SMTL ID : 5f86.1

Crystal structure of Drosophila Poglut1 (Rumi) complexed with its substrate protein (EGF repeat)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: R.113, D.139, W.172, P.179, A.283, S.284, F.285 Chain B: S.11 Ligands: SO4.2 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.139, A:S.284, A:F.285, B:S.11 Water bridges: A:V.281, B:S.11

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

SO4.2: 6 residues within 4Å: Chain A: T.221, R.225, G.280, S.284, R.286 Ligands: GOL.1 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:T.221, A:T.221, A:S.284, A:S.284 Water bridges: A:R.286, A:R.286, A:R.286 Salt bridges: A:R.225, A:R.286 SO4.3: 6 residues within 4Å: Chain A: H.184, M.194, K.197, S.265, F.266, E.267 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.266, A:E.267, A:E.267 Salt bridges: A:H.184, A:K.197 SO4.4: 5 residues within 4Å: Chain A: G.301, D.302, E.303, K.322, S.323 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.302, A:E.303, A:S.323 SO4.5: 3 residues within 4Å: Chain A: R.217, D.262, V.264 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.217 SO4.6: 3 residues within 4Å: Chain A: S.227, S.326, Q.327 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.327, A:Q.327 SO4.7: 4 residues within 4Å: Chain A: R.195, R.360, M.361, K.362 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.361, A:K.362 Salt bridges: A:R.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, H. et al., Structural analysis of Notch-regulating Rumi reveals basis for pathogenic mutations. Nat. Chem. Biol. (2016)

Release Date

2016-07-20

Peptides

O-glucosyltransferase rumi: A
Coagulation factor IX: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

O-glucosyltransferase rumi

Coagulation factor IX

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