SMTL ID : 6kii.1

photolyase from Arthrospira platensis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

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

FAD.1: 28 residues within 4Å: Chain A: Y.236, S.249, S.250, K.251, F.252, S.253, L.256, L.286, E.289, L.290, R.293, F.296, F.352, M.353, S.354, N.355, R.358, Q.359, A.362, F.380, L.384, D.386, Y.387, D.388, S.391, N.392, N.395, W.396 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:R.358, A:A.362, A:F.380, A:F.380, A:N.395 Hydrogen bonds: A:S.250, A:K.251, A:F.252, A:S.253, A:S.253, A:S.253, A:N.355, A:R.358, A:D.386, A:D.388, A:S.391, A:N.395, A:N.395 Water bridges: A:S.249, A:S.249, A:S.249, A:N.355, A:N.355, A:N.355, A:N.355 pi-Cation interactions: A:R.358, A:R.358

1 x MHF: 5,10-METHENYL-6,7,8-TRIHYDROFOLIC ACID(Non-covalent)

MHF.2: 13 residues within 4Å: Chain A: K.54, T.111, A.112, E.113, E.114, P.305, F.308, Y.309, E.381, Y.387, V.389, W.393 Ligands: GOL.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:A.112, A:P.305, A:F.308, A:F.308, A:Y.309 Hydrogen bonds: A:K.54, A:T.111, A:E.113, A:E.381, A:Y.387, A:Y.387 Water bridges: A:E.113, A:E.113, A:Y.309, A:K.310, A:K.310, A:K.310, A:E.381 Salt bridges: A:E.113, A:E.114, A:E.381

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: N.14, A.257, Y.387, D.388, V.389 Ligands: MHF.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.14, A:V.389 Water bridges: A:N.14, A:Q.44 GOL.4: 6 residues within 4Å: Chain A: F.337, W.447, P.468, V.470, D.471, L.472 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.471, A:L.472 Water bridges: A:Q.473 GOL.5: 8 residues within 4Å: Chain A: I.318, P.319, W.320, G.321, G.370, N.479, I.482, Y.483 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.319, A:G.321, A:N.479, A:Y.483 GOL.6: 6 residues within 4Å: Chain A: V.83, R.84, I.85, E.187, G.189, E.190 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.190, A:E.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, H. et al., A newly identified photolyase from Arthrospira platensis possesses a unique methenyltetrahydrofolate chromophore-binding pattern. Febs Lett. (2020)

Release Date

2020-07-22

Peptides

Deoxyribopyrimidine photolyase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Deoxyribopyrimidine photolyase