SMTL ID : 1gkd.1

MMP9 active site mutant-inhibitor complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.77, G.78, D.80, L.82, D.100, E.103 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.77, A:G.78, A:D.80, A:L.82, A:D.100 CA.2: 4 residues within 4Å: Chain A: D.60, G.92, Q.94, D.96 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.60, A:G.92, A:Q.94, A:D.96, H2O.2, H2O.2 CA.3: 4 residues within 4Å: Chain A: S.24, D.26, D.101, E.103 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.26, A:D.101, A:D.101, A:E.103, H2O.1 CA.4: 6 residues within 4Å: Chain A: S.106, L.107, G.108, K.109, G.110, Q.111 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:L.107, A:G.108, A:K.109, H2O.3, H2O.3 CA.9: 6 residues within 4Å: Chain B: D.77, G.78, D.80, L.82, D.100, E.103 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.77, B:G.78, B:L.82, B:D.100, B:E.103 CA.10: 4 residues within 4Å: Chain B: D.60, G.92, Q.94, D.96 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.60, B:G.92, B:Q.94, B:D.96, H2O.6, H2O.6 CA.11: 3 residues within 4Å: Chain B: D.26, D.101, E.103 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.26, B:D.101, B:D.101, H2O.5, H2O.7 CA.12: 7 residues within 4Å: Chain A: L.107 Chain B: S.106, L.107, G.108, K.109, G.110, Q.111 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:L.107, B:G.108, B:K.109, H2O.7, H2O.7

2 x STN: 2-{[FORMYL(HYDROXY)AMINO]METHYL}-4-METHYLPENTANOIC ACID(Non-covalent)

STN.5: 14 residues within 4Å: Chain A: G.81, L.82, L.83, A.84, V.118, H.121, Q.122, H.125, H.131, P.141, M.142, Y.143 Ligands: BUM.6, ZN.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.118 Hydrogen bonds: A:L.83, A:Q.122 STN.13: 15 residues within 4Å: Chain B: G.81, L.82, L.83, A.84, V.118, H.121, Q.122, H.125, H.131, Y.140, P.141, M.142, Y.143 Ligands: BUM.14, ZN.15 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.118 Hydrogen bonds: B:Q.122

2 x BUM: 2-AMINO-N,3,3-TRIMETHYLBUTANAMIDE(Non-covalent)

BUM.6: 7 residues within 4Å: Chain A: G.81, L.83, Y.113, P.141, M.142, Y.143 Ligands: STN.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.81, A:P.141, A:Y.143 BUM.14: 6 residues within 4Å: Chain B: G.81, Y.113, P.141, M.142, Y.143 Ligands: STN.13 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.81, B:P.141, B:Y.143

4 x ZN: ZINC ION(Non-covalent)

ZN.7: 4 residues within 4Å: Chain A: H.121, H.125, H.131 Ligands: STN.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.121, A:H.125, A:H.131 ZN.8: 4 residues within 4Å: Chain A: H.70, D.72, H.85, H.98 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.70, A:D.72, A:H.85, A:H.98 ZN.15: 4 residues within 4Å: Chain B: H.121, H.125, H.131 Ligands: STN.13 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.121, B:H.125, B:H.131 ZN.16: 5 residues within 4Å: Chain B: H.70, D.72, Y.74, H.85, H.98 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.70, B:D.72, B:H.85, B:H.98

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rowsell, S. et al., Crystal Structure of Mmp9 in Complex with a Reverse Hydroxamate Inhibitor. J.Mol.Biol. (2002)

Release Date

2002-05-16

Peptides

92 KDA TYPE IV COLLAGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

92 KDA TYPE IV COLLAGENASE