MolNFT v1 · #40235 · protein
Crystal structure of a protein of unknown function NMB1012 from neisseria meningitidis
2IKB · Hypothetical protein NMB1012: “Crystal structure of a protein of unknown function NMB1012 from neisseria meningitidis”. X-ray diffraction, 5 pockets (best druggability 0.41). MolNFT v1 #40235 on GenesisL1: 3D structure, binding…
- PDB
- 2IKB
- Type
- protein
- Length
- 642 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein NMB1012
- UniProt
- Q7DDI9
- Pockets
- 5 · best druggability 0.41
Structure
x-ray diffraction · 4 distinct chains · 65% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein NMB1012 | protein | 163 | 67% helix, 3% strand | Q7DDI9 |
| B | Hypothetical protein NMB1012 | protein | 154 | 68% helix, 3% strand | Q7DDI9 |
| C | Hypothetical protein NMB1012 | protein | 162 | 59% helix, 3% strand | Q7DDI9 |
| D | Hypothetical protein NMB1012 | protein | 163 | 64% helix, 3% strand | Q7DDI9 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 77 | 0.41 | 0.79 | 18 | empty |
| 2 | 125 | 0.38 | 0.74 | 27 | empty |
| 3 | 147 | 0.38 | 0.72 | 29 | empty |
| 4 | 58 | 0.37 | 0.79 | 14 | empty |
| 5 | 120 | 0.35 | 0.72 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–C · 968 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 835 Ų buried · 7 hydrogen bonds · protein-protein
- A–D · 44 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered).
Compared structures
- 2IKB · Crystal Structure of a Protein of Unknown Function NMB1012 from Neisseria meningitidis · the same entry in another collection · chain C against C, 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 Q7DDI9
- Elsewhere: RCSB PDB 2IKB · PDBe 2IKB · UniProt Q7DDI9
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