SMTL ID : 4dd8.1 (3 other biounits)

ADAM-8 metalloproteinase domain with bound batimastat

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x BAT: 4-(N-HYDROXYAMINO)-2R-ISOBUTYL-2S-(2-THIENYLTHIOMETHYL)SUCCINYL-L-PHENYLALANINE-N-METHYLAMIDE(Non-covalent)

BAT.1: 16 residues within 4Å: Chain A: T.104, T.105, V.106, G.107, F.108, T.136, H.139, E.140, H.143, H.149, A.170, G.171, S.172, I.173 Ligands: ZN.3, CL.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.104, A:V.106, A:G.107, A:G.107, A:G.171, A:I.173 Water bridges: A:G.174

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.8, D.91, C.200, N.203 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.91, A:C.200, H2O.1, H2O.1

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.139, H.143, H.149 Ligands: BAT.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.139, A:H.143, A:H.149

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 5 residues within 4Å: Chain A: E.163, R.166, I.173, S.176, P.178 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.173 NA.6: 3 residues within 4Å: Chain A: D.100, F.101, G.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.100

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 5 residues within 4Å: Chain A: F.108, A.109, E.140, H.143 Ligands: BAT.1 Ligand excluded by PLIP

2 x K: POTASSIUM ION(Non-covalent)

K.7: 2 residues within 4Å: Chain A: V.131, R.179 No protein-ligand interaction detected (PLIP) K.8: 5 residues within 4Å: Chain A: D.148, H.149, D.150, M.169, S.185 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.148, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hall, T. et al., Structure of human ADAM-8 catalytic domain complexed with batimastat. Acta Crystallogr.,Sect.F (2012)

Release Date

2012-06-06

Peptides

Disintegrin and metalloproteinase domain-containing protein 8: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Disintegrin and metalloproteinase domain-containing protein 8

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