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Structure of leafy transcription factor from arabidopsis thaliana in complex with DNA from ag-I promoter

Analyse Structure of leafy transcription factor from arabidopsis thaliana in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2VY2
Type: protein + DNA
Length: 182 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein leafy; 5'-D(*AP*TP*TP*TP*AP*AP*TP*CP*CP*AP *AP*TP*GP*GP*TP*TP*AP*CP*AP*A)-3'
UniProt: Q00958
Pockets: 2 · best druggability 0.49

Structure

x-ray diffraction · 2 distinct chains · 63% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein leafy	protein	163	63% helix, 1% strand	Q00958
W	5'-D(APTPTPTPAPAPTPCPCPAP APTPGPGPTPTPAPCPAPA)-3'	dna	19	—	—

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	117	0.49	0.80	16	empty
2	71	0.29	0.73	10	empty

Interfaces

1 interface between chains.

A–W · 433 Å² buried · 9 hydrogen bonds · protein-nucleic

Compared structures

2VY2 · Structure of LEAFY transcription factor from Arabidopsis thaliana in complex with DNA… · the same entry in another collection · chain A against A, TM-score 1.00
Q00958 · AlphaFold monomer V2.0 prediction for protein leafy (Q00958) · 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 Q00958
Elsewhere: RCSB PDB 2VY2 · PDBe 2VY2 · UniProt Q00958

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