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Crystal structure of a probable RNA-binding protein from clostridium symbiosum atcc 14940

Analyse Crystal structure of a probable RNA-binding protein from clostridium symbiosum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3GKU
Type: protein
Length: 533 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Probable RNA-binding protein
Pockets: 5 · best druggability 0.79

Structure

x-ray diffraction · 3 distinct chains · 41% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Probable RNA-binding protein	protein	206	42% helix, 26% strand	—
B	Probable RNA-binding protein	protein	193	44% helix, 25% strand	—
C	Probable RNA-binding protein	protein	134	35% helix, 23% strand	—

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	678	0.79	0.84	92	empty
2	109	0.52	0.82	16	empty
3	61	0.50	0.85	14	empty
4	78	0.45	0.81	21	empty
5	56	0.30	0.76	14	empty

Interfaces

2 interfaces between chains.

A–B · 1299 Å² buried · 8 hydrogen bonds · protein-protein
B–C · 765 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 19 modified (engineered).

Compared structures

3GKU · Crystal structure of a probable RNA-binding protein from Clostridium symbiosum ATCC 14940 · 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
Elsewhere: RCSB PDB 3GKU · PDBe 3GKU

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