SMTL ID : 8q3d.2 (1 other biounit)

HsNMT1 in complex with both MyrCoA and GNCFSKPR(NH2) inhibitor peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x GLY- ASN- CYS- PHE- SER- LYS- PRO- AAR: GNCFSKP(AAR)(Non-covalent)

GLY-ASN-CYS-PHE-SER-LYS-PRO-AAR.1: 26 residues within 4Å: Chain A: Y.85, V.86, E.87, D.88, D.90, F.93, F.95, Y.97, N.151, T.187, A.188, G.189, Y.201, H.203, F.216, Y.306, S.310, I.374, G.375, D.376, G.377, N.378, L.379, Q.401 Ligands: COA.2, MYR.7 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:D.88, A:F.93, A:F.95, A:F.95, A:F.95, A:F.216, A:F.216 Hydrogen bonds: A:Y.85, A:D.88, A:D.90, A:Y.97, A:T.187, A:T.187, A:Y.201, A:Y.306, A:I.374, A:D.376, A:D.376, A:D.376, A:D.376, A:G.377, A:G.377 Water bridges: A:E.87, A:D.89, A:D.89, A:T.187, A:G.189, A:R.200, A:H.203, A:Y.325, A:I.374

1 x COA: COENZYME A(Non-covalent)

COA.2: 24 residues within 4Å: Chain A: Y.22, Q.23, F.24, W.25, N.84, Y.85, V.86, L.153, C.154, V.155, R.160, S.161, K.162, R.163, V.164, A.165, P.166, I.169, T.187, A.188, V.190, L.192 Ligands: GLY-ASN-CYS-PHE-SER-LYS-PRO-AAR.1, MYR.7 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.85, A:V.86, A:L.153, A:V.155 Hydrogen bonds: A:Q.23, A:F.24, A:W.25, A:L.153, A:V.155, A:R.160, A:S.161, A:R.163, A:V.164, A:A.165 Water bridges: A:K.162, A:K.162

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 11 residues within 4Å: Chain A: P.31, K.194, P.195, V.196, Y.382, L.383, W.386, K.387, C.388, P.389, S.390 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:P.195, A:L.383, A:L.383, A:C.388, A:C.388 Water bridges: A:K.194 GOL.4: 10 residues within 4Å: Chain A: E.149, P.269, M.271, W.279, F.327, Y.328, L.398, V.399, L.400, Q.401 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.149, A:Y.328, A:Y.328, A:V.399, A:Q.401, A:Q.401

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

CL.5: 6 residues within 4Å: Chain A: L.66, D.67, L.68, R.107, W.111, H.116 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: V.37, K.194, P.389, S.390 Ligand excluded by PLIP

1 x MYR: MYRISTIC ACID(Non-covalent)

MYR.7: 19 residues within 4Å: Chain A: W.25, Y.85, I.150, N.151, F.152, L.153, I.169, T.173, V.176, H.177, I.181, F.182, Q.183, A.184, Y.186, T.187, Y.384 Ligands: GLY-ASN-CYS-PHE-SER-LYS-PRO-AAR.1, COA.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.150, A:I.150, A:L.153, A:L.153, A:I.169, A:I.169, A:I.169, A:V.176, A:A.184, A:Y.186, A:Y.186, A:Y.186, A:Y.384 Hydrogen bonds: A:Y.85, A:L.153

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dian, C. et al., HsNMT1 in complex with both MyrCoA and GNCFSKPR(NH2) inhibitor peptide. to be published

Release Date

2024-08-14

Peptides

Glycylpeptide N-tetradecanoyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Glycylpeptide N-tetradecanoyltransferase 1