5HBA

Globular Domain of Zebrafish Complement 1qA protein

  • Classification: IMMUNE SYSTEM
  • Organism(s): Danio rerio
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2015-12-31 Released: 2016-07-27 
  • Deposition Author(s): Xia, C., Yuan, H., Chen, R.
  • Funding Organization(s): National Natural Science Foundation of China, the 973 Project of the China Ministry of Science and Technology, the open project of State Key Laboratory of Freshwater Ecology and Biotechnology

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.184 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal structure of zebrafish complement 1qA globular domain.

Yuan, H.Chen, R.Tariq, M.Liu, Y.Sun, Y.Xia, C.

(2016) Protein Sci 25: 1883-1889

  • DOI: https://doi.org/10.1002/pro.2980
  • Primary Citation of Related Structures:  
    5HBA

  • PubMed Abstract: 

    C1q contains three globular domains (C1qgD) that are the key functional component of the classical complement system. C1qgD can interact with important immune molecules, including IgG and C-reactive protein (CRP) to form defense systems to protect animals. Here, the first non-mammalian structure, zebrafish C1qA globular domain (Dare-C1qAgD) was solved. Although the overall architecture of Dare-C1qAgD is similar to human C1qA, residues involved in C1qBgD, C1qCgD, and CRP binding are somewhat different while residues involved in IgG binding are not present in zebrafish. The structure gives insight into how human and fish C1qA evolved from an ancestral protein.


  • Organizational Affiliation

    Department of Microbiology and Immunology, College of Veterinary Medicine, China Agricultural University, Beijing, 100193, People's Republic of China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized protein
A, B, C
134Danio rerioMutation(s): 0 
Gene Names: c1qa
UniProt
Find proteins for F1QFM5 (Danio rerio)
Explore F1QFM5 
Go to UniProtKB:  F1QFM5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF1QFM5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.184 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 50.347α = 90
b = 85.059β = 90
c = 95.56γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
HKL-2000phasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31230074
the 973 Project of the China Ministry of Science and TechnologyChina2013CB835302
the open project of State Key Laboratory of Freshwater Ecology and BiotechnologyChina2015FB14

Revision History  (Full details and data files)

  • Version 1.0: 2016-07-27
    Type: Initial release
  • Version 1.1: 2017-12-13
    Changes: Database references, Derived calculations
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Refinement description
  • Version 1.3: 2024-10-16
    Changes: Structure summary