MolNFT v1 · #168172 · protein + RNA

30S-inactive-low-MG2+ class a

6W7N · 16S rRNA: “30S-inactive-low-MG2+ class a”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #168172 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6W7N
Type: protein + RNA
Length: 3,032 residues
Chains: 15
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 16S rRNA; 30S ribosomal protein S3; 30S ribosomal protein S4; 30S ribosomal protein S5…
UniProt: P0A7V3, P0A7V8, P0A7W1, P0A7W7, P0A7X3, P0A7R5, P0A7S3, P0A7S9, P0AG59, A0A4S5B232, P0A7T3, P0AG63, P0A7U3, P0A7U7
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 15 distinct chains · 31% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	16S rRNA	rna	1372	—	—
C	30S ribosomal protein S3	protein	206	31% helix, 20% strand	P0A7V3
D	30S ribosomal protein S4	protein	205	38% helix, 9% strand	P0A7V8
E	30S ribosomal protein S5	protein	150	21% helix, 30% strand	P0A7W1
H	30S ribosomal protein S8	protein	129	29% helix, 22% strand	P0A7W7
I	30S ribosomal protein S9	protein	127	30% helix, 17% strand	P0A7X3
J	30S ribosomal protein S10	protein	98	19% helix, 31% strand	P0A7R5
L	30S ribosomal protein S12	protein	121	5% helix, 14% strand	P0A7S3
M	30S ribosomal protein S13	protein	114	48% helix, 2% strand	P0A7S9
N	30S ribosomal protein S14	protein	96	44% helix, 2% strand	P0AG59
O	30S ribosomal protein S15	protein	88	61% helix, 0% strand	A0A4S5B232
P	30S ribosomal protein S16	protein	82	22% helix, 15% strand	P0A7T3
Q	30S ribosomal protein S17	protein	80	0% helix, 60% strand	P0AG63
S	30S ribosomal protein S19	protein	79	23% helix, 19% strand	P0A7U3
T	30S ribosomal protein S20	protein	85	72% helix, 0% strand	P0A7U7

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	987	0.86	0.88	93	empty
2	807	0.85	0.89	83	empty
3	1166	0.85	0.87	90	empty
4	1176	0.84	0.86	95	empty
5	1135	0.84	0.85	89	empty

Interfaces

28 interfaces between chains.

A–D · 3130 Å² buried · 54 hydrogen bonds · protein-nucleic
A–I · 2969 Å² buried · 49 hydrogen bonds · protein-nucleic
A–L · 2810 Å² buried · 46 hydrogen bonds · protein-nucleic
A–N · 2123 Å² buried · 37 hydrogen bonds · protein-nucleic
A–P · 2116 Å² buried · 27 hydrogen bonds · protein-nucleic

Compared structures

6W7N · 30S-Inactive-low-Mg2+ Class A · the same entry in another collection · chain A against A, 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 P0A7V3
Every structure of UniProt P0A7V8
Every structure of UniProt P0A7W1
Every structure of UniProt P0A7W7
Every structure of UniProt P0A7X3
Every structure of UniProt P0A7R5
Every structure of UniProt P0A7S3
Every structure of UniProt P0A7S9
Every structure of UniProt P0AG59
Every structure of UniProt A0A4S5B232
Every structure of UniProt P0A7T3
Every structure of UniProt P0AG63
Every structure of UniProt P0A7U3
Every structure of UniProt P0A7U7
Elsewhere: RCSB PDB 6W7N · PDBe 6W7N · UniProt P0A7V3 · UniProt P0A7V8 · UniProt P0A7W1 · UniProt P0A7W7 · UniProt P0A7X3 · UniProt P0A7R5 · UniProt P0A7S3 · UniProt P0A7S9 · UniProt P0AG59 · UniProt A0A4S5B232 · UniProt P0A7T3 · UniProt P0AG63 · UniProt P0A7U3 · UniProt P0A7U7

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