SMTL ID : 5ev1.1

Structure I of Intact U2AF65 Recognizing a 3' Splice Site Signal

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

monomer

Ligands

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

U-U-U-DU-DU-BRU-DU-U.1: 42 residues within 4Å: Chain A: R.6, Q.7, R.10, Y.12, G.14, Q.50, K.55, N.56, F.57, F.59, K.85, R.87, R.88, P.89, H.90, D.91, T.112, V.113, V.114, D.116, K.120, F.122, G.124, G.125, N.149, V.151, K.152, S.154, K.160, Y.162, F.164, K.189, L.191, Q.193, R.194, A.195, S.196, V.197, G.198, A.199, K.200 Ligands: NA.5 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.88, A:H.90 Water bridges: A:K.55, A:R.87, A:H.90 Salt bridges: A:K.55 pi-Stacking: A:Y.12, A:H.90

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

NA.2: 2 residues within 4Å: Chain A: D.66, M.98 No protein-ligand interaction detected (PLIP) NA.5: 2 residues within 4Å: Ligands: U-U-U-DU-DU-BRU-DU-U.1, U-U-U-DU-DU-BRU-DU-U.1 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.3: 9 residues within 4Å: Chain A: Q.32, L.35, G.36, F.74, I.77, V.106, P.107, G.108, V.109 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.108

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

PEG.4: 3 residues within 4Å: Chain A: Y.105, K.146, V.168 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Agrawal, A.A. et al., An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal. Nat Commun (2016)

Release Date

2016-02-24

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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