SMTL ID : 4xba.1

Hnt3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

1 x GMP: GUANOSINE(Non-covalent)

GMP.1: 14 residues within 4Å: Chain A: N.5, L.6, Y.9, N.18, R.30, D.31, M.32, F.33, K.35, H.39, L.41, M.111, H.115, H.117 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Y.9, A:Y.9, A:N.18, A:M.32, A:F.33, A:K.35, A:K.35, A:H.39, A:S.110 Water bridges: A:S.110, A:S.110 Salt bridges: A:D.31

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.168, C.171, H.185, E.189 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.168, A:C.171, A:H.185, A:E.189 ZN.5: 4 residues within 4Å: Chain B: C.168, C.171, H.185, E.189 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.168, B:C.171, B:H.185, B:E.189

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: N.99 Chain B: V.72, Q.73, I.80, F.81, I.101 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.99

1 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.4: 16 residues within 4Å: Chain B: L.6, Y.9, N.18, R.30, D.31, M.32, F.33, K.35, H.39, L.41, H.106, P.109, S.110, M.111, H.115, H.117 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:Y.9, B:Y.9, B:N.18, B:R.30, B:M.32, B:F.33, B:K.35, B:K.35, B:S.110, B:M.111 Water bridges: B:N.5, B:H.106, B:G.108, B:S.110, B:S.110, B:S.136 Salt bridges: B:D.31, B:H.106, B:H.115, B:H.117 pi-Stacking: B:F.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chauleau, M. et al., DNA3'pp5'G de-capping activity of aprataxin: effect of cap nucleoside analogs and structural basis for guanosine recognition. Nucleic Acids Res. (2015)

Release Date

2015-06-03

Peptides

Aprataxin-like protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aprataxin-like protein

Related Entries With Identical Sequence