Biological Assembly 1  

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

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: 33.92 kDa 
• Atom Count: 2158 
• Modelled Residue Count: 275 
• Deposited Residue Count: 292 
• Unique protein chains: 1

3UEG

Crystal structure of human Survivin K62A mutant

• PDB DOI: 10.2210/pdb3UEG/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-10-30 Released: 2012-03-07 
• Deposition Author(s): Niedzialkowska, E., Porebski, P.J., Wang, F., Higgins, J.M., Stukenberg, P.T., Minor, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.239 
• R-Value Work: 0.191 
• R-Value Observed: 0.194 

Literature

Molecular basis for phosphospecific recognition of histone H3 tails by Survivin paralogues at inner centromeres.

Niedzialkowska, E., Wang, F., Porebski, P.J., Minor, W., Higgins, J.M., Stukenberg, P.T.

(2012) Mol Biol Cell 23: 1457-1466

• PubMed: 22357620 
• DOI: 10.1091/mbc.E11-11-0904
• Primary Citation of Related Structures:  
  3UEC, 3UED, 3UEE, 3UEF, 3UEG, 3UEH, 3UEI


• PubMed Abstract: 
  

Survivin, a subunit of the chromosome passenger complex (CPC), binds the N-terminal tail of histone H3, which is phosphorylated on T3 by Haspin kinase, and localizes the complex to the inner centromeres. We used x-ray crystallography to determine the residues of Survivin that are important in binding phosphomodified histone H3. Mutation of amino acids that interact with the histone N-terminus lowered in vitro tail binding affinity and reduced CPC recruitment to the inner centromere in cells, validating our solved structures. Phylogenetic analysis shows that nonmammalian vertebrates have two Survivin paralogues, which we name class A and B. A distinguishing feature of these paralogues is an H-to-R change in an amino acid that interacts with the histone T3 phosphate. The binding to histone tails of the human class A paralogue, which has a histidine at this position, is sensitive to changes around physiological pH, whereas Xenopus Survivin class B is less so. Our data demonstrate that Survivin paralogues have different characteristics of phosphospecific binding to threonine-3 of histone H3, providing new insight into the biology of the inner centromere.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Genetics, University of Virginia School of Medicine, Charlottesville, VA 22908, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Baculoviral IAP repeat-containing protein 5	A, B	146	Homo sapiens	Mutation(s): 1  Gene Names: API4, BIRC5, IAP4
UniProt & NIH Common Fund Data Resources
Find proteins for O15392 (Homo sapiens) Explore O15392  Go to UniProtKB:  O15392
PHAROS:  O15392

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	E [auth A]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
ZN	C [auth A], F [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
EDO	D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 0.239 
• R-Value Work: 0.191 
• R-Value Observed: 0.194 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.406	α = 90
b = 71.033	β = 130.71
c = 83.631	γ = 90

Software Package:

Software Name	Purpose
BLU-MAX	data collection
HKL-3000	phasing
MOLREP	phasing
REFMAC	refinement
Coot	model building
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-10-30 
• Released Date: 2012-03-07 
Deposition Author(s): Niedzialkowska, E., Porebski, P.J., Wang, F., Higgins, J.M., Stukenberg, P.T., Minor, W.

Revision History  

• Version 1.0: 2012-03-07
  Type: Initial release
  
• Version 1.1: 2012-07-25
  Changes: Database references
• Version 1.2: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary