SMTL ID : 3sx2.1 (1 other biounit)

Crystal structure of a putative 3-ketoacyl-(acyl-carrier-protein) reductase from Mycobacterium paratuberculosis in complex with NAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 32 residues within 4Å: Chain A: G.20, A.22, R.23, G.24, Q.25, D.44, L.45, Y.54, L.56, A.57, A.81, D.82, V.83, R.84, N.109, A.110, G.111, I.112, V.128, I.156, S.157, S.158, Y.175, K.179, P.205, S.206, G.207, V.208, T.210, P.211, M.212, I.213 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:P.205 Hydrogen bonds: A:G.20, A:R.23, A:Q.25, A:L.45, A:A.57, A:D.82, A:D.82, A:V.83, A:N.109, A:G.111, A:Y.175, A:K.179, A:V.208, A:V.208, A:T.210, A:M.212 Water bridges: A:G.26, A:N.109 Salt bridges: A:R.23 NAD.2: 30 residues within 4Å: Chain B: G.20, R.23, G.24, Q.25, D.44, L.45, L.56, A.57, A.81, D.82, V.83, R.84, N.109, A.110, G.111, I.112, V.128, I.156, S.157, S.158, Y.175, K.179, P.205, S.206, G.207, V.208, T.210, P.211, M.212, I.213 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:P.205 Hydrogen bonds: B:G.20, B:R.23, B:Q.25, B:L.45, B:A.57, B:D.82, B:D.82, B:V.83, B:N.109, B:G.111, B:Y.175, B:K.179, B:V.208, B:V.208, B:M.212 Water bridges: B:G.26, B:N.109 Salt bridges: B:R.23 NAD.4: 30 residues within 4Å: Chain C: G.20, R.23, G.24, Q.25, D.44, L.45, L.56, A.57, A.81, D.82, V.83, R.84, N.109, A.110, G.111, I.112, V.128, I.156, S.157, S.158, Y.175, K.179, P.205, S.206, G.207, V.208, T.210, P.211, M.212, I.213 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:P.205 Hydrogen bonds: C:G.20, C:Q.25, C:L.45, C:A.57, C:D.82, C:V.83, C:N.109, C:G.111, C:K.179, C:V.208, C:V.208, C:T.210, C:M.212 Water bridges: C:G.26, C:N.109 Salt bridges: C:R.23 NAD.5: 31 residues within 4Å: Chain D: G.20, A.22, R.23, G.24, Q.25, D.44, L.45, L.56, A.57, A.81, D.82, V.83, R.84, N.109, A.110, G.111, I.112, V.128, I.156, S.157, S.158, Y.175, K.179, P.205, S.206, G.207, V.208, T.210, P.211, M.212, I.213 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:P.205 Hydrogen bonds: D:G.20, D:R.23, D:Q.25, D:Q.25, D:L.45, D:A.57, D:D.82, D:V.83, D:N.109, D:G.111, D:K.179, D:V.208, D:V.208 Water bridges: D:G.26, D:N.109 Salt bridges: D:R.23

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 7 residues within 4Å: Chain A: A.168, D.169, P.170, V.173 Chain B: Y.134, I.141, Y.189 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.168, A:P.170, A:V.173, B:Y.189 Hydrogen bonds: B:Y.189 MPD.6: 6 residues within 4Å: Chain D: A.113, M.115, Y.175, M.212, I.213, W.221 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:A.113, D:I.213, D:W.221, D:W.221, D:W.221 Water bridges: D:S.158, D:Y.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Haft, D.H. et al., Mycofactocin-associated mycobacterial dehydrogenases with non-exchangeable NAD cofactors. Sci Rep (2017)

Release Date

2011-08-03

Peptides

Putative 3-ketoacyl-(acyl-carrier-protein) reductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Putative 3-ketoacyl-(acyl-carrier-protein) reductase

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