2HXS | pdb_00002hxs

Crystal Structure of Rab28A GTPase in the Inactive (GDP-3'P-Bound) Form

• PDB DOI: https://doi.org/10.2210/pdb2HXS/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-08-03 Released: 2007-08-07 
• Deposition Author(s): Lee, S.H., Li, Y., Dominguez, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 
  0.184 (Depositor), 0.185 (DCC) 
• R-Value Work: 
  0.149 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.152 (Depositor) 

Starting Model: experimental

Literature

The Crystal Structure of Rab28 GTPase in Active and Inactive Forms

Lee, S.H., Li, Y., Dominguez, R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 20.53 kDa 
• Atom Count: 1,743 
• Modeled Residue Count: 178 
• Deposited Residue Count: 178 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ras-related protein Rab-28	A	178	Homo sapiens	Mutation(s): 0  Gene Names: RAB28 EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P51157 (Homo sapiens) Explore P51157  Go to UniProtKB:  P51157
PHAROS:  P51157 GTEx:  ENSG00000157869

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G3D	C [auth A]	GUANOSINE-3'-MONOPHOSPHATE-5'-DIPHOSPHATE C10 H16 N5 O14 P3 HEYSFDAMRDTCJM-UUOKFMHZSA-N
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free:  0.184 (Depositor), 0.185 (DCC) 
• R-Value Work:  0.149 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.152 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 30.51	α = 90
b = 56.621	β = 90
c = 85.109	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345dtb	data collection
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-08-07 
Deposition Author(s): Lee, S.H., Li, Y., Dominguez, R.

Revision History  

• Version 1.0: 2007-08-07
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description