Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

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

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

Macromolecule Content

• Total Structure Weight: 28.13 kDa 
• Atom Count: 2201 
• Modelled Residue Count: 237 
• Deposited Residue Count: 246 
• Unique protein chains: 1

4DZO

Structure of Human Mad1 C-terminal Domain Reveals Its Involvement in Kinetochore Targeting

• PDB DOI: 10.2210/pdb4DZO/pdb

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


• Deposited: 2012-03-01 Released: 2012-04-11 
• Deposition Author(s): Luo, X., Sun, H., Tomchick, D.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.197 
• R-Value Work: 0.160 
• R-Value Observed: 0.164 

Literature

Structure of human Mad1 C-terminal domain reveals its involvement in kinetochore targeting.

Kim, S., Sun, H., Tomchick, D.R., Yu, H., Luo, X.

(2012) Proc Natl Acad Sci U S A 109: 6549-6554

• PubMed: 22493223 
• DOI: 10.1073/pnas.1118210109
• Primary Citation of Related Structures:  
  4DZO


• PubMed Abstract: 
  

The spindle checkpoint prevents aneuploidy by delaying anaphase onset until all sister chromatids achieve proper microtubule attachment. The kinetochore-bound checkpoint protein complex Mad1-Mad2 promotes the conformational activation of Mad2 and serves as a catalytic engine of checkpoint signaling. How Mad1 is targeted to kinetochores is not understood. Here, we report the crystal structure of the conserved C-terminal domain (CTD) of human Mad1. Mad1 CTD forms a homodimer and, unexpectedly, has a fold similar to those of the kinetochore-binding domains of Spc25 and Csm1. Nonoverlapping Mad1 fragments retain detectable kinetochore targeting. Deletion of the CTD diminishes, does not abolish, Mad1 kinetochore localization. Mutagenesis studies further map the functional interface of Mad1 CTD in kinetochore targeting and implicate Bub1 as its receptor. Our results indicate that CTD is a part of an extensive kinetochore-binding interface of Mad1, and rationalize graded kinetochore targeting of Mad1 during checkpoint signaling.

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Related Citations: 

• Protein metamorphosis: the two-state behavior of Mad2.
  Luo, X., Yu, H.
  (2008) Structure 16: 1616

• The Mad2 spindle checkpoint protein has two distinct natively folded states.
  Luo, X., Tang, Z., Xia, G., Wassmann, K., Matsumoto, T., Rizo, J., Yu, H.
  (2004) Nat Struct Mol Biol 11: 338

• The Mad2 spindle checkpoint protein undergoes similar major conformational changes upon binding to either Mad1 or Cdc20.
  Luo, X., Tang, Z., Rizo, J., Yu, H.
  (2002) Mol Cell 9: 59

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Organizational Affiliation: 

Department of Pharmacology, University of Texas Southwestern Medical Center, 6001 Forest Park Road, Dallas, TX 75390, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitotic spindle assembly checkpoint protein MAD1	A, B	123	Homo sapiens	Mutation(s): 0  Gene Names: MAD1, MAD1L1, TXBP181
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y6D9 (Homo sapiens) Explore Q9Y6D9  Go to UniProtKB:  Q9Y6D9
PHAROS:  Q9Y6D9 GTEx:  ENSG00000002822

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.76 Å
• R-Value Free: 0.197 
• R-Value Work: 0.160 
• R-Value Observed: 0.164 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.767	α = 90
b = 44.767	β = 90
c = 211.056	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-03-01 
• Released Date: 2012-04-11 
Deposition Author(s): Luo, X., Sun, H., Tomchick, D.R.

Revision History  

• Version 1.0: 2012-04-11
  Type: Initial release
  
• Version 1.1: 2012-05-09
  Changes: Database references
• Version 1.2: 2017-11-15
  Changes: Refinement description
• Version 1.3: 2018-01-24
  Changes: Data collection