SMTL ID : 8chs.1

Human heparan sulfate N-deacetylase-N-sulfotransferase 1 in complex with calcium, 3'-phosphoadenosine-5'-phosphosulfate and nanobody nAb13 (composite map and model).

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x A3P: ADENOSINE-3'-5'-DIPHOSPHATE(Non-covalent)

A3P.1: 17 residues within 4Å: Chain B: Q.536, K.537, T.538, G.539, T.540, T.541, A.542, S.635, G.701, L.704, R.705, F.739, L.752, K.756, G.757, R.758, Y.760 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:K.537, B:T.538, B:G.539, B:T.540, B:T.540, B:T.540, B:T.541, B:T.541, B:S.635, B:L.704, B:R.758, B:R.758 Salt bridges: B:K.537, B:K.756 pi-Stacking: B:F.739

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain B: D.242, D.243, H.316, H.452 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.243, B:D.243, B:H.316, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mycroft-West, C.J. et al., Structural and mechanistic characterization of bifunctional heparan sulfate N-deacetylase-N-sulfotransferase 1. Nat Commun (2024)

Release Date

2024-02-21

Peptides

Nanobody nAb13 - all CA rigid fit model derived from nanobody nAb7: A
Bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

Nanobody nAb13 - all CA rigid fit model derived from nanobody nAb7

Bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1

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