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Amber refined NMR structure of the sigma-54 rpon domain bound to the- 24 promoter element

Analyse Amber refined NMR structure of the sigma-54 rpon domain bound to the- 24… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2O9L
Type: protein + DNA
Length: 91 residues
Chains: 3
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*TP*TP*TP*TP*GP*GP*CP*AP*CP*GP*TP*TP*TP*C)-3'…
UniProt: O66858
Pockets: 1 · best druggability 0.31

Structure

solution nmr · 3 distinct chains · 48% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	5'-D(TPTPTPTPGPGPCPAPCPGPTPTPTPC)-3'	dna	14	—	—
C	5'-D(GPAPAPAPCPGPTPGPCPCPAPAPAPA)-3'	dna	14	—	—
A	RNA polymerase sigma factor rpon	protein	63	48% helix, 0% strand	O66858

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	71	0.31	0.75	12	empty

Interfaces

3 interfaces between chains.

B–C · 613 Å² buried · 60 hydrogen bonds · nucleic-nucleic
C–A · 479 Å² buried · 11 hydrogen bonds · protein-nucleic
B–A · 443 Å² buried · 10 hydrogen bonds · protein-nucleic

Compared structures

2O9L · AMBER refined NMR Structure of the Sigma-54 RpoN Domain Bound to the-24 Promoter Element · the same entry in another collection · chain B against B, 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 O66858
Elsewhere: RCSB PDB 2O9L · PDBe 2O9L · UniProt O66858

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