SMTL ID : 5o2w.1

Extended catalytic domain of Hypocrea jecorina LPMO 9A.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: A.37, N.59 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.37 Water bridges: A:N.59 NAG.2: 5 residues within 4Å: Chain A: Q.78, V.80, V.82, N.137 Ligands: MAN.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.78, A:N.137

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

MAN.3: 5 residues within 4Å: Chain A: S.191, G.192, V.193 Ligands: MAN.9, SO4.21 No protein-ligand interaction detected (PLIP) MAN.4: 6 residues within 4Å: Chain A: Q.50, N.51, P.52, L.194, T.196, D.197 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.197 Water bridges: A:Q.50, A:T.107 MAN.5: 3 residues within 4Å: Chain A: H.200, T.202, D.203 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.200, A:D.203 MAN.6: 4 residues within 4Å: Chain A: T.212, S.213, P.214, L.215 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.213 Water bridges: A:N.216 MAN.7: 1 residues within 4Å: Chain A: S.213 2 PLIP interactions: 2 interactions with chain A Water bridges: A:G.122, A:S.213 MAN.8: 5 residues within 4Å: Chain A: G.116, V.117, T.230, S.231 Ligands: MAN.11 No protein-ligand interaction detected (PLIP) MAN.9: 4 residues within 4Å: Chain A: T.223, V.224 Ligands: MAN.3, SO4.21 4 PLIP interactions: 4 interactions with chain A Water bridges: A:S.191, A:S.191, A:S.226, A:S.226 MAN.10: 1 residues within 4Å: Chain A: S.226 No protein-ligand interaction detected (PLIP) MAN.11: 6 residues within 4Å: Chain A: L.120, V.132, S.231, V.232, Q.234 Ligands: MAN.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.232 Water bridges: A:Q.234 MAN.12: 8 residues within 4Å: Chain A: Q.78, N.136, N.137, T.139, S.236, S.237, A.238 Ligands: NAG.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.78, A:N.137, A:S.237 Water bridges: A:A.238, A:A.239, A:A.239 MAN.13: 9 residues within 4Å: Chain A: V.8, I.9, N.10, G.11, T.74, I.75, L.76, V.141, S.237 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.11, A:T.74, A:T.74 Water bridges: A:N.10, A:A.233 MAN.14: 3 residues within 4Å: Chain A: N.10, T.240, A.241 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.10 MAN.15: 3 residues within 4Å: Chain A: W.13, A.241, T.242 No protein-ligand interaction detected (PLIP) MAN.16: 1 residues within 4Å: Chain A: S.244 No protein-ligand interaction detected (PLIP) MAN.17: 7 residues within 4Å: Chain A: Y.14, H.66, A.67, S.68, A.243, S.244, T.246 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.14, A:H.66, A:S.68, A:S.68 Water bridges: A:Y.14, A:Y.14, A:Y.14

1 x CU: COPPER (II) ION(Non-covalent)

CU.18: 5 residues within 4Å: Chain A: H.1, H.86, Q.172, Y.174 Ligands: SO4.19 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.86, A:Y.174, H2O.1, H2O.7

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

SO4.19: 5 residues within 4Å: Chain A: H.1, H.86, H.163, Q.172 Ligands: CU.18 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.172 Water bridges: A:S.164, A:S.164 Salt bridges: A:H.86, A:H.163 SO4.20: 4 residues within 4Å: Chain A: S.121, G.122, G.126, T.127 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.127, A:T.127 Water bridges: A:G.126, A:G.126 SO4.21: 4 residues within 4Å: Chain A: P.222, T.223 Ligands: MAN.3, MAN.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hansson, H. et al., High-resolution structure of a lytic polysaccharide monooxygenase from Hypocrea jecorina reveals a predicted linker as an integral part of the catalytic domain. J. Biol. Chem. (2017)

Release Date

2017-09-20

Peptides

Glycoside hydrolase family 61: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glycoside hydrolase family 61

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