› 3q13

X-ray diffraction
1.95Å resolution

The Structure of the Ca2+-binding, Glycosylated F-spondin Domain of F-spondin, A C2-domain Variant from Extracellular Matrix

Released:
DOI: 10.2210/pdb3q13/pdb
PDB entry 3q13 coloured by chain, front view.
PDB entry 3q13 coloured by chain, side view.
PDB entry 3q13 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
The structure of the Ca²+-binding, glycosylated F-spondin domain of F-spondin - A C2-domain variant in an extracellular matrix protein.
Tan K, Lawler J
BMC Struct Biol 11 22 (2011)
PMID: 21569239

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-190771 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Spondin-1 Chain: A
Molecule details ›
Chain: A
Length: 258 amino acids
Theoretical weight: 28.93 KDa
Source organism: Homo sapiens
Expression system: Drosophila
UniProt:
  • Canonical: Q9HCB6 (Residues: 191-434; Coverage: 31%)
Gene names: KIAA0762, SPON1, VSGP
Sequence domains: Spondin_N
Structure domains: F-spondin domain

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
3 bound ligands:
Ligand CA 1 x CA
Ligand SO4 3 x SO4
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P622
Unit cell:
a: 120.244Å b: 120.244Å c: 86.362Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.169 0.167 0.21
Expression system: Drosophila

Quick links

Citations

5 citation in other articles

The extracellular matrix protein mindin attenuates colon cancer progression by blocking angiogenesis via Egr-1-mediated regulation.
Wang et al. (2018)
4 more

131 mentions without citation

Sp1- and Krüppel-like transcription factors.
Kaczynski et al. (2003)
130 more