3P1M

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.205 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

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

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.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Adrenodoxin, mitochondrial
A, B, C, D, E
A, B, C, D, E, F, G, H
132Homo sapiensMutation(s): 0 
Gene Names: ADXFDX1
UniProt & NIH Common Fund Data Resources
Find proteins for P10109 (Homo sapiens)
Explore P10109 
Go to UniProtKB:  P10109
PHAROS:  P10109
GTEx:  ENSG00000137714 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP10109
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FLC
Query on FLC

Download Ideal Coordinates CCD File 
DA [auth G]
HA [auth H]
J [auth A]
M [auth B]
P [auth C]
DA [auth G],
HA [auth H],
J [auth A],
M [auth B],
P [auth C],
Q [auth C],
T [auth D],
U [auth D],
X [auth E]
CITRATE ANION
C6 H5 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-K
FES
Query on FES

Download Ideal Coordinates CCD File 
CA [auth G]
GA [auth H]
I [auth A]
L [auth B]
O [auth C]
CA [auth G],
GA [auth H],
I [auth A],
L [auth B],
O [auth C],
S [auth D],
W [auth E],
Z [auth F]
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
BA [auth F],
FA [auth G]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
K
Query on K

Download Ideal Coordinates CCD File 
AA [auth F]
EA [auth G]
IA [auth H]
K [auth A]
N [auth B]
AA [auth F],
EA [auth G],
IA [auth H],
K [auth A],
N [auth B],
R [auth C],
V [auth D],
Y [auth E]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.205 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.576α = 90
b = 76.576β = 90
c = 234.41γ = 120
Software Package:
Software NamePurpose
GDAdata collection
PHASERphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2010-11-03
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2023-11-01
    Changes: Data collection, Database references, Derived calculations, Refinement description