SMTL ID : 2j07.1 (1 other biounit)

Thermus DNA photolyase with 8-HDF antenna chromophore

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

FAD.1: 29 residues within 4Å: Chain A: Y.197, G.209, S.210, R.211, L.212, S.213, F.216, W.241, E.244, L.245, W.247, R.248, S.251, F.307, L.308, S.309, N.310, R.313, M.314, A.317, L.339, D.341, G.342, D.343, V.346, N.347, Q.349, G.350, W.351 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:R.313, A:A.317 Hydrogen bonds: A:S.210, A:R.211, A:L.212, A:S.213, A:S.213, A:W.241, A:R.248, A:R.248, A:N.310, A:N.310, A:R.313, A:R.313, A:D.341, A:D.341, A:D.343, A:Q.349 Water bridges: A:Y.197, A:G.209, A:N.310, A:N.310 pi-Cation interactions: A:R.313, A:R.313

1 x HDF: 8-HYDROXY-10-(D-RIBO-2,3,4,5-TETRAHYDROXYPENTYL)-5-DEAZAISOALLOXAZINE(Non-covalent)

HDF.2: 12 residues within 4Å: Chain A: R.9, G.10, V.34, L.35, D.36, N.39, L.40, R.46, F.50, S.96, R.104, L.218 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:N.39, A:L.40, A:F.50, A:L.218 Hydrogen bonds: A:V.34, A:D.36, A:N.39, A:R.46, A:R.46, A:S.96, A:S.96, A:R.104, A:R.104 Water bridges: A:R.9, A:G.10, A:V.34 pi-Stacking: A:F.50, A:F.50

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

CL.3: 4 residues within 4Å: Chain A: T.42, R.46, R.336, H.337 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: H.117 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: P.148 Ligand excluded by PLIP

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 1 residues within 4Å: Chain A: R.167 7 PLIP interactions: 7 interactions with chain A Water bridges: A:R.55, A:R.55, A:R.167, A:R.167, A:R.167, A:R.167 Salt bridges: A:R.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klar, T. et al., Natural and Non-Natural Antenna Chromophores in the DNA Photolyase from Thermus Thermophilus. Chembiochem (2006)

Release Date

2007-05-01

Peptides

DEOXYRIBODIPYRIMIDINE PHOTO-LYASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DEOXYRIBODIPYRIMIDINE PHOTO-LYASE

Related Entries With Identical Sequence