1SS6 | pdb_00001ss6

Solution structure of SEP domain from human p47

• PDB DOI: https://doi.org/10.2210/pdb1SS6/pdb
• BMRB: 6189

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-03-23 Released: 2004-11-09 
• Deposition Author(s): Soukenik, M., Leidert, M., Sievert, V., Buessow, K., Leitner, D., Labudde, D., Ball, L.J., Oschkinat, H.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

The SEP domain of p47 acts as a reversible competitive inhibitor of cathepsin L

Soukenik, M., Diehl, A., Leidert, M., Sievert, V., Buessow, K., Leitner, D., Labudde, D., Ball, L.J., Lechner, A., Nagler, D.K., Oschkinat, H.

(2004) FEBS Lett 576: 358-362

• PubMed: 15498563 
• DOI: https://doi.org/10.1016/j.febslet.2004.09.037
• Primary Citation Related Structures: 
  1SS6


• PubMed Abstract: 
  

  The solution structure of the human p47 SEP domain in a construct comprising residues G1-S2-p47(171-270) was determined by NMR spectroscopy. A structure-derived hypothesis about the domains' function was formulated and pursued in binding experiments with cysteine proteases. The SEP domain was found to be a reversible competitive inhibitor of cathepsin L with a Ki of 1.5 microM. The binding of G1-S2-p47(171-270) to cathepsin L was mapped by biochemical assays and the binding interface was investigated by NMR chemical shift perturbation experiments.

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Organizational Affiliation: 
• Forschungsinstitut für Molekulare Pharmakologie, Robert-Rössle Str. 10, D-13125 Berlin, Germany.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 11.37 kDa 
• Atom Count: 801 
• Modeled Residue Count: 102 
• Deposited Residue Count: 102 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NSFL1 cofactor p47	A	102	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UNZ2 (Homo sapiens) Explore Q9UNZ2  Go to UniProtKB:  Q9UNZ2
PHAROS:  Q9UNZ2 GTEx:  ENSG00000088833

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-11-09 
Deposition Author(s): Soukenik, M., Leidert, M., Sievert, V., Buessow, K., Leitner, D., Labudde, D., Ball, L.J., Oschkinat, H.

Revision History  

• Version 1.0: 2004-11-09
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-02
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-05-22
  Changes: Data collection