SMTL ID : 4usu.1

Crystal structure of human soluble Adenylyl Cyclase in complex with alpha,beta-methyleneadenosine-5'-triphosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-trimer

Ligands

3 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.1: 22 residues within 4Å: Chain A: D.47, I.48, S.49, G.50, F.51, T.52, A.97, G.98, D.99, K.144, R.176, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, A.415, R.416 Ligands: CA.2 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:S.49, A:G.50, A:F.51, A:T.52, A:T.52, A:K.144, A:R.176, A:V.406, A:N.412, A:R.416 Water bridges: A:T.52, A:T.52, A:A.53, A:A.53, A:G.98, A:G.98, A:D.99 APC.11: 22 residues within 4Å: Chain B: D.47, I.48, S.49, G.50, F.51, T.52, A.97, G.98, D.99, K.144, R.176, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, A.415, R.416 Ligands: CA.12 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:S.49, B:G.50, B:F.51, B:T.52, B:T.52, B:K.144, B:R.176, B:V.406, B:N.412, B:R.416 Water bridges: B:T.52, B:T.52, B:A.53, B:A.53, B:G.98, B:G.98, B:D.99 APC.21: 22 residues within 4Å: Chain C: D.47, I.48, S.49, G.50, F.51, T.52, A.97, G.98, D.99, K.144, R.176, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, A.415, R.416 Ligands: CA.22 17 PLIP interactions: 17 interactions with chain C Hydrogen bonds: C:S.49, C:G.50, C:F.51, C:T.52, C:T.52, C:K.144, C:R.176, C:V.406, C:N.412, C:R.416 Water bridges: C:T.52, C:T.52, C:A.53, C:A.53, C:G.98, C:G.98, C:D.99

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.47, I.48, D.99 Ligands: APC.1 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.47, A:I.48, A:D.99, H2O.2 CA.12: 4 residues within 4Å: Chain B: D.47, I.48, D.99 Ligands: APC.11 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.47, B:I.48, B:D.99, H2O.10 CA.22: 4 residues within 4Å: Chain C: D.47, I.48, D.99 Ligands: APC.21 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.47, C:I.48, C:D.99, H2O.17

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

CL.3: 3 residues within 4Å: Chain A: K.95, L.166, V.167 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: K.95, H.164, K.334, V.335 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain B: K.95, L.166, V.167 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain B: K.95, H.164, K.334, V.335 Ligand excluded by PLIP CL.23: 3 residues within 4Å: Chain C: K.95, L.166, V.167 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain C: K.95, H.164, K.334, V.335 Ligand excluded by PLIP

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

EDO.5: 5 residues within 4Å: Chain A: T.322, K.326, G.330, Q.331, I.332 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: H.238, Y.239, L.251 Ligands: EDO.7 Ligand excluded by PLIP EDO.7: 7 residues within 4Å: Chain A: H.238, Y.240, P.241, S.242, H.245, L.251 Ligands: EDO.6 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain A: G.90, M.237, H.238, Y.239, Y.240, P.241 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: F.370, S.374, T.381, V.382, G.423 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: H.28, D.258, E.260, L.261, S.264 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain B: T.322, K.326, G.330, Q.331, I.332 Ligand excluded by PLIP EDO.16: 4 residues within 4Å: Chain B: H.238, Y.239, L.251 Ligands: EDO.17 Ligand excluded by PLIP EDO.17: 7 residues within 4Å: Chain B: H.238, Y.240, P.241, S.242, H.245, L.251 Ligands: EDO.16 Ligand excluded by PLIP EDO.18: 6 residues within 4Å: Chain B: G.90, M.237, H.238, Y.239, Y.240, P.241 Ligand excluded by PLIP EDO.19: 5 residues within 4Å: Chain B: F.370, S.374, T.381, V.382, G.423 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain B: H.28, D.258, E.260, L.261, S.264 Ligand excluded by PLIP EDO.25: 5 residues within 4Å: Chain C: T.322, K.326, G.330, Q.331, I.332 Ligand excluded by PLIP EDO.26: 4 residues within 4Å: Chain C: H.238, Y.239, L.251 Ligands: EDO.27 Ligand excluded by PLIP EDO.27: 7 residues within 4Å: Chain C: H.238, Y.240, P.241, S.242, H.245, L.251 Ligands: EDO.26 Ligand excluded by PLIP EDO.28: 6 residues within 4Å: Chain C: G.90, M.237, H.238, Y.239, Y.240, P.241 Ligand excluded by PLIP EDO.29: 5 residues within 4Å: Chain C: F.370, S.374, T.381, V.382, G.423 Ligand excluded by PLIP EDO.30: 5 residues within 4Å: Chain C: H.28, D.258, E.260, L.261, S.264 Ligand excluded by PLIP

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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