5W87

Crystal structure of the C-terminal lobe of the human HERC6 HECT domain

• PDB DOI: https://doi.org/10.2210/pdb5W87/pdb

• Classification: TRANSFERASE/LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2017-06-21 Released: 2018-07-04 
• Deposition Author(s): WANG, Y., BELLESIS, A.G., ROYER, W.E., SPRATT, D.E.
• Funding Organization(s): Clark University start-up funds

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.243 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 

Literature

Crystal structure of the C-terminal lobe of the human HERC6 HECT domain

WANG, Y., BELLESIS, A.G., ROYER, W.E., SPRATT, D.E.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 28.86 kDa 
• Atom Count: 1,561 
• Modelled Residue Count: 191 
• Deposited Residue Count: 242 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable E3 ubiquitin-protein ligase HERC6	A, B	121	Homo sapiens	Mutation(s): 1  Gene Names: HERC6 EC: 2.3.2.26
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IVU3 (Homo sapiens) Explore Q8IVU3  Go to UniProtKB:  Q8IVU3
PHAROS:  Q8IVU3 GTEx:  ENSG00000138642

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.243 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.579	α = 90
b = 74.579	β = 90
c = 114.89	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data collection
HKL-3000	data scaling
PHENIX	phasing
HKL-3000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-07-04 
Deposition Author(s): WANG, Y., BELLESIS, A.G., ROYER, W.E., SPRATT, D.E.

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Funding Organization	Location	Grant Number
Clark University start-up funds	United States	--

Revision History  

• Version 1.0: 2018-07-04
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references, Refinement description