SMTL ID : 2xf2.1

PVC-AT

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x HDD: CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE(Covalent)(Non-covalent)

HDD.1: 25 residues within 4Å: Chain A: R.60, V.62, H.63, R.100, G.119, F.120, V.134, G.135, N.136, F.141, A.146, F.149, V.209, H.210, F.326, L.342, R.346, S.349, Y.350, T.353, Q.354, R.357 Chain B: F.52, D.53 Ligands: 3TR.5 27 PLIP interactions: 26 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:R.60, A:V.62, A:H.63, A:V.134, A:N.136, A:F.141, A:F.149, A:F.149, A:F.149, A:V.209, A:F.326, A:L.342, A:L.342, A:R.346, A:Y.350, A:Y.350, B:F.52 Hydrogen bonds: A:Q.354 Water bridges: A:R.357, A:R.357 Salt bridges: A:R.60, A:R.100, A:R.357 pi-Stacking: A:H.63, A:F.149 pi-Cation interactions: A:R.346 Metal complexes: A:Y.350 HDD.9: 25 residues within 4Å: Chain A: F.52, D.53 Chain B: R.60, V.62, H.63, R.100, G.119, F.120, V.134, G.135, N.136, F.141, A.146, F.149, V.209, H.210, F.326, L.342, R.346, S.349, Y.350, T.353, Q.354, R.357 Ligands: 3TR.13 26 PLIP interactions: 25 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:R.60, B:V.62, B:H.63, B:V.134, B:F.141, B:F.149, B:F.149, B:F.149, B:V.209, B:F.326, B:L.342, B:L.342, B:R.346, B:Y.350, B:Y.350, A:F.52 Hydrogen bonds: B:Q.354 Water bridges: B:R.357, B:R.357 Salt bridges: B:R.60, B:R.100, B:R.357 pi-Stacking: B:H.63, B:F.149 pi-Cation interactions: B:R.346 Metal complexes: B:Y.350 HDD.17: 25 residues within 4Å: Chain C: R.60, V.62, H.63, R.100, G.119, F.120, V.134, G.135, N.136, F.141, A.146, F.149, V.209, H.210, F.326, L.342, R.346, S.349, Y.350, T.353, Q.354, R.357 Chain D: F.52, D.53 Ligands: 3TR.21 27 PLIP interactions: 26 interactions with chain C, 1 interactions with chain D, Hydrophobic interactions: C:R.60, C:V.62, C:H.63, C:V.134, C:N.136, C:F.141, C:F.149, C:F.149, C:F.149, C:V.209, C:F.326, C:L.342, C:L.342, C:R.346, C:Y.350, C:Y.350, D:F.52 Hydrogen bonds: C:Q.354 Water bridges: C:R.357, C:R.357 Salt bridges: C:R.60, C:R.100, C:R.357 pi-Stacking: C:H.63, C:F.149 pi-Cation interactions: C:R.346 Metal complexes: C:Y.350 HDD.25: 25 residues within 4Å: Chain C: F.52, D.53 Chain D: R.60, V.62, H.63, R.100, G.119, F.120, V.134, G.135, N.136, F.141, A.146, F.149, V.209, H.210, F.326, L.342, R.346, S.349, Y.350, T.353, Q.354, R.357 Ligands: 3TR.29 26 PLIP interactions: 1 interactions with chain C, 25 interactions with chain D, Hydrophobic interactions: C:F.52, D:R.60, D:V.62, D:H.63, D:V.134, D:F.141, D:F.149, D:F.149, D:F.149, D:V.209, D:F.326, D:L.342, D:L.342, D:R.346, D:Y.350, D:Y.350 Hydrogen bonds: D:Q.354 Water bridges: D:R.357, D:R.357 Salt bridges: D:R.60, D:R.100, D:R.357 pi-Stacking: D:H.63, D:F.149 pi-Cation interactions: D:R.346 Metal complexes: D:Y.350

