4YQF | pdb_00004yqf

GTPase domain of Human Septin 9

• PDB DOI: https://doi.org/10.2210/pdb4YQF/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-03-13 Released: 2016-03-16 
• Deposition Author(s): Matos, S.O., Leonardo, D.A., Macedo, J.N., Pereira, H.M., Araujo, A.P.U., Garratt, R.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.73 Å
• R-Value Free: 
  0.249 (Depositor), 0.254 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.213 (DCC) 
• R-Value Observed: 
  0.210 (Depositor) 

Starting Model: experimental

Literature

GTPase domain of Human Septin 9

Matos, S.O., Leonardo, D.A., Macedo, J.N., Pereira, H.M., Araujo, A.P.U., Garratt, R.C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 68.23 kDa 
• Atom Count: 4,146 
• Modeled Residue Count: 508 
• Deposited Residue Count: 580 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Septin-9	A [auth B], B [auth A]	290	Homo sapiens	Mutation(s): 0  Gene Names: SEPT9, KIAA0991, MSF
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UHD8 (Homo sapiens) Explore Q9UHD8  Go to UniProtKB:  Q9UHD8
PHAROS:  Q9UHD8 GTEx:  ENSG00000184640

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP	C [auth B], E [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	D [auth B], F [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.73 Å
• R-Value Free:  0.249 (Depositor), 0.254 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.213 (DCC) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.04	α = 90
b = 77.523	β = 105.81
c = 77.909	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-03-16 
Deposition Author(s): Matos, S.O., Leonardo, D.A., Macedo, J.N., Pereira, H.M., Araujo, A.P.U., Garratt, R.C.

Revision History  

• Version 1.0: 2016-03-16
  Type: Initial release
  
• Version 1.1: 2017-11-01
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2026-03-04
  Changes: Refinement description, Structure summary