3P0C | pdb_00003p0c

Nischarin PX-domain

• PDB DOI: https://doi.org/10.2210/pdb3P0C/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2010-09-28 Released: 2010-10-13 
• Deposition Author(s): Schutz, P., Karlberg, T., Arrowsmith, C.H., Berglund, H., Bountra, C., Collins, R., Edwards, A.M., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Johansson, I., Kol, S., Kotenyova, T., Kouznetsova, E., Moche, M., Nyman, T., Persson, C., Siponen, M.I., Thorsell, A.G., Tresaugues, L., Van Der Berg, S., Wahlberg, E., Welin, M., Weigelt, J., Nordlund, P., Schuler, H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.27 Å
• R-Value Free: 
  0.210 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.168 (DCC) 
• R-Value Observed: 
  0.175 (Depositor) 

Literature

Crystal structure of Nischarin PX-domain

Schutz, P., Karlberg, T., Arrowsmith, C.H., Berglund, H., Bountra, C., Collins, R., Edwards, A.M., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Johansson, I., Kol, S., Kotenyova, T., Kouznetsova, E., Moche, M., Nyman, T., Persson, C., Siponen, M.I., Thorsell, A.G., Tresaugues, L., Van Der Berg, S., Wahlberg, E., Welin, M., Weigelt, J., Nordlund, P., Schuler, H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 30.58 kDa 
• Atom Count: 1,914 
• Modeled Residue Count: 219 
• Deposited Residue Count: 260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nischarin	A, B	130	Homo sapiens	Mutation(s): 0  Gene Names: NISCH, IRAS, KIAA0975 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y2I1 (Homo sapiens) Explore Q9Y2I1  Go to UniProtKB:  Q9Y2I1
PHAROS:  Q9Y2I1 GTEx:  ENSG00000010322

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.27 Å
• R-Value Free:  0.210 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.168 (DCC) 
• R-Value Observed: 0.175 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.88	α = 90
b = 64.78	β = 90
c = 80.68	γ = 90

Software Package:

Software Name	Purpose
GDA	data collection
Auto-Rickshaw	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-13 
Deposition Author(s): Schutz, P., Karlberg, T., Arrowsmith, C.H., Berglund, H., Bountra, C., Collins, R., Edwards, A.M., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Johansson, I., Kol, S., Kotenyova, T., Kouznetsova, E., Moche, M., Nyman, T., Persson, C., Siponen, M.I., Thorsell, A.G., Tresaugues, L., Van Der Berg, S., Wahlberg, E., Welin, M., Weigelt, J., Nordlund, P., Schuler, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2010-10-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references, Derived calculations