SMTL ID : 6d31.1

Structure of human Usb1 with adenosine 5'-monophosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.1: 14 residues within 4Å: Chain A: H.46, S.48, Y.87, T.88, N.89, Q.90, F.96, F.127, Y.128, D.130, P.131, S.132, H.134, S.136 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.48, A:S.48, A:T.88, A:D.130, A:S.132, A:H.134, A:S.136 Water bridges: A:H.46, A:S.48, A:S.48, A:Q.90, A:Q.90, A:S.136 Salt bridges: A:H.46, A:H.134 pi-Stacking: A:Y.87

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: V.36, P.37, R.38 Ligand excluded by PLIP

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: E.19, L.22, D.23, D.26, R.41 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.19, A:D.23, A:D.26, A:D.26, A:R.41, A:R.41 Water bridges: A:E.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nomura, Y. et al., Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1. Nucleic Acids Res. (2018)

Release Date

2018-09-05

Peptides

U6 snRNA phosphodiesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

U6 snRNA phosphodiesterase

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