SMTL ID : 4usw.1

Crystal structure of human soluble Adenylyl Cyclase with ATP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-trimer

Ligands

3 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: D.47, I.48, D.99 Ligands: ATP.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.48 Water bridges: A:D.99 NA.6: 4 residues within 4Å: Chain B: D.47, I.48, D.99 Ligands: ATP.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.47 Water bridges: B:D.99 NA.11: 4 residues within 4Å: Chain C: D.47, I.48, D.99 Ligands: ATP.14 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.47 Water bridges: C:D.99

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

ACT.2: 6 residues within 4Å: Chain A: K.95, H.164, N.333, K.334, V.335 Ligands: GOL.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:H.164, A:V.335 Hydrogen bonds: A:V.335, A:V.335 Water bridges: A:K.95 Salt bridges: A:K.95, A:H.164, A:K.334 ACT.3: 6 residues within 4Å: Chain A: K.95, L.102, L.166, V.167, R.176, F.336 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.166, A:V.167 Water bridges: A:R.176, A:M.337 Salt bridges: A:K.95, A:R.176 ACT.7: 6 residues within 4Å: Chain B: K.95, H.164, N.333, K.334, V.335 Ligands: GOL.10 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:H.164, B:V.335 Hydrogen bonds: B:V.335, B:V.335 Water bridges: B:K.95 Salt bridges: B:K.95, B:H.164, B:K.334 ACT.8: 6 residues within 4Å: Chain B: K.95, L.102, L.166, V.167, R.176, F.336 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.166, B:V.167 Water bridges: B:R.176, B:M.337 Salt bridges: B:K.95, B:R.176 ACT.12: 6 residues within 4Å: Chain C: K.95, H.164, N.333, K.334, V.335 Ligands: GOL.15 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:H.164, C:V.335 Hydrogen bonds: C:V.335, C:V.335 Water bridges: C:K.95 Salt bridges: C:K.95, C:H.164, C:K.334 ACT.13: 6 residues within 4Å: Chain C: K.95, L.102, L.166, V.167, R.176, F.336 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:L.166, C:V.167 Water bridges: C:R.176, C:M.337 Salt bridges: C:K.95, C:R.176

3 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.4: 20 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, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, R.416 Ligands: NA.1 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:S.49, A:G.50, A:T.52, A:T.52, A:T.52, A:D.99, A:T.405, A:N.412 Water bridges: A:D.99, A:D.99, A:G.408 Salt bridges: A:K.144, A:K.144, A:R.416 ATP.9: 20 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, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, R.416 Ligands: NA.6 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:S.49, B:G.50, B:T.52, B:T.52, B:T.52, B:D.99, B:T.405, B:N.412 Water bridges: B:D.99, B:D.99, B:G.408 Salt bridges: B:K.144, B:K.144, B:R.416 ATP.14: 20 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, F.296, F.336, F.338, L.345, T.405, V.406, V.411, N.412, R.416 Ligands: NA.11 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:S.49, C:G.50, C:T.52, C:T.52, C:T.52, C:D.99, C:T.405, C:N.412 Water bridges: C:D.99, C:D.99, C:G.408 Salt bridges: C:K.144, C:K.144, C:R.416

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: H.19, K.95, F.165, Y.268, K.334, E.403 Ligands: ACT.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.333, A:K.334 Water bridges: A:H.19, A:H.19, A:R.401, A:Y.404 GOL.10: 7 residues within 4Å: Chain B: H.19, K.95, F.165, Y.268, K.334, E.403 Ligands: ACT.7 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.333, B:K.334 Water bridges: B:H.19, B:H.19, B:R.401, B:Y.404 GOL.15: 7 residues within 4Å: Chain C: H.19, K.95, F.165, Y.268, K.334, E.403 Ligands: ACT.12 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:N.333, C:K.334 Water bridges: C:H.19, C:H.19, C:R.401, C:Y.404

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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