SMTL ID : 3bwx.1

Crystal structure of an alpha/beta hydrolase (YP_496220.1) from Novosphingobium aromaticivorans DSM 12444 at 1.50 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: P.205, A.208 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:P.205, H2O.2, H2O.2, H2O.3, H2O.3 CA.2: 1 residues within 4Å: Chain A: E.283 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: L.38, P.80, G.211 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: F.152, E.153, H.157 Ligand excluded by PLIP

14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: W.173, Q.177, T.268, D.270, E.271 Ligands: EDO.6, EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.270, A:E.271 EDO.6: 6 residues within 4Å: Chain A: D.47, R.51, R.180, D.270 Ligands: EDO.5, EDO.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.47, A:D.47, A:R.51, A:R.51 EDO.7: 8 residues within 4Å: Chain A: W.173, Q.177, R.180, R.184, T.268, D.270 Ligands: EDO.5, EDO.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.177, A:R.180, A:R.184, A:R.184, A:D.270, A:D.270 EDO.8: 4 residues within 4Å: Chain A: Y.9, W.10, T.11, Q.93 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.11 EDO.9: 3 residues within 4Å: Chain A: A.3, Y.5, D.7 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.5, A:D.7, A:D.7, A:D.7 EDO.10: 2 residues within 4Å: Chain A: W.219, R.252 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.252, A:R.252 Water bridges: A:K.248 EDO.11: 5 residues within 4Å: Chain A: E.97, N.118, A.120, R.121 Ligands: EDO.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.97, A:N.118 EDO.12: 6 residues within 4Å: Chain A: L.91, I.96, E.97, F.99, R.121 Ligands: EDO.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.96, A:R.121 Water bridges: A:N.118 EDO.13: 2 residues within 4Å: Chain A: W.155, K.183 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.183 EDO.14: 3 residues within 4Å: Chain A: R.150, A.161, S.165 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.150, A:A.161, A:S.165 EDO.15: 6 residues within 4Å: Chain A: D.14, L.16, R.64, A.72, K.73, D.74 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.73, A:D.74, A:T.77, A:T.77 EDO.16: 9 residues within 4Å: Chain A: P.36, G.37, L.38, R.40, M.63, R.66, L.106, G.107, L.110 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.66 EDO.17: 6 residues within 4Å: Chain A: H.19, N.41, R.43, E.62, G.67, D.68 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.41, A:R.43, A:D.68, A:D.68 Water bridges: A:R.21, A:R.21 EDO.18: 3 residues within 4Å: Chain A: M.156, H.157, R.160 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of an alpha/beta hydrolase (YP_496220.1) from Novosphingobium aromaticivorans DSM 12444 at 1.50 A resolution. To be published

Release Date

2008-01-22

Peptides

Alpha/beta hydrolase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha/beta hydrolase