SMTL ID : 4pfj.1

The structure of bi-acetylated SAHH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

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

NAD.1: 40 residues within 4Å: Chain A: T.157, T.158, T.159, G.160, K.186, D.190, N.191, C.195, A.219, G.220, Y.221, G.222, D.223, V.224, G.225, T.242, E.243, I.244, D.245, N.248, T.275, T.276, G.277, C.278, I.281, I.299, G.300, H.301, L.344, N.346, L.347, H.353 Chain C: T.407, L.409, Q.413, L.417, F.425, K.426, Y.430 Ligands: ADN.2 26 PLIP interactions: 4 interactions with chain C, 22 interactions with chain A Hydrogen bonds: C:Q.413, C:Q.413, C:K.426, C:Y.430, A:T.157, A:T.158, A:T.158, A:T.159, A:T.159, A:N.191, A:G.222, A:D.223, A:V.224, A:I.244, A:D.245, A:N.248, A:H.301, A:N.346, A:N.346 Hydrophobic interactions: A:N.191, A:V.224 Water bridges: A:T.158, A:N.181, A:G.225, A:T.242, A:F.302 NAD.3: 39 residues within 4Å: Chain B: T.157, T.158, T.159, K.186, D.190, N.191, C.195, A.219, G.220, Y.221, G.222, D.223, V.224, G.225, T.242, E.243, I.244, D.245, N.248, T.275, T.276, G.277, C.278, I.281, I.299, G.300, H.301, L.344, N.346, L.347, H.353 Chain D: T.407, L.409, Q.413, L.417, F.425, K.426, Y.430 Ligands: ADN.4 23 PLIP interactions: 19 interactions with chain B, 4 interactions with chain D Hydrophobic interactions: B:N.191, B:V.224 Hydrogen bonds: B:T.158, B:T.159, B:T.159, B:T.159, B:N.191, B:G.222, B:D.223, B:D.223, B:V.224, B:I.244, B:D.245, B:N.248, B:H.301, B:N.346, B:N.346, D:Q.413, D:Q.413, D:K.426, D:Y.430 Water bridges: B:G.225, B:T.242 NAD.5: 40 residues within 4Å: Chain A: T.407, L.409, Q.413, L.417, F.425, K.426, Y.430 Chain C: T.157, T.158, T.159, G.160, K.186, D.190, N.191, C.195, A.219, G.220, Y.221, G.222, D.223, V.224, G.225, T.242, E.243, I.244, D.245, N.248, T.275, T.276, G.277, C.278, I.281, I.299, G.300, H.301, L.344, N.346, L.347, H.353 Ligands: ADN.6 26 PLIP interactions: 22 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:N.191, C:V.224 Hydrogen bonds: C:T.157, C:T.158, C:T.158, C:T.159, C:T.159, C:N.191, C:G.222, C:D.223, C:V.224, C:I.244, C:D.245, C:N.248, C:H.301, C:N.346, C:N.346, A:Q.413, A:Q.413, A:K.426, A:Y.430 Water bridges: C:T.158, C:N.181, C:G.225, C:T.242, C:F.302 NAD.7: 39 residues within 4Å: Chain B: T.407, L.409, Q.413, L.417, F.425, K.426, Y.430 Chain D: T.157, T.158, T.159, K.186, D.190, N.191, C.195, A.219, G.220, Y.221, G.222, D.223, V.224, G.225, T.242, E.243, I.244, D.245, N.248, T.275, T.276, G.277, C.278, I.281, I.299, G.300, H.301, L.344, N.346, L.347, H.353 Ligands: ADN.8 23 PLIP interactions: 19 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:N.191, D:V.224 Hydrogen bonds: D:T.158, D:T.159, D:T.159, D:T.159, D:N.191, D:G.222, D:D.223, D:D.223, D:V.224, D:I.244, D:D.245, D:N.248, D:H.301, D:N.346, D:N.346, B:Q.413, B:Q.413, B:K.426, B:Y.430 Water bridges: D:G.225, D:T.242

4 x ADN: ADENOSINE(Non-covalent)

ADN.2: 23 residues within 4Å: Chain A: L.54, H.55, T.57, E.59, T.60, Q.85, D.131, E.156, T.157, T.158, K.186, D.190, H.301, L.344, N.346, L.347, M.351, G.352, H.353, M.358, S.361, F.362 Ligands: NAD.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:H.55, A:E.156, A:T.157, A:T.157, A:K.186, A:D.190, A:M.351, A:H.353 ADN.4: 24 residues within 4Å: Chain B: L.54, H.55, T.57, E.59, T.60, C.79, Q.85, D.131, E.156, T.157, T.158, K.186, D.190, H.301, L.344, N.346, L.347, M.351, G.352, H.353, M.358, S.361, F.362 Ligands: NAD.3 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:H.55, B:T.57, B:E.59, B:T.157, B:T.157, B:K.186, B:D.190, B:M.351, B:H.353 ADN.6: 23 residues within 4Å: Chain C: L.54, H.55, T.57, E.59, T.60, Q.85, D.131, E.156, T.157, T.158, K.186, D.190, H.301, L.344, N.346, L.347, M.351, G.352, H.353, M.358, S.361, F.362 Ligands: NAD.5 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:H.55, C:E.156, C:T.157, C:T.157, C:K.186, C:D.190, C:M.351, C:H.353 ADN.8: 24 residues within 4Å: Chain D: L.54, H.55, T.57, E.59, T.60, C.79, Q.85, D.131, E.156, T.157, T.158, K.186, D.190, H.301, L.344, N.346, L.347, M.351, G.352, H.353, M.358, S.361, F.362 Ligands: NAD.7 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:H.55, D:T.57, D:E.59, D:T.157, D:T.157, D:K.186, D:D.190, D:M.351, D:H.353

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., Regulation of s-adenosylhomocysteine hydrolase by lysine acetylation. J.Biol.Chem. (2014)

Release Date

2014-10-01

Peptides

Adenosylhomocysteinase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Adenosylhomocysteinase

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