Research workbench
Crystal structure of a cell division and cell wall biosynthesis protein UPF0040 from mycoplasma pneumoniae: indication of a novel fold with a possible new conserved sequence motif
Analyse Crystal structure of a cell division and cell wall biosynthesis protein UPF0040… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1N0E
- Type
- protein
- Length
- 1,130 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein mraz
- UniProt
- P75467
- Pockets
- 15 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 34% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E, G | Protein mraz | protein | 141 | 34% helix, 22% strand | P75467 |
| B, F | Protein mraz | protein | 148 | 35% helix, 22% strand | P75467 |
| C, D, H | Protein mraz | protein | 137 | 31% helix, 24% strand | P75467 |
Pockets
15 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.64 | 0.93 | 23 | empty |
| 2 | 86 | 0.61 | 0.89 | 25 | empty |
| 3 | 63 | 0.60 | 0.91 | 19 | empty |
| 4 | 67 | 0.59 | 0.90 | 21 | empty |
| 5 | 69 | 0.59 | 0.90 | 20 | empty |
Interfaces
16 interfaces between chains.
- B–C · 1505 Ų buried · 18 hydrogen bonds · protein-protein
- F–G · 1501 Ų buried · 17 hydrogen bonds · protein-protein
- G–H · 1470 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1440 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1428 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 1N0E · Crystal structure of a cell division and cell wall biosynthesis protein UPF0040 from… · the same entry in another collection · chain H against H, TM-score 1.00
- P75467 · AlphaFold monomer V2.0 prediction for transcriptional regulator mraz (P75467) · a predicted model of the same protein · chain C 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 P75467
- Elsewhere: RCSB PDB 1N0E · PDBe 1N0E · UniProt P75467
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