MolNFT v1 · #185992 · protein
Crystal structure of serine hydroxymethyltransferase, isoform 6 from arabidopsis thaliana (SHM6)
7QPE · Serine hydroxymethyltransferase 6: “Crystal structure of serine hydroxymethyltransferase, isoform 6 from arabidopsis thaliana (SHM6)”. X-ray diffraction, 1 ligand (NO3), 9 pockets (best druggability 0.64). MolNFT v1 #185992 on…
- PDB
- 7QPE
- Type
- protein
- Length
- 858 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Serine hydroxymethyltransferase 6
- EC
- 2.1.2.1
- UniProt
- Q9LM59
- Ligands
- NO3
- Pockets
- 9 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Serine hydroxymethyltransferase 6 (EC 2.1.2.1) | protein | 429 | 48% helix, 15% strand | Q9LM59 |
Ligands and binding sites
- NO3 · Nitrate ion · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.64 | 0.87 | 28 | empty |
| 2 | 134 | 0.63 | 0.86 | 27 | empty |
| 3 | 480 | 0.62 | 0.76 | 55 | empty |
| 4 | 364 | 0.59 | 0.76 | 41 | empty |
| 5 | 228 | 0.57 | 0.78 | 20 | NO3 |
Interfaces
1 interface between chains.
- A–B · 497 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 7QPE · Crystal structure of serine hydroxymethyltransferase, isoform 6 from Arabidopsis thaliana… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9LM59 · AlphaFold monomer V2.0 prediction for serine hydroxymethyltransferase 6 (Q9LM59) · a predicted model of the same protein · chain B 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 Q9LM59
- Elsewhere: RCSB PDB 7QPE · PDBe 7QPE · UniProt Q9LM59
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.