- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.56 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x UJJ: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4S)-5-[5-(1,3-dithiolan-2-yl)-7,8-dimethyl-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl dihydrogen diphosphate(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-functional Binders)
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.3: 30 residues within 4Å:- Chain A: I.705, S.706, P.707, W.708, N.709, F.710, I.714, K.732, P.733, A.734, E.735, D.764, G.765, G.768, A.769, F.782, T.783, G.784, S.785, V.788, I.792, E.812, T.813, G.814, C.846, E.942, F.944, F.1012, S.1018
- Ligands: MG.2
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:F.710, A:I.714, A:T.783
- Hydrogen bonds: A:S.706, A:S.706, A:W.708, A:K.732, A:E.735, A:S.785, A:T.813, A:E.942
- Water bridges: A:E.736, A:T.786
NAD.12: 32 residues within 4Å:- Chain B: I.705, S.706, P.707, W.708, N.709, F.710, I.714, K.732, P.733, A.734, E.735, D.764, G.765, G.768, A.769, F.782, T.783, G.784, S.785, V.788, L.791, I.792, E.812, T.813, G.814, C.846, E.942, F.944, L.972, F.1012, S.1018
- Ligands: MG.11
16 PLIP interactions:16 interactions with chain B- Hydrophobic interactions: B:P.707, B:F.710, B:I.714, B:T.783
- Hydrogen bonds: B:S.706, B:S.706, B:W.708, B:K.732, B:E.735, B:S.785, B:T.813, B:E.942
- Water bridges: B:E.736, B:T.786, B:T.813, B:E.942
- 7 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 8 residues within 4Å:- Chain A: R.690, P.1041, Q.1042
- Chain B: S.96, Q.98, E.99, A.169, R.172
11 PLIP interactions:6 interactions with chain B, 5 interactions with chain A- Hydrogen bonds: B:S.96, A:Q.1042
- Water bridges: B:S.96, B:S.97, B:R.172, B:R.172, A:R.690, A:R.690, A:Q.1042
- Salt bridges: B:R.172, A:R.690
SO4.5: 4 residues within 4Å:- Chain A: R.71, S.511, I.512, D.513
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:I.512, A:D.513
- Water bridges: A:E.75
- Salt bridges: A:R.71
SO4.6: 4 residues within 4Å:- Chain A: S.1196, G.1198, E.1199, R.1202
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.1196, A:G.1198, A:E.1199
- Salt bridges: A:R.1202
SO4.7: 2 residues within 4Å:- Chain A: K.1062, A.1138
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:A.1138
- Salt bridges: A:K.1062
SO4.8: 5 residues within 4Å:- Chain A: Q.855, E.856, D.857, R.954, R.955
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Q.855, A:D.857, A:R.955
- Water bridges: A:D.956
- Salt bridges: A:R.954
SO4.13: 8 residues within 4Å:- Chain A: S.96, Q.98, E.99, A.169, R.172
- Chain B: R.690, P.1041, Q.1042
13 PLIP interactions:8 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:S.96, A:S.96, B:Q.1042
- Water bridges: A:S.97, A:S.165, A:S.165, A:S.165, A:R.172, B:R.690, B:R.690, B:Q.1042
- Salt bridges: A:R.172, B:R.690
SO4.14: 4 residues within 4Å:- Chain B: R.71, S.511, I.512, D.513
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:I.512, B:D.513
- Salt bridges: B:R.71
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.9: 5 residues within 4Å:- Chain A: H.1047, L.1080, G.1081, L.1098, H.1099
1 PLIP interactions:1 interactions with chain A- Water bridges: A:H.1047
PGE.15: 6 residues within 4Å:- Chain B: H.1047, L.1080, G.1081, L.1082, L.1098, H.1099
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.1083
- Water bridges: B:D.1083
PGE.17: 2 residues within 4Å:- Chain B: A.583, T.584
1 PLIP interactions:1 interactions with chain B- Water bridges: B:S.756
PGE.20: 7 residues within 4Å:- Chain B: L.553, E.559, T.560, S.563, L.564, A.567, P.653
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:S.563
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.16: 6 residues within 4Å:- Chain B: G.544, D.545, A.546, R.547, T.548, R.689
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.544
- Water bridges: B:R.689
PEG.18: 8 residues within 4Å:- Chain B: A.672, E.673, E.676, F.710, A.713, I.714, R.845, A.1005
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.845
- Water bridges: B:I.1003
PEG.21: 5 residues within 4Å:- Chain B: A.672, R.675, E.676, D.679, V.1006
10 PLIP interactions:10 interactions with chain B- Hydrogen bonds: B:E.676
- Water bridges: B:L.385, B:N.549, B:N.549, B:S.550, B:R.675, B:R.675, B:R.675, B:R.675, B:D.679
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Campbell, A.C. et al., Photoinduced Covalent Irreversible Inactivation of Proline Dehydrogenase by S-Heterocycles. Acs Chem.Biol. (2021)
- Release Date
- 2021-09-29
- Peptides
- Bifunctional protein PutA: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.56 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x UJJ: [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4S)-5-[5-(1,3-dithiolan-2-yl)-7,8-dimethyl-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-2,3,4-trihydroxypentyl dihydrogen diphosphate(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-functional Binders)
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 7 x SO4: SULFATE ION(Non-functional Binders)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Campbell, A.C. et al., Photoinduced Covalent Irreversible Inactivation of Proline Dehydrogenase by S-Heterocycles. Acs Chem.Biol. (2021)
- Release Date
- 2021-09-29
- Peptides
- Bifunctional protein PutA: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B