SMTL ID : 3rzk.1

Duplex Interrogation by a Direct DNA Repair Protein in the Search of Damage

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.78 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: H.119, D.121, H.184 Chain B: A.7 Ligands: AKG.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.119, A:D.121, A:D.121, A:H.184

1 x AKG: 2-OXOGLUTARIC ACID(Non-covalent)

AKG.2: 14 residues within 4Å: Chain A: L.105, N.107, Y.109, H.119, D.121, F.143, L.166, H.184, R.196, N.198, T.200, R.202 Chain B: A.7 Ligands: MN.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.107, A:Y.109, A:S.134, A:S.134, A:N.198 Salt bridges: A:H.119, A:R.196, A:R.202

1 x XL3: propane-1-thiol(Non-covalent)

XL3.3: 5 residues within 4Å: Chain A: C.117 Chain B: A.8, C.9 Chain C: A.5, G.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yi, C. et al., Duplex interrogation by a direct DNA repair protein in search of base damage. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-06-06

Peptides

Alpha-ketoglutarate-dependent dioxygenase alkB homolog 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Alpha-ketoglutarate-dependent dioxygenase alkB homolog 2

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