SMTL ID : 7s3b.1

Crystal structure of intact U2AF65 RRM-region bound to AdML-G5 oligonucleotide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

monomer

Ligands

1 x U- U- DU- G- U- BRU- C- C: DNA/RNA (5'-R(P*UP*UP*(UD)P*GP*U)-D(P*(BRU))-R(P*CP*C)-3')(Non-covalent)

U-U-DU-G-U-BRU-C-C.1: 43 residues within 4Å: Chain A: R.9, R.13, Y.15, N.55, D.57, K.58, N.59, F.60, F.62, K.88, R.90, R.91, P.92, H.93, D.94, T.115, V.116, V.117, D.119, K.123, F.125, G.127, G.128, N.152, V.154, D.156, S.157, G.160, K.163, G.164, Y.165, F.167, K.191, K.192, L.193, L.194, Q.196, R.197, A.198, V.200, G.201, A.202, K.203 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.91, A:H.93 Water bridges: A:D.94 pi-Stacking: A:Y.15, A:H.93 Halogen bonds: A:K.88

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 8 residues within 4Å: Chain A: I.23, A.27, D.30, F.31, A.34, F.82, Q.83 Ligands: PEG.3 No protein-ligand interaction detected (PLIP) PEG.3: 4 residues within 4Å: Chain A: A.34, R.37, L.38 Ligands: PEG.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.37 Water bridges: A:R.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Glasser, E. et al., Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of nucleotide variants at the center of the pre-mRNA splice site signal. Nucleic Acids Res. (2022)

Release Date

2022-05-25

Peptides

Splicing factor U2AF 65 kDa subunit: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Splicing factor U2AF 65 kDa subunit

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