Research workbench
PAB0955 crystal structure : a GTPase in GTP bound form from pyrococcus abyssi
Analyse PAB0955 crystal structure : a GTPase in GTP bound form from pyrococcus abyssi in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YR8
- Type
- protein
- Length
- 246 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP(GTP)BINDING protein
- Ligands
- GTP
- Pockets
- 2 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ATP(GTP)BINDING protein | protein | 246 | 49% helix, 13% strand | — |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 163 | 0.62 | 0.84 | 29 | empty |
| 2 | 70 | 0.33 | 0.76 | 20 | GTP |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1YR8 · PAB0955 crystal structure : a GTPase in GTP bound form from Pyrococcus abyssi · 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
- Elsewhere: RCSB PDB 1YR8 · PDBe 1YR8
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