MolNFT v1 · #188995 · protein + DNA + RNA

Iscb and wrna bound to target DNA

7UTN: “Iscb and wrna bound to target DNA”. Electron microscopy, 14 pockets (best druggability 0.79). MolNFT v1 #188995 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7UTN
Type: protein + DNA + RNA
Length: 625 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Iscb; RNA (222-mer); DNA target strand; DNA non-target strand
Pockets: 14 · best druggability 0.79

Structure

electron microscopy · 4 distinct chains · 26% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
D	Iscb	protein	397	26% helix, 26% strand	—
C	RNA (222-mer)	rna	184	—	—
A	DNA target strand	dna	29	—	—
B	DNA non-target strand	dna	15	—	—

Pockets

14 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	665	0.79	0.84	60	empty
2	904	0.78	0.82	72	empty
3	545	0.75	0.83	47	empty
4	338	0.74	0.86	29	empty
5	154	0.59	0.84	22	empty

Interfaces

5 interfaces between chains.

D–C · 6521 Å² buried · 151 hydrogen bonds · protein-nucleic
D–A · 1450 Å² buried · 16 hydrogen bonds · protein-nucleic
C–A · 765 Å² buried · 51 hydrogen bonds · nucleic-nucleic
A–B · 612 Å² buried · 45 hydrogen bonds · nucleic-nucleic
D–B · 595 Å² buried · 11 hydrogen bonds · protein-nucleic

Compared structures

7UTN · IscB and wRNA bound to Target DNA · the same entry in another collection · chain D against D, 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
Elsewhere: RCSB PDB 7UTN · PDBe 7UTN

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