- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.15 Å
- Oligo State
- monomer
- Ligands
- 1 x X0X- ADA- ADA: alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-beta-D-talopyranuronic acid
- 4 x CA: CALCIUM ION(Non-covalent)
CA.2: 8 residues within 4Å:- Chain A: Q.48, Q.50, E.95, D.118
- Ligands: X0X-ADA-ADA.1, CA.3, ADA.9, ADA.12
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:E.95, A:D.118, H2O.2, H2O.4, H2O.4
CA.3: 11 residues within 4Å:- Chain A: Q.50, E.95, D.96
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, CA.2, CA.4, ADA.9, ADA.10, ADA.12, ADA.13
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.95, A:E.95, H2O.2
CA.4: 7 residues within 4Å:- Chain A: D.75, E.95, D.96
- Ligands: X0X-ADA-ADA.1, CA.3, ADA.10, ADA.13
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.75, A:D.75, A:D.96, A:D.96, H2O.8
CA.5: 3 residues within 4Å:- Chain A: D.92, V.93, E.115
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.92, A:V.93, A:E.115, H2O.4, H2O.5
- 1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
- 5 x ADA: alpha-D-galactopyranuronic acid(Non-covalent)
ADA.8: 9 residues within 4Å:- Chain A: D.118, K.141, R.144, K.171
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, ADA.9, GTR.11, ADA.12
14 PLIP interactions:14 interactions with chain A- Water bridges: A:D.118, A:K.141, A:R.144, A:R.144, A:S.167, A:S.167, A:S.167, A:K.171, A:K.171, A:K.171
- Salt bridges: A:K.141, A:K.141, A:R.144, A:K.171
ADA.9: 17 residues within 4Å:- Chain A: Q.50, E.95, D.118, Q.122, R.144, N.146, G.147
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, X0X-ADA-ADA.1, CA.2, CA.3, ADA.8, ADA.10, GTR.11, ADA.12, ADA.13
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:D.118, A:Q.122, A:N.146, A:G.147
- Water bridges: A:R.144, A:R.144, A:G.147
ADA.10: 13 residues within 4Å:- Chain A: Q.50, E.95, D.96, Q.122, N.124, N.146
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, CA.3, CA.4, ADA.9, ADA.12, ADA.13
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.124, A:N.124, A:N.146
- Water bridges: A:K.101, A:N.146
ADA.12: 17 residues within 4Å:- Chain A: Q.50, E.95, D.118, Q.122, R.144, N.146, G.147
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, X0X-ADA-ADA.1, CA.2, CA.3, ADA.8, ADA.9, ADA.10, GTR.11, ADA.13
11 PLIP interactions:11 interactions with chain A- Hydrogen bonds: A:D.118, A:Q.122, A:G.147
- Water bridges: A:Q.48, A:E.95, A:E.95, A:D.118, A:D.118, A:Q.122, A:R.144, A:G.147
ADA.13: 13 residues within 4Å:- Chain A: Q.50, E.95, D.96, Q.122, N.124, N.146
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, CA.3, CA.4, ADA.9, ADA.10, ADA.12
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.124, A:N.124, A:N.146
- Water bridges: A:K.101, A:N.146
- 1 x GTR: beta-D-galactopyranuronic acid(Non-covalent)
GTR.11: 9 residues within 4Å:- Chain A: D.118, K.141, R.144, K.171
- Ligands: X0X-ADA-ADA.1, X0X-ADA-ADA.1, ADA.8, ADA.9, ADA.12
15 PLIP interactions:15 interactions with chain A- Water bridges: A:D.118, A:R.144, A:R.144, A:S.167, A:S.167, A:S.167, A:S.167, A:S.167, A:K.171, A:K.171, A:K.171
- Salt bridges: A:K.141, A:K.141, A:R.144, A:K.171
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Alahuhta, M. et al., The catalytic mechanism and unique low pH optimum of Caldicellulosiruptor bescii family 3 pectate lyase. Acta Crystallogr.,Sect.D (2015)
- Release Date
- 2015-12-23
- Peptides
- Pectate lyase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.15 Å
- Oligo State
- monomer
- Ligands
- 1 x X0X- ADA- ADA: alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-beta-D-talopyranuronic acid
- 4 x CA: CALCIUM ION(Non-covalent)
- 1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
- 5 x ADA: alpha-D-galactopyranuronic acid(Non-covalent)
- 1 x GTR: beta-D-galactopyranuronic acid(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Alahuhta, M. et al., The catalytic mechanism and unique low pH optimum of Caldicellulosiruptor bescii family 3 pectate lyase. Acta Crystallogr.,Sect.D (2015)
- Release Date
- 2015-12-23
- Peptides
- Pectate lyase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B