SMTL ID : 1jku.1

Crystal Structure of Manganese Catalase from Lactobacillus plantarum

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-hexamer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.57, D.61 Chain F: N.218, S.220, G.222, S.225 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain F Metal complexes: A:D.57, A:D.57, A:D.61, F:S.220, F:G.222 CA.7: 6 residues within 4Å: Chain B: D.57, D.61 Chain C: N.218, S.220, G.222, S.225 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Metal complexes: B:D.57, B:D.57, B:D.61, C:S.220, C:G.222 CA.13: 6 residues within 4Å: Chain B: N.218, S.220, G.222, S.225 Chain C: D.57, D.61 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Metal complexes: C:D.57, C:D.57, C:D.61, B:S.220, B:G.222 CA.19: 6 residues within 4Å: Chain D: D.57, D.61 Chain E: N.218, S.220, G.222, S.225 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain E Metal complexes: D:D.57, D:D.61, D:D.61, E:S.220, E:G.222 CA.25: 6 residues within 4Å: Chain D: N.218, S.220, G.222, S.225 Chain E: D.57, D.61 5 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: E:D.61, E:D.61, D:S.220, D:G.222, H2O.22 CA.31: 6 residues within 4Å: Chain A: N.218, S.220, G.222, S.225 Chain F: D.57, D.61 5 PLIP interactions: 3 interactions with chain F, 2 interactions with chain A Metal complexes: F:D.57, F:D.57, F:D.61, A:S.220, A:G.222

18 x OH: HYDROXIDE ION(Non-covalent)

OH.2: 9 residues within 4Å: Chain A: E.35, E.66, H.69, E.148, H.181 Ligands: OH.3, OH.4, MN3.5, MN3.6 Ligand excluded by PLIP OH.3: 9 residues within 4Å: Chain A: E.35, E.66, R.147, E.148, E.178 Ligands: OH.2, OH.4, MN3.5, MN3.6 Ligand excluded by PLIP OH.4: 7 residues within 4Å: Chain A: E.35, H.69, L.174, E.178 Ligands: OH.2, OH.3, MN3.5 Ligand excluded by PLIP OH.8: 10 residues within 4Å: Chain B: E.35, E.66, H.69, E.148, E.178, H.181 Ligands: OH.9, OH.10, MN3.11, MN3.12 Ligand excluded by PLIP OH.9: 9 residues within 4Å: Chain B: E.35, E.66, R.147, E.148, E.178 Ligands: OH.8, OH.10, MN3.11, MN3.12 Ligand excluded by PLIP OH.10: 7 residues within 4Å: Chain B: E.35, H.69, L.174, E.178 Ligands: OH.8, OH.9, MN3.11 Ligand excluded by PLIP OH.14: 10 residues within 4Å: Chain C: E.35, E.66, H.69, E.148, E.178, H.181 Ligands: OH.15, OH.16, MN3.17, MN3.18 Ligand excluded by PLIP OH.15: 9 residues within 4Å: Chain C: E.35, E.66, R.147, E.148, E.178 Ligands: OH.14, OH.16, MN3.17, MN3.18 Ligand excluded by PLIP OH.16: 7 residues within 4Å: Chain C: E.35, H.69, L.174, E.178 Ligands: OH.14, OH.15, MN3.17 Ligand excluded by PLIP OH.20: 10 residues within 4Å: Chain D: E.35, E.66, H.69, E.148, E.178, H.181 Ligands: OH.21, OH.22, MN3.23, MN3.24 Ligand excluded by PLIP OH.21: 10 residues within 4Å: Chain D: E.35, E.66, H.69, R.147, E.148, E.178 Ligands: OH.20, OH.22, MN3.23, MN3.24 Ligand excluded by PLIP OH.22: 7 residues within 4Å: Chain D: E.35, H.69, L.174, E.178 Ligands: OH.20, OH.21, MN3.23 Ligand excluded by PLIP OH.26: 10 residues within 4Å: Chain E: E.35, E.66, H.69, E.148, E.178, H.181 Ligands: OH.27, OH.28, MN3.29, MN3.30 Ligand excluded by PLIP OH.27: 9 residues within 4Å: Chain E: E.35, E.66, R.147, E.148, E.178 Ligands: OH.26, OH.28, MN3.29, MN3.30 Ligand excluded by PLIP OH.28: 8 residues within 4Å: Chain E: E.35, H.69, L.174, E.178 Ligands: OH.26, OH.27, MN3.29, MN3.30 Ligand excluded by PLIP OH.32: 10 residues within 4Å: Chain F: E.35, E.66, H.69, E.148, E.178, H.181 Ligands: OH.33, OH.34, MN3.35, MN3.36 Ligand excluded by PLIP OH.33: 9 residues within 4Å: Chain F: E.35, E.66, R.147, E.148, E.178 Ligands: OH.32, OH.34, MN3.35, MN3.36 Ligand excluded by PLIP OH.34: 7 residues within 4Å: Chain F: E.35, H.69, L.174, E.178 Ligands: OH.32, OH.33, MN3.35 Ligand excluded by PLIP

