7POI

Prodomain bound BMP10 crystal form 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.221 

wwPDB Validation 

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This is version 1.0 of the entry. See complete history


Literature

Crystal structures of BMPRII extracellular domain in binary and ternary receptor complexes with BMP10.

Guo, J.Liu, B.Thorikay, M.Yu, M.Li, X.Tong, Z.Salmon, R.M.Read, R.J.Ten Dijke, P.Morrell, N.W.Li, W.

(2022) Nat Commun 13: 2395-2395

  • DOI: 10.1038/s41467-022-30111-2
  • Primary Citation of Related Structures:  
    7POI, 7POJ, 7PPA, 7PPB, 7PPC

  • PubMed Abstract: 
  • Heterozygous mutations in BMPR2 (bone morphogenetic protein (BMP) receptor type II) cause pulmonary arterial hypertension. BMPRII is a receptor for over 15 BMP ligands, but why BMPR2 mutations cause lung-specific pathology is unknown. To elucidate the molecular basis of BMP:BMPRII interactions, we report crystal structures of binary and ternary BMPRII receptor complexes with BMP10, which contain an ensemble of seven different BMP10:BMPRII 1:1 complexes ...

    Heterozygous mutations in BMPR2 (bone morphogenetic protein (BMP) receptor type II) cause pulmonary arterial hypertension. BMPRII is a receptor for over 15 BMP ligands, but why BMPR2 mutations cause lung-specific pathology is unknown. To elucidate the molecular basis of BMP:BMPRII interactions, we report crystal structures of binary and ternary BMPRII receptor complexes with BMP10, which contain an ensemble of seven different BMP10:BMPRII 1:1 complexes. BMPRII binds BMP10 at the knuckle epitope, with the A-loop and β4 strand making BMPRII-specific interactions. The BMPRII binding surface on BMP10 is dynamic, and the affinity is weaker in the ternary complex than in the binary complex. Hydrophobic core and A-loop interactions are important in BMPRII-mediated signalling. Our data reveal how BMPRII is a low affinity receptor, implying that forming a signalling complex requires high concentrations of BMPRII, hence mutations will impact on tissues with highest BMPR2 expression such as the lung vasculature.


    Organizational Affiliation

    Department of Medicine, University of Cambridge School of Clinical Medicine, Cambridge, CB2 0QQ, United Kingdom. wl225@cam.ac.uk.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Bone morphogenetic protein 10A, B108Homo sapiensMutation(s): 0 
Gene Names: BMP10
UniProt & NIH Common Fund Data Resources
Find proteins for O95393 (Homo sapiens)
Explore O95393 
Go to UniProtKB:  O95393
PHAROS:  O95393
GTEx:  ENSG00000163217 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO95393
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Bone morphogenetic protein 10C, D295Homo sapiensMutation(s): 0 
Gene Names: BMP10
UniProt & NIH Common Fund Data Resources
Find proteins for O95393 (Homo sapiens)
Explore O95393 
Go to UniProtKB:  O95393
PHAROS:  O95393
GTEx:  ENSG00000163217 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO95393
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
F [auth C],
G [auth D]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
TAR
Query on TAR

Download Ideal Coordinates CCD File 
E [auth B]D(-)-TARTARIC ACID
C4 H6 O6
FEWJPZIEWOKRBE-LWMBPPNESA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.221 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.897α = 90
b = 214.041β = 90
c = 106.967γ = 90
Software Package:
Software NamePurpose
DIALSdata reduction
Aimlessdata scaling
PHASERphasing
PHENIXrefinement

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Deposited Date: 2021-09-09 
  • Released Date: 2022-05-11 
  • Deposition Author(s): Guo, J., Yu, M., Li, W.

Funding OrganizationLocationGrant Number
British Heart FoundationUnited KingdomPG/12/54/29734, PG/17/1/32532, FS/SBSRF/20/31005

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-11
    Type: Initial release