Biological Assembly 1  

 3D View: Structure | Electron Density | 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: 35.54 kDa 
• Atom Count: 2290 
• Residue Count: 278 
• Unique protein chains: 2

3UIK

crystal structure of human Survivin mutant K62Y/H80W in complex with H3(1-10) peptide

• DOI: 10.2210/pdb3UIK/pdb

• Classification: APOPTOSIS/APOPTOSIS INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-11-04 Released: 2012-02-01 
• Deposition Author(s): Du, J., Patel, D.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.281 
• R-Value Work: 0.219 
• R-Value Observed: 0.222 

Literature

Structural Basis for Recognition of H3T3ph and Smac/DIABLO N-terminal Peptides by Human Survivin.

Du, J., Kelly, A.E., Funabiki, H., Patel, D.J.

(2012) Structure 20: 185-195

• PubMed: 22244766 
• DOI: 10.1016/j.str.2011.12.001
• Primary Citation of Related Structures:  
  3UIG, 3UIH, 3UII, 3UIJ, 3UIK


• PubMed Abstract: 
  

Survivin is an inhibitor of apoptosis family protein implicated in apoptosis and mitosis. In apoptosis, it has been shown to recognize the Smac/DIABLO protein. It is also a component of the chromosomal passenger complex, a key player during mitosis. Recently, Survivin was identified in vitro and in vivo as the direct binding partner for phosphorylated Thr3 on histone H3 (H3T3ph). We have undertaken structural and binding studies to investigate the molecular basis underlying recognition of H3T3ph and Smac/DIABLO N-terminal peptides by Survivin. Our crystallographic studies establish recognition of N-terminal Ala in both complexes and identify intermolecular hydrogen-bonding interactions in the Survivin phosphate-binding pocket that contribute to H3T3ph mark recognition. In addition, our calorimetric data establish that Survivin binds tighter to the H3T3ph-containing peptide relative to the N-terminal Smac/DIABLO peptide, and this preference can be reversed through structure-guided mutations that increase the hydrophobicity of the phosphate-binding pocket.

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Organizational Affiliation: 

Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, NY 10065, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Baculoviral IAP repeat-containing protein 5	A, B	143	Homo sapiens	Mutation(s): 3  Gene Names: BIRC5, API4, IAP4
Find proteins for O15392 (Homo sapiens) Explore O15392  Go to UniProtKB:  O15392
NIH Common Fund Data Resources
PHAROS  O15392 GTEx  ENSG00000089685

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
histone H3(1-10) peptide	P, Q	10	N/A	Mutation(s): 0
Find proteins for P68431 (Homo sapiens) Explore P68431  Go to UniProtKB:  P68431
NIH Common Fund Data Resources
PHAROS  P68431 GTEx  ENSG00000197409GTEx  ENSG00000197153GTEx  ENSG00000278828GTEx  ENSG00000275714GTEx  ENSG00000273983GTEx  ENSG00000274750GTEx  ENSG00000275379GTEx  ENSG00000277775

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	A, B	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.281 
• R-Value Work: 0.219 
• R-Value Observed: 0.222 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 115.503	α = 90
b = 71.389	β = 128.73
c = 81.874	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-11-04 
• Released Date: 2012-02-01 
Deposition Author(s): Du, J., Patel, D.J.

Revision History 

• Version 1.0: 2012-02-01
  Type: Initial release