Research workbench
Structure of plasmodium falciparum imp-nucleotidase
Analyse Structure of plasmodium falciparum imp-nucleotidase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6RMO
- Type
- protein
- Length
- 6,334 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Imp-specific 5'-nucleotidase, putative
- EC
- 3.1.3.5
- UniProt
- A0A144A134
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 15 distinct chains · 46% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 412 | 46% helix, 13% strand | A0A144A134 |
| B | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 368 | 49% helix, 14% strand | A0A144A134 |
| C | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 410 | 45% helix, 12% strand | A0A144A134 |
| D | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 370 | 48% helix, 13% strand | A0A144A134 |
| E | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 408 | 44% helix, 12% strand | A0A144A134 |
| F | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 364 | 47% helix, 14% strand | A0A144A134 |
| G | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 407 | 44% helix, 12% strand | A0A144A134 |
| H | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 361 | 47% helix, 14% strand | A0A144A134 |
| I | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 432 | 45% helix, 12% strand | A0A144A134 |
| J, N | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 381 | 46% helix, 14% strand | A0A144A134 |
| K | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 423 | 46% helix, 13% strand | A0A144A134 |
| L | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 382 | 45% helix, 15% strand | A0A144A134 |
| M | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 431 | 46% helix, 12% strand | A0A144A134 |
| O | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 423 | 46% helix, 12% strand | A0A144A134 |
| P | Imp-specific 5'-nucleotidase, putative (EC 3.1.3.5) | protein | 381 | 47% helix, 14% strand | A0A144A134 |
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 | 1011 | 0.85 | 0.86 | 102 | empty |
| 2 | 1017 | 0.84 | 0.85 | 125 | empty |
| 3 | 1030 | 0.82 | 0.83 | 109 | empty |
| 4 | 847 | 0.81 | 0.83 | 95 | empty |
| 5 | 158 | 0.80 | 0.96 | 24 | empty |
Interfaces
32 interfaces between chains.
- K–L · 2208 Ų buried · 26 hydrogen bonds · protein-protein
- O–P · 2174 Ų buried · 27 hydrogen bonds · protein-protein
- M–N · 2073 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 2008 Ų buried · 28 hydrogen bonds · protein-protein
- I–J · 1992 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 6RMO · Structure of Plasmodium falciparum IMP-nucleotidase · 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 A0A144A134
- Elsewhere: RCSB PDB 6RMO · PDBe 6RMO · UniProt A0A144A134
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