SMTL ID : 2wbi.1

Crystal structure of human acyl-CoA dehydrogenase 11

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-tetramer

Ligands

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

FAD.1: 28 residues within 4Å: Chain A: F.152, M.154, T.155, V.159, A.160, S.161, S.162, W.186, S.188, V.235, H.246, V.397, L.400, A.401, P.404, E.406, V.407 Chain B: R.305, F.308, L.312, H.315, V.318, Q.375, V.376, G.378, G.379, V.382 Chain D: E.316 24 PLIP interactions: 17 interactions with chain A, 6 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: A:W.186, A:W.186, A:V.235, A:V.397, A:V.397, B:V.382 Hydrogen bonds: A:F.152, A:M.154, A:T.155, A:T.155, A:A.160, A:S.161, A:S.161, A:S.162, A:S.162, A:S.188, A:D.402, A:E.406, B:Q.375, B:G.379, D:E.316 Salt bridges: B:R.305, B:R.305 pi-Stacking: B:H.315 FAD.8: 31 residues within 4Å: Chain A: R.305, F.308, L.312, H.315, V.318, Q.375, V.376, G.378, G.379, V.382 Chain B: F.152, M.154, T.155, V.159, A.160, S.161, S.162, W.186, S.188, V.235, H.246, V.397, L.400, A.401, D.402, G.403, P.404, E.406, V.407 Chain C: E.316 Ligands: UNX.11 27 PLIP interactions: 20 interactions with chain B, 6 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: B:W.186, B:W.186, B:W.186, B:V.235, B:V.397, B:V.397, A:V.382 Hydrogen bonds: B:F.152, B:M.154, B:T.155, B:T.155, B:A.160, B:S.161, B:S.161, B:S.162, B:S.162, B:S.188, B:L.400, B:D.402, B:G.403, B:E.406, A:Q.375, A:G.379, C:E.316 Salt bridges: A:R.305, A:R.305 pi-Stacking: A:H.315 FAD.19: 28 residues within 4Å: Chain B: E.316 Chain C: F.152, M.154, T.155, V.159, A.160, S.161, S.162, W.186, S.188, V.235, H.246, V.397, L.400, A.401, P.404, E.406, V.407 Chain D: R.305, F.308, L.312, H.315, V.318, Q.375, V.376, G.378, G.379, V.382 25 PLIP interactions: 1 interactions with chain B, 18 interactions with chain C, 6 interactions with chain D Hydrogen bonds: B:E.316, C:F.152, C:M.154, C:T.155, C:T.155, C:A.160, C:S.161, C:S.161, C:S.162, C:S.162, C:S.188, C:D.402, C:E.406, C:E.406, D:Q.375, D:G.379 Hydrophobic interactions: C:W.186, C:W.186, C:V.235, C:V.397, C:V.397, D:V.382 Salt bridges: D:R.305, D:R.305 pi-Stacking: D:H.315 FAD.26: 31 residues within 4Å: Chain A: E.316 Chain C: R.305, F.308, L.312, H.315, V.318, Q.375, V.376, G.378, G.379, V.382 Chain D: F.152, M.154, T.155, V.159, A.160, S.161, S.162, W.186, S.188, V.235, H.246, V.397, L.400, A.401, D.402, G.403, P.404, E.406, V.407 Ligands: UNX.29 28 PLIP interactions: 21 interactions with chain D, 6 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: D:W.186, D:W.186, D:W.186, D:V.235, D:V.397, D:V.397, C:V.382 Hydrogen bonds: D:F.152, D:M.154, D:T.155, D:T.155, D:A.160, D:S.161, D:S.161, D:S.162, D:S.162, D:S.188, D:L.400, D:D.402, D:G.403, D:E.406, D:E.406, C:Q.375, C:G.379, A:E.316 Salt bridges: C:R.305, C:R.305 pi-Stacking: C:H.315

