SMTL ID : 5das.3 (2 other biounits)

Structure of Mycobacterium tuberculosis NadD in complex with NADP, P21212, form 2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

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

NAP.1: 20 residues within 4Å: Chain A: M.10, G.11, G.12, T.13, F.14, H.18, H.21, P.45, T.85, Y.86, T.87, F.105, T.106, T.107, G.108, A.111, I.115, V.133, S.168, S.169 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:I.115 Hydrogen bonds: A:G.11, A:G.11, A:T.13, A:T.13, A:T.13, A:T.87, A:T.107, A:G.108, A:S.169, A:S.169 Water bridges: A:F.14, A:F.14, A:D.78, A:D.78, A:K.88, A:A.109, A:R.135, A:R.135, A:T.170, A:T.170 Salt bridges: A:H.18, A:H.21 pi-Stacking: A:H.21 NAP.2: 23 residues within 4Å: Chain B: M.10, G.11, G.12, T.13, F.14, H.18, H.21, S.42, W.46, R.50, T.85, Y.86, T.87, F.105, T.106, T.107, G.108, A.111, I.115, V.133, R.135, S.168, S.169 28 PLIP interactions: 28 interactions with chain B Hydrophobic interactions: B:W.46, B:W.46, B:I.115 Hydrogen bonds: B:G.11, B:G.11, B:T.13, B:T.13, B:T.87, B:T.107, B:G.108, B:R.135, B:R.135, B:S.169 Water bridges: B:G.12, B:F.14, B:F.14, B:D.78, B:A.109, B:D.110, B:T.170, B:T.170, B:R.173, B:R.173 Salt bridges: B:H.18, B:H.21, B:R.50, B:R.50 pi-Stacking: B:H.21 NAP.3: 22 residues within 4Å: Chain C: M.10, G.11, G.12, T.13, F.14, H.18, H.21, S.42, T.85, Y.86, T.87, F.105, T.106, T.107, G.108, A.111, I.115, V.133, R.135, L.165, S.168, S.169 25 PLIP interactions: 25 interactions with chain C Hydrophobic interactions: C:I.115 Hydrogen bonds: C:G.11, C:G.11, C:T.13, C:T.13, C:T.13, C:T.87, C:T.87, C:T.107, C:G.108, C:R.135, C:R.135, C:S.169, C:S.169 Water bridges: C:G.12, C:G.12, C:F.14, C:F.14, C:T.170, C:T.170, C:R.173 Salt bridges: C:H.18, C:H.21 pi-Stacking: C:H.21 pi-Cation interactions: C:H.21 NAP.4: 24 residues within 4Å: Chain D: M.10, G.11, G.12, T.13, F.14, H.18, H.21, S.42, W.46, R.50, T.85, Y.86, T.87, F.105, T.106, T.107, G.108, A.111, I.115, W.118, V.133, R.135, S.168, S.169 27 PLIP interactions: 27 interactions with chain D Hydrophobic interactions: D:I.115 Hydrogen bonds: D:G.11, D:G.11, D:T.13, D:S.42, D:T.87, D:T.87, D:G.108, D:R.135, D:R.135, D:S.169 Water bridges: D:G.12, D:F.14, D:S.42, D:R.50, D:R.50, D:K.88, D:D.110, D:S.169, D:T.170, D:T.170, D:R.173 Salt bridges: D:H.18, D:H.21, D:R.50, D:R.50 pi-Stacking: D:H.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Korotkov, K.V., Structure of Mycobacterium tuberculosis NadD in complex with NADP, P21212. to be published

Release Date

2016-08-24

Peptides

Nicotinate-nucleotide adenylyltransferase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
A

Nicotinate-nucleotide adenylyltransferase

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