SMTL ID : 6q32.1

The structure of the Mo-insertase domain Cnx1E (variant S269DD274S) from Arabidopsis thaliana in complex with Moco-AMP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.39 Å

Oligo State

homo-dimer

Ligands

2 x NWS: Moco-AMP(Non-covalent)

NWS.1: 39 residues within 4Å: Chain A: S.202, T.203, E.206, L.207, I.220, R.221, D.222, S.223, N.224, R.225, S.270, G.271, G.272, V.273, D.274, M.275, K.299, P.300, G.301, K.302, P.303, P.328, G.329, N.330, P.331, S.333, R.374, S.405 Chain B: V.70, K.71, D.72, G.73, T.112, G.113, Q.125, V.126, E.127, R.155 Ligands: MG.2 36 PLIP interactions: 22 interactions with chain A, 14 interactions with chain B Hydrogen bonds: A:S.202, A:E.206, A:E.206, A:D.222, A:S.223, A:N.224, A:G.272, A:V.273, A:D.274, A:D.274, A:D.274, A:G.301, A:K.302, A:K.302, A:G.329, A:N.330, A:S.333, A:S.333, A:R.374, A:S.405, B:D.72, B:D.72, B:D.72, B:T.112, B:V.126, B:R.155 Water bridges: A:N.330, A:R.374, B:Y.66, B:K.71, B:T.112, B:T.112, B:T.112, B:G.113 Salt bridges: B:D.72, B:E.127 NWS.5: 39 residues within 4Å: Chain A: V.70, K.71, D.72, G.73, T.112, G.113, Q.125, V.126, E.127, R.155 Chain B: S.202, T.203, E.206, L.207, I.220, R.221, D.222, S.223, N.224, R.225, S.270, G.271, G.272, V.273, D.274, M.275, K.299, P.300, G.301, K.302, P.303, P.328, G.329, N.330, P.331, S.333, R.374, S.405 Ligands: MG.6 34 PLIP interactions: 13 interactions with chain A, 21 interactions with chain B Hydrogen bonds: A:D.72, A:D.72, A:T.112, A:V.126, A:R.155, B:S.202, B:E.206, B:D.222, B:D.222, B:S.223, B:N.224, B:G.272, B:V.273, B:D.274, B:D.274, B:G.301, B:K.302, B:K.302, B:G.329, B:N.330, B:S.333, B:S.333, B:R.374, B:S.405 Water bridges: A:Y.66, A:K.71, A:T.112, A:T.112, A:T.112, A:G.113, B:N.330, B:R.374 Salt bridges: A:D.72, A:E.127

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: G.204, E.206, G.272 Ligands: NWS.1 No protein-ligand interaction detected (PLIP) MG.6: 4 residues within 4Å: Chain B: G.204, E.206, G.272 Ligands: NWS.5 No protein-ligand interaction detected (PLIP)

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 9 residues within 4Å: Chain A: I.42, E.55, D.56, I.57, R.58, V.187, M.189, V.190, K.191 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.58 Water bridges: A:R.58 Salt bridges: A:E.55 MES.7: 9 residues within 4Å: Chain B: I.42, E.55, D.56, I.57, R.58, V.187, M.189, V.190, K.191 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.58 Water bridges: B:R.58 Salt bridges: B:E.55

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.4: 5 residues within 4Å: Chain A: D.205, L.207, V.208, Q.219, R.246 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.205, A:R.246 Water bridges: A:E.209, A:Q.219, A:Q.219, A:Q.219, A:Q.219 PGE.8: 5 residues within 4Å: Chain B: D.205, L.207, V.208, Q.219, R.246 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.205, B:R.246 Water bridges: B:E.209, B:Q.219, B:Q.219, B:Q.219, B:Q.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Probst, C. et al., Mechanism of molybdate insertion into pterin-based molybdenum cofactors. Nat.Chem. (2021)

Release Date

2021-02-17

Peptides

Molybdopterin biosynthesis protein CNX1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Molybdopterin biosynthesis protein CNX1