SMTL ID : 1ly8.2 (1 other biounit)

The crystal structure of a mutant enzyme of Coprinus cinereus peroxidase provides an understanding of its increased thermostability and insight into modelling of protein structures

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: A.81, I.107, G.110, V.111, F.113, N.142 4 PLIP interactions: 4 interactions with chain A Water bridges: A:A.81, A:G.106, A:V.111, A:N.142

1 x BMA: beta-D-mannopyranose(Post Translational Modification)

BMA.2: 3 residues within 4Å: Chain A: T.313, T.331, A.332 No protein-ligand interaction detected (PLIP)

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

MAN.3: 5 residues within 4Å: Chain A: G.238, S.338, L.339, A.340, P.341 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.238, A:L.339

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain A: D.56, G.74, D.76, S.78 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.56, A:D.76, A:S.78, H2O.1, H2O.8 CA.5: 5 residues within 4Å: Chain A: S.184, D.201, T.203, V.206, D.208 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:S.184, A:S.184, A:D.201, A:T.203, A:V.206

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

HEM.6: 26 residues within 4Å: Chain A: R.47, K.48, L.50, R.51, F.54, P.153, G.154, P.155, I.162, F.166, L.179, L.180, A.182, H.183, L.185, A.186, S.187, Q.188, E.189, G.190, L.191, I.242, S.244, F.272, M.276, M.279 31 PLIP interactions: 31 interactions with chain A, Hydrophobic interactions: A:R.47, A:L.50, A:F.54, A:F.54, A:F.54, A:F.54, A:P.155, A:I.162, A:F.166, A:L.179, A:A.182, A:A.186, A:Q.188, A:L.191, A:I.242, A:F.272 Hydrogen bonds: A:S.187, A:E.189, A:G.190, A:L.191 Water bridges: A:K.48, A:R.51, A:R.51, A:R.51, A:R.51, A:S.187, A:S.187 Salt bridges: A:R.47, A:K.48, A:R.51 Metal complexes: A:H.183

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 2 residues within 4Å: Chain A: T.158, T.160 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.158, A:T.160, A:T.160 Water bridges: A:T.160 GOL.8: 3 residues within 4Å: Chain A: H.82, N.84, I.85 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.82, A:N.84, A:I.85 GOL.9: 1 residues within 4Å: Chain A: A.66 No protein-ligand interaction detected (PLIP) GOL.10: 4 residues within 4Å: Chain A: F.36, D.97, T.98, A.101 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.97, A:T.98 Water bridges: A:T.98, A:T.98 GOL.11: 6 residues within 4Å: Chain A: S.40, K.41, C.42, E.43, N.127, Q.205 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:C.42, A:N.127, A:Q.205 Water bridges: A:E.43 GOL.12: 4 residues within 4Å: Chain A: S.260, S.264, V.267, R.271 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.260, A:S.264, A:R.271 GOL.13: 5 residues within 4Å: Chain A: S.263, S.264, N.265, E.266, P.306 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.263, A:N.265, A:E.266, A:E.266 GOL.14: 4 residues within 4Å: Chain A: P.90, A.91, P.155, F.229 2 PLIP interactions: 2 interactions with chain A Water bridges: A:P.90, A:G.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Houborg, K. et al., The structure of a mutant enzyme of Coprinus cinereus peroxidase provides an understanding of its increased thermostability. Acta Crystallogr.,Sect.D (2003)

Release Date

2002-06-14

Peptides

Peroxidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Peroxidase

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