8CDS

Crystal structure of the xhNup93-Nb4i VHH antibody

• PDB DOI: https://doi.org/10.2210/pdb8CDS/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Vicugna pacos
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-02-01 Released: 2024-02-21 
• Deposition Author(s): Guttler, T., Colom, M.S., Gorlich, D.
• Funding Organization(s): Max Planck Society, Boehringer Ingelheim Fonds (BIF)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.175 
• R-Value Work: 0.133 
• R-Value Observed: 0.138 

Literature

Crystal structure of the xhNup93-Nb4i VHH antibody

Guttler, T., Colom, M.S., Gorlich, D.

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: 14.07 kDa 
• Atom Count: 1,175 
• Modelled Residue Count: 126 
• Deposited Residue Count: 127 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
5-Nup93 inhibitory VHH antibody	A	127	Vicugna pacos	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PEG	C [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
EDO	B [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.53 Å
• R-Value Free: 0.175 
• R-Value Work: 0.133 
• R-Value Observed: 0.138 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.877	α = 90
b = 42.105	β = 93.055
c = 44.946	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHASER	phasing
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-02-21 
Deposition Author(s): Guttler, T., Colom, M.S., Gorlich, D.

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Funding Organization	Location	Grant Number
Max Planck Society	Germany	--
Boehringer Ingelheim Fonds (BIF)	Germany	--

Revision History  

• Version 1.0: 2024-02-21
  Type: Initial release