SMTL ID : 7apv.1

Structure of Artemis/DCLRE1C/SNM1C in complex with Ceftriaxone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 8 residues within 4Å: Chain A: K.208, Y.213, P.290, S.291, T.292, F.317, F.319 Ligands: 9F2.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.208, A:Y.213, A:Y.213, A:T.292 Water bridges: A:F.319 EDO.5: 6 residues within 4Å: Chain A: P.199, V.202, N.251, T.252, Q.253, R.278 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.199, A:N.251, A:R.278 EDO.6: 5 residues within 4Å: Chain A: H.36, K.208, A.210, F.319 Ligands: 9F2.2 No protein-ligand interaction detected (PLIP) EDO.7: 9 residues within 4Å: Chain A: L.140, A.141, Q.142, G.143, E.144, A.145, E.325, D.328, F.329 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.142, A:G.143, A:E.144, A:A.145, A:D.328 Water bridges: A:A.146 EDO.8: 3 residues within 4Å: Chain A: I.305, V.306, R.307 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.307

1 x 9F2: Ceftriaxone(Non-covalent)

9F2.2: 19 residues within 4Å: Chain A: H.34, H.36, D.38, H.39, H.116, D.137, T.168, F.169, N.206, C.207, K.208, K.289, P.290, S.291, T.292, H.320 Ligands: EDO.1, NI.4, EDO.6 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.38, A:D.38, A:N.206, A:K.208, A:K.208, A:T.292 Water bridges: A:D.38, A:D.38 pi-Cation interactions: A:K.208, A:K.289

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: H.229, H.255, C.257, C.273 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.229, A:H.255, A:C.257, A:C.273

1 x NI: NICKEL (II) ION(Non-covalent)

NI.4: 6 residues within 4Å: Chain A: H.34, H.36, H.39, H.116, D.137 Ligands: 9F2.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.34, A:H.36, A:H.116, A:D.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yosaatmadja, Y. et al., Structural and mechanistic insights into the Artemis endonuclease and strategies for its inhibition. Nucleic Acids Res. (2021)

Release Date

2020-12-23

Peptides

Protein artemis: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein artemis

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