SMTL ID : 3v3v.3 (2 other biounits)

Structural and functional analysis of quercetagetin, a natural JNK1 inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-8-8-mer

Ligands

8 x MYU: 3,5,6,7-TETRAHYDROXY-2-(3,4-DIHYDROXYPHENYL)-4H-CHROMEN-4-ONE(Non-covalent)

MYU.1: 16 residues within 4Å: Chain A: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.40, A:V.158, A:L.168 Hydrogen bonds: A:E.73, A:E.109, A:M.111, A:M.111, A:N.114, A:N.114, A:D.169 MYU.10: 16 residues within 4Å: Chain C: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:V.40, C:V.158, C:L.168 Hydrogen bonds: C:E.73, C:E.109, C:M.111, C:M.111, C:N.114, C:N.114, C:D.169 MYU.19: 16 residues within 4Å: Chain E: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain E Hydrophobic interactions: E:V.40, E:V.158, E:L.168 Hydrogen bonds: E:E.73, E:E.109, E:M.111, E:M.111, E:N.114, E:N.114, E:D.169 MYU.28: 16 residues within 4Å: Chain G: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain G Hydrophobic interactions: G:V.40, G:V.158, G:L.168 Hydrogen bonds: G:E.73, G:E.109, G:M.111, G:M.111, G:N.114, G:N.114, G:D.169 MYU.37: 16 residues within 4Å: Chain I: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain I Hydrophobic interactions: I:V.40, I:V.158, I:L.168 Hydrogen bonds: I:E.73, I:E.109, I:M.111, I:M.111, I:N.114, I:N.114, I:D.169 MYU.46: 16 residues within 4Å: Chain K: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain K Hydrophobic interactions: K:V.40, K:V.158, K:L.168 Hydrogen bonds: K:E.73, K:E.109, K:M.111, K:M.111, K:N.114, K:N.114, K:D.169 MYU.55: 16 residues within 4Å: Chain M: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain M Hydrophobic interactions: M:V.40, M:V.158, M:L.168 Hydrogen bonds: M:E.73, M:E.109, M:M.111, M:M.111, M:N.114, M:N.114, M:D.169 MYU.64: 16 residues within 4Å: Chain O: I.32, V.40, A.53, K.55, E.73, I.86, M.108, E.109, L.110, M.111, D.112, A.113, N.114, V.158, L.168, D.169 10 PLIP interactions: 10 interactions with chain O Hydrophobic interactions: O:V.40, O:V.158, O:L.168 Hydrogen bonds: O:E.73, O:E.109, O:M.111, O:M.111, O:N.114, O:N.114, O:D.169

