SMTL ID : 1a4e.1

CATALASE A FROM SACCHAROMYCES CEREVISIAE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x AZI: AZIDE ION(Non-covalent)

AZI.1: 7 residues within 4Å: Chain A: P.55, H.56, N.129, F.134, F.142, Y.341 Ligands: HEM.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.129, A:N.129 AZI.2: 7 residues within 4Å: Chain B: P.55, H.56, N.129, F.134, F.142, Y.341 Ligands: HEM.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.56, B:N.129 AZI.3: 7 residues within 4Å: Chain C: P.55, H.56, N.129, F.134, F.142, Y.341 Ligands: HEM.9 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:H.56, C:N.129 AZI.4: 7 residues within 4Å: Chain D: P.55, H.56, N.129, F.134, F.142, Y.341 Ligands: HEM.10 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:H.56, D:N.129

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

SO4.5: 6 residues within 4Å: Chain A: R.47 Chain B: R.346, Y.347 Chain C: R.47 Chain D: R.346, Y.347 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain D Hydrogen bonds: B:R.346, D:R.346 Salt bridges: C:R.47, A:R.47 SO4.6: 6 residues within 4Å: Chain A: R.346, Y.347 Chain B: R.47 Chain C: R.346, Y.347 Chain D: R.47 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B, 2 interactions with chain D Water bridges: C:R.346, D:R.47 Salt bridges: B:R.47, D:R.47

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)(Non-covalent)

HEM.7: 28 residues within 4Å: Chain A: R.53, N.54, P.55, H.56, R.93, G.112, F.113, A.114, V.127, Y.128, N.129, F.134, P.139, F.142, S.199, H.201, L.282, F.317, V.333, R.337, S.340, Y.341, A.344, H.345, R.348 Chain D: L.42, N.46 Ligands: AZI.1 29 PLIP interactions: 28 interactions with chain A, 1 interactions with chain D, Hydrophobic interactions: A:H.56, A:A.114, A:V.127, A:N.129, A:F.134, A:F.142, A:F.142, A:F.142, A:F.142, A:L.282, A:V.333, A:R.337, A:Y.341, A:Y.341, A:A.344, D:L.42 Water bridges: A:R.53, A:N.54, A:A.114, A:F.317 Salt bridges: A:R.53, A:R.53, A:R.93, A:H.345, A:R.348 pi-Stacking: A:H.56, A:F.142 pi-Cation interactions: A:R.337 Metal complexes: A:Y.341 HEM.8: 27 residues within 4Å: Chain B: R.53, N.54, P.55, H.56, R.93, G.112, F.113, A.114, V.127, Y.128, N.129, F.134, P.139, F.142, S.199, H.201, L.282, F.317, V.333, R.337, S.340, Y.341, A.344, H.345, R.348 Chain C: N.46 Ligands: AZI.2 26 PLIP interactions: 26 interactions with chain B, Hydrophobic interactions: B:H.56, B:V.127, B:N.129, B:F.134, B:F.142, B:F.142, B:F.142, B:F.142, B:L.282, B:V.333, B:R.337, B:Y.341, B:Y.341, B:A.344 Water bridges: B:R.53, B:N.54, B:A.114, B:F.317 Salt bridges: B:R.53, B:R.93, B:H.345, B:R.348 pi-Stacking: B:H.56, B:F.142 pi-Cation interactions: B:R.337 Metal complexes: B:Y.341 HEM.9: 27 residues within 4Å: Chain B: N.46 Chain C: R.53, N.54, P.55, H.56, R.93, G.112, F.113, A.114, V.127, Y.128, N.129, F.134, P.139, F.142, S.199, H.201, L.282, F.317, V.333, R.337, S.340, Y.341, A.344, H.345, R.348 Ligands: AZI.3 30 PLIP interactions: 30 interactions with chain C, Hydrophobic interactions: C:H.56, C:A.114, C:V.127, C:N.129, C:F.134, C:P.139, C:F.142, C:F.142, C:F.142, C:F.142, C:F.142, C:L.282, C:V.333, C:R.337, C:Y.341, C:Y.341, C:A.344 Water bridges: C:N.54, C:A.114, C:R.348, C:R.348 Salt bridges: C:R.53, C:R.53, C:R.93, C:H.345, C:R.348 pi-Stacking: C:H.56, C:F.142 pi-Cation interactions: C:R.337 Metal complexes: C:Y.341 HEM.10: 26 residues within 4Å: Chain A: N.46 Chain D: R.53, N.54, P.55, H.56, R.93, G.112, F.113, V.127, Y.128, N.129, F.134, P.139, F.142, S.199, H.201, L.282, F.317, V.333, R.337, S.340, Y.341, A.344, H.345, R.348 Ligands: AZI.4 27 PLIP interactions: 27 interactions with chain D, Hydrophobic interactions: D:H.56, D:V.127, D:N.129, D:F.134, D:F.142, D:F.142, D:F.142, D:F.142, D:L.282, D:V.333, D:R.337, D:Y.341, D:Y.341, D:A.344 Water bridges: D:R.53, D:N.54, D:A.114, D:F.317 Salt bridges: D:R.53, D:R.53, D:R.93, D:H.345, D:R.348 pi-Stacking: D:H.56, D:F.142 pi-Cation interactions: D:R.337 Metal complexes: D:Y.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mate, M.J. et al., Structure of catalase-A from Saccharomyces cerevisiae. J.Mol.Biol. (1999)

Release Date

1999-08-13

Peptides

CATALASE A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

CATALASE A