SMTL ID : 7vj5.1

class II photolyase MmCPDII oxidized to semiquinone TR-SFX studies (5 ms time-point)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

monomer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: G.83, I.84, R.85, R.233, A.234, F.243, R.423 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:I.84, A:R.85, A:A.234 Water bridges: A:R.233, A:F.243 Salt bridges: A:R.85, A:R.423 SO4.2: 5 residues within 4Å: Chain A: A.177, A.178, H.179, R.182, W.323 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.179 Water bridges: A:A.178, A:A.178 Salt bridges: A:R.182 SO4.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

FAD.3: 27 residues within 4Å: Chain A: Y.270, R.274, L.282, S.283, N.284, L.285, S.286, L.289, F.316, E.319, I.320, W.323, K.324, S.327, K.390, G.393, R.396, M.397, A.400, N.421, D.427, G.428, N.432, G.433, G.436, I.437, S.440 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:R.396, A:A.400, A:I.437 Hydrogen bonds: A:Y.270, A:R.274, A:S.283, A:N.284, A:N.284, A:L.285, A:S.286, A:S.286, A:S.327, A:R.396, A:N.421, A:D.427, A:D.427, A:N.432 Water bridges: A:G.393, A:R.396, A:R.396, A:N.432, A:Y.434 Salt bridges: A:K.390 pi-Cation interactions: A:R.396, A:R.396

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maestre-Reyna, M. et al., Serial crystallography captures dynamic control of sequential electron and proton transfer events in a flavoenzyme. Nat.Chem. (2022)

Release Date

2022-03-09

Peptides

DNA photolyase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA photolyase

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