SMTL ID : 1qv1.1

Atomic resolution structure of obelin from Obelia longissima

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 1 residues within 4Å: Chain A: L.160 No protein-ligand interaction detected (PLIP) CO.2: 1 residues within 4Å: Chain A: D.169 No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: D.30, N.32, N.34, K.36 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.30, A:K.36, H2O.7, H2O.10

1 x K: POTASSIUM ION(Non-covalent)

K.4: 4 residues within 4Å: Chain A: F.155, R.156, C.158, L.160 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:F.155, A:C.158, H2O.3, H2O.6, H2O.7

1 x CZH: C2-HYDROPEROXY-COELENTERAZINE(Non-covalent)

CZH.5: 20 residues within 4Å: Chain A: H.22, M.25, L.29, I.42, K.45, I.50, F.72, F.88, W.92, I.111, W.114, G.115, F.119, W.135, Y.138, I.144, M.171, H.175, W.179, Y.190 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.29, A:L.29, A:I.42, A:K.45, A:I.50, A:F.72, A:F.88, A:W.92, A:I.111, A:W.114 Hydrogen bonds: A:Y.190 pi-Stacking: A:W.114, A:W.114, A:H.175, A:W.179 pi-Cation interactions: A:K.45

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: H.24, F.28, G.143, I.144, P.146, G.193, V.194 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Z.J. et al., Atomic resolution structure of obelin: soaking with calcium enhances electron density of the second oxygen atom substituted at the C2-position of coelenterazine. Biochem.Biophys.Res.Commun. (2003)

Release Date

2003-11-11

Peptides

Obelin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Obelin

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