SMTL ID : 1hyb.1

CRYSTAL STRUCTURE OF AN ACTIVE SITE MUTANT OF METHANOBACTERIUM THERMOAUTOTROPHICUM NICOTINAMIDE MONONUCLEOTIDE ADENYLYLTRANSFERASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-hexamer

Ligands

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: R.11, R.47, S.131, G.132, T.133, R.136 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.132, A:T.133, A:T.133 Water bridges: A:R.11, A:Q.13 Salt bridges: A:R.11, A:R.47, A:R.136 SO4.3: 6 residues within 4Å: Chain B: R.11, R.47, S.131, G.132, T.133, R.136 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.132, B:T.133, B:T.133 Water bridges: B:R.11, B:Q.13 Salt bridges: B:R.11, B:R.47, B:R.136 SO4.5: 6 residues within 4Å: Chain C: R.11, R.47, S.131, G.132, T.133, R.136 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:G.132, C:T.133, C:T.133 Water bridges: C:R.11, C:Q.13 Salt bridges: C:R.11, C:R.47, C:R.136 SO4.7: 6 residues within 4Å: Chain D: R.11, R.47, S.131, G.132, T.133, R.136 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:G.132, D:T.133 Water bridges: D:R.11, D:Q.13 Salt bridges: D:R.11, D:R.47, D:R.136 SO4.9: 6 residues within 4Å: Chain E: R.11, R.47, S.131, G.132, T.133, R.136 7 PLIP interactions: 7 interactions with chain E Hydrogen bonds: E:G.132, E:T.133 Water bridges: E:R.11, E:Q.13 Salt bridges: E:R.11, E:R.47, E:R.136 SO4.11: 6 residues within 4Å: Chain F: R.11, R.47, S.131, G.132, T.133, R.136 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:G.132, F:T.133 Water bridges: F:R.11, F:Q.13 Salt bridges: F:R.11, F:R.47, F:R.136

6 x NMN: BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE(Non-covalent)

NMN.2: 13 residues within 4Å: Chain A: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:W.87, A:W.87, A:W.87, A:L.107, A:L.111 Hydrogen bonds: A:R.11, A:G.38, A:D.80, A:I.81, A:N.105 Water bridges: A:M.12, A:S.39, A:S.39, A:R.47, A:N.84 Salt bridges: A:R.11 NMN.4: 13 residues within 4Å: Chain B: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:W.87, B:W.87, B:W.87, B:L.107, B:L.111 Hydrogen bonds: B:R.11, B:G.38, B:D.80, B:I.81, B:N.105 Water bridges: B:M.12, B:S.39, B:S.39, B:R.47, B:N.84 Salt bridges: B:R.11 NMN.6: 13 residues within 4Å: Chain C: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:W.87, C:W.87, C:W.87, C:L.107, C:L.111 Hydrogen bonds: C:R.11, C:G.38, C:D.80, C:I.81, C:N.105 Water bridges: C:M.12, C:S.39, C:S.39, C:R.47, C:N.84 Salt bridges: C:R.11 NMN.8: 13 residues within 4Å: Chain D: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:W.87, D:W.87, D:W.87, D:L.107, D:L.111 Hydrogen bonds: D:R.11, D:G.38, D:D.80, D:D.80, D:I.81, D:N.105 Water bridges: D:M.12, D:S.39, D:S.39, D:R.47, D:N.84 Salt bridges: D:R.11 NMN.10: 13 residues within 4Å: Chain E: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 17 PLIP interactions: 17 interactions with chain E Hydrophobic interactions: E:W.87, E:W.87, E:W.87, E:L.107, E:L.111 Hydrogen bonds: E:R.11, E:G.38, E:D.80, E:D.80, E:I.81, E:N.105 Water bridges: E:M.12, E:S.39, E:S.39, E:R.47, E:N.84 Salt bridges: E:R.11 NMN.12: 13 residues within 4Å: Chain F: V.9, G.10, R.11, G.38, S.39, D.80, I.81, N.84, W.87, N.105, L.107, V.108, L.111 17 PLIP interactions: 17 interactions with chain F Hydrophobic interactions: F:W.87, F:W.87, F:W.87, F:L.107, F:L.111 Hydrogen bonds: F:R.11, F:G.38, F:D.80, F:D.80, F:I.81, F:N.105 Water bridges: F:M.12, F:S.39, F:S.39, F:R.47, F:N.84 Salt bridges: F:R.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saridakis, V. et al., Insights into ligand binding and catalysis of a central step in NAD+ synthesis: structures of Methanobacterium thermoautotrophicum NMN adenylyltransferase complexes. J.Biol.Chem. (2001)

Release Date

2001-03-14

Peptides

NICOTINAMIDE MONONUCLEOTIDE ADENYLYLTRANSFERASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

NICOTINAMIDE MONONUCLEOTIDE ADENYLYLTRANSFERASE