1GNL

Hybrid Cluster Protein from Desulfovibrio desulfuricans ATCC 27774 X-ray structure at 1.25A resolution using synchrotron radiation at a wavelength of 0.933A

Structural Biology Knowledgebase: 1GNL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.145
  • R-Value Work: 0.129

Literature

Macromolecules
Sequence Display for 1GNL

Classification: HYBRID CLUSTER PROTEIN

Total Structure Weight: 118690.48

Macromolecule Entities
Molecule Chains Length Organism Details
HYBRID CLUSTER PROTEIN A, B 544 Desulfovibrio desulfuricans EC#: 1.7.99.1 IUBMB
Details: CUBANE CLUSTER [4FE-4S] HYBRID CLUSTER [4FE-3S-3O] PERSULPHIDE BOND BETWEEN S7 (HYBRID CLUSTER) AND S OF CYS399
Gene Name(s): hcp Ddes_1829
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B IRON/SULFUR/OXYGEN HYBRID CLUSTER
Fe4 O3 S3
NIIPGMCXXHQOSA-LVFFOBLJCB
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A, B IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.145
  • R-Value Work: 0.129
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 57.33 α = 82.77
b = 61.65 β = 73.67
c = 72.25 γ = 87.31

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-10-05
  • Released Date: 2002-04-11
  • Deposition author(s): Macedo, S., Mitchell, E.P., Romao, C.V., Cooper, S.J., Coelho, R., Liu, M.Y., Xavier, A.V., Legall, J., Bailey, S., Garner, D.C., Hagen, W.R., Teixeira, M., Carrondo, M.A., Lindley, P.

Revision History

  • 2015-04-15
    Type: Data collection | Details: REMARK 200
  • 2015-04-15
    Type: Non-polymer description | Details: FORMUL
  • 2015-04-15
    Type: Biological assembly | Details: REMARK 350
  • 2015-04-15
    Type: Entry authorship | Details: AUTHOR
  • 2015-04-15
    Type: Citation | Details: JRNL
  • 2015-04-15
    Type: Other | Details: REMARK 525
  • 2015-04-15
    Type: Version format compliance | Details: REMARK 4