6Z0C | pdb_00006z0c

Structure of in silico modelled artificial Maquette-3 protein

• PDB DOI: https://doi.org/10.2210/pdb6Z0C/pdb

• Classification: DE NOVO PROTEIN
• Organism(s): Escherichia coli
• Mutation(s): No 


• Deposited: 2020-05-08 Released: 2021-03-17 
• Deposition Author(s): Baumgart, M., Roepke, M., Muehlbauer, M.E., Asami, S., Mader, S.L., Fredriksson, K., Groll, M., Gamiz-Hernandez, A.P., Kaila, V.R.I.
• Funding Organization(s): German Research Foundation (DFG), European Research Council (ERC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.223 (Depositor), 0.237 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Starting Model: in silico

Literature

Design of buried charged networks in artificial proteins

Baumgart, M., Ropke, M., Muhlbauer, M.E., Asami, S., Mader, S.L., Fredriksson, K., Groll, M., Gamiz-Hernandez, A.P., Kaila, V.R.I.

(2021) Nat Commun 12: 1895

• DOI: https://doi.org/10.1038/s41467-021-21909-7

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 94.19 kDa 
• Atom Count: 6,613 
• Modeled Residue Count: 783 
• Deposited Residue Count: 800 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maquette-3	A, B, C, D	200	Escherichia coli	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
K	E [auth A], F [auth C]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.223 (Depositor), 0.237 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.69	α = 89.86
b = 65.9	β = 90.29
c = 68.26	γ = 117.36

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-03-17 
Deposition Author(s): Baumgart, M., Roepke, M., Muehlbauer, M.E., Asami, S., Mader, S.L., Fredriksson, K., Groll, M., Gamiz-Hernandez, A.P., Kaila, V.R.I.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	SFB1035
European Research Council (ERC)	European Union	no. 715311

Revision History  

• Version 1.0: 2021-03-17
  Type: Initial release
  
• Version 1.1: 2021-03-31
  Changes: Database references
• Version 1.2: 2024-05-01
  Changes: Data collection, Database references, Refinement description