SMTL ID : 4y9j.1

Crystal Structure of Caenorhabditis elegans ACDH-11 in complex with C11-CoA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 32 residues within 4Å: Chain A: Q.188, W.189, M.190, T.191, G.195, G.196, S.197, F.223, S.224, S.225, K.277, T.280, V.441, I.444, W.445, E.446, T.448, N.450, V.451, L.454 Chain B: R.341, V.343, F.344, Q.348, W.351, H.354, E.419, C.420, G.422, G.423, Y.426 Ligands: UCC.2 30 PLIP interactions: 9 interactions with chain B, 21 interactions with chain A Hydrogen bonds: B:Q.348, B:C.420, B:G.423, A:Q.188, A:M.190, A:T.191, A:T.191, A:G.196, A:S.197, A:S.225, A:E.446, A:T.448, A:V.451 Water bridges: B:R.341, B:R.341, B:R.341, B:Q.424, A:Q.188, A:F.223, A:G.447, A:N.450, A:N.450, A:N.450 Salt bridges: B:R.341, B:R.341 Hydrophobic interactions: A:K.277, A:V.441, A:W.445 pi-Stacking: A:F.223, A:W.445 FAD.3: 33 residues within 4Å: Chain A: R.341, V.343, F.344, Q.348, W.351, H.354, E.419, C.420, G.422, G.423, Y.426 Chain B: Q.188, W.189, M.190, T.191, G.195, G.196, S.197, F.223, S.224, S.225, K.277, T.280, T.285, V.441, I.444, W.445, E.446, T.448, N.450, V.451, L.454 Ligands: UCC.4 28 PLIP interactions: 8 interactions with chain A, 20 interactions with chain B Hydrogen bonds: A:Q.348, A:C.420, A:G.423, B:Q.188, B:M.190, B:T.191, B:T.191, B:G.196, B:S.197, B:S.225, B:E.446, B:T.448, B:N.450 Water bridges: A:R.341, A:Q.424, B:Q.188, B:F.223, B:N.450 Salt bridges: A:R.341, A:R.341 pi-Stacking: A:W.351, B:F.223 Hydrophobic interactions: B:F.223, B:K.277, B:T.285, B:V.441, B:W.445, B:W.445 FAD.5: 32 residues within 4Å: Chain C: Q.188, W.189, M.190, T.191, G.195, G.196, S.197, F.223, S.224, S.225, K.277, T.280, V.441, I.444, W.445, E.446, T.448, N.450, V.451, L.454 Chain D: R.341, V.343, F.344, Q.348, W.351, H.354, E.419, C.420, G.422, G.423, Y.426 Ligands: UCC.6 31 PLIP interactions: 22 interactions with chain C, 9 interactions with chain D Hydrophobic interactions: C:K.277, C:V.441, C:W.445 Hydrogen bonds: C:Q.188, C:M.190, C:T.191, C:T.191, C:G.196, C:S.197, C:S.225, C:E.446, C:T.448, C:T.448, C:V.451, D:Q.348, D:C.420, D:G.423 Water bridges: C:Q.188, C:F.223, C:G.447, C:N.450, C:N.450, C:N.450, D:R.341, D:R.341, D:R.341, D:Q.424 pi-Stacking: C:F.223, C:W.445 Salt bridges: D:R.341, D:R.341 FAD.7: 33 residues within 4Å: Chain C: R.341, V.343, F.344, Q.348, W.351, H.354, E.419, C.420, G.422, G.423, Y.426 Chain D: Q.188, W.189, M.190, T.191, G.195, G.196, S.197, F.223, S.224, S.225, K.277, T.280, T.285, V.441, I.444, W.445, E.446, T.448, N.450, V.451, L.454 Ligands: UCC.8 29 PLIP interactions: 8 interactions with chain C, 21 interactions with chain D Hydrogen bonds: C:Q.348, C:C.420, C:G.423, D:Q.188, D:M.190, D:T.191, D:T.191, D:G.196, D:S.197, D:S.225, D:E.446, D:T.448, D:T.448, D:N.450 Water bridges: C:R.341, C:Q.424, D:Q.188, D:F.223, D:N.450 Salt bridges: C:R.341, C:R.341 pi-Stacking: C:W.351, D:F.223 Hydrophobic interactions: D:F.223, D:K.277, D:T.285, D:V.441, D:W.445, D:W.445

