Research workbench
X-ray crystal structure of protein SO0799 from shewanella oneidensis. northeast structural genomics consortium target SOR12.
Analyse X-ray crystal structure of protein SO0799 from shewanella oneidensis. northeast… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YUD
- Type
- protein
- Length
- 1,580 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein SO0799
- UniProt
- Q8EIN8
- Pockets
- 16 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 13% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J | Hypothetical protein SO0799 | protein | 158 | 13% helix, 42% strand | Q8EIN8 |
Pockets
16 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 807 | 0.76 | 0.80 | 73 | empty |
| 2 | 821 | 0.73 | 0.78 | 71 | empty |
| 3 | 80 | 0.72 | 0.96 | 20 | empty |
| 4 | 559 | 0.69 | 0.79 | 65 | empty |
| 5 | 439 | 0.68 | 0.80 | 51 | empty |
Interfaces
10 interfaces between chains.
- D–J · 1535 Ų buried · 18 hydrogen bonds · protein-protein
- G–I · 1530 Ų buried · 20 hydrogen bonds · protein-protein
- E–F · 1528 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 1523 Ų buried · 19 hydrogen bonds · protein-protein
- A–H · 1498 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 60 modified (engineered).
Compared structures
- 1YUD · X-ray Crystal Structure of Protein SO0799 from Shewanella oneidensis. Northeast… · 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 Q8EIN8
- Elsewhere: RCSB PDB 1YUD · PDBe 1YUD · UniProt Q8EIN8
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