SMTL ID : 7u2p.1

Structure of TcdA GTD in complex with RhoA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

1 x UPG: URIDINE-5'-DIPHOSPHATE-GLUCOSE(Non-covalent)

UPG.1: 25 residues within 4Å: Chain A: V.101, W.102, I.103, N.139, L.265, A.266, S.269, D.270, R.273, Y.284, D.286, V.287, D.288, N.384, Q.385, T.465, I.466, G.470, P.471, E.515, S.518, L.519, W.520 Chain B: N.42 Ligands: MN.2 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.265, A:L.519 Hydrogen bonds: A:V.101, A:I.103, A:I.103, A:N.139, A:S.269, A:D.270, A:R.273, A:R.273, A:D.286, A:D.286, A:V.287, A:Q.385, A:T.465, A:L.519, B:N.42 Water bridges: A:N.517 pi-Stacking: A:W.102

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

MN.2: 3 residues within 4Å: Chain A: D.288, E.515 Ligands: UPG.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.288, A:E.515, H2O.1, H2O.1

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

SO4.3: 3 residues within 4Å: Chain A: K.429, H.432 Chain B: R.73 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:R.73, A:H.432

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.4: 16 residues within 4Å: Chain B: D.18, G.19, A.20, C.21, G.22, K.23, T.24, C.25, F.35, K.123, D.125, L.126, S.165, A.166, K.167 Ligands: MG.5 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:A.20, B:C.21, B:G.22, B:K.23, B:T.24, B:T.24, B:C.25, B:K.123, B:K.123, B:A.166, B:K.167 Water bridges: B:T.24, B:Q.68 Salt bridges: B:K.23, B:D.125 pi-Stacking: B:F.35

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 2 residues within 4Å: Chain B: T.24 Ligands: GDP.4 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.24, H2O.2, H2O.2, H2O.2, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, B. et al., Structure of the glucosyltransferase domain of TcdA in complex with RhoA provides insights into substrate recognition. Sci Rep (2022)

Release Date

2022-05-04

Peptides

Glucosyltransferase TcdA: A
Transforming protein RhoA: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glucosyltransferase TcdA

Transforming protein RhoA

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