Research workbench
Crystal structure of serine hydroxymethyltransferase, isoform 7 from Arabidopsis thaliana (SHM7)
Analyse Crystal structure of serine hydroxymethyltransferase, isoform 7 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7QX8
- Type
- protein
- Length
- 5,305 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.74
- Source
- Arabidopsis thaliana
- Molecule
- Serine hydroxymethyltransferase 7
- EC
- 2.1.2.1
- UniProt
- Q84WV0
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · resolution 2.74 · 12 distinct chains · 50% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 443 | 50% helix, 15% strand | Q84WV0 |
| B | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 443 | 50% helix, 14% strand | Q84WV0 |
| C | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 447 | 50% helix, 15% strand | Q84WV0 |
| D | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 438 | 49% helix, 14% strand | Q84WV0 |
| E | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 442 | 49% helix, 14% strand | Q84WV0 |
| F | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 444 | 50% helix, 13% strand | Q84WV0 |
| G | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 444 | 51% helix, 14% strand | Q84WV0 |
| H | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 438 | 51% helix, 14% strand | Q84WV0 |
| I | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 442 | 50% helix, 14% strand | Q84WV0 |
| J | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 444 | 51% helix, 14% strand | Q84WV0 |
| K | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 437 | 51% helix, 13% strand | Q84WV0 |
| L | Serine hydroxymethyltransferase 7 (EC 2.1.2.1) | protein | 443 | 50% helix, 15% strand | Q84WV0 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 941 | 0.87 | 0.88 | 120 | empty |
| 2 | 812 | 0.83 | 0.86 | 88 | empty |
| 3 | 867 | 0.82 | 0.84 | 82 | empty |
| 4 | 653 | 0.82 | 0.86 | 76 | empty |
| 5 | 773 | 0.81 | 0.84 | 80 | empty |
Interfaces
25 interfaces between chains.
- E–F · 4984 Ų buried · 74 hydrogen bonds · protein-protein
- G–H · 4940 Ų buried · 69 hydrogen bonds · protein-protein
- K–L · 4901 Ų buried · 70 hydrogen bonds · protein-protein
- C–D · 4890 Ų buried · 70 hydrogen bonds · protein-protein
- I–J · 4856 Ų buried · 69 hydrogen bonds · protein-protein
Compared structures
- 7QX8 · Crystal structure of serine hydroxymethyltransferase, isoform 7 from arabidopsis thaliana… · the same entry in another collection · chain L against L, TM-score 1.00
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 Q84WV0
- Elsewhere: RCSB PDB 7QX8 · PDBe 7QX8 · UniProt Q84WV0
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