7SBZ | pdb_00007sbz

JAR5 Fab bound to fHbp v1.1 crystallized in space group I422

PDB DOI: https://doi.org/10.2210/pdb7SBZ/pdb

Classification: IMMUNE SYSTEM
Organism(s): Mus musculus, Neisseria meningitidis serogroup B
Expression System: Homo sapiens, Escherichia coli
Mutation(s): No

Deposited: 2021-09-26 Released: 2022-10-05
Deposition Author(s): Chesterman, C., Malito, E., Bottomley, M.J.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.296 (Depositor), 0.292 (DCC)
R-Value Work:
0.248 (Depositor), 0.248 (DCC)
R-Value Observed:
0.252 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Active Learning for Rapid Design: An iterative AI approach for accelerated vaccine design that combines active machine learning and high-throughput experimental evaluation

Chesterman, C., Desautels, T., Sierra, L.J., Arrildt, K., Zemla, A., Lau, E.Y., Sundaram, S., Laliberte, J., Chen, L., Ruby, A., Mednikov, M., Bertholet, S., Yu, D., Luisi, K., Malito, E., Mallet, C., Bottomley, M.J., van den Berg, R.A., Faissol, D.

To be published.

Macromolecule Content

Total Structure Weight: 161.07 kDa
Atom Count: 10,211
Modeled Residue Count: 1,336
Deposited Residue Count: 1,452
Unique protein chains: 3

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
JAR5 Heavy Chain	A, C [auth H]	253	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
JAR5 Light Chain	B, D [auth L]	216	Mus musculus	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Factor H-binding protein	E [auth C], F [auth D]	257	Neisseria meningitidis serogroup B	Mutation(s): 0
UniProt
Find proteins for Q9JXV4 (Neisseria meningitidis serogroup B (strain ATCC BAA-335 / MC58)) Explore Q9JXV4 Go to UniProtKB: Q9JXV4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9JXV4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CD Query on CD Download:Ideal Coordinates CCD File SDF format, chain Z [auth D] SDF format, chain Y [auth D] SDF format, chain X [auth D] SDF format, chain W [auth C] SDF format, chain V [auth C] SDF format, chain U [auth C] SDF format, chain T [auth C] SDF format, chain S [auth C] SDF format, chain R [auth C] SDF format, chain Q [auth L] SDF format, chain P [auth L] SDF format, chain O [auth L] SDF format, chain N [auth L] SDF format, chain M [auth L] SDF format, chain L [auth H] SDF format, chain K [auth H] SDF format, chain J [auth B] SDF format, chain I [auth B] SDF format, chain H [auth B] SDF format, chain G [auth A] SDF format, chain EA [auth D] SDF format, chain DA [auth D] SDF format, chain CA [auth D] SDF format, chain BA [auth D] SDF format, chain AA [auth D] MOL2 format, chain Z [auth D] MOL2 format, chain Y [auth D] MOL2 format, chain X [auth D] MOL2 format, chain W [auth C] MOL2 format, chain V [auth C] MOL2 format, chain U [auth C] MOL2 format, chain T [auth C] MOL2 format, chain S [auth C] MOL2 format, chain R [auth C] MOL2 format, chain Q [auth L] MOL2 format, chain P [auth L] MOL2 format, chain O [auth L] MOL2 format, chain N [auth L] MOL2 format, chain M [auth L] MOL2 format, chain L [auth H] MOL2 format, chain K [auth H] MOL2 format, chain J [auth B] MOL2 format, chain I [auth B] MOL2 format, chain H [auth B] MOL2 format, chain G [auth A] MOL2 format, chain EA [auth D] MOL2 format, chain DA [auth D] MOL2 format, chain CA [auth D] MOL2 format, chain BA [auth D] MOL2 format, chain AA [auth D] mmCIF format, chain Z [auth D] mmCIF format, chain Y [auth D] mmCIF format, chain X [auth D] mmCIF format, chain W [auth C] mmCIF format, chain V [auth C] mmCIF format, chain U [auth C] mmCIF format, chain T [auth C] mmCIF format, chain S [auth C] mmCIF format, chain R [auth C] mmCIF format, chain Q [auth L] mmCIF format, chain P [auth L] mmCIF format, chain O [auth L] mmCIF format, chain N [auth L] mmCIF format, chain M [auth L] mmCIF format, chain L [auth H] mmCIF format, chain K [auth H] mmCIF format, chain J [auth B] mmCIF format, chain I [auth B] mmCIF format, chain H [auth B] mmCIF format, chain G [auth A] mmCIF format, chain EA [auth D] mmCIF format, chain DA [auth D] mmCIF format, chain CA [auth D] mmCIF format, chain BA [auth D] mmCIF format, chain AA [auth D]	AA [auth D] BA [auth D] CA [auth D] DA [auth D] EA [auth D] AA [auth D], BA [auth D], CA [auth D], DA [auth D], EA [auth D], G [auth A], H [auth B], I [auth B], J [auth B], K [auth H], L [auth H], M [auth L], N [auth L], O [auth L], P [auth L], Q [auth L], R [auth C], S [auth C], T [auth C], U [auth C], V [auth C], W [auth C], X [auth D], Y [auth D], Z [auth D]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N		Interactions Focus chain AA [auth D] Focus chain BA [auth D] Focus chain CA [auth D] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth L] Focus chain N [auth L] Focus chain O [auth L] Focus chain P [auth L] Focus chain Q [auth L] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth C] Focus chain W [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D] Interactions & Density Focus chain AA [auth D] Focus chain BA [auth D] Focus chain CA [auth D] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth H] Focus chain L [auth H] Focus chain M [auth L] Focus chain N [auth L] Focus chain O [auth L] Focus chain P [auth L] Focus chain Q [auth L] Focus chain R [auth C] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth C] Focus chain V [auth C] Focus chain W [auth C] Focus chain X [auth D] Focus chain Y [auth D] Focus chain Z [auth D]