SMTL ID : 7b0i.1

Structure of a minimal SF3B core in complex with spliceostatin A (form II)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x SJT: spliceostatin A (form II)(Covalent)

SJT.1: 13 residues within 4Å: Chain C: L.614, K.615, H.617, R.622, R.623, V.658, C.659, V.662 Chain D: K.35, C.36, K.39, Y.46, I.70 12 PLIP interactions: 7 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:Y.46, D:Y.46, D:I.70, C:K.615, C:R.622 Hydrogen bonds: D:K.39, D:K.39, D:Y.46, D:Y.46, C:L.614 Salt bridges: C:R.622, C:R.623

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain D: C.40, C.43, C.82, C.85 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.40, D:C.43, D:C.82, D:C.85 ZN.3: 4 residues within 4Å: Chain D: C.21, C.56, C.59, C.95 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.21, D:C.56, D:C.59, D:C.95 ZN.4: 3 residues within 4Å: Chain D: C.33, C.68, C.71 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.33, D:C.68, D:C.71, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cretu, C. et al., Structural basis of intron selection by U2 snRNP in the presence of covalent inhibitors. Nat Commun (2021)

Release Date

2021-08-04

Peptides

Splicing factor 3B subunit 3,Splicing factor 3B subunit 3,Splicing factor 3B subunit 3: A
Splicing factor 3B subunit 5: B
Splicing factor 3B subunit 1: C
PHD finger-like domain-containing protein 5A: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Splicing factor 3B subunit 3,Splicing factor 3B subunit 3,Splicing factor 3B subunit 3

Splicing factor 3B subunit 5

Splicing factor 3B subunit 1

PHD finger-like domain-containing protein 5A

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