PDBe 3cue

X-ray diffraction
3.7Å resolution

Crystal structure of a TRAPP subassembly activating the Rab Ypt1p

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
GTP-binding protein YPT1 Chains: F, L, R, X
Molecule details ›
Chains: F, L, R, X
Length: 206 amino acids
Theoretical weight: 23.24 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P01123 (Residues: 1-206; Coverage: 100%)
Gene names: YFL038C, YP2, YPT1
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases
Trafficking protein particle complex subunit BET5 Chains: C, I, O, U
Molecule details ›
Chains: C, I, O, U
Length: 159 amino acids
Theoretical weight: 18.45 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q03630 (Residues: 1-159; Coverage: 100%)
Gene names: BET5, YML077W
Sequence domains: Sybindin-like family
Structure domains: Beta-Lactamase
Trafficking protein particle complex subunit BET3 Chains: D, E, J, K, P, Q, V, W
Molecule details ›
Chains: D, E, J, K, P, Q, V, W
Length: 193 amino acids
Theoretical weight: 22.15 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P36149 (Residues: 1-193; Coverage: 100%)
Gene names: BET3, YKR068C
Sequence domains: Transport protein particle (TRAPP) component
Structure domains: Trafficking protein particle complex subunit 3
Trafficking protein particle complex subunit 23 Chains: A, G, M, S
Molecule details ›
Chains: A, G, M, S
Length: 219 amino acids
Theoretical weight: 24.89 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q03784 (Residues: 1-219; Coverage: 100%)
Gene names: TRS23, YD8419.13, YDR246W
Sequence domains: Sybindin-like family
Structure domains: Beta-Lactamase
Trafficking protein particle complex subunit 31 Chains: B, H, N, T
Molecule details ›
Chains: B, H, N, T
Length: 283 amino acids
Theoretical weight: 31.76 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q03337 (Residues: 1-283; Coverage: 100%)
Gene names: TRS31, YDR472W
Sequence domains: Transport protein particle (TRAPP) component
Structure domains: Trafficking protein particle complex subunit 3

Ligands and Environments

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 115.12Å b: 115.4Å c: 290.07Å
α: 90° β: 90.28° γ: 90°
R-values:
R R work R free
0.269 0.265 0.299
Expression system: Escherichia coli BL21(DE3)