SMTL ID : 7aud.2 (5 other biounits)

Structure of an engineered helicase domain construct for human Bloom syndrome protein (BLM)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.96 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.427, R.428, C.446, C.454, C.457 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.427, A:C.446, A:C.454, A:C.457

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 13 residues within 4Å: Chain A: L.56, N.58, F.59, R.60, Q.63, P.81, T.82, G.83, G.84, G.85, K.86, S.87, L.88 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:N.58, A:R.60, A:R.60, A:R.60, A:Q.63, A:G.83, A:G.84, A:G.85, A:K.86, A:S.87, A:S.87, A:S.87, A:R.373 Salt bridges: A:K.86 pi-Cation interactions: A:R.60, A:R.60

1 x RY8: N-(2,3-dimethyl-5-sulfamoylphenyl)-4-(2-methylthiazol-4-yl)benzamide(Non-covalent)

RY8.3: 15 residues within 4Å: Chain A: H.189, S.192, Q.193, H.196, T.223, V.228, D.231, S.360, E.362, G.363, Q.366, T.406, T.409, H.410, N.413 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Q.193, A:Q.193, A:H.196, A:V.228, A:E.362, A:T.406, A:T.409 Hydrogen bonds: A:S.192, A:D.231, A:N.413 Water bridges: A:G.363 pi-Stacking: A:H.196

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 6 residues within 4Å: Chain A: I.161, C.162, A.163, N.165, R.204, M.207 No protein-ligand interaction detected (PLIP) PG4.5: 5 residues within 4Å: Chain A: H.251, G.375, F.445, H.449, V.452 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.375

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.6: 1 residues within 4Å: Chain B: G.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Uncovering an allosteric mode of action for a selective inhibitor of human Bloom syndrome protein. Elife (2021)

Release Date

2020-12-16

Peptides

Bloom syndrome protein,Bloom syndrome protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bloom syndrome protein,Bloom syndrome protein

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