SMTL ID : 7ale.1

Crystal structure of human PAICS in complex with inhibitor 69

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.95 Å

Oligo State

homo-octamer

Ligands

8 x RLK: 2-azanyl-~{N}-[2-bromanyl-5-[4-[3-(dimethylamino)propylsulfonyl]piperazin-1-yl]phenyl]-1,3-oxazole-4-carboxamide(Non-covalent)

RLK.1: 15 residues within 4Å: Chain A: L.13, Y.14, K.19, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, D.207 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.14, A:Y.14 Hydrogen bonds: A:A.76, A:Q.90, A:C.91, A:D.207 Salt bridges: A:E.92 Halogen bonds: A:D.207 RLK.3: 15 residues within 4Å: Chain B: L.13, Y.14, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, A.206, D.207 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.14, B:Y.14 Hydrogen bonds: B:Q.90, B:C.91, B:D.207, B:D.207 Salt bridges: B:E.92, B:E.92 Halogen bonds: B:D.207 RLK.5: 15 residues within 4Å: Chain C: L.13, Y.14, K.19, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, D.207 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:Y.14, C:Y.14 Hydrogen bonds: C:A.76, C:Q.90, C:C.91, C:D.207 Salt bridges: C:E.92 Halogen bonds: C:D.207 RLK.7: 15 residues within 4Å: Chain D: L.13, Y.14, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, A.206, D.207 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:Y.14, D:Y.14 Hydrogen bonds: D:Q.90, D:C.91, D:D.207, D:D.207 Salt bridges: D:E.92, D:E.92 Halogen bonds: D:D.207 RLK.9: 15 residues within 4Å: Chain E: L.13, Y.14, K.19, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, D.207 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:Y.14, E:Y.14 Hydrogen bonds: E:A.76, E:Q.90, E:C.91, E:D.207 Salt bridges: E:E.92 Halogen bonds: E:D.207 RLK.11: 15 residues within 4Å: Chain F: L.13, Y.14, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, A.206, D.207 9 PLIP interactions: 9 interactions with chain F Hydrophobic interactions: F:Y.14, F:Y.14 Hydrogen bonds: F:Q.90, F:C.91, F:D.207, F:D.207 Salt bridges: F:E.92, F:E.92 Halogen bonds: F:D.207 RLK.13: 15 residues within 4Å: Chain G: L.13, Y.14, K.19, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, D.207 8 PLIP interactions: 8 interactions with chain G Hydrophobic interactions: G:Y.14, G:Y.14 Hydrogen bonds: G:A.76, G:Q.90, G:C.91, G:D.207 Salt bridges: G:E.92 Halogen bonds: G:D.207 RLK.15: 15 residues within 4Å: Chain H: L.13, Y.14, V.21, L.33, F.65, A.76, F.86, A.88, P.89, Q.90, C.91, E.92, M.93, A.206, D.207 9 PLIP interactions: 9 interactions with chain H Hydrophobic interactions: H:Y.14, H:Y.14 Hydrogen bonds: H:Q.90, H:C.91, H:D.207, H:D.207 Salt bridges: H:E.92, H:E.92 Halogen bonds: H:D.207

8 x OK8: (2~{S})-2-[[5-azanyl-1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]imidazol-4-yl]car bonylamino]butanedioic acid(Non-covalent)

OK8.2: 18 residues within 4Å: Chain A: T.40, A.41, G.42, E.97, V.99, R.101, T.105, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.40, A:G.42, A:S.107, A:S.107, A:F.108, A:D.189, A:D.212, A:D.212, A:K.228, A:R.232, A:R.232 Salt bridges: A:K.17, A:K.17, A:R.101, A:R.215, A:K.228, A:K.228, A:R.232 OK8.4: 17 residues within 4Å: Chain B: K.17, T.40, A.41, G.42, E.97, R.101, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:T.40, B:G.42, B:G.42, B:S.107, B:D.189, B:R.232 Salt bridges: B:K.17, B:R.101, B:R.215, B:K.228, B:K.228, B:R.232 pi-Cation interactions: B:K.191 OK8.6: 18 residues within 4Å: Chain C: T.40, A.41, G.42, E.97, V.99, R.101, T.105, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:T.40, C:G.42, C:S.107, C:S.107, C:F.108, C:D.189, C:D.212, C:D.212, C:K.228, C:R.232, C:R.232 Salt bridges: C:K.17, C:K.17, C:R.101, C:R.215, C:K.228, C:K.228, C:R.232 OK8.8: 17 residues within 4Å: Chain D: K.17, T.40, A.41, G.42, E.97, R.101, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:T.40, D:G.42, D:G.42, D:S.107, D:D.189, D:R.232 Salt bridges: D:K.17, D:R.101, D:R.215, D:K.228, D:K.228, D:R.232 pi-Cation interactions: D:K.191 OK8.10: 18 residues within 4Å: Chain E: T.40, A.41, G.42, E.97, V.99, R.101, T.105, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 18 PLIP interactions: 18 interactions with chain E Hydrogen bonds: E:T.40, E:G.42, E:S.107, E:S.107, E:F.108, E:D.189, E:D.189, E:D.212, E:K.228, E:R.232, E:R.232 Salt bridges: E:K.17, E:K.17, E:R.101, E:R.215, E:K.228, E:K.228, E:R.232 OK8.12: 17 residues within 4Å: Chain F: K.17, T.40, A.41, G.42, E.97, R.101, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:G.42, F:G.42, F:S.107, F:D.189, F:R.232 Salt bridges: F:K.17, F:R.101, F:R.215, F:K.228, F:K.228, F:R.232 pi-Cation interactions: F:K.191 OK8.14: 18 residues within 4Å: Chain G: T.40, A.41, G.42, E.97, V.99, R.101, T.105, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 18 PLIP interactions: 18 interactions with chain G Hydrogen bonds: G:T.40, G:G.42, G:S.107, G:S.107, G:F.108, G:D.189, G:D.189, G:D.212, G:K.228, G:R.232, G:R.232 Salt bridges: G:K.17, G:K.17, G:R.101, G:R.215, G:K.228, G:K.228, G:R.232 OK8.16: 17 residues within 4Å: Chain H: K.17, T.40, A.41, G.42, E.97, R.101, G.106, S.107, D.189, M.190, K.191, D.212, S.213, W.214, R.215, K.228, R.232 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:G.42, H:G.42, H:S.107, H:D.189, H:R.232 Salt bridges: H:K.17, H:R.101, H:R.215, H:K.228, H:K.228, H:R.232 pi-Cation interactions: H:K.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marttila, P. et al., Cellular and biochemical validation of a potent PAICS inhibitor. To Be Published

Release Date

2022-04-20

Peptides

Multifunctional protein ADE2: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

Multifunctional protein ADE2

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