MolNFT v1 · #60803 · protein

Crystal structure of MBNL1 tandem zinc finger 3 and 4 domain

3D2Q · Muscleblind-like protein 1: “Crystal structure of MBNL1 tandem zinc finger 3 and 4 domain”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.70). MolNFT v1 #60803 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 3D2Q
Type: protein
Length: 268 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Muscleblind-like protein 1
UniProt: Q9NR56
Ligands: ZN
Pockets: 3 · best druggability 0.70

Structure

x-ray diffraction · 3 distinct chains · 18% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Muscleblind-like protein 1	protein	66	18% helix, 17% strand	Q9NR56
B	Muscleblind-like protein 1	protein	67	16% helix, 16% strand	Q9NR56
D	Muscleblind-like protein 1	protein	69	19% helix, 16% strand	Q9NR56

Ligands and binding sites

ZN · Zinc ion · metal · 8 copies · chains A, B, C, D

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

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	549	0.70	0.79	60	empty
2	163	0.49	0.77	27	empty
3	152	0.42	0.74	18	empty

Interfaces

5 interfaces between chains.

C–D · 873 Å² buried · 24 hydrogen bonds · protein-protein
A–B · 763 Å² buried · 20 hydrogen bonds · protein-protein
A–D · 484 Å² buried · 10 hydrogen bonds · protein-protein
B–D · 132 Å² buried · 0 hydrogen bonds · protein-protein
A–C · 25 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

3D2Q · Crystal structure of MBNL1 tandem zinc finger 3 and 4 domain · the same entry in another collection · chain A against A, TM-score 1.00
Q9NR56 · AlphaFold monomer V2.0 prediction for muscleblind-like protein 1 (Q9NR56) · a predicted model of the same protein · chain B against A, TM-score 0.89

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 Q9NR56
Elsewhere: RCSB PDB 3D2Q · PDBe 3D2Q · UniProt Q9NR56

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