SMTL ID : 3ac1.1

Crystal structure of pyrazin derivative bound to the kinase domain of Human LCK, (Auto-phosphorylated on TYR394)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.99 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: Q.74, R.75, S.153, K.155 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.74, A:S.153 Water bridges: A:S.149, A:S.149, A:K.155 Salt bridges: A:R.75, A:K.155 SO4.2: 1 residues within 4Å: Chain A: Y.265 No protein-ligand interaction detected (PLIP)

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 4 residues within 4Å: Chain A: W.9, E.15, T.84, Q.85 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:E.15 pi-Cation interactions: A:W.9, A:W.9

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 5 residues within 4Å: Chain A: F.178, P.179, I.180, K.181, N.222 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.179, A:I.180 Hydrogen bonds: A:I.180, A:K.181, A:N.222

1 x KZI: 5-{[(1R,2S)-2-aminocyclohexyl]amino}-3-[(3,5-dimethoxyphenyl)amino]pyrazine-2-carboxamide(Non-covalent)

KZI.5: 12 residues within 4Å: Chain A: L.27, G.28, V.35, A.47, T.92, E.93, Y.94, M.95, E.96, N.97, G.98, L.147 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.27, A:Y.94 Hydrogen bonds: A:T.92, A:E.93, A:M.95, A:M.95 Water bridges: A:Y.94, A:S.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ozawa, M. et al., Ab initio fragment molecular orbital study of ligand binding to leukocyte-specific protein tyrosine (LCK) kinase. To be Published

Release Date

2010-06-30

Peptides

Proto-oncogene tyrosine-protein kinase LCK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Proto-oncogene tyrosine-protein kinase LCK

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