Structure of PDB 5lzw Chain II

Receptor sequence

>5lzwII (length=206) Species: 9986 (Oryctolagus cuniculus)

GISRDNWHKRRKTGGKRKPYHKKRKYELGRPAANTKIGPRRIHTVRVRGG
NKKYRALRLDVGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNCI
VLIDSTPYRQWYESHYALPLGRKKGAKLTPEEEEILNKKRSKKIQKKYDE
RKKNAKISSLLEEQFQQGKLLACIASRPGQCGRADGYVLEGKELEFYLRK
IKARKG

3D structure

• PDB: 5lzw Decoding Mammalian Ribosome-mRNA States by Translational GTPase Complexes.
• Chain: II
• Resolution: 3.53 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	II	E89 R92	E88 R91
BS02	rna	II	G2 R5 N7 H9 K10 R11 R12 K13 T14 G16 K19 Y21 H22 K23 K24 R25 K26 Y27 L29 G30 R31 A34 R41 R42 H44 T45 R47 V48 R49 G50 N52 K53 K54 Y55 R56 R59 N64 S66 T73 K75 S86 N87 K98 K144 I145 K147 K148 Y149 R178 Q181 C182 G183 R184	G1 R4 N6 H8 K9 R10 R11 K12 T13 G15 K18 Y20 H21 K22 K23 R24 K25 Y26 L28 G29 R30 A33 R40 R41 H43 T44 R46 V47 R48 G49 N51 K52 K53 Y54 R55 R58 N63 S65 T72 K74 S85 N86 K97 K143 I144 K146 K147 Y148 R177 Q180 C181 G182 R183

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5lzw, PDBe:5lzw, PDBj:5lzw
• PDBsum: 5lzw
• PubMed: 27863242
• UniProt: G1TJW1|RS8_RABIT Small ribosomal subunit protein eS8 (Gene Name=RPS8)