- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.2: 28 residues within 4Å:- Chain A: I.656, S.657, P.658, W.659, N.660, I.665, K.683, P.684, A.685, D.715, G.716, G.719, A.720, F.733, T.734, G.735, S.736, V.739, S.742, I.743, E.760, T.761, G.762, C.794, E.886, F.888, L.916, F.956
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:P.658, A:I.665, A:T.734
- Hydrogen bonds: A:S.657, A:W.659, A:K.683, A:S.736, A:S.742, A:S.742, A:T.761, A:E.886
- Water bridges: A:T.761, A:T.761
NAD.14: 28 residues within 4Å:- Chain B: I.656, S.657, P.658, W.659, N.660, I.665, K.683, P.684, A.685, D.715, G.716, G.719, A.720, F.733, T.734, G.735, S.736, V.739, S.742, I.743, E.760, T.761, G.762, C.794, E.886, F.888, L.916, F.956
13 PLIP interactions:13 interactions with chain B- Hydrophobic interactions: B:P.658, B:I.665, B:T.734
- Hydrogen bonds: B:S.657, B:S.657, B:W.659, B:K.683, B:S.736, B:S.742, B:T.761, B:E.886
- Water bridges: B:T.761, B:T.761
NAD.25: 28 residues within 4Å:- Chain C: I.656, S.657, P.658, W.659, N.660, I.665, K.683, P.684, A.685, D.715, G.716, G.719, A.720, F.733, T.734, G.735, S.736, V.739, S.742, I.743, E.760, T.761, G.762, C.794, E.886, F.888, L.916, F.956
13 PLIP interactions:13 interactions with chain C- Hydrophobic interactions: C:P.658, C:I.665, C:T.734
- Hydrogen bonds: C:S.657, C:W.659, C:K.683, C:S.736, C:S.742, C:S.742, C:T.761, C:E.886
- Water bridges: C:T.761, C:T.761
NAD.37: 28 residues within 4Å:- Chain D: I.656, S.657, P.658, W.659, N.660, I.665, K.683, P.684, A.685, D.715, G.716, G.719, A.720, F.733, T.734, G.735, S.736, V.739, S.742, I.743, E.760, T.761, G.762, C.794, E.886, F.888, L.916, F.956
14 PLIP interactions:14 interactions with chain D- Hydrophobic interactions: D:P.658, D:I.665, D:T.734
- Hydrogen bonds: D:S.657, D:S.657, D:W.659, D:K.683, D:S.736, D:S.742, D:T.761, D:E.886
- Water bridges: D:E.760, D:T.761, D:T.761
- 26 x SO4: SULFATE ION(Non-functional Binders)
SO4.3: 8 residues within 4Å:- Chain A: F.661, R.793, C.794, S.795, I.947, G.948, A.949, F.956
Ligand excluded by PLIPSO4.4: 4 residues within 4Å:- Chain A: R.368, K.369, A.370, A.490
Ligand excluded by PLIPSO4.5: 2 residues within 4Å:- Chain A: G.572, R.626
Ligand excluded by PLIPSO4.6: 3 residues within 4Å:- Chain A: L.584, S.587, R.588
Ligand excluded by PLIPSO4.7: 2 residues within 4Å:- Chain A: R.477
- Chain C: R.477
Ligand excluded by PLIPSO4.8: 5 residues within 4Å:- Chain A: G.422, M.423, G.424, E.425, A.426
Ligand excluded by PLIPSO4.9: 6 residues within 4Å:- Chain A: D.195, K.239, A.346, Y.455, R.458
- Ligands: FAD.1
Ligand excluded by PLIPSO4.15: 4 residues within 4Å:- Chain B: R.368, K.369, A.370, A.490
Ligand excluded by PLIPSO4.16: 8 residues within 4Å:- Chain B: F.661, R.793, C.794, S.795, I.947, G.948, A.949, F.956
Ligand excluded by PLIPSO4.17: 2 residues within 4Å:- Chain B: S.587, R.588
Ligand excluded by PLIPSO4.18: 2 residues within 4Å:- Chain B: R.477
- Chain D: R.477
Ligand excluded by PLIPSO4.19: 2 residues within 4Å:- Chain B: G.572, R.626
Ligand excluded by PLIPSO4.20: 5 residues within 4Å:- Chain B: K.239, A.346, Y.455, R.458
- Ligands: FAD.13
Ligand excluded by PLIPSO4.26: 8 residues within 4Å:- Chain C: F.661, R.793, C.794, S.795, I.947, G.948, A.949, F.956
Ligand excluded by PLIPSO4.27: 4 residues within 4Å:- Chain C: R.368, K.369, A.370, A.490
Ligand excluded by PLIPSO4.28: 2 residues within 4Å:- Chain C: G.572, R.626
Ligand excluded by PLIPSO4.29: 3 residues within 4Å:- Chain C: L.584, S.587, R.588
Ligand excluded by PLIPSO4.30: 2 residues within 4Å:- Chain A: R.477
- Chain C: R.477
