4AU3

Crystal Structure of a Hsp47-collagen complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Molecular Basis for the Action of the Collagen-Specific Chaperone Hsp47/Serpinh1 and its Structure-Specific Client Recognition.

Widmer, C.Gebauer, J.M.Brunstein, E.Rosenbaum, S.Zaucke, F.Drogemuller, C.Leeb, T.Baumann, U.

(2012) Proc.Natl.Acad.Sci.USA 109: 13243

  • DOI: 10.1073/pnas.1208072109
  • Primary Citation of Related Structures:  3ZHA, 4AU2, 4AU4, 4AWR, 4AXY

  • PubMed Abstract: 
  • Collagen is the most abundant protein in animals and is a major component of the extracellular matrix in tissues such as skin and bone. A distinctive structural feature of all collagen types is a unique triple-helical structure formed by tandem repea ...

    Collagen is the most abundant protein in animals and is a major component of the extracellular matrix in tissues such as skin and bone. A distinctive structural feature of all collagen types is a unique triple-helical structure formed by tandem repeats of the consensus sequence Xaa-Yaa-Gly, in which Xaa and Yaa frequently are proline and hydroxyproline, respectively. Hsp47/SERPINH1 is a procollagen-specific molecular chaperone that, unlike other chaperones, specifically recognizes the folded conformation of its client. Reduced functional levels of Hsp47 were reported in severe recessive forms of osteogenesis imperfecta, and homozygous knockout is lethal in mice. Here we present crystal structures of Hsp47 in its free form and in complex with homotrimeric synthetic collagen model peptides, each comprising one Hsp47-binding site represented by an arginine at the Yaa-position of a Xaa-Yaa-Gly triplet. Two of these three binding sites in the triple helix are occupied by Hsp47 molecules, which bind in a head-to-head fashion, thus making extensive contacts with the leading and trailing strands of the collagen triple helix. The important arginine residue within the Xaa-Arg-Gly triplet is recognized by a conserved aspartic acid. The structures explain the stabilization of the triple helix as well as the inhibition of collagen-bundle formation by Hsp47. In addition, we propose a pH-dependent substrate release mechanism based on a cluster of histidine residues.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, Vetsuisse Faculty University of Bern, CH-3012 Bern, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
SERPIN PEPTIDASE INHIBITOR, CLADE H (HEAT SHOCK PROTEIN 47 ), MEMBER 1, (COLLAGEN BINDING PROTEIN 1)
A, C, D
392Canis lupus familiarisGene Names: SERPINH1
Find proteins for E2RHY7 (Canis lupus familiaris)
Go to Gene View: SERPINH1
Go to UniProtKB:  E2RHY7
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
SERPYIN PEPTIDASE INHIBITOR, CLADE H (HEAT SHOCK PROTEIN 47 ), MEMBER 1, (COLLAGEN BINDING PROTEIN 1)
B
392Canis lupus familiarisGene Names: SERPINH1
Find proteins for E2RHY7 (Canis lupus familiaris)
Go to Gene View: SERPINH1
Go to UniProtKB:  E2RHY7
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
18ER COLLAGEN MODEL PEPTIDE 15-R8
E, F, G, H, I, J
20Homo sapiensGene Names: COL26A1 (EMID2, EMU2)
Find proteins for Q96A83 (Homo sapiens)
Go to Gene View: COL26A1
Go to UniProtKB:  Q96A83
Small Molecules
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
NH2
Query on NH2
E, F, G, H, I, J
NON-POLYMERH2 N

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MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
ACE
Query on ACE
E, F, G, H, I, J
NON-POLYMERC2 H4 O

--

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.203 
  • Space Group: P 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 101.260α = 90.00
b = 101.260β = 90.00
c = 366.980γ = 90.00
Software Package:
Software NamePurpose
XDSdata scaling
PHENIXphasing
SHELXEphasing
XDSdata reduction
BUSTERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-08-15
    Type: Initial release
  • Version 1.1: 2012-08-29
    Type: Database references