SMTL ID : 3k5i.1 (1 other biounit)

Crystal structure of N5-carboxyaminoimidazole synthase from aspergillus clavatus in complex with ADP and 5-aminoimadazole ribonucleotide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 1 residues within 4Å: Chain A: Q.231 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.231 Water bridges: A:Q.231

1 x NHE: 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID(Non-covalent)

NHE.2: 9 residues within 4Å: Chain A: G.174, R.175, N.177, F.178, R.179, A.192, L.193, D.233, S.234 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.193 Hydrogen bonds: A:G.174, A:R.179 Water bridges: A:S.234, A:S.234

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 21 residues within 4Å: Chain A: K.124, M.164, K.166, A.171, Y.172, D.173, G.174, N.177, E.201, K.202, W.203, A.204, F.206, E.209, Q.231, S.234, E.274, F.276, C.286, E.287 Ligands: MG.4 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:K.166, A:A.171, A:G.174, A:N.177, A:E.201, A:A.204, A:E.209, A:Q.231 Water bridges: A:A.171, A:D.173, A:D.173, A:Y.199, A:Y.199, A:E.209, A:E.287 Salt bridges: A:K.124, A:K.124, A:K.166 pi-Stacking: A:F.276, A:F.276 ADP.6: 16 residues within 4Å: Chain B: K.124, M.164, K.166, N.177, E.201, K.202, W.203, A.204, F.206, E.209, Q.231, E.274, F.276, C.286, E.287 Ligands: MG.7 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:N.177, B:E.201, B:A.204, B:E.209, B:Q.231, B:E.287 Water bridges: B:K.166, B:K.166, B:E.209, B:E.287 Salt bridges: B:K.124, B:K.124, B:K.166 pi-Stacking: B:F.276, B:F.276

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: E.274, E.287 Ligands: ADP.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.274, A:E.274, A:E.287, H2O.1, H2O.1 MG.7: 3 residues within 4Å: Chain B: E.274, E.287 Ligands: ADP.6 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.274, B:E.274, B:E.287, H2O.13, H2O.13

2 x AIR: 5-AMINOIMIDAZOLE RIBONUCLEOTIDE(Non-covalent)

AIR.5: 11 residues within 4Å: Chain A: G.33, Q.34, L.35, E.93, I.94, Y.172, D.173, R.175, R.291, K.365, R.372 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.33, A:Q.34, A:L.35, A:G.36, A:E.93, A:Y.172, A:D.173 Water bridges: A:G.32, A:Q.34, A:R.291, A:K.365, A:R.372 Salt bridges: A:R.175, A:K.365, A:R.372 AIR.8: 9 residues within 4Å: Chain B: G.33, Q.34, L.35, E.93, I.94, R.291, K.365, R.372, K.373 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.33, B:Q.34, B:L.35, B:E.93, B:K.373 Water bridges: B:K.365, B:K.365, B:K.373 Salt bridges: B:K.365, B:R.372

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoden, J.B. et al., Structural and functional studies of Aspergillus clavatus N(5)-carboxyaminoimidazole ribonucleotide synthetase. Biochemistry (2010)

Release Date

2009-10-20

Peptides

Phosphoribosyl-aminoimidazole carboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphoribosyl-aminoimidazole carboxylase

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