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Crystal structure of irf-7 dbd apo form

Analyse Crystal structure of irf-7 dbd apo form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3QU3
Type: protein
Length: 357 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Interferon regulatory factor 7
UniProt: P70434
Ligands: NA
Pockets: 5 · best druggability 0.52

Structure

x-ray diffraction · 3 distinct chains · 39% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Interferon regulatory factor 7	protein	122	38% helix, 16% strand	P70434
B	Interferon regulatory factor 7	protein	117	41% helix, 17% strand	P70434
C	Interferon regulatory factor 7	protein	118	40% helix, 17% strand	P70434

Ligands and binding sites

NA · Sodium ion · metal · 3 copies · chains A, B, C
EDO · 1,2-ethanediol · additive · 4 copies · chains B, C

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

Pockets

5 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	146	0.52	0.79	20	empty
2	131	0.50	0.80	20	empty
3	195	0.49	0.76	22	empty
4	95	0.47	0.80	18	empty
5	53	0.31	0.76	14	empty

Interfaces

3 interfaces between chains.

A–C · 339 Å² buried · 0 hydrogen bonds · protein-protein
A–B · 315 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 205 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

3QU3 · Crystal structure of IRF-7 DBD apo form · the same entry in another collection · chain A against A, TM-score 1.00
P70434 · AlphaFold monomer V2.0 prediction for interferon regulatory factor 7 (P70434) · a predicted model of the same protein · chain C against A, TM-score 0.89

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 P70434
Elsewhere: RCSB PDB 3QU3 · PDBe 3QU3 · UniProt P70434

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