MolNFT v1 · #129455 · protein

Crystal strucrure of the MPP6 exosome complex

5OKZ: “Crystal strucrure of the MPP6 exosome complex”. X-ray diffraction, 3 ligands (TAM, MG, CL). MolNFT v1 #129455 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5OKZ
Type: protein
Length: 8,926 residues
Chains: 40
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P53859, Q05636, P46948, P25359, P53256, Q12277, P48240, Q08285, P38792, P53725
Ligands: TAM, MG, CL

Structure

x-ray diffraction · 35 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
m	—	protein	190	—	P53859
A, K, U, e	—	protein	295	—	Q05636
B	—	protein	242	—	P46948
C	—	protein	313	—	P25359
D	—	protein	221	—	P53256
E	—	protein	257	—	Q12277
F	—	protein	207	—	P48240
G	—	protein	231	—	Q08285
H	—	protein	267	—	P38792
I	—	protein	178	—	P53859
J	—	protein	20	—	P53725
L	—	protein	238	—	P46948
M	—	protein	310	—	P25359
N	—	protein	222	—	P53256
O	—	protein	260	—	Q12277
P	—	protein	208	—	P48240
Q	—	protein	207	—	Q08285
R	—	protein	265	—	P38792
S	—	protein	208	—	P53859
T, d	—	protein	7	—	P53725
V	—	protein	241	—	P46948
W	—	protein	319	—	P25359
X, h	—	protein	223	—	P53256
Y	—	protein	263	—	Q12277
Z	—	protein	208	—	P48240
a	—	protein	227	—	Q08285
b	—	protein	262	—	P38792
c	—	protein	197	—	P53859
f	—	protein	237	—	P46948
g	—	protein	317	—	P25359
i	—	protein	261	—	Q12277
j	—	protein	206	—	P48240
k	—	protein	226	—	Q08285
l	—	protein	268	—	P38792
n	—	protein	10	—	P53725

Ligands and binding sites

TAM · Tris(hydroxyethyl)aminomethane · ligand · 4 copies · chains A, f, K, U, B, e
MG · Magnesium ion · metal · 2 copies · chains R, g
CL · Chloride ion · ion · 7 copies · chains G, H, R, b, f, l

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

Q12277 · AlphaFold monomer V2.0 prediction for exosome complex component RRP42 (Q12277) · a predicted model of the same protein · chain i against A, TM-score 0.99
P53256 · AlphaFold monomer V2.0 prediction for exosome complex component RRP46 (P53256) · a predicted model of the same protein · chain D against A, TM-score 0.99
P38792 · AlphaFold monomer V2.0 prediction for exosome complex component RRP4 (P38792) · a predicted model of the same protein · chain H against A, TM-score 0.99
P46948 · AlphaFold monomer V2.0 prediction for exosome complex component SKI6 (P46948) · a predicted model of the same protein · chain V against A, TM-score 0.98

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P53859
Every structure of UniProt Q05636
Every structure of UniProt P46948
Every structure of UniProt P25359
Every structure of UniProt P53256
Every structure of UniProt Q12277
Every structure of UniProt P48240
Every structure of UniProt Q08285
Every structure of UniProt P38792
Every structure of UniProt P53725
Elsewhere: RCSB PDB 5OKZ · PDBe 5OKZ · UniProt P53859 · UniProt Q05636 · UniProt P46948 · UniProt P25359 · UniProt P53256 · UniProt Q12277 · UniProt P48240 · UniProt Q08285 · UniProt P38792 · UniProt P53725

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