National Center for
Biotechnology Information

9FMD: Integrative model of the human post-catalytic spliceosome (P-complex)

PDB ID:

9FMD Download

MMDB ID:

256642

PDB Deposition Date:

2024/6/5

Updated in MMDB:

2024/12

Experimental Method:

electron microscopy

Resolution:

3.3 Å

Source Organism:

Human adenovirus 2▼

Taxonomy	Molecule
Human adenovirus 2	EX, IN
Homo sapiens	1, 2, 3, 32, 5, 50, 56, 6, 7, 8, 9, A, B, C, D, E, F, H, I, J, K, L, M, N, NO, O, P, Q, R, S, SR, T, U, V, W, X, Z, a, b, c, d, e, f , g, h, i, j, k, l, m, n, o, p, q, r, s, t, w, x, y, z

Similar Structures:

Biological Unit for 9FMD: 63-meric; determined by author and by software

Molecular Components in 9FMD
Label	Count	Molecule
Proteins (58 molecules)
1	1	Prkr-interacting Protein 1
3	1	Splicing Factor Ess-2 Homolog
32	1	Protein Fam32a
50	1	Protein Fam50a
56	1	Sting ER Exit Protein
7	1	Eukaryotic Initiation Factor 4a-iii
8	1	RNA-binding Protein 8A
9	1	Protein Mago Nashi Homolog
A	1	Pre-mrna-processing-splicing Factor 8
B	1	U5 Small Nuclear Ribonucleoprotein 200 KDA Helicase
C	1	116 KDA U5 Small Nuclear Ribonucleoprotein Component
D	1	Pre-mrna-splicing Factor Isy1 Homolog
E	1	U5 Small Nuclear Ribonucleoprotein 40 KDA Protein
F	1	Splicing Factor Cactin
H	1	Pre-mrna-splicing Factor Cwc22 Homolog
I	1	Pre-mrna-splicing Factor Syf1
J	1	Crooked Neck-like Protein 1
K	1	Pre-mrna-splicing Factor Spf27
L	1	Cell Division Cycle 5-like Protein
M	1	Pre-mrna-splicing Factor Syf2
N	1	Protein Bud31 Homolog
NO	1	Nitric Oxide Synthase-interacting Protein
O	1	Pre-mrna-splicing Factor Rbm22
P	1	Spliceosome-associated Protein Cwc15 Homolog
Q	1	Intron-binding Protein Aquarius
R	1	SNW Domain-containing Protein 1
S	1	Peptidyl-prolyl Cis-trans Isomerase-like 1
SR	1	Serine/arginine Repetitive Matrix Protein 2
T	1	Pleiotropic Regulator 1
U	1	Pre-mrna-splicing Factor Slu7
V	1	Atp-dependent RNA Helicase Dhx8
W	1	Pre-mrna-processing Factor 17
X	1	Splicing Regulator Sde2
Z	1	Coiled-coil Domain-containing Protein 12
a h	2	Small Nuclear Ribonucleoprotein SM D3
b i	2	Small Nuclear Ribonucleoprotein-associated Proteins B and B'
c j	2	Small Nuclear Ribonucleoprotein SM D1
d k	2	Small Nuclear Ribonucleoprotein SM D2
e l	2	Small Nuclear Ribonucleoprotein E
f m	2	Small Nuclear Ribonucleoprotein F
g n	2	Small Nuclear Ribonucleoprotein G
o	1	U2 Small Nuclear Ribonucleoprotein A'
p	1	U2 Small Nuclear Ribonucleoprotein B''
q r s t	4	Pre-mrna-processing Factor 19
w	1	Peptidylprolyl Isomerase Domain and WD Repeat-containing Protein 1
x	1	Splicing Factor C9orf78
y	1	Peptidyl-prolyl Cis-trans Isomerase E
z	1	Nf-kappa-b-activating Protein
Nucleotides(5 molecules)
2	1	U2 Snrna
5	1	U5 Snrna
6	1	U6 Snrna
EX	1	Exon
IN	1	Intron
Chemicals and Non-standard biopolymers (16 molecules)
1	6	MAGNESIUM ION
2	1	POTASSIUM ION
3	1	ADENOSINE-5'-TRIPHOSPHATE
4	1	GUANOSINE-5'-TRIPHOSPHATE
5	6	ZINC ION
6	1	INOSITOL HEXAKISPHOSPHATE

* Click molecule labels to explore molecular sequence information.

Citing MMDB

Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303