› 5yby

X-ray diffraction
1.43Å resolution

Structure of human Gliomedin

Released:
DOI: 10.2210/pdb5yby/pdb
PDB entry 5yby coloured by chain, front view.
PDB entry 5yby coloured by chain, side view.
PDB entry 5yby coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Liu H, Lin Z, Xu F

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180572 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Gliomedin shedded ectodomain Chain: A
Molecule details ›
Chain: A
Length: 251 amino acids
Theoretical weight: 28.74 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q6ZMI3 (Residues: 301-551; Coverage: 46%)
Gene names: COLM, GLDN, UNQ9339/PRO34011
Sequence domains: Olfactomedin-like domain

Ligands and Environments

5 bound ligands:
Ligand NA 4 x NA
Ligand NAG 3 x NAG
Ligand PO4 1 x PO4
Ligand EDO 2 x EDO
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P212121
Unit cell:
a: 46.88Å b: 81.573Å c: 66.194Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.151 0.15 0.169
Expression system: Homo sapiens

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