5MP1 | pdb_00005mp1

Crystal structure of DC8E8 Fab in the complex with a 14-mer tau peptide at pH 7.5

PDB DOI: https://doi.org/10.2210/pdb5MP1/pdb

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

Deposited: 2016-12-15 Released: 2018-05-02
Deposition Author(s): Skrabana, R., Novak, M., Cehlar, O., Kontsekova, E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free:
0.268 (Depositor), 0.277 (DCC)
R-Value Work:
0.222 (Depositor), 0.237 (DCC)
R-Value Observed:
0.225 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 2.2 of the entry. See complete history.

Literature

Crystal structure of DC8E8 Fab in the complex with a 14-mer tau peptide at pH 7.5

Skrabana, R., Novak, M.

To be published.

Macromolecule Content

Total Structure Weight: 197.78 kDa
Atom Count: 13,383
Modeled Residue Count: 1,758
Deposited Residue Count: 1,812
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
antibody Fab heavy chain	A [auth H], D [auth C], G [auth F], J	221	Mus musculus	Mutation(s): 0

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
antibody Fab light chain	B [auth L], E [auth D], H [auth G], K	218	Mus musculus	Mutation(s): 0

Find similar proteins by: Sequence | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated protein tau	C [auth A], F [auth B], I [auth E], L [auth I]	14	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P10636 (Homo sapiens) Explore P10636 Go to UniProtKB: P10636
PHAROS: P10636 GTEx: ENSG00000186868
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P10636
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PCA Query on PCA	A [auth H], D [auth C], G [auth F], J	L-PEPTIDE LINKING	C₅ H₇ N O₃		GLN

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.268 (Depositor), 0.277 (DCC)
R-Value Work: 0.222 (Depositor), 0.237 (DCC)
R-Value Observed: 0.225 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.37	α = 88.12
b = 82.37	β = 84.78
c = 89.8	γ = 89.93

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2018-05-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-05-02
Type: Initial release
Version 2.0: 2020-03-11
Changes: Polymer sequence, Refinement description
Version 2.1: 2024-01-17
Changes: Data collection, Database references, Refinement description
Version 2.2: 2024-11-20
Changes: 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.