1FZQ

CRYSTAL STRUCTURE OF MURINE ARL3-GDP

• PDB DOI:  https://doi.org/10.2210/pdb1FZQ/pdb

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


• Deposited: 2000-10-04 Released: 2000-12-06 
• Deposition Author(s): Hillig, R.C., Hanzal-Bayer, M., Linari, M., Becker, J., Wittinghofer, A., Renault, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.235 
• R-Value Work: 0.213 
• R-Value Observed: 0.215 

Literature

Structural and biochemical properties show ARL3-GDP as a distinct GTP binding protein.

Hillig, R.C., Hanzal-Bayer, M., Linari, M., Becker, J., Wittinghofer, A., Renault, L.

(2000) Structure 8: 1239-1245

• PubMed: 11188688 
• DOI: https://doi.org/10.1016/s0969-2126(00)00531-1
• Primary Citation of Related Structures:  
  1FZQ


• PubMed Abstract: 
  

Based on sequence similarities, Arf-like (ARL) proteins have been assigned to the Arf subfamily of the superfamily of Ras-related GTP binding proteins. They have been identified in several isoforms in a wide variety of species. Their cellular function is unclear, but they are proposed to regulate intracellular transport.

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Related Citations: 

• The Delta Subunit of Rod Specific Cyclic GMP Phophodiesterase, PDE Delta, Interacts with the Arf-like Protein Arl3 in a GTP Specific Manner
  Linari, M., Hanzal-Bayer, M., Becker, J.
  (1999) FEBS Lett 458: 55

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Organizational Affiliation: 

Max-Planck-Institut für Molekulare Physiologie, Abteilung Strukturelle Biologie, Dortmund, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 21.23 kDa 
• Atom Count: 1,628 
• Modelled Residue Count: 176 
• Deposited Residue Count: 181 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 3	A	181	Mus musculus	Mutation(s): 0  Gene Names: Arl3 Membrane Entity: Yes
UniProt
Find proteins for Q9WUL7 (Mus musculus) Explore Q9WUL7  Go to UniProtKB:  Q9WUL7

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	F [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MES	E [auth A]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
NH4	D [auth A]	AMMONIUM ION H4 N QGZKDVFQNNGYKY-UHFFFAOYSA-O

Binding Affinity Annotations
ID	Source	Binding Affinity
GDP	Binding MOAD:  1FZQ	Kd: 24 (nM) from 1 assay(s)
	PDBBind:  1FZQ	Kd: 24 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.235 
• R-Value Work: 0.213 
• R-Value Observed: 0.215 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.421	α = 90
b = 64.583	β = 90
c = 40.386	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-12-06 
Deposition Author(s): Hillig, R.C., Hanzal-Bayer, M., Linari, M., Becker, J., Wittinghofer, A., Renault, L.

Revision History  

• Version 1.0: 2000-12-06
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-09
  Changes: Data collection, Database references, Derived calculations, Refinement description