- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FPM: (5R,6S)-6-(1-hydroxyethyl)-7-oxo-3-[(2R)-oxolan-2-yl]-4-thia-1-azabicyclo[3.2.0]hept-2-ene-2-carboxylic acid(Non-covalent)
- 2 x SFR: (2R)-2-[(1S,2R)-1-carboxy-2-hydroxypropyl]-5-[(2R)-oxolan-2-yl]-2,3-dihydro-1,3-thiazole-4-carboxylic acid(Non-covalent)
SFR.2: 13 residues within 4Å:- Chain A: M.40, W.66, H.95, D.97, H.162, C.181, K.184, G.192, N.193, H.223
- Ligands: FPM.1, CD.3, CD.4
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:W.66
- Hydrogen bonds: A:D.97, A:N.193
- Water bridges: A:H.223
- Salt bridges: A:H.95, A:H.162, A:H.162, A:K.184, A:H.223
- pi-Stacking: A:H.223
SFR.8: 11 residues within 4Å:- Chain B: H.95, D.97, H.162, K.184, L.191, G.192, N.193, H.223
- Ligands: FPM.9, CD.12, CD.13
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.193, B:N.193
- Salt bridges: B:H.95, B:H.162, B:H.162, B:K.184, B:H.223
- 6 x CD: CADMIUM ION(Non-covalent)
CD.3: 8 residues within 4Å:- Chain A: H.93, H.95, D.97, H.162, C.181
- Ligands: FPM.1, SFR.2, CD.4
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.93, A:H.95, A:H.162
CD.4: 6 residues within 4Å:- Chain A: D.97, C.181, H.223
- Ligands: FPM.1, SFR.2, CD.3
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.97, A:C.181, A:H.223
CD.5: 4 residues within 4Å:- Chain A: H.95, E.125, D.196
- Chain B: E.200
5 PLIP interactions:2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: A:E.125, A:D.196, B:E.200, B:E.200, H2O.2
CD.12: 8 residues within 4Å:- Chain B: H.93, H.95, D.97, H.162, C.181
- Ligands: SFR.8, FPM.9, CD.13
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.93, B:H.95, B:H.162
CD.13: 6 residues within 4Å:- Chain B: D.97, C.181, H.223
- Ligands: SFR.8, FPM.9, CD.12
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:D.97, B:C.181, B:H.223
CD.14: 3 residues within 4Å:- Chain A: E.200
- Chain B: E.125, D.196
5 PLIP interactions:3 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: B:E.125, B:E.125, B:D.196, A:E.200, H2O.5
- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.6: 4 residues within 4Å:- Chain A: F.213, P.214, K.215, A.216
Ligand excluded by PLIPCL.7: 2 residues within 4Å:- Chain A: A.188, K.189
Ligand excluded by PLIPCL.15: 4 residues within 4Å:- Chain B: F.213, P.214, K.215, A.216
Ligand excluded by PLIPCL.16: 1 residues within 4Å:- Chain B: K.189
Ligand excluded by PLIP- 2 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kim, Y. et al., New Delhi Metallo-beta-Lactamase-1, Complexed with Cd and Faropenem. To be Published
- Release Date
- 2013-01-23
- Peptides
- Beta-lactamase NDM-1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x FPM: (5R,6S)-6-(1-hydroxyethyl)-7-oxo-3-[(2R)-oxolan-2-yl]-4-thia-1-azabicyclo[3.2.0]hept-2-ene-2-carboxylic acid(Non-covalent)
- 2 x SFR: (2R)-2-[(1S,2R)-1-carboxy-2-hydroxypropyl]-5-[(2R)-oxolan-2-yl]-2,3-dihydro-1,3-thiazole-4-carboxylic acid(Non-covalent)
- 6 x CD: CADMIUM ION(Non-covalent)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kim, Y. et al., New Delhi Metallo-beta-Lactamase-1, Complexed with Cd and Faropenem. To be Published
- Release Date
- 2013-01-23
- Peptides
- Beta-lactamase NDM-1: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B