Structure of PDB 5y9e Chain D Binding Site BS03

Receptor Information

>5y9e Chain D (length=418) Species: 10598 (human papillomavirus 58) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

KVVSTDEYVSRTSIYYYAGSSRLLAVGNPYFSIKSPNNNKKVLVPKVSGL
QYRVFRVRLPDPNKFGFPDTSFYNPDTQRLVWACVGLEIGRGQPLGVGVS
GHPYLNKFDDTETSNRYPAQPGSDNRECLSMDYKQTQLCLIGCKPPTGEH
WGKGVASNAAATDCPPLELFNSIIEDGDMVDTGFGCMDFGTLQANKSDVP
IDICNSTCKYPDYLKMASEPYGDSLFFFLRREQMFVRHFFNRAGKLGEAV
PDDLYIKGSGNTAVIQSSAFFPTPSGSIVTSESQLFNKPYWLQRAQGHNN
GICWGNQLFVTVVDTTRSTNMTLCTEVTKEGTYKNDNFKEYVRHVEEYDL
QFVFQLCKITLTAEIMTYIHTMDSNILEDWQFDPLNKYTFWEVNLKEKFS
ADLDQFPLGRKFLLQSGL

Ligand information

Ligand ID

InChI

InChI=1S/Mg/q+2

InChIKey

JLVVSXFLKOJNIY-UHFFFAOYSA-N

SMILES

Software	SMILES
ACDLabs 10.04 OpenEye OEToolkits 1.5.0	[Mg+2]
CACTVS 3.341	[Mg++]

Formula

Name

MAGNESIUM ION

PDB chain

5y9e Chain D Residue 505 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	5y9e Crystal Structures of Two Immune Complexes Identify Determinants for Viral Infectivity and Type-Specific Neutralization of Human Papillomavirus.
Resolution	2.042 Å
Binding residue (original residue number in PDB)	D335 T336 R338 S339 E367
Binding residue (residue number reindexed from 1)	D314 T315 R317 S318 E346
Annotation score	4

Enzymatic activity

Enzyme Commision number

Gene Ontology

	Molecular Function
GO:0005198	structural molecule activity

	Biological Process
GO:0019062	virion attachment to host cell
GO:0046718	symbiont entry into host cell
GO:0075509	endocytosis involved in viral entry into host cell

	Cellular Component
GO:0019028	viral capsid
GO:0039620	T=7 icosahedral viral capsid
GO:0042025	host cell nucleus

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Molecular Function

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Cellular Component

External links

PDB	RCSB:5y9e, PDBe:5y9e, PDBj:5y9e
PDBsum	5y9e
PubMed	28951471
UniProt	P26535\|VL1_HPV58 Major capsid protein L1 (Gene Name=L1)

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