4M3J | pdb_00004m3j

Structure of a single-domain camelid antibody fragment cAb-H7S specific of the BlaP beta-lactamase from Bacillus licheniformis

PDB DOI: https://doi.org/10.2210/pdb4M3J/pdb

Classification: IMMUNE SYSTEM
Organism(s): Lama glama
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-08-06 Released: 2014-08-06
Deposition Author(s): Pain, C., Kerff, F., Herman, R., Sauvage, E., Preumont, S., Charlier, P., Dumoulin, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.252 (Depositor), 0.242 (DCC)
R-Value Work:
0.206 (Depositor)
R-Value Observed:
0.208 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Probing the mechanism of aggregation of polyQ model proteins with camelid heavy-chain antibody fragments

Pain, C., Cosolo, A., Preumont, S., Scarafone, N., Thorn, D., Herman, R., Spiegel, H., Pardon, E., Matagne, A., Charlier, P., Steyaert, J., Damblon, C., Kerff, F., Esposito, G., Dumoulin, M.

To be published.

Macromolecule Content

Total Structure Weight: 27.24 kDa
Atom Count: 1,794
Modeled Residue Count: 235
Deposited Residue Count: 252
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Camelid heavy-chain antibody variable fragment cAb-H7S	A, B	126	Lama glama	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.252 (Depositor), 0.242 (DCC)
R-Value Work: 0.206 (Depositor)
R-Value Observed: 0.208 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.562	α = 90
b = 54.615	β = 90
c = 83.445	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-08-06

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-08-06
Type: Initial release
Version 1.1: 2024-11-27
Changes: Data collection, Database references, Derived calculations, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.