2FTX

Crystal structure of the yeast kinetochore Spc24/Spc25 globular domain

• PDB DOI: https://doi.org/10.2210/pdb2FTX/pdb

• Classification: structural protein, protein binding
• Organism(s): Saccharomyces cerevisiae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-01-25 Released: 2006-06-13 
• Deposition Author(s): Wei, R.R., Harrison, S.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.226 
• R-Value Work: 0.209 
• R-Value Observed: 0.210 

Literature

Atomic Structure of the kinetochore Spc24p/Spc25p globular domain reveals a novel fold

Wei, R.R., Harrison, S.C., Schnell, J.R., Chou, J.J.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 17.68 kDa 
• Atom Count: 1,267 
• Modelled Residue Count: 149 
• Deposited Residue Count: 154 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical 25.2 kDa protein in AFG3-SEB2 intergenic region	A	90	Saccharomyces cerevisiae	Mutation(s): 2  Gene Names: YER018C
UniProt
Find proteins for P40014 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40014  Go to UniProtKB:  P40014

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical 24.6 kDa protein in ILV2-ADE17 intergenic region	B	64	Saccharomyces cerevisiae	Mutation(s): 0  Gene Names: YMR117C, YM9718.16C
UniProt
Find proteins for Q04477 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04477  Go to UniProtKB:  Q04477

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	D [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
NA	C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.226 
• R-Value Work: 0.209 
• R-Value Observed: 0.210 
• Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.907	α = 90
b = 84.907	β = 90
c = 93.195	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
SOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-06-13 
Deposition Author(s): Wei, R.R., Harrison, S.C.

Revision History  

• Version 1.0: 2006-06-13
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance