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Crystal structure of the N-terminal reca-like domain of djvlgb, a pranarian vasa-like RNA helicase

Analyse Crystal structure of the N-terminal reca-like domain of djvlgb, a pranarian… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1WRB
Type: protein
Length: 464 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Djvlgb
UniProt: O97032
Ligands: SO4
Pockets: 4 · best druggability 0.46

Structure

x-ray diffraction · 2 distinct chains · 37% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Djvlgb	protein	232	38% helix, 16% strand	O97032
B	Djvlgb	protein	232	37% helix, 15% strand	O97032

Ligands and binding sites

SO4 · Sulfate ion · ion · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	60	0.46	0.83	16	empty
2	58	0.46	0.84	16	empty
3	71	0.37	0.77	15	empty
4	51	0.29	0.75	15	SO4

Compared structures

1WRB · Crystal structure of the N-terminal RecA-like domain of DjVLGB, a pranarian Vasa-like RNA… · 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 O97032
Elsewhere: RCSB PDB 1WRB · PDBe 1WRB · UniProt O97032

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