SMTL ID : 6t8x.1

Crystal structure of MAPKAPK2 (MK2) complexed with PF-3644022 and 5-(4-bromophenyl)-N-[4-(1-piperazinyl)phenyl]-N-(2-pyridinylmethyl)-2-furancarboxamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

homo-hexamer

Ligands

6 x B97: (10R)-10-methyl-3-(6-methylpyridin-3-yl)-9,10,11,12-tetrahydro-8H-[1,4]diazepino[5',6':4,5]thieno[3,2-f]quinolin-8-one(Non-covalent)

B97.1: 17 residues within 4Å: Chain A: L.51, L.53, G.54, V.59, A.72, K.74, V.99, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.51, A:L.51, A:V.59, A:A.72, A:V.99, A:D.123, A:L.174 Hydrogen bonds: A:L.122, A:D.188, A:D.188, A:D.188 B97.4: 18 residues within 4Å: Chain B: L.51, G.52, L.53, G.54, V.59, A.72, K.74, V.99, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.51, B:L.51, B:A.72, B:V.99, B:D.123, B:L.174 Hydrogen bonds: B:L.122, B:T.187, B:D.188, B:D.188, B:D.188 B97.7: 17 residues within 4Å: Chain C: L.51, L.53, G.54, V.59, K.70, A.72, K.74, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:L.51, C:A.72, C:L.174 Hydrogen bonds: C:L.122, C:T.187, C:D.188, C:D.188, C:D.188 B97.10: 18 residues within 4Å: Chain D: L.51, G.52, L.53, G.54, V.59, A.72, K.74, V.99, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 10 PLIP interactions: 10 interactions with chain D Hydrophobic interactions: D:L.51, D:L.51, D:A.72, D:V.99, D:L.122, D:L.174 Hydrogen bonds: D:L.122, D:T.187, D:D.188, D:D.188 B97.13: 19 residues within 4Å: Chain E: L.51, G.52, L.53, G.54, V.59, K.70, A.72, K.74, V.99, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:L.51, E:L.51, E:V.59, E:A.72, E:V.99, E:D.123, E:L.174 Hydrogen bonds: E:L.122, E:T.187, E:D.188, E:D.188 B97.16: 19 residues within 4Å: Chain F: L.51, G.52, L.53, G.54, V.59, K.70, A.72, K.74, V.99, M.119, E.120, C.121, L.122, D.123, E.171, N.172, L.174, T.187, D.188 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:L.51, F:L.51, F:V.59, F:A.72, F:V.99, F:L.174 Hydrogen bonds: F:L.122, F:D.188, F:D.188, F:D.188

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

CL.2: 4 residues within 4Å: Chain A: S.246, N.247, S.253, R.259 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain B: S.246, N.247, S.253, R.259 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain C: S.246, N.247, S.253, R.259 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain D: S.246, N.247, S.253, R.259 Ligand excluded by PLIP CL.14: 5 residues within 4Å: Chain E: S.246, N.247, H.248, S.253, R.259 Ligand excluded by PLIP CL.17: 4 residues within 4Å: Chain F: S.246, N.247, S.253, R.259 Ligand excluded by PLIP

6 x MW8: 5-(4-bromophenyl)-~{N}-(4-piperazin-1-ylphenyl)-~{N}-(pyridin-2-ylmethyl)furan-2-carboxamide(Non-covalent)

MW8.3: 14 residues within 4Å: Chain A: F.128, I.131, P.170, I.236, G.240, Y.241, P.242, Y.245, S.246, N.247, G.249, E.271 Chain D: Y.209, Y.210 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:I.131, A:I.236, A:Y.241, A:P.242, A:Y.245, D:Y.209 Hydrogen bonds: D:Y.209 MW8.6: 14 residues within 4Å: Chain A: Y.209, Y.210 Chain B: F.128, I.131, P.170, I.236, G.240, Y.241, P.242, Y.245, S.246, N.247, G.249, E.271 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.131, B:I.236, B:Y.241, B:P.242, B:Y.245, A:Y.209 Hydrogen bonds: B:E.271 MW8.9: 10 residues within 4Å: Chain C: F.128, Q.132, I.236, G.240, Y.241, P.242, Y.245, S.246, G.249, E.271 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.236, C:I.236, C:Y.241, C:P.242, C:Y.245 MW8.12: 14 residues within 4Å: Chain B: Y.209, Y.210 Chain D: F.128, I.131, P.170, I.236, G.240, Y.241, P.242, Y.245, S.246, N.247, G.249, E.271 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:I.131, D:I.236, D:Y.241, D:P.242, D:Y.245, B:Y.209 Hydrogen bonds: B:Y.209 MW8.15: 13 residues within 4Å: Chain E: F.128, I.131, P.170, I.236, G.240, Y.241, P.242, Y.245, S.246, N.247, H.248, G.249, E.271 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:I.131, E:I.236, E:I.236, E:Y.241, E:Y.241, E:P.242, E:Y.245 Hydrogen bonds: E:E.271 MW8.18: 13 residues within 4Å: Chain E: Y.209, Y.210 Chain F: F.128, I.131, I.236, G.240, Y.241, P.242, Y.245, S.246, N.247, G.249, E.271 7 PLIP interactions: 6 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:I.131, F:I.236, F:Y.241, F:P.242, F:Y.245, E:Y.209 Hydrogen bonds: F:E.271

Links

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Citation

Beaumont, E.J. et al., Crystal structure of MAPKAPK2 (MK2) complexed with PF-3644022 and 5-(4-bromophenyl)-N-[4-(1-piperazinyl)phenyl]-N-(2-pyridinylmethyl)-2-furancarboxamide. To Be Published

Release Date

2021-05-12

Peptides

MAP kinase-activated protein kinase 2: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

MAP kinase-activated protein kinase 2