7DJX | pdb_00007djx

Clec4f Nanobody 246

• PDB DOI: https://doi.org/10.2210/pdb7DJX/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Lamium maculatum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-11-22 Released: 2021-11-24 
• Deposition Author(s): Wen, Y., Zheng, F.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free: 
  0.216 (Depositor), 0.233 (DCC) 
• R-Value Work: 
  0.200 (Depositor) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Clec4f Nanobody 246

Wen, Y., Zheng, F.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 14.43 kDa 
• Atom Count: 1,033 
• Modeled Residue Count: 127 
• Deposited Residue Count: 131 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Clec4f Nanobody 246	A	131	Lamium maculatum	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free:  0.216 (Depositor), 0.233 (DCC) 
• R-Value Work:  0.200 (Depositor) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.535	α = 90
b = 73.535	β = 90
c = 94.804	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-11-24 
Deposition Author(s): Wen, Y., Zheng, F.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31870132, 82072237

Revision History  

• Version 1.0: 2021-11-24
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary