7FGR | pdb_00007fgr

The cross-reaction complex structure with VQIFNK peptide and the tau antibody's Fab domain.

PDB DOI: https://doi.org/10.2210/pdb7FGR/pdb

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

Deposited: 2021-07-27 Released: 2022-07-27
Deposition Author(s): Tsuchida, T., Tsuchiya, T., Miyamoto, K., In, Y., Minoura, K., Taniguchi, T., Ishida, T., Tomoo, K.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.272 (Depositor), 0.271 (DCC)
R-Value Work:
0.200 (Depositor), 0.212 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

The cross-reaction complex structure with VQIFNK peptide and the tau antibody's Fab domain.

Tsuchida, T., Tsuchiya, T., Miyamoto, K., In, Y., Minoura, K., Taniguchi, t., Ishida, T., Tomoo, K.

To be published.

Macromolecule Content

Total Structure Weight: 48.11 kDa
Atom Count: 3,663
Modeled Residue Count: 437
Deposited Residue Count: 442
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab Heavy Chain	A [auth H]	219	Mus musculus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab Light Chain	B [auth L]	217	Mus musculus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
VQIFNK	C	6	Homo sapiens	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
IOD Query on IOD Download:Ideal Coordinates CCD File SDF format, chain K [auth H] MOL2 format, chain K [auth H] mmCIF format, chain K [auth H]	K [auth H]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M		Interactions Focus chain K [auth H] Interactions & Density Focus chain K [auth H]
GOL Query on GOL Download:Ideal Coordinates CCD File SDF format, chain D [auth H] SDF format, chain F [auth H] SDF format, chain M [auth L] SDF format, chain L SDF format, chain E [auth H] MOL2 format, chain D [auth H] MOL2 format, chain F [auth H] MOL2 format, chain M [auth L] MOL2 format, chain L MOL2 format, chain E [auth H] mmCIF format, chain D [auth H] mmCIF format, chain F [auth H] mmCIF format, chain M [auth L] mmCIF format, chain L mmCIF format, chain E [auth H]	D [auth H], E [auth H], F [auth H], L, M [auth L]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain D [auth H] Focus chain E [auth H] Focus chain F [auth H] Focus chain L Focus chain M [auth L] Interactions & Density Focus chain D [auth H] Focus chain E [auth H] Focus chain F [auth H] Focus chain L Focus chain M [auth L]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain I [auth H] SDF format, chain N [auth L] SDF format, chain J [auth H] MOL2 format, chain I [auth H] MOL2 format, chain N [auth L] MOL2 format, chain J [auth H] mmCIF format, chain I [auth H] mmCIF format, chain N [auth L] mmCIF format, chain J [auth H]	I [auth H], J [auth H], N [auth L]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain I [auth H] Focus chain J [auth H] Focus chain N [auth L] Interactions & Density Focus chain I [auth H] Focus chain J [auth H] Focus chain N [auth L]
NH4 Query on NH4 Download:Ideal Coordinates CCD File SDF format, chain G [auth H] SDF format, chain H MOL2 format, chain G [auth H] MOL2 format, chain H mmCIF format, chain G [auth H] mmCIF format, chain H	G [auth H], H	AMMONIUM ION H₄ N QGZKDVFQNNGYKY-UHFFFAOYSA-O		Interactions Focus chain G [auth H] Focus chain H Interactions & Density Focus chain G [auth H] Focus chain H