Research workbench
NMR solution structure of napd in complex with NAPA1-35 signal peptide
Analyse NMR solution structure of napd in complex with NAPA1-35 signal peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2PQ4
- Type
- protein
- Length
- 125 residues
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein napd; Periplasmic nitrate reductase precursor
- EC
- 1.7.99.4
- UniProt
- P0A9I5, P33937
- Pockets
- 1 · best druggability 0.44
Structure
solution nmr · 2 distinct chains · 34% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein napd | protein | 90 | 29% helix, 29% strand | P0A9I5 |
| B | Periplasmic nitrate reductase precursor (EC 1.7.99.4) | protein | 35 | 46% helix, 0% strand | P33937 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 90 | 0.44 | 0.80 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 675 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 2PQ4 · NMR solution structure of NapD in complex with NapA1-35 signal peptide · the same entry in another collection · chain A against A, TM-score 1.00
- P0A9I5 · AlphaFold monomer V2.0 prediction for chaperone napd (P0A9I5) · a predicted model of the same protein · chain A against A, TM-score 0.73
- P33937 · AlphaFold monomer V2.0 prediction for periplasmic nitrate reductase (P33937) · a predicted model of the same protein · chain B against A, TM-score 0.41
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 P0A9I5
- Every structure of UniProt P33937
- Elsewhere: RCSB PDB 2PQ4 · PDBe 2PQ4 · UniProt P0A9I5 · UniProt P33937
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