MolNFT v1 · #155600 · protein

Crystal structure of rice defensin OSAFP1

6LCQ · Defensin-like protein CAL1: “Crystal structure of rice defensin OSAFP1”. X-ray diffraction, 1 ligand (PO4), 1 pocket (best druggability 0.48). MolNFT v1 #155600 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6LCQ
Type: protein
Length: 108 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Defensin-like protein CAL1
UniProt: Q6K209
Ligands: PO4
Pockets: 1 · best druggability 0.48

Structure

x-ray diffraction · 1 distinct chain · 19% helix, 39% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Defensin-like protein CAL1	protein	54	19% helix, 39% strand	Q6K209

Ligands and binding sites

PO4 · Phosphate ion · ion · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	191	0.48	0.75	29	PO4

Interfaces

1 interface between chains.

A–B · 541 Å² buried · 15 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

6LCQ · Crystal structure of rice defensin OsAFP1 · the same entry in another collection · chain A against A, TM-score 1.00
Q6K209 · AlphaFold monomer V2.0 prediction for defensin-like protein CAL1 (Q6K209) · a predicted model of the same protein · chain A against A, TM-score 0.92

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 Q6K209
Elsewhere: RCSB PDB 6LCQ · PDBe 6LCQ · UniProt Q6K209

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