SMTL ID : 5cb8.1

Crystal structure of Adenosine-5'-phosphosulfate kinase in complex with APS and sulfate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

2 x ADX: ADENOSINE-5'-PHOSPHOSULFATE(Non-covalent)

ADX.1: 17 residues within 4Å: Chain A: G.61, D.62, R.65, F.74, R.79, N.82, I.83, A.104, I.105, S.106, P.107, K.140, L.142, K.152, G.153, F.154, T.155 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:R.79, A:R.79, A:N.82, A:I.105, A:S.106, A:K.140, A:G.153, A:T.155 Water bridges: A:D.62, A:D.62, A:D.62, A:D.62 Salt bridges: A:R.65, A:R.65, A:R.79 pi-Stacking: A:F.74, A:F.74 ADX.5: 17 residues within 4Å: Chain B: G.61, D.62, R.65, F.74, R.79, N.82, I.83, A.104, I.105, S.106, P.107, K.140, L.142, K.152, G.153, F.154, T.155 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:R.79, B:R.79, B:N.82, B:I.105, B:S.106, B:K.140, B:G.153, B:T.155 Water bridges: B:D.62, B:D.62, B:D.62, B:D.62 Salt bridges: B:R.65, B:R.65, B:R.79 pi-Stacking: B:F.74, B:F.74

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: L.33, S.34, G.35, A.36, G.37, K.38, T.39 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:L.33, A:G.35, A:A.36, A:G.37, A:K.38, A:T.39, A:T.39 Water bridges: A:K.38, A:T.40 Salt bridges: A:K.38 SO4.3: 4 residues within 4Å: Chain A: D.80, T.81, R.84 Chain B: K.70 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:T.81 Water bridges: A:T.81, A:T.81, A:R.84, A:R.84, B:K.70, B:K.70 Salt bridges: A:R.84, B:K.70 SO4.6: 7 residues within 4Å: Chain B: L.33, S.34, G.35, A.36, G.37, K.38, T.39 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.35, B:A.36, B:G.37, B:K.38, B:T.39 Water bridges: B:S.34, B:K.38, B:T.40, B:K.140 Salt bridges: B:K.38 SO4.7: 4 residues within 4Å: Chain A: K.70 Chain B: D.80, T.81, R.84 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:T.81 Water bridges: B:T.81, B:T.81, B:R.84, B:R.85, A:K.70, A:K.70, A:K.70 Salt bridges: B:R.84, A:K.70

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 2 residues within 4Å: Chain A: H.91, R.95 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.91, A:R.95 ACT.8: 2 residues within 4Å: Chain B: H.91, R.95 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.91, B:R.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Herrmann, J. et al., Recapitulating the Structural Evolution of Redox Regulation in Adenosine 5'-Phosphosulfate Kinase from Cyanobacteria to Plants. J.Biol.Chem. (2015)

Release Date

2015-09-02

Peptides

Probable adenylyl-sulfate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable adenylyl-sulfate kinase

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