5LTD | pdb_00005ltd

Phosphate-bound Pichia angusta Atg18

• PDB DOI: https://doi.org/10.2210/pdb5LTD/pdb

• Classification: LIPID BINDING PROTEIN
• Organism(s): Ogataea angusta
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-09-06 Released: 2017-09-20 
• Deposition Author(s): Scacioc, A., Kuhnel, K.
• Funding Organization(s): German Research Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.265 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.220 (DCC) 

Starting Model: experimental

Literature

Phopshate-bound Pichia angusta Atg18

Scacioc, A., Kuhnel, K.

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.

Macromolecule Content 

• Total Structure Weight: 116.45 kDa 
• Atom Count: 4,888 
• Modeled Residue Count: 630 
• Deposited Residue Count: 1,050 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Autophagy-related protein 18	A, B	525	Ogataea angusta	Mutation(s): 0  Gene Names: ATG18
UniProt
Find proteins for Q5QA94 (Pichia angusta) Explore Q5QA94  Go to UniProtKB:  Q5QA94

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A], D [auth A], E [auth B], F [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
EDO	G [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.265 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.220 (DCC) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.242	α = 83.73
b = 58.253	β = 80.85
c = 62.25	γ = 86.77

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-09-20 
Deposition Author(s): Scacioc, A., Kuhnel, K.

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Funding Organization	Location	Grant Number
German Research Foundation	Germany	SFB860

Revision History  

• Version 1.0: 2017-09-20
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description