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.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 
  0.268 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.222 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.225 (Depositor) 

Starting Model: experimental

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.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 4 generated by PISA (software)

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

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

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

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

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
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), 0.280 (DCC) 
• R-Value Work:  0.222 (Depositor), 0.240 (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

Entry History 

Deposition Data

• Released Date: 2018-05-02 
Deposition Author(s): Skrabana, R., Novak, M., Cehlar, O., Kontsekova, E.

Revision History  

• 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