SMTL ID : 7onb.1

Structure of the U2 5' module of the A3'-SSA complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-mer

Ligands

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

SJT.1: 13 residues within 4Å: Chain C: L.1066, K.1067, A.1068, R.1074, V.1078, C.1111, V.1114, F.1153, Y.1157 Chain D: K.25, C.26, K.29, Y.36 9 PLIP interactions: 4 interactions with chain D, 5 interactions with chain C Hydrophobic interactions: D:Y.36, D:Y.36, C:K.1067, C:V.1114, C:Y.1157 Hydrogen bonds: D:K.29, D:Y.36, C:L.1066 Salt bridges: C:R.1074

5 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain D: C.11, C.46, C.49, C.85 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.11, D:C.46, D:C.49, D:C.85 ZN.3: 4 residues within 4Å: Chain D: C.30, C.33, C.72, C.75 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.30, D:C.33, D:C.72, D:C.75 ZN.4: 4 residues within 4Å: Chain D: C.23, C.26, C.58, C.61 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.23, D:C.58, D:C.61 ZN.5: 5 residues within 4Å: Chain I: C.56, C.59, T.61, H.72, H.78 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.56, I:C.59, I:H.72, I:H.78 ZN.6: 4 residues within 4Å: Chain J: C.408, C.411, H.425, H.431 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.408, J:C.411, J:H.425, J:H.431

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: A
Splicing factor 3B subunit 5: B
Splicing factor 3B subunit 1: C
PHD finger-like domain-containing protein 5A: D
UNK: E
Splicing factor 3B subunit 2: H
Splicing factor 3A subunit 2: I
Splicing factor 3A subunit 3: J
Splicing factor 3B subunit 4: K

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
F

H
I

I
M

J
N

K
K

Splicing factor 3B subunit 3

Splicing factor 3B subunit 5

Splicing factor 3B subunit 1

PHD finger-like domain-containing protein 5A

UNK

Splicing factor 3B subunit 2

Splicing factor 3A subunit 2

Splicing factor 3A subunit 3

Splicing factor 3B subunit 4

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