SMTL ID : 4z9r.1

Crystal structure of PfaD from Shewanella oneidensis in complex with NAD+ determined by in-situ diffraction.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Covalent)(Non-covalent)

NAD.1: 18 residues within 4Å: Chain A: A.110, N.111, A.134, I.162, G.275, G.276, H.277, D.369, T.430, H.433, F.434, R.458, W.459, G.462, L.463, S.465, W.482 Ligands: FMN.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.111, A:H.277, A:H.277, A:H.277, A:D.369, A:S.465 Water bridges: A:G.462, A:S.465 pi-Stacking: A:H.277, A:H.433, A:H.433, A:W.482 NAD.3: 19 residues within 4Å: Chain B: A.110, N.111, A.134, G.135, I.162, G.275, H.277, A.368, D.369, T.430, H.433, F.434, R.458, W.459, G.462, S.465, R.466, W.482 Ligands: FMN.4 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:A.110 Hydrogen bonds: B:G.275, B:H.277, B:D.369, B:D.369, B:R.458, B:S.465, B:S.465 Water bridges: B:A.368, B:Q.480 Salt bridges: B:R.466, B:R.466 pi-Stacking: B:H.277, B:H.433, B:W.482

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.2: 20 residues within 4Å: Chain A: G.107, A.108, M.109, A.110, A.134, N.160, S.189, K.223, E.271, D.273, S.274, G.275, G.313, G.314, G.335, S.336, Q.339, W.482, A.486 Ligands: NAD.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:M.109, A:W.482 Hydrogen bonds: A:A.108, A:A.110, A:N.160, A:N.160, A:S.189, A:K.223, A:K.223, A:G.275, A:G.313, A:G.314, A:S.336 Water bridges: A:I.315, A:I.315 FMN.4: 20 residues within 4Å: Chain B: G.107, A.108, M.109, A.110, A.134, N.160, S.189, K.223, E.271, D.273, S.274, G.275, G.313, G.314, G.335, S.336, Q.339, W.482, A.486 Ligands: NAD.3 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:M.109, B:W.482, B:W.482 Hydrogen bonds: B:A.108, B:A.110, B:N.160, B:S.189, B:S.189, B:K.223, B:K.223, B:E.271, B:D.273, B:G.275, B:G.313, B:G.314, B:S.336 Water bridges: B:I.315, B:I.315

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baker, G.E. et al., Crystal structure of PfaD from Shewanella oneidensis in complex with NAD+ determined by in-situ diffraction. To Be Published

Release Date

2016-04-06

Peptides

Omega-3 polyunsaturated fatty acid synthase subunit PfaD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Omega-3 polyunsaturated fatty acid synthase subunit PfaD

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