8U1A | pdb_00008u1a

De novo Design of Near Infrared Fluorescent Proteins

• PDB DOI: https://doi.org/10.2210/pdb8U1A/pdb

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-31 Released: 2024-09-11 
• Deposition Author(s): Liu, Y., Xu, C., Bera, A.K., Kang, A., Baker, D.
• Funding Organization(s): Howard Hughes Medical Institute (HHMI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.28 Å
• R-Value Free: 
  0.318 (Depositor), 0.322 (DCC) 
• R-Value Work: 
  0.261 (Depositor), 0.265 (DCC) 
• R-Value Observed: 
  0.264 (Depositor) 

Starting Model: other

Literature

De novo Design of Near Infrared Fluorescent Proteins

Xu, C., Liu, Y., Baker, D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 91.47 kDa 
• Atom Count: 5,509 
• Modeled Residue Count: 647 
• Deposited Residue Count: 758 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Designed Near Infrared Fluorescent Protein MC7BP34	A, B	379	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.28 Å
• R-Value Free:  0.318 (Depositor), 0.322 (DCC) 
• R-Value Work:  0.261 (Depositor), 0.265 (DCC) 
• R-Value Observed: 0.264 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.192	α = 90
b = 80.443	β = 94.261
c = 72.631	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-11 
Deposition Author(s): Liu, Y., Xu, C., Bera, A.K., Kang, A., Baker, D.

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Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History  

• Version 1.0: 2024-09-11
  Type: Initial release