6O6W

Solution structure of human myeloid-derived growth factor


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 

wwPDB Validation 3D Report Full Report



Literature

Solution structure of human myeloid-derived growth factor suggests a conserved function in the endoplasmic reticulum.

Bortnov, V.Tonelli, M.Lee, W.Lin, Z.Annis, D.S.Demerdash, O.N.Bateman, A.Mitchell, J.C.Ge, Y.Markley, J.L.Mosher, D.F.

(2019) Nat Commun 10: 5612-5612

  • DOI: 10.1038/s41467-019-13577-5
  • Primary Citation of Related Structures:  
    6O6W

  • PubMed Abstract: 
  • Human myeloid-derived growth factor (hMYDGF) is a 142-residue protein with a C-terminal endoplasmic reticulum (ER) retention sequence (ERS). Extracellular MYDGF mediates cardiac repair in mice after anoxic injury. Although homologs of hMYDGF are foun ...

    Human myeloid-derived growth factor (hMYDGF) is a 142-residue protein with a C-terminal endoplasmic reticulum (ER) retention sequence (ERS). Extracellular MYDGF mediates cardiac repair in mice after anoxic injury. Although homologs of hMYDGF are found in eukaryotes as distant as protozoans, its structure and function are unknown. Here we present the NMR solution structure of hMYDGF, which consists of a short α-helix and ten β-strands distributed in three β-sheets. Conserved residues map to the unstructured ERS, loops on the face opposite the ERS, and the surface of a cavity underneath the conserved loops. The only protein or portion of a protein known to have a similar fold is the base domain of VNN1. We suggest, in analogy to the tethering of the VNN1 nitrilase domain to the plasma membrane via its base domain, that MYDGF complexed to the KDEL receptor binds cargo via its conserved residues for transport to the ER.


    Organizational Affiliation

    Department of Medicine, University of Wisconsin-Madison, Madison, WI, 53706, USA. dfmosher@wisc.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Myeloid-derived growth factorA147Homo sapiensMutation(s): 0 
Gene Names: MYDGFC19orf10
Find proteins for Q969H8 (Homo sapiens)
Explore Q969H8 
Go to UniProtKB:  Q969H8
NIH Common Fund Data Resources
PHAROS  Q969H8
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: all calculated structures submitted 
  • OLDERADO: 6O6W Olderado

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States5R01AI125390-03

Revision History 

  • Version 1.0: 2019-11-13
    Type: Initial release
  • Version 1.1: 2019-12-18
    Changes: Author supporting evidence
  • Version 1.2: 2019-12-25
    Changes: Database references
  • Version 2.0: 2020-07-15
    Changes: Atomic model, Data collection, Derived calculations, Source and taxonomy