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The crystal structure of reelin-N domain of F-spondin

Analyse The crystal structure of reelin-N domain of F-spondin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3COO
Type: protein
Length: 281 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spondin-1
UniProt: Q9HCB6
Pockets: 3 · best druggability 0.55

Structure

x-ray diffraction · 2 distinct chains · 3% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spondin-1	protein	143	2% helix, 44% strand	Q9HCB6
B	Spondin-1	protein	138	4% helix, 49% strand	Q9HCB6

Pockets

3 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	82	0.55	0.86	19	empty
2	143	0.44	0.76	28	empty
3	117	0.41	0.76	19	empty

Interfaces

1 interface between chains.

A–B · 910 Å² buried · 17 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

3COO · The crystal structure of Reelin-N domain of F-spondin · the same entry in another collection · chain A against A, TM-score 1.00
Q9HCB6 · AlphaFold monomer V2.0 prediction for spondin-1 (Q9HCB6) · a predicted model of the same protein · chain B against A, TM-score 0.91

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 Q9HCB6
Elsewhere: RCSB PDB 3COO · PDBe 3COO · UniProt Q9HCB6

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