Research workbench

Yhch protein (HI0227)

Analyse Yhch protein (HI0227) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1JOP
Type: protein
Length: 560 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Yhch protein
UniProt: P44583
Ligands: HG
Pockets: 7 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 15% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Yhch protein	protein	140	15% helix, 41% strand	P44583

Ligands and binding sites

HG · Mercury (II) ion · metal · 12 copies · chains A, B, C, D

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1135	0.78	0.79	104	empty
2	81	0.61	0.89	25	empty
3	52	0.54	0.89	22	empty
4	124	0.53	0.82	23	empty
5	98	0.35	0.74	21	empty

Interfaces

5 interfaces between chains.

B–C · 1107 Å² buried · 10 hydrogen bonds · protein-protein
A–D · 1026 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 354 Å² buried · 2 hydrogen bonds · protein-protein
A–C · 253 Å² buried · 1 hydrogen bond · protein-protein
C–D · 88 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

1JOP · YHCH protein (HI0227) · the same entry in another collection · chain A against A, TM-score 1.00
P44583 · AlphaFold monomer V2.0 prediction for uncharacterized protein HI_0227 (P44583) · a predicted model of the same protein · chain A 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 P44583
Elsewhere: RCSB PDB 1JOP · PDBe 1JOP · UniProt P44583

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