- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.49 Å
- Oligo State
- hetero-3-3-3-mer
- Ligands
- 45 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 18 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 2 residues within 4Å:- Chain B: L.108, R.112
Ligand excluded by PLIPSO4.19: 10 residues within 4Å:- Chain B: S.67, G.68, T.69
- Chain C: S.11, Y.12, N.43, K.48
- Chain F: K.326, I.329
- Ligands: EDO.11
Ligand excluded by PLIPSO4.20: 3 residues within 4Å:- Chain C: V.558, K.559, E.560
Ligand excluded by PLIPSO4.21: 1 residues within 4Å:- Chain C: N.65
Ligand excluded by PLIPSO4.22: 13 residues within 4Å:- Chain C: A.170, H.222, E.223, D.224, H.249, G.280, L.319, C.322, H.323, F.335, R.339, M.367
- Ligands: 2PA.23
Ligand excluded by PLIPSO4.24: 1 residues within 4Å:- Chain C: K.518
Ligand excluded by PLIPSO4.28: 2 residues within 4Å:- Chain E: L.108, R.112
Ligand excluded by PLIPSO4.43: 10 residues within 4Å:- Chain E: S.67, G.68, T.69
- Chain F: S.11, Y.12, N.43, K.48
- Chain I: K.326, I.329
- Ligands: EDO.35
Ligand excluded by PLIPSO4.44: 3 residues within 4Å:- Chain F: V.558, K.559, E.560
Ligand excluded by PLIPSO4.45: 1 residues within 4Å:- Chain F: N.65
Ligand excluded by PLIPSO4.46: 13 residues within 4Å:- Chain F: A.170, H.222, E.223, D.224, H.249, G.280, L.319, C.322, H.323, F.335, R.339, M.367
- Ligands: 2PA.47
Ligand excluded by PLIPSO4.48: 1 residues within 4Å:- Chain F: K.518
Ligand excluded by PLIPSO4.52: 2 residues within 4Å:- Chain H: L.108, R.112
Ligand excluded by PLIPSO4.67: 10 residues within 4Å:- Chain C: K.326, I.329
- Chain H: S.67, G.68, T.69
- Chain I: S.11, Y.12, N.43, K.48
- Ligands: EDO.59
Ligand excluded by PLIPSO4.68: 3 residues within 4Å:- Chain I: V.558, K.559, E.560
Ligand excluded by PLIPSO4.69: 1 residues within 4Å:- Chain I: N.65
Ligand excluded by PLIPSO4.70: 13 residues within 4Å:- Chain I: A.170, H.222, E.223, D.224, H.249, G.280, L.319, C.322, H.323, F.335, R.339, M.367
- Ligands: 2PA.71
Ligand excluded by PLIPSO4.72: 1 residues within 4Å:- Chain I: K.518
Ligand excluded by PLIP- 6 x NI: NICKEL (II) ION(Non-covalent)
NI.5: 7 residues within 4Å:- Chain C: K.220, H.222, H.249, H.275, G.280
- Ligands: NI.6, 2PA.23
2 PLIP interactions:2 interactions with chain C- Metal complexes: C:H.249, C:H.275
NI.6: 6 residues within 4Å:- Chain C: H.137, H.139, K.220, D.363
- Ligands: NI.5, 2PA.23
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.137, C:H.139, C:D.363
NI.29: 7 residues within 4Å:- Chain F: K.220, H.222, H.249, H.275, G.280
- Ligands: NI.30, 2PA.47
2 PLIP interactions:2 interactions with chain F- Metal complexes: F:H.249, F:H.275
NI.30: 6 residues within 4Å:- Chain F: H.137, H.139, K.220, D.363
- Ligands: NI.29, 2PA.47
3 PLIP interactions:3 interactions with chain F- Metal complexes: F:H.137, F:H.139, F:D.363
NI.53: 7 residues within 4Å:- Chain I: K.220, H.222, H.249, H.275, G.280
- Ligands: NI.54, 2PA.71
2 PLIP interactions:2 interactions with chain I- Metal complexes: I:H.249, I:H.275
NI.54: 6 residues within 4Å:- Chain I: H.137, H.139, K.220, D.363
- Ligands: NI.53, 2PA.71
3 PLIP interactions:3 interactions with chain I- Metal complexes: I:H.137, I:H.139, I:D.363
- 3 x 2PA: DIAMIDOPHOSPHATE(Non-covalent)
2PA.23: 16 residues within 4Å:- Chain C: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, D.363, A.366, M.367
- Ligands: NI.5, NI.6, SO4.22
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:H.323, C:R.339, C:A.366
2PA.47: 16 residues within 4Å:- Chain F: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, D.363, A.366, M.367
- Ligands: NI.29, NI.30, SO4.46
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:H.323, F:R.339, F:A.366
2PA.71: 16 residues within 4Å:- Chain I: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, D.363, A.366, M.367
- Ligands: NI.53, NI.54, SO4.70
3 PLIP interactions:3 interactions with chain I- Hydrogen bonds: I:H.323, I:R.339, I:A.366
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Mazzei, L. et al., The Impact of pH on Catalytically Critical Protein Conformational Changes: The Case of the Urease, a Nickel Enzyme. Chemistry (2019)
- Release Date
- 2020-03-11
- Peptides
- Urease subunit gamma: ADG
Urease subunit beta: BEH
Urease subunit alpha: CFI - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
AG
AB
BE
BH
BC
CF
CI
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.49 Å
- Oligo State
- hetero-3-3-3-mer
- Ligands
- 45 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 18 x SO4: SULFATE ION(Non-functional Binders)
- 6 x NI: NICKEL (II) ION(Non-covalent)
- 3 x 2PA: DIAMIDOPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Mazzei, L. et al., The Impact of pH on Catalytically Critical Protein Conformational Changes: The Case of the Urease, a Nickel Enzyme. Chemistry (2019)
- Release Date
- 2020-03-11
- Peptides
- Urease subunit gamma: ADG
Urease subunit beta: BEH
Urease subunit alpha: CFI - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
AG
AB
BE
BH
BC
CF
CI
C