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Crystal structure of human seminal plasma protein PSP94

Analyse Crystal structure of human seminal plasma protein PSP94 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3IX0
Type: protein
Length: 369 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Beta-microseminoprotein
UniProt: P08118
Pockets: 5 · best druggability 0.62

Structure

x-ray diffraction · 2 distinct chains · 3% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Beta-microseminoprotein	protein	87	3% helix, 49% strand	P08118
B, C, D	Beta-microseminoprotein	protein	94	3% helix, 50% strand	P08118

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	245	0.62	0.81	37	empty
2	387	0.59	0.76	53	empty
3	79	0.38	0.77	17	empty
4	90	0.38	0.76	22	empty
5	80	0.31	0.73	17	empty

Interfaces

5 interfaces between chains.

C–D · 482 Å² buried · 8 hydrogen bonds · protein-protein
A–B · 475 Å² buried · 10 hydrogen bonds · protein-protein
B–D · 365 Å² buried · 4 hydrogen bonds · protein-protein
A–D · 250 Å² buried · 6 hydrogen bonds · protein-protein
A–C · 209 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 20 disulfide (disulfide).

Compared structures

3IX0 · Crystal structure of human seminal plasma protein PSP94 · the same entry in another collection · chain A against A, TM-score 1.00
P08118 · AlphaFold monomer V2.0 prediction for beta-microseminoprotein (P08118) · a predicted model of the same protein · chain A against A, TM-score 0.93

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 P08118
Elsewhere: RCSB PDB 3IX0 · PDBe 3IX0 · UniProt P08118

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