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Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA

Analyse Structure of a native assembly intermediate of the human mitochondrial ribosome… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5OOM
Type: protein + RNA
Length: 9,281 residues
Chains: 55
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: Q5T653, P09001, Q9BYD3, Q9BYD2, Q7Z7H8, Q9Y3B7, Q9BYD1, Q6P1L8, Q9P015, Q9NX20, Q9NRX2, Q9H0U6, P49406, Q9BYC9, Q7Z2W9, Q9NWU5, Q16540, Q96A35, Q9P0M9, Q13084, Q9HD33, Q8TCC3, Q9BYC8, O75394, Q9BQ48, Q9NZE8, Q9BZE1, Q96DV4, Q9NYK5, Q9NQ50, Q8IXM3, Q9Y6G3, Q8N983, Q9H9J2, Q9BRJ2, Q9H2W6, Q96GC5, Q13405, Q8N5N7, Q4U2R6, Q86TS9, Q96EL3, Q6P161, Q7Z7F7, Q9BQC6, Q14197, Q8TAE8, Q9NVS2, Q9NP92, Q96EH3, L0R8F8, O14561
Ligands: PNS, MG, ZN

Structure

electron microscopy · 55 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	rna	1092	—	—
B	—	rna	56	—	—
D	—	protein	220	—	Q5T653
E	—	protein	285	—	P09001
F	—	protein	250	—	Q9BYD3
H	—	protein	95	—	Q9BYD2
I	—	protein	158	—	Q7Z7H8
J	—	protein	140	—	Q9Y3B7
K	—	protein	177	—	Q9BYD1
L	—	protein	115	—	Q6P1L8
M	—	protein	287	—	Q9P015
N	—	protein	205	—	Q9NX20
O	—	protein	152	—	Q9NRX2
P	—	protein	141	—	Q9H0U6
Q	—	protein	217	—	P49406
R	—	protein	140	—	Q9BYC9
S	—	protein	156	—	Q7Z2W9
T	—	protein	159	—	Q9NWU5
U	—	protein	139	—	Q16540
V	—	protein	192	—	Q96A35
W	—	protein	109	—	Q9P0M9
X	—	protein	243	—	Q13084
Y	—	protein	176	—	Q9HD33
Z	—	protein	120	—	Q8TCC3
0	—	protein	108	—	Q9BYC8
1	—	protein	52	—	O75394
2	—	protein	43	—	Q9BQ48
3	—	protein	95	—	Q9NZE8
5	—	protein	387	—	Q9BZE1
6	—	protein	324	—	Q96DV4
7	—	protein	287	—	Q9NYK5
8	—	protein	99	—	Q9NQ50
9	—	protein	117	—	Q8IXM3
a	—	protein	82	—	Q9Y6G3
b	—	protein	148	—	Q8N983
c	—	protein	275	—	Q9H9J2
d	—	protein	211	—	Q9BRJ2
e	—	protein	217	—	Q9H2W6
f	—	protein	116	—	Q96GC5
g	—	protein	129	—	Q13405
h	—	protein	100	—	Q8N5N7
i	—	protein	97	—	Q4U2R6
j	—	protein	85	—	Q86TS9
k	—	protein	80	—	Q96EL3
l	—	protein	23	—	Q6P161
m	—	protein	45	—	Q7Z7F7
o	—	protein	79	—	Q9BQC6
p	—	protein	127	—	Q14197
q	—	protein	128	—	Q8TAE8
r	—	protein	146	—	Q9NVS2
s	—	protein	370	—	Q9NP92
t	—	protein	28	—	—
u	—	protein	111	—	Q96EH3
v	—	protein	69	—	L0R8F8
w	—	protein	79	—	O14561

Ligands and binding sites

PNS · 4'-phosphopantetheine · ligand · chains v, w
MG · Magnesium ion · metal · 49 copies · chains A, R, W, g
ZN · Zinc ion · metal · 2 copies · chains I, r, 0

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

Compared structures

5OOM · Structure of a native assembly intermediate of the human mitochondrial ribosome with… · the same entry in another collection · chain J against J, TM-score 1.00

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