Research workbench
X-ray structure of northeast structural genomics target protein SR145 from bacillus subtilis
Analyse X-ray structure of northeast structural genomics target protein SR145 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1TO0
- Type
- protein
- Length
- 1,174 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical UPF0247 protein yyda
- UniProt
- Q45601
- Pockets
- 14 · best druggability 0.74
Structure
x-ray diffraction · 7 distinct chains · 43% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical UPF0247 protein yyda | protein | 148 | 42% helix, 24% strand | Q45601 |
| B, G | Hypothetical UPF0247 protein yyda | protein | 148 | 43% helix, 22% strand | Q45601 |
| C | Hypothetical UPF0247 protein yyda | protein | 148 | 43% helix, 23% strand | Q45601 |
| D | Hypothetical UPF0247 protein yyda | protein | 151 | 46% helix, 22% strand | Q45601 |
| E | Hypothetical UPF0247 protein yyda | protein | 139 | 44% helix, 24% strand | Q45601 |
| F | Hypothetical UPF0247 protein yyda | protein | 142 | 42% helix, 25% strand | Q45601 |
| H | Hypothetical UPF0247 protein yyda | protein | 150 | 41% helix, 22% strand | Q45601 |
Pockets
14 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 762 | 0.74 | 0.79 | 61 | empty |
| 2 | 313 | 0.64 | 0.80 | 41 | empty |
| 3 | 332 | 0.62 | 0.79 | 39 | empty |
| 4 | 208 | 0.58 | 0.80 | 23 | empty |
| 5 | 225 | 0.58 | 0.80 | 22 | empty |
Interfaces
8 interfaces between chains.
- A–B · 1224 Ų buried · 10 hydrogen bonds · protein-protein
- E–F · 1222 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 1220 Ų buried · 12 hydrogen bonds · protein-protein
- G–H · 1158 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 224 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 46 modified (engineered).
Compared structures
- 1TO0 · X-ray structure of Northeast Structural Genomics target protein sr145 from Bacillus… · the same entry in another collection · chain H against H, TM-score 1.00
- Q45601 · AlphaFold monomer V2.0 prediction for ribosomal RNA large subunit methyltransferase H… · a predicted model of the same protein · chain E 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 Q45601
- Elsewhere: RCSB PDB 1TO0 · PDBe 1TO0 · UniProt Q45601
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