9I42 | pdb_00009i42

Structure of anti-EV71 human monoclonal antibody 16-2-2D Fab

PDB DOI: https://doi.org/10.2210/pdb9I42/pdb

Classification: ANTIVIRAL PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2025-01-24 Released: 2026-02-04
Deposition Author(s): Zhou, D., Ren, J., Stuart, D.I.
Funding Organization(s): Medical Research Council (MRC, United Kingdom), Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.92 Å
R-Value Free:
0.192 (Depositor), 0.192 (DCC)
R-Value Work:
0.164 (Depositor), 0.165 (DCC)
R-Value Observed:
0.165 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Fine antigenic mapping of human enterovirus 71 from structures of cognate complexes for a panel of 12 patient derived monoclonal antibodies

Zhou, D., Ren, J., Stuart, D.I.

To be published.

Macromolecule Content

Total Structure Weight: 100.44 kDa
Atom Count: 7,241
Modeled Residue Count: 888
Deposited Residue Count: 918
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
light chain 1	A [auth L], C [auth A]	216	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
heavy chain 1	B [auth H], D [auth B]	243	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 (Subject of Investigation/LOI) Query on SO4 Download Ideal Coordinates CCD File SDF format, chain E [auth L] SDF format, chain F [auth L] SDF format, chain L [auth H] SDF format, chain M [auth H] SDF format, chain U [auth A] SDF format, chain T [auth A] MOL2 format, chain E [auth L] MOL2 format, chain F [auth L] MOL2 format, chain L [auth H] MOL2 format, chain M [auth H] MOL2 format, chain U [auth A] MOL2 format, chain T [auth A] mmCIF format, chain E [auth L] mmCIF format, chain F [auth L] mmCIF format, chain L [auth H] mmCIF format, chain M [auth H] mmCIF format, chain U [auth A] mmCIF format, chain T [auth A]	E [auth L] F [auth L] L [auth H] M [auth H] T [auth A] E [auth L], F [auth L], L [auth H], M [auth H], T [auth A], U [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain E [auth L] Focus chain F [auth L] Focus chain L [auth H] Focus chain M [auth H] Focus chain T [auth A] Focus chain U [auth A] Interactions & Density Focus chain E [auth L] Focus chain F [auth L] Focus chain L [auth H] Focus chain M [auth H] Focus chain T [auth A] Focus chain U [auth A]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain I [auth L] SDF format, chain J [auth L] SDF format, chain K [auth L] SDF format, chain R [auth H] SDF format, chain S [auth H] SDF format, chain X [auth B] MOL2 format, chain I [auth L] MOL2 format, chain J [auth L] MOL2 format, chain K [auth L] MOL2 format, chain R [auth H] MOL2 format, chain S [auth H] MOL2 format, chain X [auth B] mmCIF format, chain I [auth L] mmCIF format, chain J [auth L] mmCIF format, chain K [auth L] mmCIF format, chain R [auth H] mmCIF format, chain S [auth H] mmCIF format, chain X [auth B]	I [auth L] J [auth L] K [auth L] R [auth H] S [auth H] I [auth L], J [auth L], K [auth L], R [auth H], S [auth H], X [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain I [auth L] Focus chain J [auth L] Focus chain K [auth L] Focus chain R [auth H] Focus chain S [auth H] Focus chain X [auth B] Interactions & Density Focus chain I [auth L] Focus chain J [auth L] Focus chain K [auth L] Focus chain R [auth H] Focus chain S [auth H] Focus chain X [auth B]
EDO (Subject of Investigation/LOI) Query on EDO Download Ideal Coordinates CCD File SDF format, chain G [auth L] SDF format, chain H [auth L] SDF format, chain N [auth H] SDF format, chain O [auth H] SDF format, chain P [auth H] SDF format, chain Q [auth H] SDF format, chain V [auth A] SDF format, chain W [auth A] MOL2 format, chain G [auth L] MOL2 format, chain H [auth L] MOL2 format, chain N [auth H] MOL2 format, chain O [auth H] MOL2 format, chain P [auth H] MOL2 format, chain Q [auth H] MOL2 format, chain V [auth A] MOL2 format, chain W [auth A] mmCIF format, chain G [auth L] mmCIF format, chain H [auth L] mmCIF format, chain N [auth H] mmCIF format, chain O [auth H] mmCIF format, chain P [auth H] mmCIF format, chain Q [auth H] mmCIF format, chain V [auth A] mmCIF format, chain W [auth A]	G [auth L] H [auth L] N [auth H] O [auth H] P [auth H] G [auth L], H [auth L], N [auth H], O [auth H], P [auth H], Q [auth H], V [auth A], W [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain G [auth L] Focus chain H [auth L] Focus chain N [auth H] Focus chain O [auth H] Focus chain P [auth H] Focus chain Q [auth H] Focus chain V [auth A] Focus chain W [auth A] Interactions & Density Focus chain G [auth L] Focus chain H [auth L] Focus chain N [auth H] Focus chain O [auth H] Focus chain P [auth H] Focus chain Q [auth H] Focus chain V [auth A] Focus chain W [auth A]