- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x SO4: SULFATE ION(Non-functional Binders)
- 16 x ZN: ZINC ION(Non-covalent)
ZN.2: 7 residues within 4Å:- Chain A: H.68, H.70, K.162, D.285
- Ligands: SO4.1, ZN.3, ASN.4
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.68, A:H.70, A:D.285
ZN.3: 8 residues within 4Å:- Chain A: H.68, Y.137, K.162, H.201, H.230, D.285
- Ligands: ZN.2, ASN.4
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:H.201
ZN.6: 7 residues within 4Å:- Chain B: H.68, H.70, K.162, D.285
- Ligands: SO4.5, ZN.7, ASN.8
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.68, B:H.70, B:D.285
ZN.7: 8 residues within 4Å:- Chain B: H.68, Y.137, K.162, H.201, H.230, D.285
- Ligands: ZN.6, ASN.8
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:H.201
ZN.10: 7 residues within 4Å:- Chain C: H.68, H.70, K.162, D.285
- Ligands: SO4.9, ZN.11, ASN.12
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.68, C:H.70, C:D.285
ZN.11: 8 residues within 4Å:- Chain C: H.68, Y.137, K.162, H.201, H.230, D.285
- Ligands: ZN.10, ASN.12
1 PLIP interactions:1 interactions with chain C- Metal complexes: C:H.201
ZN.14: 7 residues within 4Å:- Chain D: H.68, H.70, K.162, D.285
- Ligands: SO4.13, ZN.15, ASN.16
3 PLIP interactions:3 interactions with chain D- Metal complexes: D:H.68, D:H.70, D:D.285
ZN.15: 8 residues within 4Å:- Chain D: H.68, Y.137, K.162, H.201, H.230, D.285
- Ligands: ZN.14, ASN.16
1 PLIP interactions:1 interactions with chain D- Metal complexes: D:H.201
ZN.18: 7 residues within 4Å:- Chain E: H.68, H.70, K.162, D.285
- Ligands: SO4.17, ZN.19, ASN.20
2 PLIP interactions:2 interactions with chain E- Metal complexes: E:H.70, E:D.285
ZN.19: 7 residues within 4Å:- Chain E: H.68, Y.137, K.162, H.201, H.230
- Ligands: ZN.18, ASN.20
2 PLIP interactions:1 Ligand-Ligand interactions, 1 interactions with chain E- Metal complexes: ASN.20, E:H.201
ZN.22: 7 residues within 4Å:- Chain F: H.68, H.70, K.162, D.285
- Ligands: SO4.21, ZN.23, ASN.24
2 PLIP interactions:2 interactions with chain F- Metal complexes: F:H.70, F:D.285
ZN.23: 7 residues within 4Å:- Chain F: H.68, Y.137, K.162, H.201, H.230
- Ligands: ZN.22, ASN.24
2 PLIP interactions:1 interactions with chain F, 1 Ligand-Ligand interactions- Metal complexes: F:H.201, ASN.24
ZN.26: 7 residues within 4Å:- Chain G: H.68, H.70, K.162, D.285
- Ligands: SO4.25, ZN.27, ASN.28
2 PLIP interactions:2 interactions with chain G- Metal complexes: G:H.70, G:D.285
ZN.27: 7 residues within 4Å:- Chain G: H.68, Y.137, K.162, H.201, H.230
- Ligands: ZN.26, ASN.28
2 PLIP interactions:1 Ligand-Ligand interactions, 1 interactions with chain G- Metal complexes: ASN.28, G:H.201
ZN.30: 7 residues within 4Å:- Chain H: H.68, H.70, K.162, D.285
- Ligands: SO4.29, ZN.31, ASN.32
2 PLIP interactions:2 interactions with chain H- Metal complexes: H:H.70, H:D.285
ZN.31: 7 residues within 4Å:- Chain H: H.68, Y.137, K.162, H.201, H.230
- Ligands: ZN.30, ASN.32
2 PLIP interactions:1 Ligand-Ligand interactions, 1 interactions with chain H- Metal complexes: ASN.32, H:H.201
- 8 x ASN: ASPARAGINE(Non-covalent)
ASN.4: 8 residues within 4Å:- Chain A: Y.137, R.169, H.201, H.230, R.233, D.285