56 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: N.28 Chain M: R.50, N.51 Ligand excluded by PLIP SO4.3: 6 residues within 4Å: Chain A: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: T.255 Chain I: R.189, R.192, H.230 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: G.35, K.153, S.155 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain A: R.263 Ligands: SO4.43 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: P.2, K.3, R.4 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain C: N.28 Chain O: R.50, N.51 Ligand excluded by PLIP SO4.12: 6 residues within 4Å: Chain C: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.13: 5 residues within 4Å: Chain C: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain C: T.255 Chain K: R.189, R.192, H.230 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain C: G.35, K.153, S.155 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: R.263 Ligands: SO4.52 Ligand excluded by PLIP SO4.18: 3 residues within 4Å: Chain D: P.2, K.3, R.4 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain E: N.28 Chain I: R.50, N.51 Ligand excluded by PLIP SO4.21: 6 residues within 4Å: Chain E: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain E: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain E: T.255 Chain O: R.189, R.192, H.230 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain E: G.35, K.153, S.155 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain E: R.263 Ligands: SO4.70 Ligand excluded by PLIP SO4.27: 3 residues within 4Å: Chain F: P.2, K.3, R.4 Ligand excluded by PLIP SO4.29: 3 residues within 4Å: Chain G: N.28 Chain K: R.50, N.51 Ligand excluded by PLIP SO4.30: 6 residues within 4Å: Chain G: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.31: 5 residues within 4Å: Chain G: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.32: 4 residues within 4Å: Chain G: T.255 Chain M: R.189, R.192, H.230 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain G: G.35, K.153, S.155 Ligand excluded by PLIP SO4.34: 2 residues within 4Å: Chain G: R.263 Ligands: SO4.61 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain H: P.2, K.3, R.4 Ligand excluded by PLIP SO4.38: 3 residues within 4Å: Chain E: R.50, N.51 Chain I: N.28 Ligand excluded by PLIP SO4.39: 6 residues within 4Å: Chain I: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.40: 5 residues within 4Å: Chain I: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.41: 4 residues within 4Å: Chain A: R.189, R.192, H.230 Chain I: T.255 Ligand excluded by PLIP SO4.42: 3 residues within 4Å: Chain I: G.35, K.153, S.155 Ligand excluded by PLIP SO4.43: 2 residues within 4Å: Chain I: R.263 Ligands: SO4.7 Ligand excluded by PLIP SO4.45: 3 residues within 4Å: Chain J: P.2, K.3, R.4 Ligand excluded by PLIP SO4.47: 3 residues within 4Å: Chain G: R.50, N.51 Chain K: N.28 Ligand excluded by PLIP SO4.48: 6 residues within 4Å: Chain K: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.49: 5 residues within 4Å: Chain K: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.50: 4 residues within 4Å: Chain C: R.189, R.192, H.230 Chain K: T.255 Ligand excluded by PLIP SO4.51: 3 residues within 4Å: Chain K: G.35, K.153, S.155 Ligand excluded by PLIP SO4.52: 2 residues within 4Å: Chain K: R.263 Ligands: SO4.16 Ligand excluded by PLIP SO4.54: 3 residues within 4Å: Chain L: P.2, K.3, R.4 Ligand excluded by PLIP SO4.56: 3 residues within 4Å: Chain A: R.50, N.51 Chain M: N.28 Ligand excluded by PLIP SO4.57: 6 residues within 4Å: Chain M: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.58: 5 residues within 4Å: Chain M: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.59: 4 residues within 4Å: Chain G: R.189, R.192, H.230 Chain M: T.255 Ligand excluded by PLIP SO4.60: 3 residues within 4Å: Chain M: G.35, K.153, S.155 Ligand excluded by PLIP SO4.61: 2 residues within 4Å: Chain M: R.263 Ligands: SO4.34 Ligand excluded by PLIP SO4.63: 3 residues within 4Å: Chain N: P.2, K.3, R.4 Ligand excluded by PLIP SO4.65: 3 residues within 4Å: Chain C: R.50, N.51 Chain O: N.28 Ligand excluded by PLIP SO4.66: 6 residues within 4Å: Chain O: Q.37, G.38, K.56, L.57, S.58, H.66 Ligand excluded by PLIP SO4.67: 5 residues within 4Å: Chain O: K.68, R.72, R.150, L.172, R.174 Ligand excluded by PLIP SO4.68: 4 residues within 4Å: Chain E: R.189, R.192, H.230 Chain O: T.255 Ligand excluded by PLIP SO4.69: 3 residues within 4Å: Chain O: G.35, K.153, S.155 Ligand excluded by PLIP SO4.70: 2 residues within 4Å: Chain O: R.263 Ligands: SO4.25 Ligand excluded by PLIP SO4.72: 3 residues within 4Å: Chain P: P.2, K.3, R.4 Ligand excluded by PLIP

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

CL.8: 1 residues within 4Å: Chain A: R.127 Ligand excluded by PLIP CL.17: 1 residues within 4Å: Chain C: R.127 Ligand excluded by PLIP CL.26: 1 residues within 4Å: Chain E: R.127 Ligand excluded by PLIP CL.35: 1 residues within 4Å: Chain G: R.127 Ligand excluded by PLIP CL.44: 1 residues within 4Å: Chain I: R.127 Ligand excluded by PLIP CL.53: 1 residues within 4Å: Chain K: R.127 Ligand excluded by PLIP CL.62: 1 residues within 4Å: Chain M: R.127 Ligand excluded by PLIP CL.71: 1 residues within 4Å: Chain O: R.127 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Baek, S. et al., Structural and Functional Analysis of the Natural JNK1 Inhibitor Quercetagetin. J.Mol.Biol. (2013)

Release Date

2012-12-05

Peptides

Mitogen-activated protein kinase 8: ACEGIKMO
C-Jun-amino-terminal kinase-interacting protein 1: BDFHJLNP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

I
A

K
A

M
A

O
A

B
B

D
B

F
B

H
B

J
B

L
B

N
B

P
B

Mitogen-activated protein kinase 8

C-Jun-amino-terminal kinase-interacting protein 1

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