Structure of PDB 6ip5 Chain 2D

Receptor sequence

>6ip52D (length=213) Species: 9606 (Homo sapiens)

GRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLGGH
MVSDEYEQLSSEALEAARICANKYMVKSCGRDGFHMRVRLHPFHVIRINK
MLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNEEHVIEA
LRRAKFKFPGRQKIHISKKWGFTKFNADEFEDMVAKKCLIPDGCGVKYVP
SHGPLDKWRVLHS

3D structure

• PDB: 6ip5 HCV IRES Captures an Actively Translating 80S Ribosome.
• Chain: 2D
• Resolution: 3.9 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	2D	R3 R4 P5 A6 R7 C8 N14 K15 F22 D35 E63 K74 R90 F94 R98 I99 C105 G114 M115 R116 A118 Q133 R154 F157 K158 P160 K175 G194 K198	R2 R3 P4 A5 R6 C7 N13 K14 F21 D34 E62 K73 R89 F93 R97 I98 C104 G113 M114 R115 A117 Q132 R153 F156 K157 P159 K174 G193 K197
BS02	rna	2D	R10 Y11 Y57 I131 Y199 P201 S202 H203 G204 L206	R9 Y10 Y56 I130 Y198 P200 S201 H202 G203 L205
BS03	rna	2D	G107 A108 D109 R110 L111	G106 A107 D108 R109 L110

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation
• GO:0007141 male meiosis I
• GO:0007283 spermatogenesis
• GO:0030154 cell differentiation
• GO:0051321 meiotic cell cycle

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6ip5, PDBe:6ip5, PDBj:6ip5
• PDBsum: 6ip5
• PubMed: 31080011
• UniProt: Q96L21|RL10L_HUMAN Ribosomal protein uL16-like (Gene Name=RPL10L)