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

NAG.2: 2 residues within 4Å: Chain A: N.409, T.411 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain A Water bridges: D:Q.25, A:E.410 Hydrophobic interactions: A:T.411 Hydrogen bonds: A:T.411 NAG.3: 3 residues within 4Å: Chain A: H.510, D.511, N.512 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:D.511 Hydrogen bonds: A:D.511, A:N.512 Water bridges: A:N.512 NAG.4: 2 residues within 4Å: Chain A: D.78, N.81 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.81 Water bridges: A:N.81 NAG.10: 3 residues within 4Å: Chain B: N.409, T.411, V.412 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Water bridges: C:Q.25 Hydrogen bonds: B:T.411 NAG.11: 2 residues within 4Å: Chain B: H.510, N.512 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:H.510 Hydrogen bonds: B:N.512 NAG.12: 3 residues within 4Å: Chain B: D.78, S.80, N.81 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.81 NAG.18: 2 residues within 4Å: Chain C: N.409, T.411 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Water bridges: B:Q.25, C:E.410 Hydrophobic interactions: C:T.411 Hydrogen bonds: C:T.411 NAG.19: 3 residues within 4Å: Chain C: H.510, D.511, N.512 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:D.511 Hydrogen bonds: C:D.511, C:N.512 Water bridges: C:N.512 NAG.20: 2 residues within 4Å: Chain C: D.78, N.81 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.81 NAG.26: 3 residues within 4Å: Chain D: N.409, T.411, V.412 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Water bridges: A:Q.25 Hydrogen bonds: D:T.411 NAG.27: 2 residues within 4Å: Chain D: H.510, N.512 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:H.510 Hydrogen bonds: D:N.512 NAG.28: 3 residues within 4Å: Chain D: D.78, S.80, N.81 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.81

4 x 3TR: 3-AMINO-1,2,4-TRIAZOLE(Covalent)

3TR.5: 6 residues within 4Å: Chain A: H.63, V.104, N.136, F.141, F.149 Ligands: HDD.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.136, A:N.136 3TR.13: 6 residues within 4Å: Chain B: H.63, V.104, N.136, F.141, F.149 Ligands: HDD.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.136, B:N.136 3TR.21: 6 residues within 4Å: Chain C: H.63, V.104, N.136, F.141, F.149 Ligands: HDD.17 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.136, C:N.136 3TR.29: 6 residues within 4Å: Chain D: H.63, V.104, N.136, F.141, F.149 Ligands: HDD.25 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.136, D:N.136

12 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.6: 4 residues within 4Å: Chain A: S.652, E.653, R.654, V.657 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.652, A:R.654, A:V.657, H2O.18 CA.7: 3 residues within 4Å: Chain A: Q.244, D.627 Chain B: Q.244 No protein-ligand interaction detected (PLIP) CA.8: 1 residues within 4Å: Chain A: T.431 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.431, H2O.14, H2O.20, H2O.20, H2O.20 CA.14: 4 residues within 4Å: Chain B: S.652, E.653, R.654, V.657 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:S.652, B:R.654, B:V.657 CA.15: 1 residues within 4Å: Chain B: T.431 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.2, H2O.2, H2O.2, H2O.24, H2O.31 CA.16: 1 residues within 4Å: Ligands: CA.32 No protein-ligand interaction detected (PLIP) CA.22: 4 residues within 4Å: Chain C: S.652, E.653, R.654, V.657 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:S.652, C:R.654, C:V.657, H2O.53 CA.23: 3 residues within 4Å: Chain C: Q.244, D.627 Chain D: Q.244 No protein-ligand interaction detected (PLIP) CA.24: 1 residues within 4Å: Chain C: T.431 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:T.431, H2O.48, H2O.55, H2O.55, H2O.55 CA.30: 4 residues within 4Å: Chain D: S.652, E.653, R.654, V.657 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:S.652, D:R.654, D:V.657 CA.31: 1 residues within 4Å: Chain D: T.431 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.37, H2O.37, H2O.37, H2O.58, H2O.66 CA.32: 1 residues within 4Å: Ligands: CA.16 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Borovik, A. et al., X-Ray Investigation of Penicillium Vitale Catalase Inhibited by Aminotriazole. Crystallography Reports (2011)

Release Date

2010-06-16

Peptides

CATALASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

C
A

D
E

CATALASE

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