SMTL ID : 5kgi.1

Crystal structure of PIM1 with inhibitor 2-[3,4-bis(chloranyl)phenoxy]ethanamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: F.101, I.104, T.105, D.141, D.205, G.209, D.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.101, A:D.141, A:D.210 EDO.2: 6 residues within 4Å: Chain A: W.240, S.247, D.248, R.249, P.250, E.254 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.240, A:T.251 EDO.3: 5 residues within 4Å: Chain A: R.107, A.109, L.110, Q.111, L.114 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.107, A:R.107, A:Q.111 EDO.4: 4 residues within 4Å: Chain A: R.192, S.193, T.251, F.252 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.252 Water bridges: A:E.253 EDO.5: 2 residues within 4Å: Chain A: Q.235, R.239 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.239, A:R.239 EDO.6: 5 residues within 4Å: Chain A: G.19, F.20, D.157, G.159, S.160 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.159 Water bridges: A:F.20, A:E.60, A:N.143, A:S.160 EDO.7: 2 residues within 4Å: Chain A: L.164, K.165 No protein-ligand interaction detected (PLIP) EDO.8: 5 residues within 4Å: Chain A: D.141, E.142, Y.178, D.205, I.211 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.142, A:E.142, A:D.205 EDO.9: 5 residues within 4Å: Chain A: K.38, L.91, I.156, D.157 Ligands: 6SF.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.38, A:D.157 Water bridges: A:K.38 EDO.10: 5 residues within 4Å: Chain A: E.233, H.236, H.258, P.259 Ligands: EDO.11 No protein-ligand interaction detected (PLIP) EDO.11: 6 residues within 4Å: Chain A: W.240, E.254, N.257, H.258, P.259 Ligands: EDO.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.257 EDO.12: 6 residues within 4Å: Chain A: L.164, K.165, D.166, H.190, G.191, R.192 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.191, A:R.192, A:R.192 EDO.13: 3 residues within 4Å: Chain A: E.112, E.113, R.116 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.112, A:E.113, A:R.116, A:R.116

1 x 6SF: 2-[3,4-bis(chloranyl)phenoxy]ethanamine(Non-covalent)

6SF.14: 10 residues within 4Å: Chain A: L.15, G.16, F.20, V.23, A.36, I.75, E.92, R.93, L.145 Ligands: EDO.9 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.23, A:A.36 Halogen bonds: A:E.92

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

SO4.15: 3 residues within 4Å: Chain A: R.127, N.131, F.252 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.253 Water bridges: A:N.131, A:N.131, A:F.252, A:F.252 Salt bridges: A:R.127 SO4.16: 3 residues within 4Å: Chain A: D.79, W.80, F.81 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferguson, A.D., Structure of PIM1 in complex with inhibitor. To Be Published

Release Date

2017-08-09

Peptides

Serine/threonine-protein kinase pim-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serine/threonine-protein kinase pim-1

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