MolNFT v1 · #94985 · protein

N-terminal C2 domain of human CEP120

4ICX · Centrosomal protein of 120 kda: “N-terminal C2 domain of human CEP120”. X-ray diffraction, 6 pockets (best druggability 0.65). MolNFT v1 #94985 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4ICX
Type: protein
Length: 394 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Centrosomal protein of 120 kda
UniProt: Q8N960
Pockets: 6 · best druggability 0.65

Structure

x-ray diffraction · 3 distinct chains · 9% helix, 54% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Centrosomal protein of 120 kda	protein	133	10% helix, 52% strand	Q8N960
B	Centrosomal protein of 120 kda	protein	130	9% helix, 52% strand	Q8N960
C	Centrosomal protein of 120 kda	protein	131	8% helix, 58% strand	Q8N960

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	310	0.65	0.81	37	empty
2	180	0.46	0.75	22	empty
3	144	0.43	0.75	24	empty
4	85	0.39	0.77	18	empty
5	78	0.37	0.77	18	empty

Interfaces

3 interfaces between chains.

A–C · 699 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 536 Å² buried · 6 hydrogen bonds · protein-protein
A–B · 418 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 modified (engineered).

Compared structures

4ICX · N-terminal C2 domain of human CEP120 · the same entry in another collection · chain A against A, TM-score 1.00
Q8N960 · AlphaFold monomer V2.0 prediction for centrosomal protein of 120 kda (Q8N960) · a predicted model of the same protein · chain B against A, TM-score 0.98

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 Q8N960
Elsewhere: RCSB PDB 4ICX · PDBe 4ICX · UniProt Q8N960

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