Research workbench
Crystal structure of L-psp putative endoribonuclease from uncultured organism
Analyse Crystal structure of L-psp putative endoribonuclease from uncultured organism in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3R0P
- Type
- protein
- Length
- 754 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-psp putative endoribonuclease
- UniProt
- D8VN48
- Pockets
- 10 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E | L-psp putative endoribonuclease | protein | 125 | 30% helix, 31% strand | D8VN48 |
| C | L-psp putative endoribonuclease | protein | 127 | 30% helix, 33% strand | D8VN48 |
| D, F | L-psp putative endoribonuclease | protein | 126 | 30% helix, 33% strand | D8VN48 |
Pockets
10 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 78 | 0.75 | 0.98 | 21 | empty |
| 2 | 542 | 0.74 | 0.82 | 50 | empty |
| 3 | 71 | 0.73 | 0.98 | 21 | empty |
| 4 | 136 | 0.70 | 0.91 | 39 | empty |
| 5 | 168 | 0.59 | 0.82 | 18 | empty |
Interfaces
9 interfaces between chains.
- C–D · 1030 Ų buried · 15 hydrogen bonds · protein-protein
- A–F · 997 Ų buried · 16 hydrogen bonds · protein-protein
- B–F · 988 Ų buried · 17 hydrogen bonds · protein-protein
- C–E · 988 Ų buried · 19 hydrogen bonds · protein-protein
- D–E · 985 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 3R0P · Crystal structure of L-PSP putative endoribonuclease from uncultured organism · 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 D8VN48
- Elsewhere: RCSB PDB 3R0P · PDBe 3R0P · UniProt D8VN48
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