SMTL ID : 3rnm.2 (1 other biounit)

The crystal structure of the subunit binding of human dihydrolipoamide transacylase (E2b) bound to human dihydrolipoamide dehydrogenase (E3)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-oligomer

Ligands

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.1: 6 residues within 4Å: Chain A: S.189, I.210, V.297, C.298, G.300, R.301 No protein-ligand interaction detected (PLIP) BME.4: 7 residues within 4Å: Chain B: V.173, S.189, I.210, C.298, G.300, R.301 Ligands: FAD.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.189, B:R.301

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

FAD.2: 39 residues within 4Å: Chain A: I.33, G.34, S.35, G.36, P.37, G.38, I.56, E.57, K.58, N.59, G.64, T.65, C.66, V.69, G.70, C.71, S.74, K.75, G.138, Y.139, G.140, A.168, T.169, G.170, S.171, S.189, I.210, R.301, F.304, G.340, D.341, M.347, L.348, A.349, H.350, A.352, Y.380 Chain B: H.473, P.474 32 PLIP interactions: 30 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:T.65, A:I.210, A:I.210 Hydrogen bonds: A:S.35, A:G.36, A:G.38, A:G.39, A:K.58, A:T.65, A:T.65, A:C.66, A:K.75, A:G.140, A:G.140, A:S.171, A:D.341, A:M.347, A:A.349, A:H.350, A:H.350, B:H.473 Water bridges: A:K.58, A:N.59, A:G.64, A:Y.139, A:Y.139, A:G.170, A:S.171, A:V.342, A:Y.380, B:H.473 pi-Cation interactions: A:K.58 FAD.5: 40 residues within 4Å: Chain A: H.473 Chain B: I.33, G.34, G.36, P.37, G.38, G.39, I.56, E.57, K.58, N.59, G.64, T.65, C.66, V.69, G.70, C.71, S.74, K.75, G.138, Y.139, G.140, A.168, T.169, G.170, S.171, S.189, I.210, R.301, F.304, L.308, G.340, D.341, M.347, L.348, A.349, H.350, A.352, Y.380 Ligands: BME.4 30 PLIP interactions: 3 interactions with chain A, 27 interactions with chain B Hydrogen bonds: A:H.473, B:G.36, B:G.38, B:G.39, B:K.58, B:K.58, B:N.59, B:T.65, B:T.65, B:T.65, B:C.66, B:K.75, B:G.140, B:G.140, B:S.171, B:D.341, B:M.347, B:A.349, B:H.350, B:H.350 Water bridges: A:H.473, A:H.473, B:G.64, B:G.170, B:S.171, B:V.342 Hydrophobic interactions: B:T.65, B:I.210, B:I.210 pi-Cation interactions: B:K.58

2 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.3: 5 residues within 4Å: Chain A: N.246, I.250, G.423, M.424, F.495 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.495, A:F.495 Hydrogen bonds: A:G.423, A:G.423 NHE.6: 8 residues within 4Å: Chain B: N.246, I.250, K.406, P.408, G.423, M.424, L.442, F.495 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:K.406, B:P.408, B:F.495 Hydrogen bonds: B:N.246, B:G.423

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brautigam, C.A. et al., Structural and Thermodynamic Basis for Weak Interactions between Dihydrolipoamide Dehydrogenase and Subunit-binding Domain of the Branched-chain {alpha}-Ketoacid Dehydrogenase Complex. J.Biol.Chem. (2011)

Release Date

2011-05-04

Peptides

Dihydrolipoyl dehydrogenase, mitochondrial: AB
Lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
F

Dihydrolipoyl dehydrogenase, mitochondrial

Lipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex, mitochondrial

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