- Ligands: ZN.2, ZN.3
9 PLIP interactions:6 interactions with chain A, 3 Ligand-Ligand interactions- Hydrogen bonds: A:Y.137, A:R.169, A:R.169, A:R.233, N.4, N.4, N.4
- Salt bridges: A:H.201, A:H.230
ASN.8: 8 residues within 4Å:- Chain B: Y.137, R.169, H.201, H.230, R.233, D.285
- Ligands: ZN.6, ZN.7
9 PLIP interactions:6 interactions with chain B, 3 Ligand-Ligand interactions- Hydrogen bonds: B:Y.137, B:R.169, B:R.169, B:R.233, N.8, N.8, N.8
- Salt bridges: B:H.201, B:H.230
ASN.12: 8 residues within 4Å:- Chain C: Y.137, R.169, H.201, H.230, R.233, D.285
- Ligands: ZN.10, ZN.11
9 PLIP interactions:6 interactions with chain C, 3 Ligand-Ligand interactions- Hydrogen bonds: C:Y.137, C:R.169, C:R.169, C:R.233, N.12, N.12, N.12
- Salt bridges: C:H.201, C:H.230
ASN.16: 8 residues within 4Å:- Chain D: Y.137, R.169, H.201, H.230, R.233, D.285
- Ligands: ZN.14, ZN.15
9 PLIP interactions:3 Ligand-Ligand interactions, 6 interactions with chain D- Hydrogen bonds: N.16, N.16, N.16, D:Y.137, D:R.169, D:R.169, D:R.233
- Salt bridges: D:H.201, D:H.230
ASN.20: 10 residues within 4Å:- Chain E: Y.137, R.169, H.201, H.230, R.233, D.285, S.289
- Ligands: SO4.17, ZN.18, ZN.19
11 PLIP interactions:10 interactions with chain E, 1 Ligand-Ligand interactions- Hydrogen bonds: E:Y.137, E:R.169, E:R.169, E:R.169, E:H.201, E:R.233, E:R.233, E:S.289, E:S.289, N.20
- Salt bridges: E:H.230
ASN.24: 10 residues within 4Å:- Chain F: Y.137, R.169, H.201, H.230, R.233, D.285, S.289
- Ligands: SO4.21, ZN.22, ZN.23
11 PLIP interactions:10 interactions with chain F, 1 Ligand-Ligand interactions- Hydrogen bonds: F:Y.137, F:R.169, F:R.169, F:R.169, F:H.201, F:R.233, F:R.233, F:S.289, F:S.289, N.24
- Salt bridges: F:H.230
ASN.28: 10 residues within 4Å:- Chain G: Y.137, R.169, H.201, H.230, R.233, D.285, S.289
- Ligands: SO4.25, ZN.26, ZN.27
11 PLIP interactions:10 interactions with chain G, 1 Ligand-Ligand interactions- Hydrogen bonds: G:Y.137, G:R.169, G:R.169, G:R.169, G:H.201, G:R.233, G:R.233, G:S.289, G:S.289, N.28
- Salt bridges: G:H.230
ASN.32: 10 residues within 4Å:- Chain H: Y.137, R.169, H.201, H.230, R.233, D.285, S.289
- Ligands: SO4.29, ZN.30, ZN.31
11 PLIP interactions:10 interactions with chain H, 1 Ligand-Ligand interactions- Hydrogen bonds: H:Y.137, H:R.169, H:R.169, H:R.169, H:H.201, H:R.233, H:R.233, H:S.289, H:S.289, N.32
- Salt bridges: H:H.230
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jozic, D. et al., X-ray structure of isoaspartyl dipeptidase from E.coli: a dinuclear zinc peptidase evolved from amidohydrolases. J.Mol.Biol. (2003)
- Release Date
- 2004-06-22
- Peptides
- Isoaspartyl dipeptidase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
BF
BG
BH
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x SO4: SULFATE ION(Non-functional Binders)
- 16 x ZN: ZINC ION(Non-covalent)
- 8 x ASN: ASPARAGINE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jozic, D. et al., X-ray structure of isoaspartyl dipeptidase from E.coli: a dinuclear zinc peptidase evolved from amidohydrolases. J.Mol.Biol. (2003)
- Release Date
- 2004-06-22
- Peptides
- Isoaspartyl dipeptidase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
BF
BG
BH
B