SMTL ID : 5b8i.1

Crystal structure of Calcineurin A and Calcineurin B in complex with FKBP12 and FK506 from Coccidioides immitis RS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.136, N.168, H.217, H.299 Ligands: FE.2, MES.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.136, A:H.217, A:H.299, H2O.14

1 x FE: FE (III) ION(Non-covalent)

FE.2: 5 residues within 4Å: Chain A: D.108, H.110, D.136 Ligands: ZN.1, MES.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.108, A:H.110, A:D.136, H2O.14, H2O.14

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 9 residues within 4Å: Chain A: H.110, D.136, N.168, H.169, R.272, H.299, Y.329 Ligands: ZN.1, FE.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.168, A:H.299, A:Y.329 Water bridges: A:N.168, A:H.299, A:A.301 Salt bridges: A:H.110, A:H.169, A:R.272, A:H.299 MES.4: 9 residues within 4Å: Chain A: R.140, Y.142, T.179, L.330, D.331 Chain C: R.54, K.55, E.61 Ligands: EDO.18 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Water bridges: C:R.54, C:K.55 Salt bridges: C:R.54, C:K.55, A:R.140

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

EDO.5: 4 residues within 4Å: Chain A: N.47, W.51, D.77, Q.78 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.47 EDO.6: 7 residues within 4Å: Chain A: I.103, T.104, T.129, R.130, K.341, E.343 Ligands: EDO.7 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.103 Water bridges: A:G.123, A:R.130, A:K.341, A:K.341 EDO.7: 3 residues within 4Å: Chain A: K.341, N.348 Ligands: EDO.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.341 Water bridges: A:K.341, A:K.341 EDO.8: 6 residues within 4Å: Chain A: T.44, R.73, L.74, E.76, K.187, Y.188 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.74, A:E.76 EDO.9: 4 residues within 4Å: Chain A: P.94, L.97, E.98, W.163 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.98 Water bridges: A:E.98 EDO.10: 6 residues within 4Å: Chain A: S.52, P.59, N.60, L.61, A.62, W.157 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.52, A:P.59, A:L.61, A:A.62 EDO.15: 3 residues within 4Å: Chain B: D.16, H.17, E.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.16, B:H.17, B:E.18 EDO.16: 4 residues within 4Å: Chain B: R.93, F.96, K.97, G.105 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.93 EDO.18: 8 residues within 4Å: Chain A: Y.142, P.362 Chain C: K.55, F.56, D.57, S.58, E.61 Ligands: MES.4 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Water bridges: C:E.61, A:L.361 EDO.19: 4 residues within 4Å: Chain C: Y.37, R.38, E.60, E.119 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.60 EDO.20: 3 residues within 4Å: Chain C: P.107, G.108, L.109 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.108, C:G.108 Water bridges: C:F.106

4 x CA: CALCIUM ION(Non-covalent)

CA.11: 6 residues within 4Å: Chain B: D.31, D.33, S.35, T.37, E.39, E.42 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.31, B:D.33, B:S.35, B:T.37, B:E.39 CA.12: 4 residues within 4Å: Chain B: D.63, D.65, D.69, E.74 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.63, B:D.65, B:D.69, B:E.74, H2O.19 CA.13: 5 residues within 4Å: Chain B: D.100, D.102, D.104, F.106, E.111 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.100, B:D.104, B:F.106, B:E.111, H2O.19 CA.14: 5 residues within 4Å: Chain B: D.141, D.143, D.145, R.147, E.152 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.141, B:D.143, B:D.145, B:R.147, H2O.21

1 x FK5: 8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN(Non-covalent)

FK5.17: 25 residues within 4Å: Chain A: L.361, W.370, S.371, P.373, F.374, E.377 Chain B: L.116, M.119, V.120, N.123 Chain C: Y.37, F.56, D.57, R.62, F.65, V.73, V.74, I.75, W.78, A.100, Y.101, F.106, L.109, I.110, F.118 19 PLIP interactions: 12 interactions with chain C, 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: C:Y.37, C:F.65, C:F.65, C:I.75, C:W.78, C:W.78, C:Y.101, C:Y.101, C:L.109, C:I.110, A:P.373, A:F.374, A:F.374, B:L.116, B:M.119, B:V.120 Hydrogen bonds: C:I.75, C:Y.101 Water bridges: A:E.377

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Juvvadi, P.R. et al., Harnessing calcineurin-FK506-FKBP12 crystal structures from invasive fungal pathogens to develop antifungal agents. Nat Commun (2019)

Release Date

2015-05-20

Peptides

Serine/threonine-protein phosphatase: A
Calcineurin subunit B, variant: B
Peptidylprolyl isomerase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Serine/threonine-protein phosphatase

Calcineurin subunit B, variant

Peptidylprolyl isomerase