SMTL ID : 1t31.2 (1 other biounit)

A Dual Inhibitor of the Leukocyte Proteases Cathepsin G and Chymase with Therapeutic Efficacy in Animals Models of Inflammation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 7 residues within 4Å: Chain A: N.59, T.61, E.62, D.139, T.140 Ligands: NAG-NAG.13, NAG-NAG.13 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 7 residues within 4Å: Chain B: N.59, T.61, E.62, D.139, T.140 Ligands: NAG-NAG.1, NAG-NAG.1 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 2 residues within 4Å: Chain A: N.82, T.85 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.82 Water bridges: A:N.82, A:N.82, A:T.85 NAG.14: 2 residues within 4Å: Chain B: N.82, T.85 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.82 Water bridges: B:N.82, B:N.82, B:T.85

14 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 7 residues within 4Å: Chain A: L.101, T.102, L.103 Chain B: L.101, T.102, L.103 Ligands: SO4.15 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.103, A:L.103 SO4.4: 4 residues within 4Å: Chain A: F.29, R.130, P.136, G.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.137 Water bridges: A:G.137 Salt bridges: A:R.130 SO4.5: 4 residues within 4Å: Chain A: K.80, H.87, H.88, L.164 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.80, A:K.80 Salt bridges: A:K.80, A:H.87, A:H.88 SO4.6: 4 residues within 4Å: Chain A: M.122, R.147, N.170, K.173 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.170 Water bridges: A:R.147 Salt bridges: A:R.147, A:K.173 SO4.7: 1 residues within 4Å: Chain A: R.158 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.158 SO4.8: 2 residues within 4Å: Chain A: T.5, E.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.6 SO4.9: 3 residues within 4Å: Chain A: R.124, A.189, G.190 5 PLIP interactions: 5 interactions with chain A Water bridges: A:A.189, A:A.189, A:A.189, A:G.190 Salt bridges: A:R.124 SO4.15: 7 residues within 4Å: Chain A: L.101, T.102, L.103 Chain B: L.101, T.102, L.103 Ligands: SO4.3 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:L.103, A:L.103 SO4.16: 4 residues within 4Å: Chain B: F.29, R.130, P.136, G.137 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.137 Water bridges: B:G.137 Salt bridges: B:R.130 SO4.17: 4 residues within 4Å: Chain B: K.80, H.87, H.88, L.164 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.80, B:K.80 Salt bridges: B:K.80, B:H.87, B:H.88 SO4.18: 4 residues within 4Å: Chain B: M.122, R.147, N.170, K.173 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.170 Water bridges: B:R.147 Salt bridges: B:R.147, B:K.173 SO4.19: 1 residues within 4Å: Chain B: R.158 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.158 SO4.20: 2 residues within 4Å: Chain B: T.5, E.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.6 SO4.21: 3 residues within 4Å: Chain B: R.124, A.189, G.190 5 PLIP interactions: 5 interactions with chain B Water bridges: B:A.189, B:A.189, B:A.189, B:G.190 Salt bridges: B:R.124

2 x CO: COBALT (II) ION(Non-covalent)

CO.10: 5 residues within 4Å: Chain A: H.10, E.64 Chain B: H.10, E.64 Ligands: CO.22 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.10, A:E.64, B:E.64, H2O.1, H2O.9 CO.22: 5 residues within 4Å: Chain A: H.10, E.64 Chain B: H.10, E.64 Ligands: CO.10 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:E.64, B:H.10, B:E.64, H2O.1, H2O.9

2 x OHH: 2-[3-({METHYL[1-(2-NAPHTHOYL)PIPERIDIN-4-YL]AMINO}CARBONYL)-2-NAPHTHYL]-1-(1-NAPHTHYL)-2-OXOETHYLPHOSPHONIC ACID(Non-covalent)

OHH.11: 18 residues within 4Å: Chain A: K.28, C.30, H.45, Y.81, T.83, L.86, A.177, F.178, K.179, G.180, S.182, V.196, S.197, Y.198, G.199, R.200, S.201, A.207 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:H.45, A:L.86, A:L.86, A:F.178, A:F.178, A:K.179, A:V.196, A:Y.198, A:A.207 Hydrogen bonds: A:K.28, A:K.179, A:G.180, A:S.182, A:S.182 Water bridges: A:F.29 pi-Stacking: A:H.45 OHH.23: 18 residues within 4Å: Chain B: K.28, C.30, H.45, Y.81, T.83, L.86, A.177, F.178, K.179, G.180, S.182, V.196, S.197, Y.198, G.199, R.200, S.201, A.207 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:H.45, B:L.86, B:L.86, B:F.178, B:F.178, B:K.179, B:V.196, B:Y.198, B:A.207 Hydrogen bonds: B:K.28, B:K.179, B:G.180, B:S.182, B:S.182 Water bridges: B:F.29 pi-Stacking: B:H.45

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.12: 7 residues within 4Å: Chain A: Y.17, E.19, T.54, I.60, T.61, W.67, K.69 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.19 Water bridges: A:T.54 Salt bridges: A:E.19, A:K.69 MES.24: 7 residues within 4Å: Chain B: Y.17, E.19, T.54, I.60, T.61, W.67, K.69 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.19 Water bridges: B:T.54 Salt bridges: B:E.19, B:K.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

de Garavilla, L. et al., A novel, potent dual inhibitor of the leukocyte proteases cathepsin G and chymase: molecular mechanisms and anti-inflammatory activity in vivo. J.Biol.Chem. (2005)

Release Date

2005-03-01

Peptides

Chymase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Chymase

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