5CKQ | pdb_00005ckq

CUB1-EGF-CUB2 domains of rat MASP-1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free: 
    0.294 (Depositor), 0.306 (DCC) 
  • R-Value Work: 
    0.247 (Depositor), 0.256 (DCC) 
  • R-Value Observed: 
    0.250 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.6 of the entry. See complete history

Literature

Flexibility in Mannan-Binding Lectin-Associated Serine Proteases-1 and -2 Provides Insight on Lectin Pathway Activation.

Nan, R.Furze, C.M.Wright, D.W.Gor, J.Wallis, R.Perkins, S.J.

(2017) Structure 25: 364-375

  • DOI: https://doi.org/10.1016/j.str.2016.12.014
  • Primary Citation Related Structures: 
    5CIS, 5CKM, 5CKN, 5CKQ

  • PubMed Abstract: 

    The lectin pathway of complement is activated by complexes comprising a recognition component (mannose-binding lectin, serum ficolins, collectin-LK or collectin-K1) and a serine protease (MASP-1 or MASP-2). MASP-1 activates MASP-2, and MASP-2 cleaves C4 and C4b-bound C2. To clarify activation, new crystal structures of Ca 2+ -bound MASP dimers were determined, together with their solution structures from X-ray scattering, analytical ultracentrifugation, and atomistic modeling. Solution structures of the CUB1-EGF-CUB2 dimer of each MASP indicate that the two CUB2 domains were tilted by as much as 90° compared with the crystal structures, indicating considerable flexibility at the EGF-CUB2 junction. Solution structures of the full-length MASP dimers in their zymogen and activated forms revealed similar structures that were much more bent than anticipated from crystal structures. We conclude that MASP-1 and MASP-2 are flexible at multiple sites and that this flexibility may permit both intra- and inter-complex activation.


  • Organizational Affiliation
    • Department of Structural and Molecular Biology, Division of Biosciences, University College London, Darwin Building, Gower Street, London WC1E 6BT, UK.

Macromolecule Content 

  • Total Structure Weight: 32.48 kDa 
  • Atom Count: 2,271 
  • Modeled Residue Count: 276 
  • Deposited Residue Count: 276 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Mannan-binding lectin serine protease 1276Rattus norvegicusMutation(s): 0 
Gene Names: Masp1CrarfMasp3
EC: 3.4.21
UniProt
Find proteins for Q8CHN8 (Rattus norvegicus)
Explore Q8CHN8 
Go to UniProtKB:  Q8CHN8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8CHN8
Glycosylation
Glycosylation Sites: 2Go to GlyGen: Q8CHN8-1
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free:  0.294 (Depositor), 0.306 (DCC) 
  • R-Value Work:  0.247 (Depositor), 0.256 (DCC) 
  • R-Value Observed: 0.250 (Depositor) 
Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 152.71α = 90
b = 152.71β = 90
c = 152.71γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PHASERphasing
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMR/K011715/1
Engineering and Physical Sciences Research CouncilUnited KingdomEP/K039121/1

Revision History  (Full details and data files)

  • Version 1.0: 2017-01-18
    Type: Initial release
  • Version 1.1: 2017-02-01
    Changes: Database references
  • Version 1.2: 2017-02-15
    Changes: Database references
  • Version 1.3: 2017-09-13
    Changes: Author supporting evidence
  • Version 1.4: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.5: 2024-01-10
    Changes: Data collection, Database references, Refinement description, Structure summary
  • Version 1.6: 2024-10-23
    Changes: Structure summary