830C: MMP-13

Collagenase-3 (mmp-13) complexed to a sulphone-based hydroxamic acid. Determined by X-ray diffraction at 1.6 Å resolution. Released 6 Aug 1999.

Method: X-ray diffraction
Resolution: 1.6 Å
Organism: Homo sapiens
Chains: 2
Atoms: 3,057
Mol. weight: 39.01 kDa
Ligands: ZN, CA, RS1
Released: 6 Aug 1999

Explore 830C in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

830C contains 8 α-helices and 20 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 4 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	105-106	2	1
β-strand	110	1	2
β-strand	117-122	6	3
α-helix	131-146	16
β-strand	152-156	5	3
β-strand	163-168	6	3
β-strand	186-188	3	3
α-helix	189-190	2
β-strand	199-202	4	3
β-strand	207-208	2	4
β-strand	214-215	2	4
α-helix	216-227	12
β-strand	230	1	5
α-helix	256-266	11

Chain B: 4 helices, 10 β-strands

Element	Residues	Length	Sheet
β-strand	106	1	5
β-strand	108	1	2
β-strand	117-122	6	6
α-helix	131-146	16
β-strand	152-155	4	6
β-strand	163-168	6	6
β-strand	186-188	3	6
α-helix	189-190	2
β-strand	199-202	4	6
β-strand	207-208	2	7
β-strand	214-215	2	7
α-helix	216-227	12
β-strand	230-231	2	1
α-helix	256-266	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
MMP-13	A, B	protein	168	Homo sapiens	P45452 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>830C_1 MMP-13 (chains A, B)
YNVFPRTLKWSKMNLTYRIVNYTPDMTHSEVEKAFKKAFKVWSDVTPLNFTRLHDGIADI
MISFGIKEHGDFYPFDGPSGLLAHAFPPGPNYGGDAHFDDDETWTSSSKGYNLFLVAAHE
FGHSLGLDHSKDPGALMFPIYTYTGKSHFMLPDDDVQGIQSLYGPGDE

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	4
CA	Calcium ion	Ca	2
RS1	4-[4-(4-chloro-phenoxy)-benzenesulfonylmethyl]-tetrahydro-pyran-4-carboxylic…	C19 H20 Cl N O6 S	2

Primary citation

Crystal structures of MMP-1 and -13 reveal the structural basis for selectivity of collagenase inhibitors. Lovejoy, B., Welch, A.R., Carr, S. et al. Nat Struct Biol (1999) 6:217-221. DOI 10.1038/6657 · PubMed

Other PDB entries of the same protein (UniProt P45452 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5B5O 1.2 Å, Crystal structure of the catalytic domain of MMP-13 complexed with…
3ZXH 1.3 Å, MMP-13 complexed with 2-Napthylsulfonamide hydroxamic acid inhibitor
4JP4 1.43 Å, Mmp13 in complex with a reverse hydroxamate Zn-binder
3WV3 1.6 Å, Crystal structure of the catalytic domain of MMP-13 complexed with…
5B5P 1.6 Å, Crystal structure of the catalytic domain of MMP-13 complexed with…
5UWK 1.6 Å, Matrix metalloproteinase-13 complexed with selective inhibitor compound (S)-10a
5UWM 1.62 Å, Matrix metalloproteinase-13 complexed with selective inhibitor compound (R)-17a
4L19 1.66 Å, Matrix metalloproteinase-13 complexed with selective inhibitor compound Q1
1XUC 1.7 Å, Matrix metalloproteinase-13 complexed with non-zinc binding inhibitor
2YIG 1.7 Å, MMP13 in complex with a novel selective non zinc binding inhibitor
6HV2 1.71 Å, MMP-13 in complex with the peptide IMISF
2OW9 1.74 Å, Crystal structure analysis of the MMP13 catalytic domain in complex with specific…

Browse structure collections

About this viewer

MolViewer shows 830C directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.