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Structure determination of the dimeric endonuclease in a pseudo-face- centerd P21 space group

Analyse Structure determination of the dimeric endonuclease in a pseudo-face- centerd… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1R11
Type: protein
Length: 606 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TRNA-intron endonuclease
EC: 3.1.27.9
UniProt: O29362
Pockets: 6 · best druggability 0.74

Structure

x-ray diffraction · 1 distinct chain · 33% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	TRNA-intron endonuclease (EC 3.1.27.9)	protein	303	33% helix, 27% strand	O29362

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	579	0.74	0.81	59	empty
2	171	0.42	0.74	32	empty
3	104	0.39	0.75	17	empty
4	125	0.36	0.73	23	empty
5	55	0.35	0.78	13	empty

Interfaces

1 interface between chains.

A–B · 3259 Å² buried · 45 hydrogen bonds · protein-protein

Compared structures

1R11 · Structure Determination of the Dimeric Endonuclease in a Pseudo-face-centerd P21 space… · the same entry in another collection · chain A against A, TM-score 1.00
O29362 · AlphaFold monomer V2.0 prediction for tRNA-splicing endonuclease (O29362) · a predicted model of the same protein · chain B against A, TM-score 0.99

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 O29362
Elsewhere: RCSB PDB 1R11 · PDBe 1R11 · UniProt O29362

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