SMTL ID : 5gan.1

The overall structure of the yeast spliceosomal U4/U6.U5 tri-snRNP at 3.7 Angstrom

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.70 Å

Oligo State

hetero-1-1-1-1-1-1-1-1-2-2-2-2-2-2-2-1-1-1-1-1-1-1-1-1-1-mer

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 20 residues within 4Å: Chain 8: L.142, H.143, G.145, K.146, T.147, S.148, G.188, L.189, S.190, A.215, P.216, G.217, H.218, N.268, K.269, R.272, S.315, T.316, K.317 Chain C: N.405 23 PLIP interactions: 23 interactions with chain 8 Hydrogen bonds: 8:H.143, 8:S.144, 8:G.145, 8:K.146, 8:T.147, 8:T.147, 8:S.148, 8:S.190, 8:A.215, 8:G.217, 8:H.218, 8:N.268, 8:S.315, 8:T.316, 8:T.316, 8:K.317 Salt bridges: 8:H.143, 8:H.143, 8:H.143, 8:K.146, 8:K.146 pi-Cation interactions: 8:K.269, 8:K.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nguyen, T.H. et al., Cryo-EM structure of the yeast U4/U6.U5 tri-snRNP at 3.7 angstrom resolution. Nature (2016)

Release Date

2016-01-27

Peptides

Pre-mRNA-splicing factor 8: C
U4/U6 small nuclear ribonucleoprotein PRP4: D
Pre-mRNA-splicing factor 6: E
Spliceosomal protein DIB1: F
Pre-mRNA-processing factor 31: G
U4/U6 small nuclear ribonucleoprotein PRP3: H
Pre-mRNA-splicing helicase BRR2: I
Unknown protein: J
Small nuclear ribonucleoprotein-associated protein B: KS
Small nuclear ribonucleoprotein Sm D1: LX
Small nuclear ribonucleoprotein Sm D2: MY
Small nuclear ribonucleoprotein Sm D3: NW
Small nuclear ribonucleoprotein E: OT
Small nuclear ribonucleoprotein F: PU
Small nuclear ribonucleoprotein G: QV
Snu66: R
13 kDa ribonucleoprotein-associated protein: 0
U6 snRNA-associated Sm-like protein LSm2: 1
U6 snRNA-associated Sm-like protein LSm3: 2
U6 snRNA-associated Sm-like protein LSm4: 3
U6 snRNA-associated Sm-like protein LSm5: 4
U6 snRNA-associated Sm-like protein LSm6: 5
U6 snRNA-associated Sm-like protein LSm7: 6
U6 snRNA-associated Sm-like protein LSm8: 7
Pre-mRNA-splicing factor SNU114: 8

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
H

E
J

F
D

G
F

H
G

I
B

J
x

K
k

S
b

L
l

X
h

M
m

Y
j

N
n

W
d

O
p

T
e

P
q

U
f

Q
r

V
g

R
E

0
K

1
2

2
3

3
4

4
5

5
6

6
7

7
8

8
C

Pre-mRNA-splicing factor 8

U4/U6 small nuclear ribonucleoprotein PRP4

Pre-mRNA-splicing factor 6

Spliceosomal protein DIB1

Pre-mRNA-processing factor 31

U4/U6 small nuclear ribonucleoprotein PRP3

Pre-mRNA-splicing helicase BRR2

Unknown protein

Small nuclear ribonucleoprotein-associated protein B

Small nuclear ribonucleoprotein Sm D1

Small nuclear ribonucleoprotein Sm D2

Small nuclear ribonucleoprotein Sm D3

Small nuclear ribonucleoprotein E

Small nuclear ribonucleoprotein F

Small nuclear ribonucleoprotein G

Snu66

13 kDa ribonucleoprotein-associated protein

U6 snRNA-associated Sm-like protein LSm2

U6 snRNA-associated Sm-like protein LSm3

U6 snRNA-associated Sm-like protein LSm4

U6 snRNA-associated Sm-like protein LSm5

U6 snRNA-associated Sm-like protein LSm6

U6 snRNA-associated Sm-like protein LSm7

U6 snRNA-associated Sm-like protein LSm8

Pre-mRNA-splicing factor SNU114

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