MolNFT v2 · #152366 · protein + RNA

Improved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunit

6HMA: “Improved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunit”. Electron microscopy at 2.65, 1 ligand (MG). MolNFT v2 #152366 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6HMA
Type: protein + RNA
Length: 5,988 residues
Chains: 29
Method: electron microscopy
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.65
Source: Staphylococcus aureus
UniProt: Q2YYP9, Q2YYP6, Q2YYP7, A0A2S6D0C0, Q2YYL2, Q2YYM8, Q2YYK7, Q2YYL6, Q2YYQ3, Q2YYM3, W8TRE0, Q2YXM4, Q2YTB1, Q2YT83, Q2YYQ1, Q2YYP8, Q2YYK8, A0A133Q8Z9, Q2YT85, Q2YXJ2, Q2YYN0, Q2YYL5, A0A1Q8DAT0, A0A077V2P0, Q2YZB6, Q2YTB0, A0A077UGV8
Ligands: MG

Structure

electron microscopy · resolution 2.65 · 29 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	rna	2834	—	—
B	—	rna	115	—	—
C	—	protein	274	—	Q2YYP9
D	—	protein	215	—	Q2YYP6
E	—	protein	206	—	Q2YYP7
F	—	protein	158	—	A0A2S6D0C0
G	—	protein	175	—	Q2YYL2
H	—	protein	145	—	Q2YYM8
I	—	protein	122	—	Q2YYK7
J	—	protein	146	—	Q2YYL6
K	—	protein	137	—	Q2YYQ3
L	—	protein	120	—	Q2YYM3
M	—	protein	119	—	W8TRE0
N	—	protein	114	—	Q2YXM4
O	—	protein	116	—	Q2YTB1
P	—	protein	102	—	Q2YT83
Q	—	protein	112	—	Q2YYQ1
R	—	protein	89	—	Q2YYP8
S	—	protein	103	—	Q2YYK8
T	—	protein	94	—	A0A133Q8Z9
U	—	protein	79	—	Q2YT85
V	—	protein	49	—	Q2YXJ2
W	—	protein	67	—	Q2YYN0
X	—	protein	58	—	Q2YYL5
Z	—	protein	48	—	A0A1Q8DAT0
1	—	protein	47	—	A0A077V2P0
2	—	protein	43	—	Q2YZB6
3	—	protein	64	—	Q2YTB0
4	—	protein	37	—	A0A077UGV8

Ligands and binding sites

MG · Magnesium ion · metal · 237 copies · chains A, E, J, C, D, Q, B, K, U

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

Compared structures

6HMA · Improved model derived from cryo-EM MAP of staphylococcus aureus large ribosomal subunit · the same entry in another collection · chain E against E, TM-score 1.00

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 Q2YYP9
Every structure of UniProt Q2YYP6
Every structure of UniProt Q2YYP7
Every structure of UniProt A0A2S6D0C0
Every structure of UniProt Q2YYL2
Every structure of UniProt Q2YYM8
Every structure of UniProt Q2YYK7
Every structure of UniProt Q2YYL6
Every structure of UniProt Q2YYQ3
Every structure of UniProt Q2YYM3
Every structure of UniProt W8TRE0
Every structure of UniProt Q2YXM4
Every structure of UniProt Q2YTB1
Every structure of UniProt Q2YT83
Every structure of UniProt Q2YYQ1
Every structure of UniProt Q2YYP8
Every structure of UniProt Q2YYK8
Every structure of UniProt A0A133Q8Z9
Every structure of UniProt Q2YT85
Every structure of UniProt Q2YXJ2
Every structure of UniProt Q2YYN0
Every structure of UniProt Q2YYL5
Every structure of UniProt A0A1Q8DAT0
Every structure of UniProt A0A077V2P0
Every structure of UniProt Q2YZB6
Every structure of UniProt Q2YTB0
Every structure of UniProt A0A077UGV8
Elsewhere: RCSB PDB 6HMA · PDBe 6HMA · UniProt Q2YYP9 · UniProt Q2YYP6 · UniProt Q2YYP7 · UniProt A0A2S6D0C0 · UniProt Q2YYL2 · UniProt Q2YYM8 · UniProt Q2YYK7 · UniProt Q2YYL6 · UniProt Q2YYQ3 · UniProt Q2YYM3 · UniProt W8TRE0 · UniProt Q2YXM4 · UniProt Q2YTB1 · UniProt Q2YT83 · UniProt Q2YYQ1 · UniProt Q2YYP8 · UniProt Q2YYK8 · UniProt A0A133Q8Z9 · UniProt Q2YT85 · UniProt Q2YXJ2 · UniProt Q2YYN0 · UniProt Q2YYL5 · UniProt A0A1Q8DAT0 · UniProt A0A077V2P0 · UniProt Q2YZB6 · UniProt Q2YTB0 · UniProt A0A077UGV8

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