SMTL ID : 4ust.1

Crystal structure of human soluble Adenylyl Cyclase with pyrophosphate resulting from soaking with GTP and Magnesium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.47, D.99 Ligands: POP.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.47, A:D.99 MG.9: 3 residues within 4Å: Chain B: D.47, D.99 Ligands: POP.12 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.47, B:D.99 MG.17: 3 residues within 4Å: Chain C: D.47, D.99 Ligands: POP.20 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.47, C:D.99

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: K.95, L.166, V.167 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: K.95, K.334, V.335 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: K.95, L.166, V.167 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain B: K.95, K.334, V.335 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain C: K.95, L.166, V.167 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain C: K.95, K.334, V.335 Ligand excluded by PLIP

3 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.4: 10 residues within 4Å: Chain A: D.47, I.48, S.49, G.50, F.51, T.52, D.99, K.144, N.412 Ligands: MG.1 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.49, A:G.50, A:F.51, A:T.52, A:T.52, A:T.52, A:T.52, A:N.412 Water bridges: A:A.53 Salt bridges: A:K.144 POP.12: 10 residues within 4Å: Chain B: D.47, I.48, S.49, G.50, F.51, T.52, D.99, K.144, N.412 Ligands: MG.9 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:S.49, B:G.50, B:F.51, B:T.52, B:T.52, B:T.52, B:T.52, B:N.412 Water bridges: B:A.53 Salt bridges: B:K.144 POP.20: 10 residues within 4Å: Chain C: D.47, I.48, S.49, G.50, F.51, T.52, D.99, K.144, N.412 Ligands: MG.17 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:S.49, C:G.50, C:F.51, C:T.52, C:T.52, C:T.52, C:T.52, C:N.412 Water bridges: C:A.53 Salt bridges: C:K.144

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

ACT.5: 6 residues within 4Å: Chain A: F.45, K.95, A.97, L.102, R.176, F.336 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.45, A:A.97, A:L.102 Water bridges: A:M.337 Salt bridges: A:R.176 ACT.13: 6 residues within 4Å: Chain B: F.45, K.95, A.97, L.102, R.176, F.336 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.45, B:A.97, B:L.102 Water bridges: B:M.337 Salt bridges: B:R.176 ACT.21: 6 residues within 4Å: Chain C: F.45, K.95, A.97, L.102, R.176, F.336 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.45, C:A.97, C:L.102 Water bridges: C:M.337 Salt bridges: C:R.176

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 3 residues within 4Å: Chain A: G.352, K.354 Ligands: EDO.24 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.354, A:K.354 EDO.8: 5 residues within 4Å: Chain B: Y.285, R.290, G.352, K.354 Ligands: EDO.14 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.285, B:R.290, B:R.290, B:G.352 EDO.14: 3 residues within 4Å: Chain B: G.352, K.354 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.354, B:K.354 EDO.16: 5 residues within 4Å: Chain C: Y.285, R.290, G.352, K.354 Ligands: EDO.22 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Y.285, C:R.290, C:R.290, C:G.352 EDO.22: 3 residues within 4Å: Chain C: G.352, K.354 Ligands: EDO.16 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.354, C:K.354 EDO.24: 5 residues within 4Å: Chain A: Y.285, R.290, G.352, K.354 Ligands: EDO.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.285, A:R.290, A:R.290, A:G.352

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 9 residues within 4Å: Chain A: D.22, G.90, G.91, D.92, M.237, H.238, Y.239, Y.240, P.241 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.22, A:Y.239, A:Y.240 Water bridges: A:L.87, A:G.90, A:H.238 GOL.15: 9 residues within 4Å: Chain B: D.22, G.90, G.91, D.92, M.237, H.238, Y.239, Y.240, P.241 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.22, B:Y.239, B:Y.240 Water bridges: B:L.87, B:G.90, B:H.238 GOL.23: 9 residues within 4Å: Chain C: D.22, G.90, G.91, D.92, M.237, H.238, Y.239, Y.240, P.241 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:D.22, C:Y.239, C:Y.240 Water bridges: C:L.87, C:G.90, C:H.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kleinbolting, S. et al., Structural Analysis of Human Soluble Adenylyl Cyclase and Crystal Structures of its Nucleotide Complexes -Implications for Cyclase Catalysis and Evolution. FEBS J. (2014)

Release Date

2014-07-30

Peptides

ADENYLATE CYCLASE TYPE 10: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

ADENYLATE CYCLASE TYPE 10

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