4QTN | pdb_00004qtn

Crystal structure of the Vitamin B3 transporter PnuC

• PDB DOI: https://doi.org/10.2210/pdb4QTN/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Neisseria mucosa ATCC 25996
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2014-07-08 Released: 2014-10-08 
• Deposition Author(s): Guskov, A., Jaehme, M., Slotboom, D.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.276 (Depositor), 0.276 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.245 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Literature

Crystal structure of the Vitamin B3 transporter PnuC

Jaehme, M., Guskov, A., Slotboom, D.J.

(2014) Nat Struct Mol Biol 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content 

• Total Structure Weight: 86.67 kDa 
• Atom Count: 5,808 
• Modeled Residue Count: 707 
• Deposited Residue Count: 732 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nicotinamide riboside transporter PnuC	A, B, C	244	Neisseria mucosa ATCC 25996	Mutation(s): 0  Gene Names: pnuC, NEIMUCOT_05996 Membrane Entity: Yes
UniProt
Find proteins for D2ZZC1 (Neisseria mucosa (strain ATCC 25996 / DSM 4631 / NCTC 10774 / M26)) Explore D2ZZC1  Go to UniProtKB:  D2ZZC1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BOG	E [auth A], G [auth B], H [auth B], J [auth C]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N
NNR	D [auth A], F [auth B], I [auth C]	Nicotinamide riboside C11 H15 N2 O5 JLEBZPBDRKPWTD-TURQNECASA-O

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.276 (Depositor), 0.276 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.245 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.32	α = 90
b = 112.93	β = 90
c = 120.37	γ = 90

Software Package:

Software Name	Purpose
DA+	data collection
PHENIX	model building
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-08 
Deposition Author(s): Guskov, A., Jaehme, M., Slotboom, D.J.

Revision History  

• Version 1.0: 2014-10-08
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.2: 2024-11-20
  Changes: Data collection, Database references, Refinement description, Structure summary