SMTL ID : 4jjj.1

The structure of T. fusca GH48 D224N mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-BGC.1: 12 residues within 4Å: Chain A: H.32, E.40, A.41, E.51, W.414, F.417, W.420, D.498, R.619, W.621 Ligands: GLC-BGC.2, GLC-BGC.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.32, A:E.40, A:E.51

1 x GLC- BGC: beta-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-BGC.2: 12 residues within 4Å: Chain A: H.32, E.40, A.41, E.51, W.414, F.417, W.420, D.498, R.619, W.621 Ligands: BGC-BGC.1, BGC-BGC.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:H.32, A:E.51, A:D.498, A:D.498 Water bridges: A:E.40, A:E.40, A:R.619, A:R.619, A:R.619 Salt bridges: A:R.619

1 x BGC- BGC- BGC- BGC- BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-BGC-BGC-BGC-BGC-BGC.3: 24 residues within 4Å: Chain A: A.103, T.104, I.106, E.108, L.119, W.148, N.173, Y.175, Q.176, T.208, D.210, R.218, T.220, N.221, K.270, Y.271, W.299, Y.300, S.302, W.313, W.315, I.317, Y.326, W.406 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.210 Water bridges: A:D.210, A:N.212, A:N.212, A:N.212

4 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: R.180, E.185, D.408, R.551, E.560 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:R.180, A:D.408, A:E.560, H2O.1, H2O.1 CA.5: 3 residues within 4Å: Chain A: D.550, D.553, D.554 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.550, A:D.553, A:D.554, H2O.14, H2O.19, H2O.39 CA.6: 2 residues within 4Å: Chain A: E.438, D.442 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.438, A:D.442, H2O.1, H2O.9, H2O.21 CA.7: 2 residues within 4Å: Chain A: C.161, D.194 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:C.161, H2O.7, H2O.23, H2O.24, H2O.34

3 x NA: SODIUM ION(Non-functional Binders)

NA.8: 2 residues within 4Å: Chain A: D.254, D.344 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.254 Water bridges: A:Y.138, A:S.257 NA.9: 2 residues within 4Å: Chain A: Y.2, D.530 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.2, A:D.530 Water bridges: A:D.530 NA.10: 2 residues within 4Å: Chain A: H.74, E.248 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.74

4 x FE: FE (III) ION(Non-covalent)

FE.11: 1 residues within 4Å: Chain A: H.197 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:H.197, H2O.8, H2O.8, H2O.9, H2O.11, H2O.12 FE.12: 1 residues within 4Å: Chain A: H.451 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.451, H2O.42, H2O.44, H2O.44 FE.13: 1 residues within 4Å: Chain A: D.386 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.386, H2O.11, H2O.40, H2O.43, H2O.44 FE.14: 1 residues within 4Å: Chain A: D.344 No protein-ligand interaction detected (PLIP)

21 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.15: 2 residues within 4Å: Chain A: E.11, D.15 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.11, A:D.15 ZN.16: 4 residues within 4Å: Chain A: H.603 Ligands: ZN.30, ZN.35, ACT.36 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.603, H2O.44 ZN.17: 3 residues within 4Å: Chain A: H.237, E.340 Ligands: ZN.27 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.237, A:E.340, H2O.22, H2O.42 ZN.18: 3 residues within 4Å: Chain A: E.526, H.633 Ligands: ACT.37 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.526, A:E.526, A:H.633, H2O.44 ZN.19: 2 residues within 4Å: Chain A: D.357, E.361 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.357, A:D.357, A:E.361, H2O.1 ZN.20: 2 residues within 4Å: Chain A: E.248 Ligands: ZN.21 No protein-ligand interaction detected (PLIP) ZN.21: 2 residues within 4Å: Chain A: K.245 Ligands: ZN.20 No protein-ligand interaction detected (PLIP) ZN.22: 4 residues within 4Å: Chain A: Q.461, H.535 Ligands: ZN.23, ZN.25 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:Q.461, A:H.535, H2O.20, H2O.20 ZN.23: 6 residues within 4Å: Chain A: H.535, A.542 Ligands: ZN.22, ZN.24, ZN.25, ZN.26 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.535, H2O.16, H2O.20, H2O.20 ZN.24: 5 residues within 4Å: Chain A: P.544, E.616 Ligands: ZN.23, ZN.25, ZN.26 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.616, A:E.616, H2O.20, H2O.25, H2O.34 ZN.25: 3 residues within 4Å: Ligands: ZN.22, ZN.23, ZN.24 No protein-ligand interaction detected (PLIP) ZN.26: 2 residues within 4Å: Ligands: ZN.23, ZN.24 No protein-ligand interaction detected (PLIP) ZN.27: 3 residues within 4Å: Chain A: H.237, E.340 Ligands: ZN.17 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.237, A:E.340, A:E.340, H2O.22, H2O.30 ZN.28: 3 residues within 4Å: Chain A: H.46, D.153 Ligands: ZN.29 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.46, A:D.153, H2O.42, H2O.42 ZN.29: 2 residues within 4Å: Chain A: D.153 Ligands: ZN.28 No protein-ligand interaction detected (PLIP) ZN.30: 6 residues within 4Å: Chain A: W.549, D.550, H.603, L.604 Ligands: ZN.16, ACT.36 No protein-ligand interaction detected (PLIP) ZN.31: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) ZN.32: 2 residues within 4Å: Chain A: E.81, K.255 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.81, H2O.12, H2O.39, H2O.43, H2O.43 ZN.33: 1 residues within 4Å: Chain A: D.468 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.468, H2O.11, H2O.16, H2O.36, H2O.44 ZN.34: 1 residues within 4Å: Chain A: G.480 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.480, H2O.10, H2O.40, H2O.43, H2O.43 ZN.35: 2 residues within 4Å: Ligands: ZN.16, ACT.36 No protein-ligand interaction detected (PLIP)

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.36: 5 residues within 4Å: Chain A: H.603, P.607 Ligands: ZN.16, ZN.30, ZN.35 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.603 ACT.37: 4 residues within 4Å: Chain A: E.526, H.633, F.637 Ligands: ZN.18 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.633

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.38: 2 residues within 4Å: Chain A: E.238, Y.430 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.238, A:Y.430 Water bridges: A:K.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kostylev, M. et al., Cel48A from Thermobifida fusca: structure and site directed mutagenesis of key residues. Biotechnol.Bioeng. (2014)

Release Date

2014-07-30

Peptides

Cellulose 1,4-beta-cellobiosidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cellulose 1,4-beta-cellobiosidase