Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 119.75 kDa 
• Atom Count: 7335 
• Modelled Residue Count: 910 
• Deposited Residue Count: 1032 
• Unique protein chains: 2

3FM8

Crystal structure of full length centaurin alpha-1 bound with the FHA domain of KIF13B (CAPRI target)

• DOI: 10.2210/pdb3FM8/pdb

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


• Deposited: 2008-12-19 Released: 2009-08-25 
• Deposition Author(s): Shen, L., Tong, Y., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.272 
• R-Value Work: 0.231 
• R-Value Observed: 0.232 

Literature

Phosphorylation-independent dual-site binding of the FHA domain of KIF13 mediates phosphoinositide transport via centaurin alpha1.

Tong, Y., Tempel, W., Wang, H., Yamada, K., Shen, L., Senisterra, G.A., MacKenzie, F., Chishti, A.H., Park, H.W.

(2010) Proc Natl Acad Sci U S A 107: 20346-20351

• PubMed: 21057110 
• DOI: 10.1073/pnas.1009008107
• Primary Citation of Related Structures:  
  3FEH, 3FM8, 3LJU


• PubMed Abstract: 
  

Phosphatidylinositol 3,4,5-triphosphate (PIP3) plays a key role in neuronal polarization and axon formation. PIP3-containing vesicles are transported to axon tips by the kinesin KIF13B via an adaptor protein, centaurin α1 (CENTA1). KIF13B interacts with CENTA1 through its forkhead-associated (FHA) domain. We solved the crystal structures of CENTA1 in ligand-free, KIF13B-FHA domain-bound, and PIP3 head group (IP4)-bound conformations, and the CENTA1/KIF13B-FHA/IP4 ternary complex. The first pleckstrin homology (PH) domain of CENTA1 specifically binds to PIP3, while the second binds to both PIP3 and phosphatidylinositol 3,4-biphosphate (PI(3,4)P(2)). The FHA domain of KIF13B interacts with the PH1 domain of one CENTA1 molecule and the ArfGAP domain of a second CENTA1 molecule in a threonine phosphorylation-independent fashion. We propose that full-length KIF13B and CENTA1 form heterotetramers that can bind four phosphoinositide molecules in the vesicle and transport it along the microtubule.

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Organizational Affiliation: 

Structural Genomics Consortium, University of Toronto, Toronto, ON M5G 1L7, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Kinesin-like protein KIF13B	A, B	124	Homo sapiens	Mutation(s): 0  Gene Names: KIF13B, GAKIN, KIAA0639
Find proteins for Q9NQT8 (Homo sapiens) Explore Q9NQT8  Go to UniProtKB:  Q9NQT8
NIH Common Fund Data Resources
PHAROS:  Q9NQT8 GTEx:  ENSG00000197892

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Centaurin-alpha-1	C, D	392	Homo sapiens	Mutation(s): 0  Gene Names: CENTA1, ADAP1
Find proteins for O75689 (Homo sapiens) Explore O75689  Go to UniProtKB:  O75689
NIH Common Fund Data Resources
GTEx:  ENSG00000105963

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C, D	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	C, D	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
UNX	A, B, C, D	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.272 
• R-Value Work: 0.231 
• R-Value Observed: 0.232 
• Space Group: P 4₁ 2₁ 2
• Diffraction Data DOI: 10.18430/m33fm8 Protein Diffraction

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 115.632	α = 90
b = 115.632	β = 90
c = 189.291	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-12-19 
• Released Date: 2009-08-25 
Deposition Author(s): Shen, L., Tong, Y., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2009-08-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2013-09-25
  Changes: Derived calculations
• Version 1.3: 2017-11-01
  Changes: Refinement description