MolNFT v1 · #156804 · protein
Crystal structure of the signal transduction ATPase with numerous domains (stand) protein with a tetratricopeptide repeat sensor PH0952 from pyrococcus horikoshii
6MFV: “Crystal structure of the signal transduction ATPase with numerous domains (stand) protein with a…”. X-ray diffraction, 1 ligand (ADP), 20 pockets (best druggability 0.82). MolNFT v1 #156804 on GenesisL1: 3D structure, binding sites…
- PDB
- 6MFV
- Type
- protein
- Length
- 2,564 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tetratricopeptide repeat sensor PH0952
- UniProt
- O58663
- Ligands
- ADP
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 63% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Tetratricopeptide repeat sensor PH0952 | protein | 641 | 63% helix, 5% strand | O58663 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1068 | 0.82 | 0.83 | 103 | ADP |
| 2 | 1177 | 0.82 | 0.83 | 118 | ADP |
| 3 | 1115 | 0.81 | 0.82 | 119 | ADP |
| 4 | 863 | 0.80 | 0.83 | 95 | ADP |
| 5 | 1103 | 0.77 | 0.79 | 109 | empty |
Interfaces
5 interfaces between chains.
- A–D · 1994 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 1974 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 531 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 445 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 109 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6MFV · Crystal structure of the Signal Transduction ATPase with Numerous Domains (STAND) protein… · the same entry in another collection · chain A against A, 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 O58663
- Elsewhere: RCSB PDB 6MFV · PDBe 6MFV · UniProt O58663
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