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Crystal structure of bacillus subtilis protein yhfp

Analyse Crystal structure of bacillus subtilis protein yhfp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1TT7
Type: protein
Length: 1,974 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Yhfp
UniProt: O07615
Pockets: 12 · best druggability 0.82

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Yhfp	protein	329	27% helix, 27% strand	O07615

Pockets

12 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1169	0.82	0.83	110	empty
2	1089	0.82	0.83	96	empty
3	1048	0.82	0.83	99	empty
4	729	0.80	0.84	92	empty
5	618	0.80	0.85	75	empty

Interfaces

12 interfaces between chains.

B–E · 1251 Å² buried · 30 hydrogen bonds · protein-protein
C–F · 1227 Å² buried · 33 hydrogen bonds · protein-protein
A–D · 1226 Å² buried · 36 hydrogen bonds · protein-protein
D–F · 512 Å² buried · 6 hydrogen bonds · protein-protein
B–C · 498 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 24 modified (engineered).

Compared structures

1TT7 · Crystal structure of Bacillus subtilis protein yhfP · the same entry in another collection · chain C against C, TM-score 1.00
O07615 · AlphaFold monomer V2.0 prediction for putative quinone oxidoreductase yhfp (O07615) · 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 O07615
Elsewhere: RCSB PDB 1TT7 · PDBe 1TT7 · UniProt O07615

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