Macromolecule Content

• Total Structure Weight: 19429.89 
• Atom Count: 1274 
• Residue Count: 169 
• Unique protein chains: 1

3AYK

CATALYTIC FRAGMENT OF HUMAN FIBROBLAST COLLAGENASE COMPLEXED WITH CGS-27023A, NMR, MINIMIZED AVERAGE STRUCTURE

• DOI: 10.2210/pdb3AYK/pdb

• Classification: MATRIX METALLOPROTEINASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 1999-02-01 Released: 1999-06-07 
• Deposition Author(s): Powers, R., Moy, F.J.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 1 
• Selection Criteria: LOWEST ENERGY, LOWEST VIOLATIONS, CONSISTENT FOLD 

Literature

NMR solution structure of the catalytic fragment of human fibroblast collagenase complexed with a sulfonamide derivative of a hydroxamic acid compound.

Moy, F.J., Chanda, P.K., Chen, J.M., Cosmi, S., Edris, W., Skotnicki, J.S., Wilhelm, J., Powers, R.

(1999) Biochemistry 38: 7085-7096

• PubMed: 10353819 
• DOI: 10.1021/bi982576v
• Primary Citation of Related Structures:  
  4AYK


• PubMed Abstract: 
  

The solution structure of the catalytic fragment of human fibroblast collagenase (MMP-1) complexed with a sulfonamide derivative of a hydroxamic acid compound (CGS-27023A) has been determined using two-dimensional and three-dimensional heteronuclear NMR spectroscopy. The solution structure of the complex was calculated by means of hybrid distance geometry-simulated annealing using a combination of experimental NMR restraints obtained from the previous refinement of the inhibitor-free MMP-1 (1) and recent restraints for the MMP-1:CGS-27023A complex. The hydroxamic acid moiety of CGS-27023A was found to chelate to the "right" of the catalytic zinc where the p-methoxyphenyl sits in the S1' active-site pocket, the isopropyl group is in contact with H83 and N80, and the pyridine ring is solvent exposed. The sulfonyl oxygens are in hydrogen-bonding distance to the backbone NHs of L81 and A82. This is similar to the conformation determined by NMR of the inhibitor bound to stromelysin (2, 3). A total of 48 distance restraints were observed between MMP-1 and CGS-27023A from 3D 13C-edited/12C-filtered NOESY and 3D 15N-edited NOESY experiments. An additional 18 intramolecular restraints were observed for CGS-27023A from a 2D 12C-filtered NOESY experiment. A minimal set of NMR experiments in combination with the free MMP-1 assignments were used to assign the MMP-1 (1)H, 13C, and 15N resonances in the MMP-1:CGS-27023A complex. The assignments of CGS-27023A in the complex were obtained from 2D 12C-filtered NOESY and 2D 12C-filtered TOCSY experiments.

---

Related Citations: 

• High-Resolution Solution Structure of the Inhibitor-Free Catalytic Fragment of Human Fibroblast Collagenase Determined by Multidimensional NMR
  Moy, F.J.,Chanda, P.K.,Cosmi, S.,Pisano, M.R.,Urbano, C.,Wilhelm, J.,Powers, R.
  (1998) Biochemistry 37: 1495
• Assignments, Secondary Structure and Dynamics of the Inhibitor-Free Catalytic Fragment of Human Fibroblast Collagenase
  Moy, F.J.,Pisano, M.R.,Chanda, P.K.,Urbano, C.,Killar, L.M.,Sung, M.-L.,Powers, R.
  (1997) J.Biomol.NMR 1: 9




---

Organizational Affiliation: 

Department of Structural Biology, Wyeth-Ayerst Research, Pearl River, New York 10965, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PROTEIN (COLLAGENASE)	A	169	Homo sapiens	Mutation(s): 0  Gene Names: MMP1 (CLG) EC: 3.4.24.7
Find proteins for P03956 (Homo sapiens) Go to Gene View: MMP1 Go to UniProtKB:  P03956

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CGS	A	N-HYDROXY-2(R)-[[(4-METHOXYPHENYL)SULFONYL](3-PICOLYL)AMINO]-3-METHYLBUTANAMIDE HYDROCHLORIDE CGS-27023A C18 H23 N3 O5 S BSIZUMJRKYHEBR-QGZVFWFLSA-N
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
CGS	Ki: 33 nM (100) BINDINGDB
CGS	IC50: 2.5 - 96 nM (100) BINDINGDB

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 1 
• Selection Criteria: LOWEST ENERGY, LOWEST VIOLATIONS, CONSISTENT FOLD 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-02-01 
• Released Date: 1999-06-07 
• Deposition Author(s): Powers, R., Moy, F.J.

Revision History 

• Version 1.0: 1999-06-07
  Type: Initial release
• Version 1.1: 2007-10-16
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance