Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 12.90 kDa 
• Atom Count: 875 
• Modelled Residue Count: 106 
• Deposited Residue Count: 110 
• Unique protein chains: 1

2L4D

cytochrome c domain of pp3183 protein from Pseudomonas putida

• PDB DOI: 10.2210/pdb2L4D/pdb
• BMRB: 17236

• Classification: ELECTRON TRANSPORT
• Organism(s): Pseudomonas putida KT2440
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-10-04 Released: 2011-01-26 
• Deposition Author(s): Banci, L., Bertini, I., Ciofi-Baffoni, S., Kozyreva, T., Mori, M., Wang, S.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Sco proteins are involved in electron transfer processes

Banci, L., Bertini, I., Ciofi-Baffoni, S., Kozyreva, T., Mori, M., Wang, S.

(2011) J Biol Inorg Chem 16: 391-403

• PubMed: 21181421 
• DOI: 10.1007/s00775-010-0735-x
• Primary Citation of Related Structures:  
  2L4D


• PubMed Abstract: 
  

Sco proteins are widespread in eukaryotic and in many prokaryotic organisms. They have a thioredoxin-like fold and bind a single copper(I) or copper(II) ion through a CXXXC motif and a conserved His ligand, with both tight and weak affinities. They have been implicated in the assembly of the Cu(A) site of cytochrome c oxidase as copper chaperones and/or thioredoxins. In this work we have structurally characterized a Sco domain which is naturally fused with a typical electron transfer molecule, i.e., cytochrome c, in Pseudomonas putida. The thioredoxin-like Sco domain does not bind copper(II), binds copper(I) with weak affinity without involving the conserved His, and has redox properties consisting of a thioredoxin activity and of the ability of reducing copper(II) to copper(I), and iron(III) to iron(II) of the cytochrome c domain. These findings indicate that the His ligand coordination is the discriminating factor for introducing a metallochaperone function in a thioredoxin-like fold, typically responsible for electron transfer processes. A comparative structural analysis of the Sco domain from P. putida versus eukaryotic Sco proteins revealed structural determinants affecting the formation of a tight-affinity versus a weak-affinity copper binding site in Sco proteins.

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Organizational Affiliation: 

Magnetic Resonance Center CERM, University of Florence, Via Luigi Sacconi 6, 50019, Sesto Fiorentino, Florence, Italy.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SCO1/SenC family protein/cytochrome c	A	110	Pseudomonas putida KT2440	Mutation(s): 0  Gene Names: PP3183, PP_3183
UniProt
Find proteins for Q88I19 (Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)) Explore Q88I19  Go to UniProtKB:  Q88I19

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	B [auth A]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2L4D Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-10-04 
• Released Date: 2011-01-26 
Deposition Author(s): Banci, L., Bertini, I., Ciofi-Baffoni, S., Kozyreva, T., Mori, M., Wang, S.

Revision History  

• Version 1.0: 2011-01-26
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance