4B8Z

Crystal structure of human GDP-L-fucose synthase with bound NADP and GDP, rhombohedral crystal form

Structural Biology Knowledgebase: 4B8Z SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.233

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B8Z

Classification: OXIDOREDUCTASE

Total Structure Weight: 148754.05

Macromolecule Entities
Molecule Chains Length Organism Details
GDP-L-FUCOSE SYNTHASE A, B, C, D 320 Homo sapiens EC#: 1.1.1.271 IUBMB
Fragment: RESIDUES 7-320
Gene Name(s): TSTA3 Gene View SDR4E1

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAP
Query on NAP

A, B, C, D NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE (Synonym)
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GDP
Query on GDP

A, B, C, D GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.233
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.45 α = 90.00
b = 91.45 β = 90.00
c = 429.13 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-08-31
  • Released Date: 2013-02-06
  • Deposition author(s): Vollmar, M., Krojer, T., Shafqat, N., Rojkova, A., Bunkoczi, G., Yue, W.W., Kavanagh, K., von Delft, F., Weigelt, J., Arrowsmith, C.H., Bountra, C., Edwards, A., Oppermann, U.

Revision History

No revisions since initial release