Ligand excluded by PLIPSO4.31: 5 residues within 4Å:- Chain C: G.422, M.423, G.424, E.425, A.426
Ligand excluded by PLIPSO4.32: 6 residues within 4Å:- Chain C: D.195, K.239, A.346, Y.455, R.458
- Ligands: FAD.24
Ligand excluded by PLIPSO4.38: 4 residues within 4Å:- Chain D: R.368, K.369, A.370, A.490
Ligand excluded by PLIPSO4.39: 8 residues within 4Å:- Chain D: F.661, R.793, C.794, S.795, I.947, G.948, A.949, F.956
Ligand excluded by PLIPSO4.40: 2 residues within 4Å:- Chain D: S.587, R.588
Ligand excluded by PLIPSO4.41: 2 residues within 4Å:- Chain B: R.477
- Chain D: R.477
Ligand excluded by PLIPSO4.42: 2 residues within 4Å:- Chain D: G.572, R.626
Ligand excluded by PLIPSO4.43: 5 residues within 4Å:- Chain D: K.239, A.346, Y.455, R.458
- Ligands: FAD.36
Ligand excluded by PLIP- 12 x GOL: GLYCEROL(Non-functional Binders)
GOL.10: 8 residues within 4Å:- Chain A: Y.14, A.15, L.360, D.361, G.362, V.519, E.520, A.526
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.361, A:D.361, A:G.362, A:E.520
- Water bridges: A:R.517
GOL.11: 5 residues within 4Å:- Chain A: R.358, V.519, E.520, F.521, D.605
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:V.519, A:F.521
- Water bridges: A:V.519, A:V.519
GOL.12: 6 residues within 4Å:- Chain A: A.299, P.301, K.304, A.333, H.334, R.336
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:A.299, A:A.333, A:H.334, A:R.336
- Water bridges: A:K.304
GOL.21: 7 residues within 4Å:- Chain B: Y.14, A.15, L.360, D.361, V.519, E.520, A.526
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:D.361, B:D.361, B:E.520
GOL.22: 4 residues within 4Å:- Chain B: R.358, V.519, E.520, F.521
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:V.519, B:F.521
- Water bridges: B:R.358, B:R.358, B:V.519, B:V.519
GOL.23: 6 residues within 4Å:- Chain A: P.971, H.972, A.975
- Chain B: P.971, H.972, A.975
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:H.972
GOL.33: 8 residues within 4Å:- Chain C: Y.14, A.15, L.360, D.361, G.362, V.519, E.520, A.526
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:D.361, C:D.361, C:G.362, C:E.520
- Water bridges: C:R.517
GOL.34: 5 residues within 4Å:- Chain C: R.358, V.519, E.520, F.521, D.605
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:V.519, C:F.521
- Water bridges: C:V.519, C:V.519
GOL.35: 6 residues within 4Å:- Chain C: A.299, P.301, K.304, A.333, H.334, R.336
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:A.299, C:A.333, C:R.336
- Water bridges: C:K.304
GOL.44: 7 residues within 4Å:- Chain D: Y.14, A.15, L.360, D.361, V.519, E.520, A.526
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.361, D:D.361, D:E.520
GOL.45: 4 residues within 4Å:- Chain D: R.358, V.519, E.520, F.521
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:V.519, D:F.521
- Water bridges: D:R.358, D:R.358, D:V.519, D:V.519
GOL.46: 6 residues within 4Å:- Chain C: P.971, H.972, A.975
- Chain D: P.971, H.972, A.975
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:H.972
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Srivastava, D. et al., Crystal structure of the bifunctional proline utilization A flavoenzyme from Bradyrhizobium japonicum. Proc.Natl.Acad.Sci.USA (2010)
- Release Date
- 2010-02-23
- Peptides
- Proline dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 26 x SO4: SULFATE ION(Non-functional Binders)
- 12 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Srivastava, D. et al., Crystal structure of the bifunctional proline utilization A flavoenzyme from Bradyrhizobium japonicum. Proc.Natl.Acad.Sci.USA (2010)
- Release Date
- 2010-02-23
- Peptides
- Proline dehydrogenase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B