- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.40 Å
- Oligo State
- homo-octamer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Covalent)
NAI.2: 25 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
- Chain B: C.221
- Chain G: V.51, I.52, Y.53, T.79, R.80, F.234
- Ligands: MG.1
13 PLIP interactions:4 interactions with chain G, 9 interactions with chain A- Hydrogen bonds: G:V.51, G:T.79, A:T.126, A:T.126, A:S.127, A:D.128, A:G.178, A:G.181, A:A.182, A:L.183
- pi-Stacking: G:Y.53, G:Y.53
- Hydrophobic interactions: A:V.154
NAI.4: 25 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
- Chain D: C.221
- Chain E: V.51, I.52, Y.53, T.79, R.80, F.234
- Ligands: MG.3
13 PLIP interactions:9 interactions with chain C, 4 interactions with chain E- Hydrophobic interactions: C:V.154
- Hydrogen bonds: C:T.126, C:T.126, C:S.127, C:D.128, C:G.178, C:G.181, C:A.182, C:L.183, E:V.51, E:T.79
- pi-Stacking: E:Y.53, E:Y.53
NAI.6: 25 residues within 4Å:- Chain A: V.51, I.52, Y.53, T.79, R.80, F.234
- 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
- Chain F: C.221
- Ligands: MG.5
13 PLIP interactions:4 interactions with chain A, 9 interactions with chain E- Hydrogen bonds: A:V.51, A:T.79, E:T.126, E:T.126, E:S.127, E:D.128, E:G.178, E:G.181, E:A.182, E:L.183
- pi-Stacking: A:Y.53, A:Y.53
- Hydrophobic interactions: E:V.154
NAI.8: 25 residues within 4Å:- Chain C: V.51, I.52, Y.53, T.79, R.80, F.234
- 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
- Chain H: C.221
- Ligands: MG.7
13 PLIP interactions:9 interactions with chain G, 4 interactions with chain C- Hydrophobic interactions: G:V.154
- Hydrogen bonds: G:T.126, G:T.126, G:S.127, G:D.128, G:G.178, G:G.181, G:A.182, G:L.183, C:V.51, C:T.79
- pi-Stacking: C:Y.53, C:Y.53
- 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
EB
FC
ED
FE
EF
FG
EH
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.40 Å
- Oligo State
- homo-octamer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 4 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(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
EB
FC
ED
FE
EF
FG
EH
F