6RTX

Crystal structure of the Patched-1 (PTCH1) ectodomain 1

• PDB DOI: https://doi.org/10.2210/pdb6RTX/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  mpstruc


• Deposited: 2019-05-27 Released: 2019-10-02 
• Deposition Author(s): Rudolf, A.F., Kowatsch, C., El Omari, K., Malinauskas, T., Kinnebrew, M., Ansell, T.B., Bishop, B., Pardon, E., Schwab, R.A., Qian, M., Duman, R., Covey, D.F., Steyaert, J., Wagner, A., Sansom, M.S.P., Rohatgi, R., Siebold, C.
• Funding Organization(s): Cancer Research UK, European Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.257 
• R-Value Work: 0.196 
• R-Value Observed: 0.199 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 35.11 kDa 
• Atom Count: 2,280 
• Modelled Residue Count: 267 
• Deposited Residue Count: 302 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein patched homolog 1	A	302	Homo sapiens	Mutation(s): 0  Gene Names: PTCH1, PTCH Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q13635 (Homo sapiens) Explore Q13635  Go to UniProtKB:  Q13635
PHAROS:  Q13635 GTEx:  ENSG00000185920

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A], C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.257 
• R-Value Work: 0.196 
• R-Value Observed: 0.199 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.17	α = 90
b = 65.68	β = 90
c = 100.28	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-10-02 
Deposition Author(s): Rudolf, A.F., Kowatsch, C., El Omari, K., Malinauskas, T., Kinnebrew, M., Ansell, T.B., Bishop, B., Pardon, E., Schwab, R.A., Qian, M., Duman, R., Covey, D.F., Steyaert, J., Wagner, A., Sansom, M.S.P., Rohatgi, R., Siebold, C.

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Funding Organization	Location	Grant Number
Cancer Research UK	United Kingdom	C20724/A14414
Cancer Research UK	United Kingdom	C20724/A26752
European Research Council	United Kingdom	647278

Revision History  

• Version 1.0: 2019-10-02
  Type: Initial release
  
• Version 1.1: 2019-10-09
  Changes: Data collection, Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.3: 2024-01-24
  Changes: Data collection, Database references, Refinement description, Structure summary