLI Large ribosomal subunit protein uL18 (Gene Name=rplR)