12 x MN3: MANGANESE (III) ION(Covalent)(Non-covalent)

MN3.5: 8 residues within 4Å: Chain A: E.35, E.66, H.69, E.178 Ligands: OH.2, OH.3, OH.4, MN3.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.35, A:E.66, A:H.69 MN3.6: 8 residues within 4Å: Chain A: E.66, R.147, E.148, E.178, H.181 Ligands: OH.2, OH.3, MN3.5 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.66, A:E.148, A:E.148, A:H.181 MN3.11: 8 residues within 4Å: Chain B: E.35, E.66, H.69, E.178 Ligands: OH.8, OH.9, OH.10, MN3.12 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.35, B:E.66, B:H.69 MN3.12: 8 residues within 4Å: Chain B: E.66, R.147, E.148, E.178, H.181 Ligands: OH.8, OH.9, MN3.11 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.66, B:E.148, B:E.148, B:H.181 MN3.17: 8 residues within 4Å: Chain C: E.35, E.66, H.69, E.178 Ligands: OH.14, OH.15, OH.16, MN3.18 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.35, C:E.66, C:H.69 MN3.18: 8 residues within 4Å: Chain C: E.66, R.147, E.148, E.178, H.181 Ligands: OH.14, OH.15, MN3.17 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.66, C:E.148, C:E.148, C:H.181 MN3.23: 8 residues within 4Å: Chain D: E.35, E.66, H.69, E.178 Ligands: OH.20, OH.21, OH.22, MN3.24 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.35, D:E.66, D:H.69 MN3.24: 8 residues within 4Å: Chain D: E.66, R.147, E.148, E.178, H.181 Ligands: OH.20, OH.21, MN3.23 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.66, D:E.148, D:E.148, D:H.181 MN3.29: 8 residues within 4Å: Chain E: E.35, E.66, H.69, E.178 Ligands: OH.26, OH.27, OH.28, MN3.30 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:E.35, E:E.66, E:H.69 MN3.30: 9 residues within 4Å: Chain E: E.66, R.147, E.148, E.178, H.181 Ligands: OH.26, OH.27, OH.28, MN3.29 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:E.66, E:E.148, E:E.148, E:H.181 MN3.35: 8 residues within 4Å: Chain F: E.35, E.66, H.69, E.178 Ligands: OH.32, OH.33, OH.34, MN3.36 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:E.35, F:E.66, F:H.69 MN3.36: 8 residues within 4Å: Chain F: E.66, R.147, E.148, E.178, H.181 Ligands: OH.32, OH.33, MN3.35 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:E.66, F:E.148, F:E.148, F:H.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barynin, V.V. et al., Crystal structure of manganese catalase from Lactobacillus plantarum. Structure (2001)

Release Date

2002-07-13

Peptides

pseudocatalase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

pseudocatalase

Related Entries With Identical Sequence