Research workbench
Crystal structure of unliganded nmra-area zinc finger complex
Analyse Crystal structure of unliganded nmra-area zinc finger complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2VUS
- Type
- protein
- Length
- 2,879 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nitrogen metabolite repression regulator nmra; Nitrogen regulatory protein area
- UniProt
- O59919, P17429
- Ligands
- ZN, SO4, CL
- Pockets
- 20 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 36% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | Nitrogen metabolite repression regulator nmra | protein | 318 | 42% helix, 18% strand | O59919 |
| I, J, L, N, P | Nitrogen regulatory protein area | protein | 42 | 24% helix, 14% strand | P17429 |
| K, O | Nitrogen regulatory protein area | protein | 41 | 24% helix, 10% strand | P17429 |
| M | Nitrogen regulatory protein area | protein | 43 | 23% helix, 9% strand | P17429 |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains I, J, K, L, M, N, O, P
- SO4 · Sulfate ion · ion · 8 copies · chains A, B, C, D, E, F, G, H
- CL · Chloride ion · ion · 7 copies · chains A, C, D, F, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 816 | 0.77 | 0.80 | 70 | SO4 |
| 2 | 829 | 0.76 | 0.80 | 72 | SO4 |
| 3 | 804 | 0.76 | 0.80 | 70 | SO4 |
| 4 | 786 | 0.76 | 0.80 | 67 | SO4 |
| 5 | 775 | 0.76 | 0.80 | 75 | SO4 |
Interfaces
22 interfaces between chains.
- B–J · 843 Ų buried · 15 hydrogen bonds · protein-protein
- A–I · 821 Ų buried · 9 hydrogen bonds · protein-protein
- E–M · 798 Ų buried · 8 hydrogen bonds · protein-protein
- D–L · 795 Ų buried · 8 hydrogen bonds · protein-protein
- C–K · 794 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 2VUS · Crystal structure of unliganded NmrA-AreA zinc finger complex · the same entry in another collection · chain P against P, 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 O59919
- Every structure of UniProt P17429
- Elsewhere: RCSB PDB 2VUS · PDBe 2VUS · UniProt O59919 · UniProt P17429
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