MolNFT v1 · #153345 · protein

Crystal structure of the TRIM14 pryspry domain

6JBM · Tripartite motif-containing protein 14: “Crystal structure of the TRIM14 pryspry domain”. X-ray diffraction, 1 ligand (SO4), 5 pockets (best druggability 0.76). MolNFT v1 #153345 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 6JBM
Type: protein
Length: 737 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tripartite motif-containing protein 14
UniProt: Q14142
Ligands: SO4
Pockets: 5 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 4% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Tripartite motif-containing protein 14	protein	188	4% helix, 41% strand	Q14142
A, C, D	Tripartite motif-containing protein 14	protein	183	4% helix, 42% strand	Q14142

Ligands and binding sites

SO4 · Sulfate ion · ion · 12 copies · chains B, D, A, C

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

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	961	0.76	0.78	88	empty
2	421	0.58	0.75	52	SO4
3	209	0.51	0.77	33	empty
4	53	0.33	0.77	14	empty
5	53	0.30	0.76	15	empty

Interfaces

5 interfaces between chains.

B–A · 581 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 388 Å² buried · 0 hydrogen bonds · protein-protein
B–D · 333 Å² buried · 0 hydrogen bonds · protein-protein
C–D · 211 Å² buried · 3 hydrogen bonds · protein-protein
B–C · 60 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6JBM · Crystal structure of the TRIM14 PRYSPRY domain · the same entry in another collection · chain B against B, TM-score 1.00
Q14142 · AlphaFold monomer V2.0 prediction for tripartite motif-containing protein 14 (Q14142) · 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 Q14142
Elsewhere: RCSB PDB 6JBM · PDBe 6JBM · UniProt Q14142

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