2Y5C | pdb_00002y5c

Structure of human ferredoxin 2 (Fdx2)in complex with 2Fe2S cluster

• PDB DOI: https://doi.org/10.2210/pdb2Y5C/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-01-12 Released: 2012-02-01 
• Deposition Author(s): Webert, H., Hobler, A., Sheftel, A.D., Molik, S., Maestre-Reyna, M., Essen, L.-O., Vorniscescu, D., Keusgen, M., Hannemann, F., Bernhardt, R., Lill, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.201 (Depositor), 0.209 (DCC) 
• R-Value Work: 
  0.173 (Depositor), 0.181 (DCC) 
• R-Value Observed: 
  0.174 (Depositor) 

Literature

Structure and Functional Studies on Human Mitochondrial Ferredoxins

Webert, H., Hobler, A., Sheftel, A.D., Molik, S., Maestre-Reyna, M., Essen, L.-O., Vorniscescu, D., Keusgen, M., Hannemann, F., Bernhardt, R., Lill, R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.44 kDa 
• Atom Count: 1,880 
• Modeled Residue Count: 214 
• Deposited Residue Count: 218 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADRENODOXIN-LIKE PROTEIN, MITOCHONDRIAL	A, B	109	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q6P4F2 (Homo sapiens) Explore Q6P4F2  Go to UniProtKB:  Q6P4F2
PHAROS:  Q6P4F2 GTEx:  ENSG00000267673

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FES	C [auth A], E [auth B]	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N
SO4	D [auth A], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.201 (Depositor), 0.209 (DCC) 
• R-Value Work:  0.173 (Depositor), 0.181 (DCC) 
• R-Value Observed: 0.174 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.38	α = 90
b = 35.45	β = 105.13
c = 75.51	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
SHELXCDE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-01 
Deposition Author(s): Webert, H., Hobler, A., Sheftel, A.D., Molik, S., Maestre-Reyna, M., Essen, L.-O., Vorniscescu, D., Keusgen, M., Hannemann, F., Bernhardt, R., Lill, R.

Revision History  

• Version 1.0: 2012-02-01
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other