1M9Z | pdb_00001m9z

CRYSTAL STRUCTURE OF HUMAN TGF-BETA TYPE II RECEPTOR LIGAND BINDING DOMAIN

• PDB DOI: https://doi.org/10.2210/pdb1M9Z/pdb

• Classification: HORMONE/GROWTH FACTOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-07-30 Released: 2002-09-11 
• Deposition Author(s): Boesen, C.C., Radaev, S., Motyka, S.A., Patamawenu, A., Sun, P.D.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free: 
  0.166 (Depositor) 
• R-Value Work: 
  0.156 (Depositor) 
• R-Value Observed: 
  0.156 (Depositor) 

Literature

THE 1.1A CRYSTAL STRUCTURE OF HUMAN TGF-BETA TYPE II RECEPTOR LIGAND BINDING DOMAIN

Boesen, C.C., Radaev, S., Motyka, S.A., Patamawenu, A., Sun, P.D.

(2002) Structure 10: 913-919

• PubMed: 12121646 
• DOI: https://doi.org/10.1016/s0969-2126(02)00780-3
• Primary Citation Related Structures: 
  1M9Z


• PubMed Abstract: 
  

  Transforming growth factor beta (TGF-beta) is involved in a wide range of biological functions including development, carcinogenesis, and immune regulation. Here we report the 1.1 A resolution crystal structure of human TGF-beta type II receptor ectodomain (TBRII). The overall structure of TBRII is similar to that of activin type II receptor ectodomain (ActRII) and bone morphogenic protein receptor type IA (BRIA). It displays a three-finger toxin fold with fingers formed by the beta strand pairs beta1-beta2, beta3-beta4, and beta5-beta6. The first finger in the TBRII is significantly longer than in ActRII and BRIA and folds tightly between the second finger and the C terminus. Surface charge distributions and hydrophobic patches predict potential TBRII binding sites.

---

Organizational Affiliation: 
• Structural Biology Section, Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, MD 20852, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 12.72 kDa 
• Atom Count: 1,011 
• Modeled Residue Count: 105 
• Deposited Residue Count: 111 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TGF-BETA RECEPTOR TYPE II	A	111	Homo sapiens	Mutation(s): 2  EC: 2.7.11.30
UniProt & NIH Common Fund Data Resources
Find proteins for P37173 (Homo sapiens) Explore P37173  Go to UniProtKB:  P37173
PHAROS:  P37173 GTEx:  ENSG00000163513

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.05 Å
• R-Value Free:  0.166 (Depositor) 
• R-Value Work:  0.156 (Depositor) 
• R-Value Observed: 0.156 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.471	α = 90
b = 40.658	β = 90
c = 76.154	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALEPACK	data scaling
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-09-11 
Deposition Author(s): Boesen, C.C., Radaev, S., Motyka, S.A., Patamawenu, A., Sun, P.D.

Revision History  

• Version 1.0: 2002-09-11
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2019-07-24
  Changes: Advisory, Data collection, Refinement description
• Version 1.4: 2021-10-27
  Changes: Advisory, Database references, Derived calculations
• Version 1.5: 2024-10-16
  Changes: Data collection, Structure summary