4 x UCC: S-{(3S,5R,9R)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} undecanethioate(Non-covalent)

UCC.2: 23 residues within 4Å: Chain A: L.141, S.143, C.144, A.147, Q.188, T.191, G.196, S.197, A.200, S.249, R.303, V.305, S.309, L.312, R.316, H.318, N.319, A.322, W.445, E.446, G.447, D.455 Ligands: FAD.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.141, A:A.147, A:A.322, A:W.445, A:W.445, A:E.446 Hydrogen bonds: A:S.197, A:S.249, A:R.303, A:S.309, A:R.316, A:R.316, A:R.316, A:E.446 Water bridges: A:T.191, A:G.196, A:V.199, A:D.455, A:R.458, A:R.458 UCC.4: 31 residues within 4Å: Chain A: F.344 Chain B: S.143, C.144, A.147, Q.188, M.190, T.191, G.196, S.197, V.199, A.200, S.249, R.303, V.305, A.306, S.309, L.312, N.313, T.315, R.316, H.318, N.319, A.322, R.396, W.445, E.446, G.447, V.451, D.455, R.458 Ligands: FAD.3 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:A.147, B:V.199, B:V.305, B:A.322, B:W.445, B:E.446 Hydrogen bonds: B:S.197, B:S.249, B:S.309, B:N.313, B:N.313, B:R.316, B:R.316, B:R.396, B:E.446, B:R.458, B:R.458 Water bridges: B:G.196, B:A.200, B:R.303, B:R.303, B:V.451 Salt bridges: B:R.303, B:R.458 pi-Cation interactions: B:R.396 UCC.6: 23 residues within 4Å: Chain C: L.141, S.143, C.144, A.147, Q.188, T.191, G.196, S.197, A.200, S.249, R.303, V.305, S.309, L.312, R.316, H.318, N.319, A.322, W.445, E.446, G.447, D.455 Ligands: FAD.5 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:L.141, C:A.147, C:A.322, C:W.445, C:W.445, C:E.446 Hydrogen bonds: C:S.197, C:S.249, C:R.303, C:S.309, C:R.316, C:R.316, C:R.316, C:E.446, C:E.446 Water bridges: C:T.191, C:G.196, C:V.199, C:R.458, C:R.458, C:R.458 UCC.8: 31 residues within 4Å: Chain C: F.344 Chain D: S.143, C.144, A.147, Q.188, M.190, T.191, G.196, S.197, V.199, A.200, S.249, R.303, V.305, A.306, S.309, L.312, N.313, T.315, R.316, H.318, N.319, A.322, R.396, W.445, E.446, G.447, V.451, D.455, R.458 Ligands: FAD.7 25 PLIP interactions: 25 interactions with chain D Hydrophobic interactions: D:A.147, D:V.199, D:V.305, D:A.322, D:W.445, D:E.446 Hydrogen bonds: D:S.197, D:S.249, D:S.309, D:N.313, D:N.313, D:R.316, D:R.316, D:R.396, D:E.446, D:E.446, D:R.458, D:R.458 Water bridges: D:G.196, D:A.200, D:R.303, D:V.451 Salt bridges: D:R.303, D:R.458 pi-Cation interactions: D:R.396

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, D.K. et al., Acyl-CoA Dehydrogenase Drives Heat Adaptation by Sequestering Fatty Acids. Cell (2015)

Release Date

2015-06-03

Peptides

Protein ACDH-11, isoform b: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Protein ACDH-11, isoform b

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