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: 79.64 kDa 
• Atom Count: 5184 
• Modelled Residue Count: 639 
• Deposited Residue Count: 688 
• Unique protein chains: 1

4U04

Structure of a eukaryotic fic domain containing protein

• PDB DOI: 10.2210/pdb4U04/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-07-11 Released: 2014-12-10 
• Deposition Author(s): Cole, A.R., Bunney, T.D., Katan, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free: 0.245 
• R-Value Work: 0.218 
• R-Value Observed: 0.219 

Literature

Crystal structure of the human, FIC-domain containing protein HYPE and implications for its functions.

Bunney, T.D., Cole, A.R., Broncel, M., Esposito, D., Tate, E.W., Katan, M.

(2014) Structure 22: 1831-1843

• PubMed: 25435325 
• DOI: 10.1016/j.str.2014.10.007
• Primary Citation of Related Structures:  
  4U04, 4U07, 4U0S, 4U0U, 4U0Z


• PubMed Abstract: 
  

Protein AMPylation, the transfer of AMP from ATP to protein targets, has been recognized as a new mechanism of host-cell disruption by some bacterial effectors that typically contain a FIC-domain. Eukaryotic genomes also encode one FIC-domain protein,HYPE, which has remained poorly characterized.Here we describe the structure of human HYPE, solved by X-ray crystallography, representing the first structure of a eukaryotic FIC-domain protein. We demonstrate that HYPE forms stable dimers with structurally and functionally integrated FIC-domains and with TPR-motifs exposed for protein-protein interactions. As HYPE also uniquely possesses a transmembrane helix, dimerization is likely to affect its positioning and function in the membrane vicinity. The low rate of auto AMPylation of the wild-type HYPE could be due to autoinhibition, consistent with the mechanism proposed for a number of putative FIC AMPylators. Our findings also provide a basis to further consider possible alternative cofactors of HYPE and distinct modes of target-recognition.

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Organizational Affiliation: 

Division of Biosciences, Institute of Structural and Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenosine monophosphate-protein transferase FICD	A, B	344	Homo sapiens	Mutation(s): 0  Gene Names: FICD, HIP13, HYPE, UNQ3041/PRO9857 EC: 2.7.7 (PDB Primary Data), 3.1.4 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BVA6 (Homo sapiens) Explore Q9BVA6  Go to UniProtKB:  Q9BVA6
PHAROS:  Q9BVA6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	D [auth A], E [auth B]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
TAR	C [auth A]	D(-)-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-LWMBPPNESA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.48 Å
• R-Value Free: 0.245 
• R-Value Work: 0.218 
• R-Value Observed: 0.219 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.186	α = 90
b = 76.809	β = 108.05
c = 93.195	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-07-11 
• Released Date: 2014-12-10 
Deposition Author(s): Cole, A.R., Bunney, T.D., Katan, M.

Revision History  

• Version 1.0: 2014-12-10
  Type: Initial release
  
• Version 1.1: 2015-02-04
  Changes: Database references