3P1M

Crystal structure of human ferredoxin-1 (FDX1) in complex with iron-sulfur cluster

Structural Biology Knowledgebase: 3P1M SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3P1M

Classification: ELECTRON TRANSPORT

Total Structure Weight: 120183.79

Macromolecule Entities
Molecule Chains Length Organism Details
Adrenodoxin, mitochondrial A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 132 Homo sapiens Fragment: 2Fe-2S ferredoxin-type domain, UNP residues 61-184
Gene Name(s): FDX1 Gene View ADX

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FES
Query on FES

A, B, C, D, E, F, G, H FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
FLC
Query on FLC

A, B, C, D, E, G, H CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
Ligand Explorer
 
JSmol
GOL
Query on GOL

F, G GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
K
Query on K

A, B, C, D, E, F, G, H POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.204
  • Space Group: P 32
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 76.58 α = 90.00
b = 76.58 β = 90.00
c = 234.41 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-09-30
  • Released Date: 2010-11-03
  • Deposition author(s): Chaikuad, A., Johansson, C., Krojer, T., Yue, W.W., Phillips, C., Bray, J.E., Pike, A.C.W., Muniz, J.R.C., Vollmar, M., Weigelt, J., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Kavanagh, K., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4