SMTL ID : 3ao0.1

Crystal structure of ethanolamine ammonia-lyase from Escherichia coli complexed with CN-CBL and (S)-2-amino-1-propanol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

hetero-2-2-mer

Ligands

2 x 2A1: (2S)-2-aminopropan-1-ol(Non-covalent)

2A1.1: 11 residues within 4Å: Chain A: R.160, Q.162, N.193, L.225, E.287, V.326, F.329, D.362, M.392, L.402, Y.404 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.326, A:F.329, A:L.402 Hydrogen bonds: A:R.160, A:R.160, A:N.193, A:N.193, A:D.362 2A1.3: 11 residues within 4Å: Chain C: R.160, Q.162, N.193, L.225, E.287, V.326, F.329, D.362, M.392, L.402, Y.404 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:V.326, C:F.329, C:L.402 Hydrogen bonds: C:R.160, C:R.160, C:N.193, C:N.193, C:D.362, C:D.362, C:Y.404

2 x B12: COBALAMIN(Non-covalent)

B12.2: 32 residues within 4Å: Chain A: N.193, P.194, V.195, L.225, A.226, H.227, F.245, Q.246, S.247, E.257, F.258, S.295, F.329, I.330, M.401, L.402, N.403 Chain B: R.109, L.137, R.174, V.175, K.176, G.195, E.196, R.197, Y.209, E.221, A.222, R.224, C.226, S.228, N.229 36 PLIP interactions: 21 interactions with chain B, 14 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: B:L.137, B:Y.209, B:E.221, B:R.224, A:F.258, A:F.329, A:F.329, A:F.329, A:I.330 Hydrogen bonds: B:V.175, B:K.176, B:K.176, B:E.196, B:R.197, B:Y.209, B:Y.209, B:C.226, B:N.229, A:P.194, A:A.226, A:Q.246, A:S.247, A:E.257, A:S.295, A:S.295 Water bridges: B:R.109, B:R.109, B:R.174, B:R.174, B:C.226, B:S.228, B:S.228, A:N.193, A:Y.334 Salt bridges: B:R.174 Metal complexes: B12.2 B12.5: 31 residues within 4Å: Chain C: N.193, P.194, V.195, L.225, A.226, H.227, F.245, Q.246, S.247, E.257, F.258, S.295, F.329, I.330, M.401, L.402 Chain D: Y.101, R.109, L.137, R.174, V.175, K.176, G.195, E.196, R.197, Y.209, E.221, R.224, C.226, S.228, N.229 35 PLIP interactions: 21 interactions with chain D, 13 interactions with chain C, 1 Ligand-Ligand interactions Hydrophobic interactions: D:L.137, D:Y.209, D:E.221, D:R.224, C:F.258, C:F.258, C:F.329, C:F.329 Hydrogen bonds: D:R.109, D:R.109, D:V.175, D:K.176, D:K.176, D:E.196, D:R.197, D:Y.209, D:Y.209, D:C.226, D:N.229, C:P.194, C:A.226, C:Q.246, C:S.247, C:E.257, C:S.295, C:S.295 Water bridges: D:R.197, D:R.197, D:S.228, D:S.228, C:N.193, C:E.257 Salt bridges: D:R.109, D:R.174 Metal complexes: B12.5

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

NA.4: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain C Water bridges: C:E.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shibata, N. et al., How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization. Biochemistry (2011)

Release Date

2011-08-03

Peptides

Ethanolamine ammonia-lyase heavy chain: AC
Ethanolamine ammonia-lyase light chain: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

Ethanolamine ammonia-lyase heavy chain

Ethanolamine ammonia-lyase light chain

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