SMTL ID : 1m8f.1

Crystal Structure Of Methanobacterium Thermoautotrophicum Nicotinamide Mononucleotide Adenylyltransferase Mutant R11A complexed with NAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

6 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 23 residues within 4Å: Chain A: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:W.87, A:W.87, A:W.87, A:L.107 Hydrogen bonds: A:A.11, A:M.12, A:G.38, A:S.39, A:I.81, A:N.84, A:G.104, A:N.105, A:F.125, A:F.125 Water bridges: A:Q.13, A:H.19, A:N.84, A:G.132, A:G.132 Salt bridges: A:H.19 NAD.2: 23 residues within 4Å: Chain B: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:W.87, B:W.87, B:W.87, B:L.107 Hydrogen bonds: B:A.11, B:M.12, B:G.38, B:S.39, B:I.81, B:N.84, B:G.104, B:N.105, B:F.125, B:F.125 Water bridges: B:Q.13, B:H.19, B:N.84, B:G.132, B:G.132 Salt bridges: B:H.19 NAD.3: 23 residues within 4Å: Chain C: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:W.87, C:W.87, C:W.87, C:L.107 Hydrogen bonds: C:A.11, C:M.12, C:G.38, C:S.39, C:I.81, C:N.84, C:G.104, C:N.105, C:F.125, C:F.125 Water bridges: C:Q.13, C:H.19, C:N.84, C:G.132, C:G.132 Salt bridges: C:H.19 NAD.4: 23 residues within 4Å: Chain D: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 21 PLIP interactions: 21 interactions with chain D Hydrophobic interactions: D:W.87, D:W.87, D:W.87, D:L.107 Hydrogen bonds: D:A.11, D:M.12, D:G.38, D:S.39, D:D.80, D:I.81, D:N.84, D:G.104, D:N.105, D:F.125, D:F.125 Water bridges: D:Q.13, D:H.19, D:N.84, D:G.132, D:G.132 Salt bridges: D:H.19 NAD.5: 23 residues within 4Å: Chain E: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 21 PLIP interactions: 21 interactions with chain E Hydrophobic interactions: E:W.87, E:W.87, E:W.87, E:L.107 Hydrogen bonds: E:A.11, E:M.12, E:G.38, E:S.39, E:D.80, E:I.81, E:N.84, E:G.104, E:N.105, E:F.125, E:F.125 Water bridges: E:Q.13, E:H.19, E:N.84, E:G.132, E:G.132 Salt bridges: E:H.19 NAD.6: 23 residues within 4Å: Chain F: V.9, G.10, A.11, M.12, H.16, G.18, H.19, V.22, G.38, S.39, D.80, I.81, N.84, W.87, S.103, G.104, N.105, L.107, V.108, P.123, L.124, F.125, Y.130 21 PLIP interactions: 21 interactions with chain F Hydrophobic interactions: F:W.87, F:W.87, F:W.87, F:L.107 Hydrogen bonds: F:A.11, F:M.12, F:G.38, F:S.39, F:D.80, F:I.81, F:N.84, F:G.104, F:N.105, F:F.125, F:F.125 Water bridges: F:Q.13, F:H.19, F:N.84, F:G.132, F:G.132 Salt bridges: F:H.19

Links

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Citation

Saridakis, V. et al., Mutational, Structural, and Kinetic Studies of the ATP-binding Site of Methanobacterium thermoautotrophicum Nicotinamide Mononucleotide Adenylyltransferase. J.Biol.Chem. (2003)

Release Date

2003-07-15

Peptides

nicotinamide-nucleotide adenylyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

nicotinamide-nucleotide adenylyltransferase