3T34

Arabidopsis thaliana dynamin-related protein 1A (AtDRP1A) in prefission state

• PDB DOI: https://doi.org/10.2210/pdb3T34/pdb

• Classification: MOTOR PROTEIN
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-07-24 Released: 2012-06-06 
• Deposition Author(s): Yan, L.M., Ma, Y.Y., Sun, Y.N., Lou, Z.Y.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.284 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.236 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.239 (Depositor) 

Starting Model: experimental

Literature

Structural basis for mechanochemical role of Arabidopsis thaliana dynamin-related protein in membrane fission

Yan, L.M., Ma, Y.Y., Sun, Y.N., Gao, J., Chen, X., Liu, J., Wang, C., Rao, Z., Lou, Z.Y.

(2011) J Mol Cell Biol 3: 378-381

• PubMed: 22107825 
• DOI: https://doi.org/10.1093/jmcb/mjr032
• Primary Citation of Related Structures:  
  3T34, 3T35

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 81.01 kDa 
• Atom Count: 5,705 
• Modelled Residue Count: 676 
• Deposited Residue Count: 720 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynamin-related protein 1A, LINKER, Dynamin-related protein 1A	A, B	360	Arabidopsis thaliana	Mutation(s): 0  EC: 3.6.5
UniProt
Find proteins for P42697 (Arabidopsis thaliana) Explore P42697  Go to UniProtKB:  P42697

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	C [auth A], G [auth B]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
ALF	D [auth A], H [auth B]	TETRAFLUOROALUMINATE ION Al F4 UYOMQIYKOOHAMK-UHFFFAOYSA-J
MG	E [auth A], I [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
NA	F [auth A], J [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.284 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.236 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.239 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.471	α = 90
b = 86.407	β = 90.55
c = 88.485	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-06 
Deposition Author(s): Yan, L.M., Ma, Y.Y., Sun, Y.N., Lou, Z.Y.

Revision History  

• Version 1.0: 2012-06-06
  Type: Initial release
  
• Version 1.1: 2017-06-28
  Changes: Source and taxonomy
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description