SMTL ID : 5d15.1

Crystal structure of an adenylyl cyclase Ma1120 from Mycobacterium avium in complex with ATP and calcium ion

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

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

ATP.1: 23 residues within 4Å: Chain A: D.15, I.16, E.17, E.18, S.19, T.20, A.21, Q.57, G.58, D.59, R.97 Chain B: F.13, K.55, M.62, D.111, L.112, F.113, V.117, A.118, A.121, R.122, K.159 Ligands: CA.2 16 PLIP interactions: 9 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:D.15, A:I.16, A:E.18, A:S.19, A:T.20, A:T.20, A:Q.57, B:K.55, B:D.111 Water bridges: A:A.21, B:K.159, B:K.159 Salt bridges: A:R.97, B:K.159, B:K.159, B:K.159 ATP.4: 23 residues within 4Å: Chain A: F.13, K.55, Q.57, M.62, D.111, L.112, F.113, V.117, A.118, A.121, R.122 Chain B: D.15, I.16, E.17, E.18, S.19, T.20, A.21, Q.57, G.58, D.59, R.97 Ligands: CA.5 12 PLIP interactions: 4 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:K.55, A:D.111, B:D.15, B:E.18, B:E.18, B:S.19, B:S.19, B:T.20, B:T.20 Salt bridges: A:R.122, A:R.122, B:R.97

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: D.15, I.16, S.19, D.59, R.97 Ligands: ATP.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.15, A:D.15, A:I.16, A:D.59 CA.5: 6 residues within 4Å: Chain B: D.15, I.16, S.19, D.59, R.97 Ligands: ATP.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.15, B:D.15, B:I.16, B:D.59

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

EDO.3: 5 residues within 4Å: Chain A: D.28 Chain B: M.5, R.104, R.115, N.116 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:M.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bharambe, N.G. et al., Substrate specificity determinants of class III nucleotidyl cyclases. Febs J. (2016)

Release Date

2016-08-10

Peptides

Cyclase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclase

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