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Crystal structure of the hepatitis delta virus gemonic ribozyme precursor, with C75U mutaion, in edta solution

Analyse Crystal structure of the hepatitis delta virus gemonic ribozyme precursor, with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1VBX
Type: protein + RNA
Length: 168 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hepatitis delta virus ribozyme; U1 small nuclear ribonucleoprotein a
UniProt: P09012
Pockets: 4 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Hepatitis delta virus ribozyme	rna	73	—	—
A	U1 small nuclear ribonucleoprotein a	protein	95	32% helix, 25% strand	P09012

Pockets

4 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	0.63	0.78	35	empty
2	453	0.56	0.74	27	empty
3	285	0.48	0.73	17	empty
4	95	0.38	0.77	12	empty

Interfaces

1 interface between chains.

B–A · 953 Å² buried · 32 hydrogen bonds · protein-nucleic

Compared structures

1VBX · Crystal Structure of the Hepatitis Delta Virus Gemonic Ribozyme Precursor, with C75U… · 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 P09012
Elsewhere: RCSB PDB 1VBX · PDBe 1VBX · UniProt P09012

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