SMTL ID : 5vir.1

Crystal structure of probable nicotinate-nucleotide adenylyltransferase from Mycobacterium abscessus in complex with NADP and compound FOL0091

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x 9CG: 1H,3H-naphtho[1,8-cd]pyran-1-one(Non-covalent)

9CG.1: 8 residues within 4Å: Chain A: W.205, Y.206 Chain B: S.92, N.93, P.94 Chain C: W.205, Q.214 Ligands: 9CG.5 5 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: A:W.205, B:P.94 pi-Stacking: A:W.205, A:W.205 Hydrogen bonds: C:Q.214 9CG.3: 7 residues within 4Å: Chain A: S.92, N.93, P.94 Chain B: W.205, Y.206 Chain D: Q.214 Ligands: 9CG.7 7 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: A:P.94, B:W.205, B:Y.206 pi-Stacking: B:W.205, B:W.205, B:W.205 Hydrogen bonds: D:Q.214 9CG.5: 8 residues within 4Å: Chain A: W.205, Q.214 Chain C: W.205, Y.206 Chain D: S.92, N.93, P.94 Ligands: 9CG.1 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 3 interactions with chain C Hydrogen bonds: A:Q.214 Hydrophobic interactions: D:P.94, C:W.205 pi-Stacking: C:W.205, C:W.205 9CG.7: 7 residues within 4Å: Chain B: Q.214 Chain C: S.92, N.93, P.94 Chain D: W.205, Y.206 Ligands: 9CG.3 7 PLIP interactions: 1 interactions with chain B, 5 interactions with chain D, 1 interactions with chain C Hydrogen bonds: B:Q.214 Hydrophobic interactions: D:W.205, D:Y.206, C:P.94 pi-Stacking: D:W.205, D:W.205, D:W.205

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.2: 22 residues within 4Å: Chain A: M.33, G.34, G.35, T.36, F.37, H.41, H.44, T.65, Q.67, K.71, T.109, Y.110, T.111, F.129, I.130, T.131, G.132, W.142, E.143, V.157, S.190, S.191 30 PLIP interactions: 30 interactions with chain A Hydrogen bonds: A:G.34, A:G.34, A:T.36, A:T.36, A:T.36, A:T.65, A:Q.67, A:T.111, A:T.131, A:G.132, A:E.143, A:E.143, A:S.191 Water bridges: A:G.35, A:F.37, A:F.37, A:D.102, A:V.112, A:R.159, A:I.189, A:T.192, A:T.192, A:R.195 Salt bridges: A:H.41, A:H.44, A:K.71, A:K.71 pi-Stacking: A:H.44, A:W.142, A:W.142 NAP.4: 24 residues within 4Å: Chain B: M.33, G.34, G.35, T.36, F.37, H.41, H.44, T.65, P.68, W.69, T.109, T.111, F.129, I.130, T.131, G.132, A.135, S.138, I.139, E.143, V.157, R.159, S.190, S.191 29 PLIP interactions: 29 interactions with chain B Hydrophobic interactions: B:W.69, B:I.139 Hydrogen bonds: B:G.34, B:G.34, B:T.36, B:T.131, B:G.132, B:S.138, B:S.138, B:R.159, B:R.159, B:S.191 Water bridges: B:G.35, B:T.36, B:T.36, B:F.37, B:F.37, B:F.37, B:D.102, B:D.134, B:D.134, B:I.189, B:S.191, B:S.191, B:T.192, B:T.192 Salt bridges: B:H.41, B:H.44 pi-Stacking: B:H.44 NAP.6: 22 residues within 4Å: Chain C: M.33, G.34, G.35, T.36, F.37, H.41, H.44, T.65, Q.67, K.71, T.109, Y.110, T.111, F.129, I.130, T.131, G.132, W.142, E.143, V.157, S.190, S.191 31 PLIP interactions: 31 interactions with chain C Hydrogen bonds: C:G.34, C:G.34, C:T.36, C:T.36, C:T.36, C:T.65, C:Q.67, C:T.111, C:T.131, C:G.132, C:E.143, C:E.143, C:S.191 Water bridges: C:G.35, C:F.37, C:F.37, C:D.102, C:V.112, C:R.159, C:I.189, C:S.191, C:T.192, C:T.192, C:R.195 Salt bridges: C:H.41, C:H.44, C:K.71, C:K.71 pi-Stacking: C:H.44, C:W.142, C:W.142 NAP.8: 24 residues within 4Å: Chain D: M.33, G.34, G.35, T.36, F.37, H.41, H.44, T.65, P.68, W.69, T.109, T.111, F.129, I.130, T.131, G.132, A.135, S.138, I.139, E.143, V.157, R.159, S.190, S.191 29 PLIP interactions: 29 interactions with chain D Hydrophobic interactions: D:W.69, D:I.139 Hydrogen bonds: D:G.34, D:G.34, D:T.36, D:T.131, D:G.132, D:S.138, D:S.138, D:R.159, D:R.159, D:S.191 Water bridges: D:G.35, D:T.36, D:T.36, D:F.37, D:F.37, D:F.37, D:D.102, D:D.134, D:D.134, D:I.189, D:S.191, D:S.191, D:T.192, D:T.192 Salt bridges: D:H.41, D:H.44 pi-Stacking: D:H.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure of probable nicotinate-nucleotide adenylyltransferase from Mycobacterium abcesus in complex with NADP and compound FOL0091. to be published

Release Date

2017-04-26

Peptides

Probable nicotinate-nucleotide adenylyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Probable nicotinate-nucleotide adenylyltransferase

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