› 4xmm

X-ray diffraction
7.38Å resolution

Structure of the yeast coat nucleoporin complex, space group C2

Released:
DOI: 10.2210/pdb4xmm/pdb
PDB entry 4xmm coloured by chain, front view.
PDB entry 4xmm coloured by chain, side view.
PDB entry 4xmm coloured by chain, top view.
Source organisms:
Primary publication:
Nuclear pores. Architecture of the nuclear pore complex coat.
Stuwe T, Correia AR, Lin DH, Paduch M, Lu VT, Kossiakoff AA, Hoelz A
Science 347 1148-52 (2015)
PMID: 25745173

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
PDBe Complex ID:
PDB-CPX-229948 (preferred)
Entry contents:
8 distinct polypeptide molecules
Macromolecules (8 distinct):
Protein transport protein SEC13 Chain: A
Molecule details ›
Chain: A
Length: 297 amino acids
Theoretical weight: 33.08 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: Q04491 (Residues: 1-297; Coverage: 100%)
Gene names: ANU3, L8167.4, SEC13, YLR208W
Sequence domains: WD domain, G-beta repeat
Nucleoporin NUP145C Chain: B
Molecule details ›
Chain: B
Length: 652 amino acids
Theoretical weight: 74.62 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P49687 (Residues: 680-1317; Coverage: 48%)
Gene names: NUP145, RAT10, YGL092W
Sequence domains: Nuclear protein 96
Nucleoporin SEH1 Chain: C
Molecule details ›
Chain: C
Length: 349 amino acids
Theoretical weight: 39.17 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P53011 (Residues: 1-349; Coverage: 100%)
Gene names: SEH1, YGL100W
Sequence domains: WD domain, G-beta repeat
Nucleoporin NUP85 Chain: D
Molecule details ›
Chain: D
Length: 715 amino acids
Theoretical weight: 81.57 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P46673 (Residues: 44-744; Coverage: 94%)
Gene names: J1624, NUP85, RAT9, YJR042W
Sequence domains: Nup85 Nucleoporin
Nucleoporin NUP120 Chain: E
Molecule details ›
Chain: E
Length: 1045 amino acids
Theoretical weight: 121.58 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P35729 (Residues: 2-1037; Coverage: 100%)
Gene names: NUP120, RAT2, YKL057C, YKL313, YKL314
Nucleoporin NUP84 Chain: F
Molecule details ›
Chain: F
Length: 454 amino acids
Theoretical weight: 52.06 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P52891 (Residues: 1-451; Coverage: 62%)
Gene names: NUP84, YDL116W
Sequence domains: Nuclear pore protein 84 / 107
Antibody 57 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 271 amino acids
Theoretical weight: 28.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
Antibody 57 light chain Chain: L
Molecule details ›
Chain: L
Length: 217 amino acids
Theoretical weight: 23.59 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: C2
Unit cell:
a: 210.645Å b: 186.297Å c: 199.57Å
α: 90° β: 100.85° γ: 90°
R-values:
R R work R free
0.332 0.33 0.353
Expression system: Escherichia coli

Quick links

Citations

18 review citations

The nuclear pore complex: understanding its function through structural insight.
Beck et al. (2017)
17 more

9 mentions without citation

The Structure of the Nuclear Pore Complex (An Update).
Lin et al. (2019)
8 more