Crystal structure of C1QL3 in P1 space group

Experimental Data Snapshot

  • Resolution: 2.39 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report

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Structures of C1q-like Proteins Reveal Unique Features among the C1q/TNF Superfamily.

Ressl, S.Vu, B.K.Vivona, S.Martinelli, D.C.Sudhof, T.C.Brunger, A.T.

(2015) Structure 23: 688-699

  • DOI: https://doi.org/10.1016/j.str.2015.01.019
  • Primary Citation of Related Structures:  
    4QPY, 4QQ2, 4QQH, 4QQL, 4QQO, 4QQP

  • PubMed Abstract: 

    C1q-like (C1QL) -1, -2, and -3 proteins are encoded by homologous genes that are highly expressed in brain. C1QLs bind to brain-specific angiogenesis inhibitor 3 (BAI3), an adhesion-type G-protein coupled receptor that may regulate dendritic morphology by organizing actin filaments. To begin to understand the function of C1QLs, we determined high-resolution crystal structures of the globular C1q-domains of C1QL1, C1QL2, and C1QL3. Each structure is a trimer, with each protomer forming a jelly-roll fold consisting of 10 β strands. Moreover, C1QL trimers may assemble into higher-order oligomers similar to adiponectin and contain four Ca(2+)-binding sites along the trimeric symmetry axis, as well as additional surface Ca(2+)-binding sites. Mutation of Ca(2+)-coordinating residues along the trimeric symmetry axis lowered the Ca(2+)-binding affinity and protein stability. Our results reveal unique structural features of C1QLs among C1q/TNF superfamily proteins that may be associated with their specific brain functions.

  • Organizational Affiliation

    Department of Molecular and Cellular Physiology, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford, CA 94305, USA; Departments of Neurology and Neurological Sciences, Photon Science, and Structural Biology, Stanford University, Stanford, CA 94305, USA. Electronic address: brunger@stanford.edu.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Complement C1q-like protein 3
A, B, C, D, E
A, B, C, D, E, F, G, H, I
137Mus musculusMutation(s): 0 
Gene Names: C1ql3C1qlCtrp13
UniProt & NIH Common Fund Data Resources
Find proteins for Q9ESN4 (Mus musculus)
Explore Q9ESN4 
Go to UniProtKB:  Q9ESN4
IMPC:  MGI:2387350
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9ESN4
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on MG

Download Ideal Coordinates CCD File 
AA [auth F]
BA [auth G]
CA [auth H]
DA [auth H]
EA [auth H]
AA [auth F],
BA [auth G],
CA [auth H],
DA [auth H],
EA [auth H],
FA [auth I],
GA [auth I],
J [auth A],
K [auth A],
L [auth A],
M [auth B],
N [auth B],
O [auth B],
P [auth C],
Q [auth D],
R [auth D],
S [auth D],
T [auth D],
U [auth D],
V [auth E],
W [auth E],
X [auth E],
Y [auth E],
Z [auth F]
Experimental Data & Validation

Experimental Data

  • Resolution: 2.39 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.226 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.59α = 61.44
b = 82.6β = 84.5
c = 86.2γ = 74.93
Software Package:
Software NamePurpose

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-04-22
    Type: Initial release