- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.54 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 5 x CA: CALCIUM ION(Non-covalent)
CA.3: 6 residues within 4Å:- Chain A: D.76, G.77, S.79, L.81, D.99, E.102
5 PLIP interactions:5 interactions with chain A- Metal complexes: A:D.76, A:G.77, A:S.79, A:L.81, A:D.99
CA.4: 3 residues within 4Å:- Chain A: D.25, D.100, E.102
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.25, A:D.100, A:D.100, A:E.102, H2O.5
CA.5: 5 residues within 4Å:- Chain A: D.59, N.91, Y.92, G.93, D.95
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.59, A:N.91, A:G.93, A:D.95, H2O.4, H2O.7
CA.6: 4 residues within 4Å:- Chain A: D.188, D.232, S.280, D.329
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.188, A:D.232, A:S.280, H2O.1, H2O.5
CA.7: 6 residues within 4Å:- Chain A: I.190, A.234, A.282, V.331
- Ligands: CL.8, CL.9
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:I.190, A:A.234, A:A.282, A:V.331
- 3 x CL: CHLORIDE ION(Non-functional Binders)
CL.8: 9 residues within 4Å:- Chain A: I.190, T.191, A.234, Y.235, A.282, V.283, V.331, Y.332
- Ligands: CA.7
Ligand excluded by PLIPCL.9: 8 residues within 4Å:- Chain A: A.189, I.190, A.234, A.281, A.282, A.330, V.331
- Ligands: CA.7
Ligand excluded by PLIPCL.21: 6 residues within 4Å:- Chain A: H.119, H.123
- Chain B: R.20, S.21, Y.22
- Ligands: ZN.1
Ligand excluded by PLIP- 11 x PGO: S-1,2-PROPANEDIOL(Non-covalent)
PGO.10: 7 residues within 4Å:- Chain A: S.43, D.44, T.46, P.47, L.48, G.166, D.167
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:D.167
- Hydrogen bonds: A:S.43, A:P.47, A:D.167
PGO.11: 5 residues within 4Å:- Chain A: H.148, F.149, M.150, R.203, N.229
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:H.148, A:M.150, A:N.229
PGO.12: 4 residues within 4Å:- Chain A: M.61, N.91, Y.92, D.95
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:Y.92
- Hydrogen bonds: A:D.95
PGO.13: 5 residues within 4Å:- Chain A: R.194, F.223, W.224, G.256, Y.257
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:Y.257
- Hydrogen bonds: A:R.194
- Water bridges: A:R.207
PGO.14: 3 residues within 4Å:- Chain A: D.153, P.172, H.174
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:H.174
- Water bridges: A:D.169, A:D.169, A:H.174
PGO.15: 5 residues within 4Å:- Chain A: E.318, P.322, G.323, I.324, G.325
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:G.323, A:I.324, A:G.325, A:G.325
PGO.16: 5 residues within 4Å:- Chain A: D.182, S.184, L.185, S.186, K.201
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:L.185
- Hydrogen bonds: A:D.182, A:K.201
- Water bridges: A:D.179, A:S.184
PGO.17: 3 residues within 4Å:- Chain A: N.342, P.344, I.345
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:I.345
- Water bridges: A:N.342
PGO.18: 7 residues within 4Å:- Chain A: Y.332, K.334, Y.339, Q.346, M.360, S.364, I.365
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Y.332, A:Y.332, A:K.334, A:Y.339, A:Q.346
PGO.19: 7 residues within 4Å:- Chain A: K.37, N.112, L.115, Y.143, G.145, K.146, S.147
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Y.143, A:K.146
PGO.20: 5 residues within 4Å:- Chain A: T.7, K.9, P.88, G.89, P.90
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:P.88
- Water bridges: A:P.88
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Stura, E.A. et al., Crystal structure of full-length human collagenase 3 (MMP-13) with peptides in the active site defines exosites in the catalytic domain. Faseb J. (2013)
- Release Date
- 2013-08-21
- Peptides
- Collagenase 3: A
Collagenase 3, pro-domain peptide: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
DB
Z
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.54 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 5 x CA: CALCIUM ION(Non-covalent)
- 3 x CL: CHLORIDE ION(Non-functional Binders)
- 11 x PGO: S-1,2-PROPANEDIOL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Stura, E.A. et al., Crystal structure of full-length human collagenase 3 (MMP-13) with peptides in the active site defines exosites in the catalytic domain. Faseb J. (2013)
- Release Date
- 2013-08-21
- Peptides
- Collagenase 3: A
Collagenase 3, pro-domain peptide: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
DB
Z