MolNFT v1 · #53742 · protein

Structure of mouse syndapin I (crystal form 2)

2X3W · Protein kinase C and casein kinase substrate in neurons…: “Structure of mouse syndapin I (crystal form 2)”. X-ray diffraction, 7 pockets (best druggability 0.63). MolNFT v1 #53742 on GenesisL1: 3D structure, binding sites and…

PDB: 2X3W
Type: protein
Length: 898 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein kinase C and casein kinase substrate in neurons protein 1
UniProt: Q61644
Pockets: 7 · best druggability 0.63

Structure

x-ray diffraction · 4 distinct chains · 76% helix, 3% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein kinase C and casein kinase substrate in neurons protein 1	protein	291	81% helix, 1% strand	Q61644
B	Protein kinase C and casein kinase substrate in neurons protein 1	protein	290	80% helix, 1% strand	Q61644
C	Protein kinase C and casein kinase substrate in neurons protein 1	protein	261	80% helix, 1% strand	Q61644
D	Protein kinase C and casein kinase substrate in neurons protein 1	protein	56	5% helix, 41% strand	Q61644

Pockets

7 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	409	0.63	0.77	53	empty
2	124	0.45	0.77	22	empty
3	52	0.37	0.80	13	empty
4	53	0.35	0.79	14	empty
5	57	0.33	0.77	15	empty

Interfaces

5 interfaces between chains.

A–B · 4737 Å² buried · 46 hydrogen bonds · protein-protein
C–D · 532 Å² buried · 4 hydrogen bonds · protein-protein
B–D · 425 Å² buried · 4 hydrogen bonds · protein-protein
A–C · 213 Å² buried · 1 hydrogen bond · protein-protein
A–D · 89 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

2X3W · structure of mouse syndapin I (crystal form 2) · the same entry in another collection · chain D against D, TM-score 1.00
Q61644 · AlphaFold monomer V2.0 prediction for protein kinase C and casein kinase substrate in… · a predicted model of the same protein · chain B against A, TM-score 0.97

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 Q61644
Elsewhere: RCSB PDB 2X3W · PDBe 2X3W · UniProt Q61644

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