SMTL ID : 7ybb.1

Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with D-4-hydroxy-2-oxoglutarate and factor X-derived peptide (39mer-4Ser)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

hetero-1-1-mer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: H.350, R.359, D.392, H.396 Chain B: D.18 Ligands: IO9.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.350, A:H.396, H2O.16

1 x IO9: (2~{R})-2-oxidanyl-4-oxidanylidene-pentanedioic acid(Non-covalent)

IO9.2: 18 residues within 4Å: Chain A: W.296, S.339, M.341, V.347, H.350, R.359, H.361, I.373, W.382, F.390, D.392, H.396, V.398, R.406, I.408, I.410 Chain B: D.18 Ligands: MN.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.296, A:V.398 Hydrogen bonds: A:W.296, A:S.339, A:S.339 Water bridges: A:K.337, A:R.359 Salt bridges: A:R.359, A:H.361, A:H.361, A:H.396, A:R.406

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakashima, Y. et al., Aspartyl/Asparaginyl beta-hydroxylase (AspH) oxygenase and TPR domains in complex with D-4-hydroxy-2-oxoglutarate and factor X-derived peptide (39mer-4Ser). To Be Published

Release Date

2023-07-05

Peptides

Aspartyl/asparaginyl beta-hydroxylase: A
Coagulation factor X: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aspartyl/asparaginyl beta-hydroxylase

Coagulation factor X

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