8B8O | pdb_00008b8o

Crystal structure of Scribble PDZ1 with human papillomavirus strain 16 E6 peptide

• PDB DOI: https://doi.org/10.2210/pdb8B8O/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens, human papillomavirus 66
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-10-04 Released: 2023-10-18 
• Deposition Author(s): Stewart, B.Z., Kvansakul, M.
• Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia), Australian Research Council (ARC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.289 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.270 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.271 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Scribble PDZ1 with human papillomavirus strain 16 E6 peptide

Stewart, B.Z., Caria, S., Humbert, P.O., Kvansakul, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: isothermal titration calorimetry

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 22.45 kDa 
• Atom Count: 1,422 
• Modeled Residue Count: 192 
• Deposited Residue Count: 212 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein scribble homolog	A [auth B], B [auth A]	96	Homo sapiens	Mutation(s): 0  Gene Names: SCRIB, CRIB1, KIAA0147, LAP4, SCRB1, VARTUL
UniProt & NIH Common Fund Data Resources
Find proteins for Q14160 (Homo sapiens) Explore Q14160  Go to UniProtKB:  Q14160
PHAROS:  Q14160 GTEx:  ENSG00000180900

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein E6	C, D	10	human papillomavirus 66	Mutation(s): 0
UniProt
Find proteins for Q80955 (Human papillomavirus 66) Explore Q80955  Go to UniProtKB:  Q80955

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth B], F [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.289 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.270 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.271 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.091	α = 90
b = 90.992	β = 91.93
c = 36.356	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-10-18 
Deposition Author(s): Stewart, B.Z., Kvansakul, M.

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Funding Organization	Location	Grant Number
National Health and Medical Research Council (NHMRC, Australia)	Australia	APP1103871
Australian Research Council (ARC)	Australia	FT130101349

Revision History  

• Version 1.0: 2023-10-18
  Type: Initial release
  
• Version 1.1: 2026-03-04
  Changes: Refinement description, Structure summary