- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.42 Å
- Oligo State
- homo-hexamer
- Ligands
- 12 x CA: CALCIUM ION(Non-covalent)
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 13 residues within 4Å:- Chain A: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.1, CA.2
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.205, A:D.293
- Water bridges: A:W.307, A:E.338
EDO.5: 9 residues within 4Å:- Chain A: G.66, I.67, N.68, R.113
- Chain F: N.68, Q.109, R.112, R.113
- Ligands: EDO.30
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain F- Hydrogen bonds: A:N.68, A:N.68, F:Q.109
EDO.8: 13 residues within 4Å:- Chain B: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.6, CA.7
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.205, B:D.293
- Water bridges: B:W.307, B:E.338
EDO.10: 9 residues within 4Å:- Chain B: G.66, I.67, N.68, R.113
- Chain E: N.68, Q.109, R.112, R.113
- Ligands: EDO.25
3 PLIP interactions:1 interactions with chain E, 2 interactions with chain B- Hydrogen bonds: E:Q.109, B:N.68, B:N.68
EDO.13: 13 residues within 4Å:- Chain C: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.11, CA.12
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:D.205, C:D.293
- Water bridges: C:W.307, C:E.338
EDO.15: 9 residues within 4Å:- Chain C: G.66, I.67, N.68, R.113
- Chain D: N.68, Q.109, R.112, R.113
- Ligands: EDO.20
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:N.68, C:N.68, D:Q.109
EDO.18: 13 residues within 4Å:- Chain D: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.16, CA.17
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.205
- Water bridges: D:W.307, D:E.338
EDO.20: 9 residues within 4Å:- Chain C: N.68, Q.109, R.112, R.113
- Chain D: G.66, I.67, N.68, R.113
- Ligands: EDO.15
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain D- Hydrogen bonds: C:Q.109, D:N.68, D:N.68
EDO.23: 13 residues within 4Å:- Chain E: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.21, CA.22
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:D.205
- Water bridges: E:W.307, E:E.338
EDO.25: 9 residues within 4Å:- Chain B: N.68, Q.109, R.112, R.113
- Chain E: G.66, I.67, N.68, R.113
- Ligands: EDO.10
3 PLIP interactions:2 interactions with chain E, 1 interactions with chain B- Hydrogen bonds: E:N.68, E:N.68, B:Q.109
EDO.28: 13 residues within 4Å:- Chain F: H.176, H.199, D.201, H.203, D.205, H.216, T.217, D.293, D.295, W.307, E.338
- Ligands: CA.26, CA.27
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:D.205
- Water bridges: F:W.307, F:E.338
EDO.30: 9 residues within 4Å:- Chain A: N.68, Q.109, R.112, R.113
- Chain F: G.66, I.67, N.68, R.113
- Ligands: EDO.5
3 PLIP interactions:2 interactions with chain F, 1 interactions with chain A- Hydrogen bonds: F:N.68, F:N.68, A:Q.109
- 6 x ACT: ACETATE ION(Non-functional Binders)
ACT.4: 4 residues within 4Å:- Chain A: L.270, R.316, E.317, Y.320
7 PLIP interactions:4 interactions with chain A, 3 interactions with chain B- Water bridges: A:R.316, A:R.316, A:E.317, B:T.266, B:T.266, B:T.266
- Salt bridges: A:R.316
ACT.9: 4 residues within 4Å:- Chain B: L.270, R.316, E.317, Y.320
7 PLIP interactions:4 interactions with chain B, 3 interactions with chain C- Water bridges: B:R.316, B:R.316, B:E.317, C:T.266, C:T.266, C:T.266
- Salt bridges: B:R.316
ACT.14: 4 residues within 4Å:- Chain C: L.270, R.316, E.317, Y.320
7 PLIP interactions:4 interactions with chain C, 3 interactions with chain A- Water bridges: C:R.316, C:R.316, C:E.317, A:T.266, A:T.266, A:T.266
- Salt bridges: C:R.316
ACT.19: 4 residues within 4Å:- Chain D: L.270, R.316, E.317, Y.320
6 PLIP interactions:3 interactions with chain E, 3 interactions with chain D- Water bridges: E:T.266, E:T.266, E:T.266, D:R.316, D:R.316
- Salt bridges: D:R.316
ACT.24: 4 residues within 4Å:- Chain E: L.270, R.316, E.317, Y.320
6 PLIP interactions:3 interactions with chain F, 3 interactions with chain E- Water bridges: F:T.266, F:T.266, F:T.266, E:R.316, E:R.316
- Salt bridges: E:R.316
ACT.29: 4 residues within 4Å:- Chain F: L.270, R.316, E.317, Y.320
6 PLIP interactions:3 interactions with chain D, 3 interactions with chain F- Water bridges: D:T.266, D:T.266, D:T.266, F:R.316, F:R.316
- Salt bridges: F:R.316
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Funck, D. et al., Discovery of a Ni 2+ -dependent guanidine hydrolase in bacteria. Nature (2022)
- Release Date
- 2021-12-15
- Peptides
- Probable agmatinase 2: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.42 Å
- Oligo State
- homo-hexamer
- Ligands
- 12 x CA: CALCIUM ION(Non-covalent)
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x ACT: ACETATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Funck, D. et al., Discovery of a Ni 2+ -dependent guanidine hydrolase in bacteria. Nature (2022)
- Release Date
- 2021-12-15
- Peptides
- Probable agmatinase 2: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
A