6Y1R | pdb_00006y1r

Nb22-LBT

PDB DOI: https://doi.org/10.2210/pdb6Y1R/pdb

Classification: IMMUNE SYSTEM
Organism(s): Lama glama
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2020-02-13 Released: 2021-02-24
Deposition Author(s): Pompidor, G., Zimmermann, S., Loew, C., Schneider, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.85 Å
R-Value Free:
0.234 (Depositor), 0.230 (DCC)
R-Value Work:
0.204 (Depositor), 0.200 (DCC)
R-Value Observed:
0.206 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Engineered nanobodies with a lanthanide binding motif for crystallographic phasing

Pompidor, G., Zimmermann, S., Loew, C., Schneider, T.

To be published.

Macromolecule Content

Total Structure Weight: 82.4 kDa
Atom Count: 5,588
Modeled Residue Count: 685
Deposited Residue Count: 735
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nb22-LBT	A, B, C, D, E	147	Lama glama	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
TB (Subject of Investigation/LOI) Query on TB Download Ideal Coordinates CCD File SDF format, chain S [auth E] SDF format, chain R [auth E] SDF format, chain O [auth D] SDF format, chain N [auth C] SDF format, chain K [auth C] SDF format, chain J [auth C] SDF format, chain H [auth B] SDF format, chain G [auth A] SDF format, chain F [auth A] MOL2 format, chain S [auth E] MOL2 format, chain R [auth E] MOL2 format, chain O [auth D] MOL2 format, chain N [auth C] MOL2 format, chain K [auth C] MOL2 format, chain J [auth C] MOL2 format, chain H [auth B] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] mmCIF format, chain S [auth E] mmCIF format, chain R [auth E] mmCIF format, chain O [auth D] mmCIF format, chain N [auth C] mmCIF format, chain K [auth C] mmCIF format, chain J [auth C] mmCIF format, chain H [auth B] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A]	F [auth A] G [auth A] H [auth B] J [auth C] K [auth C] F [auth A], G [auth A], H [auth B], J [auth C], K [auth C], N [auth C], O [auth D], R [auth E], S [auth E]	TERBIUM(III) ION Tb HKCRVXUAKWXBLE-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth B] Focus chain J [auth C] Focus chain K [auth C] Focus chain N [auth C] Focus chain O [auth D] Focus chain R [auth E] Focus chain S [auth E] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth B] Focus chain J [auth C] Focus chain K [auth C] Focus chain N [auth C] Focus chain O [auth D] Focus chain R [auth E] Focus chain S [auth E]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain T [auth E] SDF format, chain Q [auth D] SDF format, chain P [auth D] SDF format, chain M [auth C] SDF format, chain L [auth C] SDF format, chain I [auth B] MOL2 format, chain T [auth E] MOL2 format, chain Q [auth D] MOL2 format, chain P [auth D] MOL2 format, chain M [auth C] MOL2 format, chain L [auth C] MOL2 format, chain I [auth B] mmCIF format, chain T [auth E] mmCIF format, chain Q [auth D] mmCIF format, chain P [auth D] mmCIF format, chain M [auth C] mmCIF format, chain L [auth C] mmCIF format, chain I [auth B]	I [auth B] L [auth C] M [auth C] P [auth D] Q [auth D] I [auth B], L [auth C], M [auth C], P [auth D], Q [auth D], T [auth E]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain I [auth B] Focus chain L [auth C] Focus chain M [auth C] Focus chain P [auth D] Focus chain Q [auth D] Focus chain T [auth E] Interactions & Density Focus chain I [auth B] Focus chain L [auth C] Focus chain M [auth C] Focus chain P [auth D] Focus chain Q [auth D] Focus chain T [auth E]