SMTL ID : 4s0n.1

Crystal Structure of HLTF HIRAN Domain bound to DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

2 x DT: THYMIDINE-5'-MONOPHOSPHATE(Non-covalent)

DT.1: 7 residues within 4Å: Chain A: Q.36, R.37, D.38, P.39, N.40, K.49 Ligands: DT.2 12 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: A:Y.22, A:Y.43, A:D.44, A:F.92, A:F.92, B:F.130, A:P.39 Hydrogen bonds: A:Y.22, A:Y.23, A:N.41, A:D.44, A:D.44, A:H.60, A:K.62, A:K.63, A:K.63, B:F.130, B:F.130, B:F.130, A:D.38, A:N.40, A:N.40, A:K.49 Water bridges: A:G.19, A:Y.23, A:Y.43, A:Y.43, A:F.92, A:Q.36 Salt bridges: A:K.63 pi-Stacking: A:Y.22, B:F.130, D:H.97 DT.2: 2 residues within 4Å: Chain A: N.40 Ligands: DT.1 Protein-ligand interaction information (PLIP) not available

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: S.12, R.14, G.122, P.123, A.124 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.14, A:G.122, A:G.122, A:A.124 GOL.5: 6 residues within 4Å: Chain B: S.12, L.13, R.14, G.122, P.123, A.124 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.14, B:G.122, B:G.122, B:A.124 Water bridges: B:R.14

4 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: L.20, Y.23 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.20 NA.6: 2 residues within 4Å: Chain B: L.20, Y.23 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.23 NA.7: 2 residues within 4Å: Chain C: L.20, Y.23 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Y.23 NA.8: 2 residues within 4Å: Chain D: L.20, Y.23 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.23

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kile, A.C. et al., HLTF's Ancient HIRAN Domain Binds 3' DNA Ends to Drive Replication Fork Reversal. Mol.Cell (2015)

Release Date

2015-05-27

Peptides

Helicase-like transcription factor: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Helicase-like transcription factor