9AXQ

Crystal Structure of HY11-7E1_Hu3 Fab in the Apo Conformation

PDB DOI: https://doi.org/10.2210/pdb9AXQ/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2024-03-06 Released: 2024-10-02
Deposition Author(s): Rodarte, J.V., Pancera, M., Hannon, B.
Funding Organization(s): National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.238
R-Value Work: 0.208
R-Value Observed: 0.209

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structure-based engineering of monoclonal antibodies against fentanyl and carfentanil for improved binding

Rodarte, J.V., Pravetoni, M.

To be published.

Macromolecule Content

Total Structure Weight: 195.35 kDa
Atom Count: 13,485
Modelled Residue Count: 1,706
Deposited Residue Count: 1,784
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HY11-7E1_Hu3 Fab Heavy Chain	A [auth H], C [auth A], D [auth C], E	232	Mus musculus	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
HY11-7E1_Hu3 Fab Light Chain	B [auth L], F [auth B], G [auth D], H [auth F]	214	Mus musculus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain J [auth L] SDF format, chain K [auth L] SDF format, chain T [auth F] SDF format, chain U [auth F] MOL2 format, chain J [auth L] MOL2 format, chain K [auth L] MOL2 format, chain T [auth F] MOL2 format, chain U [auth F] mmCIF format, chain J [auth L] mmCIF format, chain K [auth L] mmCIF format, chain T [auth F] mmCIF format, chain U [auth F]	J [auth L], K [auth L], T [auth F], U [auth F]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain J [auth L] Focus chain K [auth L] Focus chain T [auth F] Focus chain U [auth F] Interactions & Density Focus chain J [auth L] Focus chain K [auth L] Focus chain T [auth F] Focus chain U [auth F]
ACT Query on ACT Download Ideal Coordinates CCD File SDF format, chain I [auth H] SDF format, chain L SDF format, chain M [auth L] SDF format, chain N [auth A] SDF format, chain O [auth C] SDF format, chain P [auth B] SDF format, chain Q [auth B] SDF format, chain R [auth D] SDF format, chain S [auth D] SDF format, chain V [auth F] SDF format, chain W [auth F] MOL2 format, chain I [auth H] MOL2 format, chain L MOL2 format, chain M [auth L] MOL2 format, chain N [auth A] MOL2 format, chain O [auth C] MOL2 format, chain P [auth B] MOL2 format, chain Q [auth B] MOL2 format, chain R [auth D] MOL2 format, chain S [auth D] MOL2 format, chain V [auth F] MOL2 format, chain W [auth F] mmCIF format, chain I [auth H] mmCIF format, chain L mmCIF format, chain M [auth L] mmCIF format, chain N [auth A] mmCIF format, chain O [auth C] mmCIF format, chain P [auth B] mmCIF format, chain Q [auth B] mmCIF format, chain R [auth D] mmCIF format, chain S [auth D] mmCIF format, chain V [auth F] mmCIF format, chain W [auth F]	I [auth H] L M [auth L] N [auth A] O [auth C] I [auth H], L, M [auth L], N [auth A], O [auth C], P [auth B], Q [auth B], R [auth D], S [auth D], V [auth F], W [auth F]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain I [auth H] Focus chain L Focus chain M [auth L] Focus chain N [auth A] Focus chain O [auth C] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth D] Focus chain S [auth D] Focus chain V [auth F] Focus chain W [auth F] Interactions & Density Focus chain I [auth H] Focus chain L Focus chain M [auth L] Focus chain N [auth A] Focus chain O [auth C] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth D] Focus chain S [auth D] Focus chain V [auth F] Focus chain W [auth F]