SMTL ID : 1b5q.3 (2 other biounits)

A 30 ANGSTROM U-SHAPED CATALYTIC TUNNEL IN THE CRYSTAL STRUCTURE OF POLYAMINE OXIDASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: N.65, W.73, N.77, Y.197 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain B: N.65, W.73, N.77, Y.197 No protein-ligand interaction detected (PLIP)

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.3: 40 residues within 4Å: Chain A: V.10, G.11, G.13, M.14, S.15, L.34, E.35, A.36, T.37, G.41, G.42, R.43, M.44, L.56, G.57, A.58, N.59, W.60, E.62, K.235, V.236, V.237, S.265, A.266, V.270, L.275, I.276, Y.298, W.393, F.398, Y.399, T.402, F.403, G.429, E.430, G.438, Y.439, V.440, A.443 Ligands: MD2.4 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:R.43, A:F.403 Hydrogen bonds: A:A.12, A:G.13, A:S.15, A:S.15, A:A.36, A:G.41, A:R.43, A:N.59, A:W.60, A:W.60, A:E.62, A:V.237, A:V.237, A:Y.399, A:Y.399, A:E.430, A:G.438, A:G.438, A:V.440 Water bridges: A:M.14, A:G.16, A:G.42, A:R.43, A:R.43, A:M.44, A:S.267, A:H.441 Salt bridges: A:R.43, A:R.43 pi-Stacking: A:F.398 FAD.5: 41 residues within 4Å: Chain B: V.10, G.11, A.12, G.13, M.14, S.15, L.34, E.35, A.36, T.37, G.41, G.42, R.43, M.44, L.56, G.57, A.58, N.59, W.60, E.62, K.235, V.236, V.237, S.265, A.266, V.270, L.275, I.276, Y.298, W.393, F.398, Y.399, T.402, F.403, G.429, E.430, G.438, Y.439, V.440, A.443 Ligands: MD2.6 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:R.43, B:F.403 Hydrogen bonds: B:A.12, B:G.13, B:S.15, B:S.15, B:A.36, B:G.41, B:R.43, B:N.59, B:W.60, B:W.60, B:E.62, B:V.237, B:V.237, B:Y.399, B:Y.399, B:E.430, B:G.438, B:G.438, B:V.440 Water bridges: B:M.14, B:G.16, B:G.42, B:R.43, B:R.43, B:M.44, B:S.267, B:H.441 Salt bridges: B:R.43, B:R.43

2 x MD2: N,N'-BIS(2,3-BUTADIENYL)-1,4-BUTANE-DIAMINE(Non-covalent)

MD2.4: 14 residues within 4Å: Chain A: W.60, E.62, Y.169, E.170, F.171, V.196, Y.298, F.403, S.404, N.405, N.437, G.438, Y.439 Ligands: FAD.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.60, A:W.60, A:Y.169, A:F.171, A:V.196, A:F.403, A:N.405, A:Y.439 Hydrogen bonds: A:Y.439 MD2.6: 14 residues within 4Å: Chain B: W.60, E.62, Y.169, E.170, F.171, V.196, Y.298, F.403, S.404, N.405, N.437, G.438, Y.439 Ligands: FAD.5 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.60, B:W.60, B:Y.169, B:F.171, B:V.196, B:F.403, B:N.405, B:Y.439, B:Y.439 Hydrogen bonds: B:Y.439

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Binda, C. et al., A 30-angstrom-long U-shaped catalytic tunnel in the crystal structure of polyamine oxidase. Structure Fold.Des. (1999)

Release Date

2000-01-07

Peptides

PROTEIN (POLYAMINE OXIDASE): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PROTEIN (POLYAMINE OXIDASE)

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