SMTL ID : 2r6x.1 (1 other biounit)

Structure of a D35N variant PduO-type ATP:co(I)rrinoid adenosyltransferase from Lactobacillus reuteri complexed with ATP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.61 Å

Oligo State

homo-trimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.166 Chain C: I.9, Y.10 Ligands: ATP.9 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:I.9, A:D.166, A:D.166, H2O.8 MG.2: 3 residues within 4Å: Chain A: N.162 Chain C: K.29 Ligands: ATP.9 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain A: I.9, Y.10 Chain B: D.166 Ligands: ATP.3 4 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:I.9, B:D.166, B:D.166, H2O.3 MG.5: 3 residues within 4Å: Chain A: K.29 Chain B: N.162 Ligands: ATP.3 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain B: I.9, Y.10 Chain C: D.166 Ligands: ATP.6 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: C:D.166, C:D.166, B:I.9, H2O.5 MG.8: 3 residues within 4Å: Chain B: K.29 Chain C: N.162 Ligands: ATP.6 No protein-ligand interaction detected (PLIP)

3 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 20 residues within 4Å: Chain A: I.9, Y.10, T.11, K.12, N.13, G.14, Q.18, T.19, R.20, K.29, V.34, Y.37, G.38 Chain B: R.138, E.141, R.142, N.162, D.166 Ligands: MG.4, MG.5 22 PLIP interactions: 11 interactions with chain B, 11 interactions with chain A Hydrogen bonds: B:R.138, B:R.138, B:R.138, B:E.141, B:R.142, B:N.162, B:N.162, A:T.11, A:K.12, A:G.14, A:D.15, A:Q.18, A:T.19, A:R.20, A:R.20, A:K.29 Water bridges: B:R.163 Salt bridges: B:R.138, A:K.29, A:K.29 pi-Cation interactions: B:R.138, B:R.138 ATP.6: 20 residues within 4Å: Chain B: I.9, Y.10, T.11, K.12, N.13, G.14, Q.18, T.19, R.20, K.29, V.34, Y.37, G.38 Chain C: R.138, E.141, R.142, N.162, D.166 Ligands: MG.7, MG.8 22 PLIP interactions: 11 interactions with chain B, 11 interactions with chain C Hydrogen bonds: B:T.11, B:K.12, B:G.14, B:D.15, B:Q.18, B:T.19, B:R.20, B:R.20, B:K.29, C:R.138, C:R.138, C:R.138, C:E.141, C:R.142, C:N.162, C:N.162 Salt bridges: B:K.29, B:K.29, C:R.138 Water bridges: C:R.163 pi-Cation interactions: C:R.138, C:R.138 ATP.9: 20 residues within 4Å: Chain A: R.138, E.141, R.142, N.162, D.166 Chain C: I.9, Y.10, T.11, K.12, N.13, G.14, Q.18, T.19, R.20, K.29, V.34, Y.37, G.38 Ligands: MG.1, MG.2 22 PLIP interactions: 11 interactions with chain A, 11 interactions with chain C Hydrogen bonds: A:R.138, A:R.138, A:R.138, A:E.141, A:R.142, A:N.162, A:N.162, C:T.11, C:K.12, C:G.14, C:D.15, C:Q.18, C:T.19, C:R.20, C:R.20, C:K.29 Water bridges: A:R.163 Salt bridges: A:R.138, C:K.29, C:K.29 pi-Cation interactions: A:R.138, A:R.138

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mera, P.E. et al., Structural and functional analyses of the human-type corrinoid adenosyltransferase (PduO) from Lactobacillus reuteri. Biochemistry (2007)

Release Date

2007-12-18

Peptides

Cobalamin adenosyltransferase PduO-like protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Cobalamin adenosyltransferase PduO-like protein

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