7VTJ | pdb_00007vtj

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

PDB DOI: https://doi.org/10.2210/pdb7VTJ/pdb

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

Deposited: 2021-10-29 Released: 2022-11-02
Deposition Author(s): Tsuchida, T., Fukuhara, N., Tsuchiya, T., Miyamoto, K., In, Y., Minoura, K., Taniguchi, Y., Ishida, T., Tomoo, K.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.295 (Depositor), 0.298 (DCC)
R-Value Work:
0.196 (Depositor), 0.207 (DCC)
R-Value Observed:
0.203 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

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

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

To be published.

Macromolecule Content

Total Structure Weight: 47.63 kDa
Atom Count: 3,851
Modeled Residue Count: 444
Deposited Residue Count: 444
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heavy chain of Fab	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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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Light chain of Fab	B [auth L]	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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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
VQIIYK peptide	C	6	Homo sapiens	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.295 (Depositor), 0.298 (DCC)
R-Value Work: 0.196 (Depositor), 0.207 (DCC)
R-Value Observed: 0.203 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.85	α = 90
b = 70.38	β = 90
c = 117.53	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrystalClear	data reduction
CrystalClear	data scaling
MOLREP	phasing
Coot	model building
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-11-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2022-11-02
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Refinement description
Version 1.2: 2024-10-16
Changes: Structure summary