6P7J | pdb_00006p7j

Crystal structure of Latency Associated Peptide unbound to TGF-beta1

• PDB DOI: https://doi.org/10.2210/pdb6P7J/pdb

• Classification: CYTOKINE
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2019-06-05 Released: 2020-03-11 
• Deposition Author(s): Stachowski, T.R., Snell, M.E., Snell, E.H.
• Funding Organization(s): National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 
  0.322 (Depositor) 
• R-Value Work: 
  0.288 (Depositor) 
• R-Value Observed: 
  0.290 (Depositor) 

Starting Model: experimental

Literature

Structural insights into conformational switching in latency-associated peptide between transforming growth factor beta-1 bound and unbound states

Stachowski, T.R., Snell, M.E., Snell, E.H.

(2020) IUCrJ 7: 238-252

• DOI: https://doi.org/10.1107/S205225251901707X

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: SAXS

Macromolecule Content 

• Total Structure Weight: 29.27 kDa 
• Atom Count: 1,298 
• Modeled Residue Count: 159 
• Deposited Residue Count: 255 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transforming growth factor beta-1 proprotein	A	255	Homo sapiens	Mutation(s): 1  Gene Names: TGFB1, TGFB
UniProt & NIH Common Fund Data Resources
Find proteins for P01137 (Homo sapiens) Explore P01137  Go to UniProtKB:  P01137
PHAROS:  P01137 GTEx:  ENSG00000105329

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free:  0.322 (Depositor) 
• R-Value Work:  0.288 (Depositor) 
• R-Value Observed: 0.290 (Depositor) 

Space Group: C 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.06	α = 90
b = 154.9	β = 90
c = 62.25	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MR-Rosetta	phasing
Aimless	data scaling
PDB_EXTRACT	data extraction
MOSFLM	data reduction

Structure Validation

Currently 6P7J does not have a validation slider image.

Entry History & Funding Information

Deposition Data

• Released Date: 2020-03-11 
Deposition Author(s): Stachowski, T.R., Snell, M.E., Snell, E.H.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	1231306

Revision History  

• Version 1.0: 2020-03-11
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary