MolNFT v1 · #9073 · protein

Crystal structure of the hfq protein from escherichia COLI

1HK9 · Protein hfq: “Crystal structure of the hfq protein from escherichia COLI”. X-ray diffraction, 3 pockets (best druggability 0.64). MolNFT v1 #9073 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1HK9
Type: protein
Length: 388 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein hfq
UniProt: P0A6X3
Pockets: 3 · best druggability 0.64

Structure

x-ray diffraction · 5 distinct chains · 21% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein hfq	protein	64	20% helix, 47% strand	P0A6X3
B, C	Protein hfq	protein	63	22% helix, 48% strand	P0A6X3
D	Protein hfq	protein	66	21% helix, 45% strand	P0A6X3
E	Protein hfq	protein	67	21% helix, 45% strand	P0A6X3
F	Protein hfq	protein	65	20% helix, 46% strand	P0A6X3

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	445	0.64	0.77	22	empty
2	295	0.51	0.73	37	empty
3	51	0.30	0.76	17	empty

Interfaces

6 interfaces between chains.

A–F · 763 Å² buried · 10 hydrogen bonds · protein-protein
B–C · 751 Å² buried · 9 hydrogen bonds · protein-protein
D–E · 747 Å² buried · 11 hydrogen bonds · protein-protein
C–D · 729 Å² buried · 13 hydrogen bonds · protein-protein
E–F · 725 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

1HK9 · Crystal structure of the Hfq protein from Escherichia coli · the same entry in another collection · chain F against F, TM-score 1.00
P0A6X3 · AlphaFold monomer V2.0 prediction for RNA-binding protein hfq (P0A6X3) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P0A6X3
Elsewhere: RCSB PDB 1HK9 · PDBe 1HK9 · UniProt P0A6X3

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