- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.40 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.2: 28 residues within 4Å:- Chain A: A.124, G.125, T.126, S.127, D.128, D.151, G.153, V.154, A.155, A.177, G.178, M.179, E.180, G.181, A.182, L.183, V.202, Y.204
- Chain G: V.51, I.52, Y.53, T.79, R.80, E.134, N.232, F.234
- Chain H: C.221
- Ligands: MG.3
14 PLIP interactions:8 interactions with chain A, 6 interactions with chain G- Hydrogen bonds: A:G.125, A:T.126, A:S.127, A:D.128, A:V.154, A:G.178, A:A.182, A:L.183, G:V.51, G:V.51, G:Y.53, G:T.79, G:R.80
- pi-Stacking: G:F.234
NAD.5: 28 residues within 4Å:- Chain C: A.124, G.125, T.126, S.127, D.128, D.151, G.153, V.154, A.155, A.177, G.178, M.179, E.180, G.181, A.182, L.183, V.202, Y.204
- Chain E: V.51, I.52, Y.53, T.79, R.80, E.134, N.232, F.234
- Chain F: C.221
- Ligands: MG.6
14 PLIP interactions:8 interactions with chain C, 6 interactions with chain E- Hydrogen bonds: C:G.125, C:T.126, C:S.127, C:D.128, C:V.154, C:G.178, C:A.182, C:L.183, E:V.51, E:V.51, E:Y.53, E:T.79, E:R.80
- pi-Stacking: E:F.234
NAD.8: 28 residues within 4Å:- Chain A: V.51, I.52, Y.53, T.79, R.80, E.134, N.232, F.234
- Chain B: C.221
- Chain E: A.124, G.125, T.126, S.127, D.128, D.151, G.153, V.154, A.155, A.177, G.178, M.179, E.180, G.181, A.182, L.183, V.202, Y.204
- Ligands: MG.9
14 PLIP interactions:6 interactions with chain A, 8 interactions with chain E- Hydrogen bonds: A:V.51, A:V.51, A:Y.53, A:T.79, A:R.80, E:G.125, E:T.126, E:S.127, E:D.128, E:V.154, E:G.178, E:A.182, E:L.183
- pi-Stacking: A:F.234
NAD.11: 28 residues within 4Å:- Chain C: V.51, I.52, Y.53, T.79, R.80, E.134, N.232, F.234
- Chain D: C.221
- Chain G: A.124, G.125, T.126, S.127, D.128, D.151, G.153, V.154, A.155, A.177, G.178, M.179, E.180, G.181, A.182, L.183, V.202, Y.204
- Ligands: MG.12
14 PLIP interactions:8 interactions with chain G, 6 interactions with chain C- Hydrogen bonds: G:G.125, G:T.126, G:S.127, G:D.128, G:V.154, G:G.178, G:A.182, G:L.183, C:V.51, C:V.51, C:Y.53, C:T.79, C:R.80
- pi-Stacking: C:F.234
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rankin, J.A. et al., The LarB carboxylase/hydrolase forms a transient cysteinyl-pyridine intermediate during nickel-pincer nucleotide cofactor biosynthesis. Proc.Natl.Acad.Sci.USA (2021)
- Release Date
- 2021-09-29
- Peptides
- Pyridinium-3,5-biscarboxylic acid mononucleotide synthase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
DC
CD
DE
CF
DG
CH
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.40 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rankin, J.A. et al., The LarB carboxylase/hydrolase forms a transient cysteinyl-pyridine intermediate during nickel-pincer nucleotide cofactor biosynthesis. Proc.Natl.Acad.Sci.USA (2021)
- Release Date
- 2021-09-29
- Peptides
- Pyridinium-3,5-biscarboxylic acid mononucleotide synthase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
DC
CD
DE
CF
DG
CH
D