SMTL ID : 7mhz.1

Human Hedgehog acyltransferase (HHAT) in complex with a palmitoylated Hedgehog peptide product and a Fab antibody fragment

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x CYS- GLY- PRO- GLY- ARG- GLY- PHE- GLY: Sonic hedgehog protein N-product peptide(Non-covalent)

CYS-GLY-PRO-GLY-ARG-GLY-PHE-GLY.1: 18 residues within 4Å: Chain A: F.58, E.59, Y.167, Q.170, F.171, T.174, V.175, N.216, F.296, Y.300, F.304, D.339, W.378, H.379, Y.382, Y.384, F.446 Ligands: PLM.2 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.58, A:F.58, A:Y.167, A:F.171, A:F.171, A:F.171, A:T.174, A:V.175, A:H.379 Hydrogen bonds: A:Y.300, A:Y.300, A:Y.300, A:D.339, A:Y.382, A:Y.384 Salt bridges: A:E.59

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.2: 11 residues within 4Å: Chain A: L.290, V.293, F.296, V.325, M.334, D.339, H.379, N.443, F.446, Y.479 Ligands: CYS-GLY-PRO-GLY-ARG-GLY-PHE-GLY.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.290, A:V.293, A:F.296, A:V.325, A:V.325, A:D.339, A:N.443, A:F.446

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.3: 20 residues within 4Å: Chain A: S.14, L.15, H.18, F.22, R.250, W.254, L.257, M.261, L.294, Y.297, L.301, P.322, R.323, C.324, S.326, T.327, V.482, W.486 Ligands: AJP.14, AJP.15 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:L.15, A:F.22, A:L.257, A:L.294, A:Y.297, A:L.301, A:R.323, A:V.482, A:W.486 Salt bridges: A:R.250, A:R.323 pi-Stacking: A:Y.297 Metal complexes: A:C.324

3 x PKZ: Palmitoyl-CoA(Non-covalent)

PKZ.4: 20 residues within 4Å: Chain A: F.331, C.387, L.391, G.395, V.398, E.399, V.402, R.403, V.406, F.419, R.424, F.427, H.428, L.431, A.432, S.435, M.438, L.441, N.450, W.457 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.331, A:V.402, A:L.431, A:L.431, A:L.441, A:W.457 Hydrogen bonds: A:E.399, A:S.435 Salt bridges: A:H.428, A:H.428, A:H.428 PKZ.5: 8 residues within 4Å: Chain A: R.336, Y.351, S.357, T.364, T.371, V.396, N.400, R.404 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.351, A:T.371 Hydrogen bonds: A:Y.351, A:S.357, A:S.357, A:N.400 Salt bridges: A:R.404 PKZ.6: 8 residues within 4Å: Chain A: F.17, W.283, G.286, I.440, Y.456, S.471, V.472, F.475 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.17, A:F.17, A:W.283, A:I.440, A:I.440, A:Y.456, A:V.472, A:F.475

10 x AJP: Digitonin(Non-covalent)(Non-functional Binders)

AJP.7: 6 residues within 4Å: Chain A: Y.26, F.48, G.49, L.51, L.264 Ligands: AJP.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.49 AJP.8: 4 residues within 4Å: Chain A: Y.23, Y.26 Ligands: AJP.7, AJP.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.26 AJP.9: 4 residues within 4Å: Chain A: F.19, Y.23 Ligands: AJP.8, AJP.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.19, A:F.19, A:Y.23 Hydrogen bonds: A:Y.23 AJP.10: 2 residues within 4Å: Ligands: AJP.9, AJP.11 No protein-ligand interaction detected (PLIP) AJP.11: 5 residues within 4Å: Chain A: L.12, G.16, Y.20, W.283 Ligands: AJP.10 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.12, A:Y.20 Hydrogen bonds: A:Y.20, A:Y.20 AJP.12: 4 residues within 4Å: Chain A: M.438, W.457, I.462, W.465 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.457, A:I.462, A:W.465, A:W.465 AJP.13: 4 residues within 4Å: Chain A: W.95, M.98, L.99, P.202 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.95, A:W.95, A:L.99, A:P.202, A:P.202 AJP.14: 3 residues within 4Å: Chain A: W.486 Ligands: HEM.3, AJP.15 No protein-ligand interaction detected (PLIP) AJP.15: 4 residues within 4Å: Chain A: R.250 Ligands: HEM.3, AJP.14, AJP.16 No protein-ligand interaction detected (PLIP) AJP.16: 4 residues within 4Å: Chain A: L.246, G.249, R.250 Ligands: AJP.15 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.246 Hydrogen bonds: A:L.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, Y. et al., Substrate and product complexes reveal mechanisms of Hedgehog acylation by HHAT. Science (2021)

Release Date

2021-06-16

Peptides

Protein-cysteine N-palmitoyltransferase HHAT: A
3H02 Fab heavy chain: B
3H02 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
O

C
P

Membrane

We predict this structure to be a membrane protein.
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Protein-cysteine N-palmitoyltransferase HHAT

3H02 Fab heavy chain

3H02 Fab light chain

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