MolNFT v1 · #136838 · protein

Crystal structure of RICE1 (PNT2)

5V5F · AT3G11770: “Crystal structure of RICE1 (PNT2)”. X-ray diffraction, 7 pockets (best druggability 0.74). MolNFT v1 #136838 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5V5F
Type: protein
Length: 600 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: AT3G11770
UniProt: Q9SF21
Pockets: 7 · best druggability 0.74

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	AT3G11770	protein	200	46% helix, 24% strand	Q9SF21

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	433	0.74	0.83	45	empty
2	167	0.53	0.79	23	empty
3	174	0.45	0.75	32	empty
4	93	0.35	0.74	25	empty
5	77	0.31	0.73	17	empty

Interfaces

2 interfaces between chains.

B–C · 1504 Å² buried · 21 hydrogen bonds · protein-protein
A–C · 189 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

5V5F · Crystal structure of RICE1 (PNT2) · the same entry in another collection · chain A against A, TM-score 1.00
Q9SF21 · AlphaFold monomer V2.0 prediction for protein risc-interacting clearing 3'-5'… · a predicted model of the same protein · chain A 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 Q9SF21
Elsewhere: RCSB PDB 5V5F · PDBe 5V5F · UniProt Q9SF21

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