SMTL ID : 7rst.1

The Crystal Structure of Recombinant Chloroperoxidase Expressed in Aspergillus niger

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

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: 9 residues within 4Å: Chain A: S.26, R.47, V.83, N.94, T.96, F.280, L.281, L.282 Ligands: IOD.27 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.83, A:L.282 Hydrogen bonds: A:L.282 NAG-NAG.2: 8 residues within 4Å: Chain A: K.212, Y.213, T.216, N.217, H.223, L.295, D.299 Ligands: IOD.28 No protein-ligand interaction detected (PLIP)

1 x MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose(Post Translational Modification)

MAN-MAN.3: 2 residues within 4Å: Chain A: T.284, N.285 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.285 Water bridges: A:T.284, A:A.286

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 4 residues within 4Å: Chain A: E.105, H.106, S.109 Ligands: HEM.5 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.105, A:H.106, A:S.109, H2O.6, H2O.7

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

HEM.5: 25 residues within 4Å: Chain A: P.29, C.30, P.31, A.32, L.33, F.58, I.64, I.69, A.72, L.73, A.76, L.98, F.104, E.105, H.106, S.109, F.110, S.111, R.112, E.184, F.187, I.188, W.214, F.215 Ligands: MN.4 35 PLIP interactions: 35 interactions with chain A, Hydrophobic interactions: A:P.31, A:A.32, A:L.33, A:F.58, A:F.58, A:F.58, A:I.64, A:I.64, A:A.72, A:L.73, A:A.76, A:L.98, A:F.104, A:F.104, A:F.104, A:E.184, A:E.184, A:F.187, A:F.187, A:F.187, A:I.188, A:W.214, A:W.214, A:F.215 Hydrogen bonds: A:H.106, A:F.110, A:S.111, A:R.112, A:E.184 Water bridges: A:Q.181, A:E.184 Salt bridges: A:H.106 pi-Stacking: A:F.104, A:F.187 Metal complexes: A:C.30

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

NAG.6: 4 residues within 4Å: Chain A: Y.9, P.10, Y.11, N.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.10 Water bridges: A:N.13, A:N.13, A:N.13

12 x MAN: alpha-D-mannopyranose(Post Translational Modification)

MAN.7: 6 residues within 4Å: Chain A: E.236, T.239, S.240, E.267 Ligands: MAN.9, MAN.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.267 Water bridges: A:E.236 MAN.8: 7 residues within 4Å: Chain A: Y.151, D.201, E.202, P.204, E.236, F.237, S.240 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.151, A:D.201, A:E.202 Water bridges: A:N.203 MAN.9: 12 residues within 4Å: Chain A: P.179, N.182, V.183, T.239, S.242, S.243, L.246, G.265, A.266, A.268 Ligands: MAN.7, MAN.10 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.178, A:P.179, A:G.265, A:G.265, A:A.268 Water bridges: A:E.267 MAN.10: 3 residues within 4Å: Chain A: S.243 Ligands: MAN.7, MAN.9 No protein-ligand interaction detected (PLIP) MAN.11: 4 residues within 4Å: Chain A: S.249, V.250, T.251 Ligands: MAN.14 No protein-ligand interaction detected (PLIP) MAN.12: 6 residues within 4Å: Chain A: A.152, D.153, E.156, T.251, S.252 Ligands: MAN.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.153 Water bridges: A:V.142, A:D.153, A:S.252 MAN.13: 6 residues within 4Å: Chain A: V.142, E.156, Q.160, S.252, P.254 Ligands: MAN.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.160 Water bridges: A:Q.160 MAN.14: 4 residues within 4Å: Chain A: V.250, T.253, I.262 Ligands: MAN.11 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.250 Water bridges: A:V.250 MAN.15: 1 residues within 4Å: Chain A: S.255 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.253 MAN.16: 1 residues within 4Å: Chain A: S.259 No protein-ligand interaction detected (PLIP) MAN.17: 3 residues within 4Å: Chain A: S.272, F.273, A.274 No protein-ligand interaction detected (PLIP) MAN.18: 2 residues within 4Å: Chain A: T.294, L.295 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.295

10 x IOD: IODIDE ION(Non-functional Binders)

IOD.19: 3 residues within 4Å: Chain A: D.150, Y.151, A.152 Ligand excluded by PLIP IOD.20: 2 residues within 4Å: Chain A: L.71, N.75 Ligand excluded by PLIP IOD.21: 1 residues within 4Å: Chain A: V.269 Ligand excluded by PLIP IOD.22: 1 residues within 4Å: Chain A: A.266 Ligand excluded by PLIP IOD.23: 2 residues within 4Å: Chain A: L.71, T.74 Ligand excluded by PLIP IOD.24: 2 residues within 4Å: Chain A: S.67, E.70 Ligand excluded by PLIP IOD.25: 1 residues within 4Å: Chain A: K.116 Ligand excluded by PLIP IOD.26: 1 residues within 4Å: Chain A: Q.117 Ligand excluded by PLIP IOD.27: 3 residues within 4Å: Chain A: R.47, N.94 Ligands: NAG-NAG.1 Ligand excluded by PLIP IOD.28: 2 residues within 4Å: Chain A: H.223 Ligands: NAG-NAG.2 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, X. et al., The Crystal Structure of Recombinant Chloroperoxidase Expressed in Aspergillus niger. To Be Published

Release Date

2022-08-24

Peptides

Chloroperoxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Chloroperoxidase

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