- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.2: 19 residues within 4Å:- Chain A: D.85, G.86, L.89, R.109, I.110, F.112, L.113, N.159, E.160, T.197, T.200, A.201, Y.202, S.205, D.257
- Chain C: V.171, D.189, N.224, H.226
14 PLIP interactions:11 interactions with chain A, 3 interactions with chain C- Hydrophobic interactions: A:Y.202, A:Y.202
- Hydrogen bonds: A:D.85, A:R.109, A:I.110, A:N.159, A:E.160, A:T.197, A:T.200, A:Y.202, A:S.205, C:V.171, C:D.189, C:N.224
NAD.3: 20 residues within 4Å:- Chain B: D.85, G.86, L.89, R.109, F.112, L.113, N.159, E.160, G.198, T.200, A.201, Y.202, S.205, D.257, G.258
- Chain D: G.170, V.171, D.189, N.224, H.226
13 PLIP interactions:9 interactions with chain B, 4 interactions with chain D- Hydrophobic interactions: B:Y.202, D:V.171
- Hydrogen bonds: B:R.109, B:R.109, B:N.159, B:N.159, B:E.160, B:Y.202, B:S.205, B:D.257, D:V.171, D:V.171, D:N.224
NAD.9: 19 residues within 4Å:- Chain A: V.171, D.189, N.224, H.226
- Chain C: D.85, G.86, L.89, R.109, I.110, F.112, L.113, N.159, E.160, T.197, T.200, A.201, Y.202, S.205, D.257
14 PLIP interactions:11 interactions with chain C, 3 interactions with chain A- Hydrophobic interactions: C:Y.202, C:Y.202
- Hydrogen bonds: C:D.85, C:R.109, C:I.110, C:N.159, C:E.160, C:T.197, C:T.200, C:Y.202, C:S.205, A:V.171, A:D.189, A:N.224
NAD.10: 20 residues within 4Å:- Chain B: G.170, V.171, D.189, N.224, H.226
- Chain D: D.85, G.86, L.89, R.109, F.112, L.113, N.159, E.160, G.198, T.200, A.201, Y.202, S.205, D.257, G.258
13 PLIP interactions:9 interactions with chain D, 4 interactions with chain B- Hydrophobic interactions: D:Y.202, B:V.171
- Hydrogen bonds: D:R.109, D:R.109, D:N.159, D:N.159, D:E.160, D:Y.202, D:S.205, D:D.257, B:V.171, B:V.171, B:N.224
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)GOL.5: 6 residues within 4Å:- Chain A: H.226, A.227, L.228
- Chain C: F.204, K.296, F.297
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:A.227
GOL.6: 3 residues within 4Å:- Chain A: G.207
- Chain B: R.231
- Ligands: GOL.13
5 PLIP interactions:2 interactions with chain C, 1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: C:A.206, B:R.231, B:R.231
- Water bridges: C:G.230, A:G.207
GOL.7: 5 residues within 4Å:- Chain B: H.226, A.227, L.228
- Chain D: F.297, R.298
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain B- Hydrogen bonds: D:R.298, B:H.226
- Water bridges: D:R.298, D:R.298
GOL.11: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)GOL.12: 6 residues within 4Å:- Chain A: F.204, K.296, F.297
- Chain C: H.226, A.227, L.228
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:A.227
GOL.13: 3 residues within 4Å:- Chain C: G.207
- Chain D: R.231
- Ligands: GOL.6
5 PLIP interactions:1 interactions with chain C, 2 interactions with chain A, 2 interactions with chain D- Water bridges: C:G.207, A:G.230
- Hydrogen bonds: A:A.206, D:R.231, D:R.231
GOL.14: 5 residues within 4Å:- Chain B: F.297, R.298
- Chain D: H.226, A.227, L.228
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:R.298, D:H.226
- Water bridges: B:R.298, B:R.298
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
-
Mori, S. et al., NAD-binding mode and the significance of intersubunit contact revealed by the crystal structure of Mycobacterium tuberculosis NAD kinase-NAD complex. Biochem.Biophys.Res.Commun. (2005)
- Release Date
- 2005-01-18
- Peptides
- Inorganic polyphosphate/ATP-NAD kinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
-
Mori, S. et al., NAD-binding mode and the significance of intersubunit contact revealed by the crystal structure of Mycobacterium tuberculosis NAD kinase-NAD complex. Biochem.Biophys.Res.Commun. (2005)
- Release Date
- 2005-01-18
- Peptides
- Inorganic polyphosphate/ATP-NAD kinase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B