SMTL ID : 4f1i.1

Crystal structure of SeMet TDP2 from Caenorhabditis elegans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 10 residues within 4Å: Chain A: E.158, H.232, S.235, D.271, N.273, W.303, K.311, F.321, D.352, H.353 Ligand excluded by PLIP GOL.2: 3 residues within 4Å: Chain A: K.175, I.176, Y.177 Ligand excluded by PLIP GOL.3: 5 residues within 4Å: Chain A: G.285, K.287, W.326, G.328, L.330 Ligand excluded by PLIP GOL.4: 4 residues within 4Å: Chain A: N.150, P.151, D.152, S.192 Ligand excluded by PLIP GOL.5: 5 residues within 4Å: Chain A: M.110, T.111, A.112, L.115, P.329 Ligand excluded by PLIP GOL.6: 5 residues within 4Å: Chain A: A.141, H.144, I.145, Q.341, I.343 Ligand excluded by PLIP GOL.7: 4 residues within 4Å: Chain A: I.176, Y.177, Y.178, H.200 Ligand excluded by PLIP GOL.8: 4 residues within 4Å: Chain A: A.292, K.332, V.333, F.361 Ligand excluded by PLIP GOL.9: 10 residues within 4Å: Chain B: E.158, H.232, S.235, D.271, N.273, W.303, K.311, F.321, D.352, H.353 Ligand excluded by PLIP GOL.10: 3 residues within 4Å: Chain B: K.175, I.176, Y.177 Ligand excluded by PLIP GOL.11: 5 residues within 4Å: Chain B: G.285, K.287, W.326, G.328, L.330 Ligand excluded by PLIP GOL.12: 4 residues within 4Å: Chain B: N.150, P.151, D.152, S.192 Ligand excluded by PLIP GOL.13: 5 residues within 4Å: Chain B: M.110, T.111, A.112, L.115, P.329 Ligand excluded by PLIP GOL.14: 5 residues within 4Å: Chain B: A.141, H.144, I.145, Q.341, I.343 Ligand excluded by PLIP GOL.15: 4 residues within 4Å: Chain B: I.176, Y.177, Y.178, H.200 Ligand excluded by PLIP GOL.16: 4 residues within 4Å: Chain B: A.292, K.332, V.333, F.361 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, K. et al., Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-10-31

Peptides

5'-tyrosyl-DNA phosphodiesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

5'-tyrosyl-DNA phosphodiesterase

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