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 5 residues within 4Å: Chain A: K.310, H.315, E.316 Chain C: A.314, E.316 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.316 Salt bridges: A:K.310, A:H.315 PO4.9: 7 residues within 4Å: Chain B: K.310, A.314, H.315, E.316 Chain D: A.314, E.316 Ligands: PO4.27 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:A.314, B:E.316, D:E.316 Salt bridges: B:K.310, B:H.315 PO4.20: 5 residues within 4Å: Chain A: A.314, E.316 Chain C: K.310, H.315, E.316 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.316 Salt bridges: C:K.310, C:H.315 PO4.27: 7 residues within 4Å: Chain B: A.314, E.316 Chain D: K.310, A.314, H.315, E.316 Ligands: PO4.9 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain D Hydrogen bonds: B:E.316, D:A.314, D:E.316 Salt bridges: D:K.310, D:H.315

28 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 3 residues within 4Å: Chain A: R.275, H.283, D.402 Ligand excluded by PLIP UNX.4: 1 residues within 4Å: Chain A: S.188 Ligand excluded by PLIP UNX.5: 1 residues within 4Å: Ligands: UNX.6 Ligand excluded by PLIP UNX.6: 3 residues within 4Å: Chain A: D.240 Ligands: UNX.5, UNX.7 Ligand excluded by PLIP UNX.7: 2 residues within 4Å: Chain A: N.390 Ligands: UNX.6 Ligand excluded by PLIP UNX.10: 4 residues within 4Å: Chain B: R.275, H.283, D.402 Ligands: UNX.11 Ligand excluded by PLIP UNX.11: 4 residues within 4Å: Chain B: S.188 Ligands: FAD.8, UNX.10, UNX.16 Ligand excluded by PLIP UNX.12: 2 residues within 4Å: Chain B: D.240 Ligands: UNX.13 Ligand excluded by PLIP UNX.13: 3 residues within 4Å: Chain B: N.390 Ligands: UNX.12, UNX.14 Ligand excluded by PLIP UNX.14: 3 residues within 4Å: Chain B: N.390 Ligands: UNX.13, UNX.15 Ligand excluded by PLIP UNX.15: 3 residues within 4Å: Chain B: F.108, N.390 Ligands: UNX.14 Ligand excluded by PLIP UNX.16: 1 residues within 4Å: Ligands: UNX.11 Ligand excluded by PLIP UNX.17: 2 residues within 4Å: Chain B: G.105 Ligands: UNX.18 Ligand excluded by PLIP UNX.18: 1 residues within 4Å: Ligands: UNX.17 Ligand excluded by PLIP UNX.21: 3 residues within 4Å: Chain C: R.275, H.283, D.402 Ligand excluded by PLIP UNX.22: 1 residues within 4Å: Chain C: S.188 Ligand excluded by PLIP UNX.23: 1 residues within 4Å: Ligands: UNX.24 Ligand excluded by PLIP UNX.24: 3 residues within 4Å: Chain C: D.240 Ligands: UNX.23, UNX.25 Ligand excluded by PLIP UNX.25: 2 residues within 4Å: Chain C: N.390 Ligands: UNX.24 Ligand excluded by PLIP UNX.28: 4 residues within 4Å: Chain D: R.275, H.283, D.402 Ligands: UNX.29 Ligand excluded by PLIP UNX.29: 4 residues within 4Å: Chain D: S.188 Ligands: FAD.26, UNX.28, UNX.34 Ligand excluded by PLIP UNX.30: 2 residues within 4Å: Chain D: D.240 Ligands: UNX.31 Ligand excluded by PLIP UNX.31: 3 residues within 4Å: Chain D: N.390 Ligands: UNX.30, UNX.32 Ligand excluded by PLIP UNX.32: 3 residues within 4Å: Chain D: N.390 Ligands: UNX.31, UNX.33 Ligand excluded by PLIP UNX.33: 3 residues within 4Å: Chain D: F.108, N.390 Ligands: UNX.32 Ligand excluded by PLIP UNX.34: 1 residues within 4Å: Ligands: UNX.29 Ligand excluded by PLIP UNX.35: 2 residues within 4Å: Chain D: G.105 Ligands: UNX.36 Ligand excluded by PLIP UNX.36: 1 residues within 4Å: Ligands: UNX.35 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Muniz, J.R.C. et al., Crystal Structure of Human Acyl-Coa Dehydrogenase 11. To be Published

Release Date

2009-05-12

Peptides

ACYL-COA DEHYDROGENASE FAMILY MEMBER 11: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

ACYL-COA DEHYDROGENASE FAMILY MEMBER 11