SMTL ID : 7abi.1

Human pre-Bact-2 spliceosome

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Covalent)

GTP.1: 17 residues within 4Å: Chain V: H.137, L.138, H.139, H.140, G.141, K.142, T.143, C.144, G.178, V.179, G.207, K.259, R.262, S.312, Q.313, Y.314 Ligands: MG.2 7 PLIP interactions: 7 interactions with chain V Hydrogen bonds: V:H.140, V:G.141, V:K.142, V:T.143, V:C.144, V:G.207, V:Q.313

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain V: T.143 Ligands: GTP.1 No protein-ligand interaction detected (PLIP)

1 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.3: 3 residues within 4Å: Chain a: U.51 Chain c: K.623, G.624 1 PLIP interactions: 1 interactions with chain c Hydrogen bonds: c:K.623

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Townsend, C. et al., Mechanism of protein-guided folding of the active site U2/U6 RNA during spliceosome activation. Science (2020)

Release Date

2021-02-10

Peptides

U5 small nuclear ribonucleoprotein 40 kDa protein: A
Splicing factor 3B subunit 3: B
Small nuclear ribonucleoprotein F: C7
U2 small nuclear ribonucleoprotein A': D
Splicing factor 3B subunit 4: E
Small nuclear ribonucleoprotein G: Fd
Intron-binding protein aquarius: G
Splicing factor 3B subunit 5: H
U2 small nuclear ribonucleoprotein B'': J
Splicing factor 3B subunit 6: K
Ubiquitin-like protein 5: L
U5 small nuclear ribonucleoprotein 200 kDa helicase: M
SNW domain-containing protein 1: N
BUD13 homolog: O
Smad nuclear-interacting protein 1: P
Protein BUD31 homolog: Q
RNA-binding motif protein, X-linked 2: R
Cell division cycle 5-like protein: S
Zinc finger matrin-type protein 2: T
Beta-catenin-like protein 1: U
116 kDa U5 small nuclear ribonucleoprotein component: V
Spliceosome-associated protein CWC15 homolog: W
Serine/arginine repetitive matrix protein 1: X
DNA/RNA-binding protein KIN17: Y
Pre-mRNA-splicing factor SYF1: Z
Microfibrillar-associated protein 1: 0
Crooked neck-like protein 1: 1
PHD finger-like domain-containing protein 5A: 2
Pleiotropic regulator 1: 4
Small nuclear ribonucleoprotein Sm D2: 5p
Peptidyl-prolyl cis-trans isomerase E: 6
RING-type E3 ubiquitin-protein ligase PPIL2: 8
Small nuclear ribonucleoprotein-associated proteins B and B': 9l
Small nuclear ribonucleoprotein Sm D3: br
Pre-mRNA-processing-splicing factor 8: c
Pre-mRNA-processing factor 17: e
Small nuclear ribonucleoprotein E: ft
Pre-mRNA-splicing factor 38A: g
Small nuclear ribonucleoprotein Sm D1: hn
Pre-mRNA-splicing factor RBM22: i
Splicing factor 3A subunit 1: k
Splicing factor 3A subunit 2: m
Splicing factor 3A subunit 3: o
Splicing factor 3B subunit 1: q
Splicing factor 3B subunit 2: s

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
b

7
i

D
W

E
w

F
d

d
k

G
U

H
x

J
B

K
z

L
q

M
s

N
v

O
3

P
0

Q
Q

R
1

S
L

T
N

U
S

V
r

W
R

X
Y

Y
7

Z
M

0
K

1
O

2
y

4
G

5
h

p
a

6
o

8
t

9
m

l
f

b
l

r
e

c
A

e
8

f
j

t
c

g
I

h
n

n
g

i
P

k
p

m
F

o
4

q
u

s
T

U5 small nuclear ribonucleoprotein 40 kDa protein

Splicing factor 3B subunit 3

Small nuclear ribonucleoprotein F

U2 small nuclear ribonucleoprotein A'

Splicing factor 3B subunit 4

Small nuclear ribonucleoprotein G

Intron-binding protein aquarius

Splicing factor 3B subunit 5

U2 small nuclear ribonucleoprotein B''

Splicing factor 3B subunit 6

Ubiquitin-like protein 5

U5 small nuclear ribonucleoprotein 200 kDa helicase

SNW domain-containing protein 1

BUD13 homolog

Smad nuclear-interacting protein 1

Protein BUD31 homolog

RNA-binding motif protein, X-linked 2

Cell division cycle 5-like protein

Zinc finger matrin-type protein 2

Beta-catenin-like protein 1

116 kDa U5 small nuclear ribonucleoprotein component

Spliceosome-associated protein CWC15 homolog

Serine/arginine repetitive matrix protein 1

DNA/RNA-binding protein KIN17

Pre-mRNA-splicing factor SYF1

Microfibrillar-associated protein 1

Crooked neck-like protein 1

PHD finger-like domain-containing protein 5A

Pleiotropic regulator 1

Small nuclear ribonucleoprotein Sm D2

Peptidyl-prolyl cis-trans isomerase E

RING-type E3 ubiquitin-protein ligase PPIL2

Small nuclear ribonucleoprotein-associated proteins B and B'

Small nuclear ribonucleoprotein Sm D3

Pre-mRNA-processing-splicing factor 8

Pre-mRNA-processing factor 17

Small nuclear ribonucleoprotein E

Pre-mRNA-splicing factor 38A

Small nuclear ribonucleoprotein Sm D1

Pre-mRNA-splicing factor RBM22

Splicing factor 3A subunit 1

Splicing factor 3A subunit 2

Splicing factor 3A subunit 3

Splicing factor 3B subunit 1

Splicing factor 3B subunit 2

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