MolNFT v1 · #190807 · protein
Structure of catalytic domain of RV1625C bound to nanobody NB4
7YZ9 · Adenylate cyclase: “Structure of catalytic domain of RV1625C bound to nanobody NB4”. X-ray diffraction, 2 ligands (ONM, MN), 1 pocket (best druggability 0.40). MolNFT v1 #190807 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7YZ9
- Type
- protein
- Length
- 296 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenylate cyclase; Nanobody NB4
- EC
- 4.6.1.1
- UniProt
- P9WQ35
- Ligands
- ONM, MN
- Pockets
- 1 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenylate cyclase (EC 4.6.1.1) | protein | 179 | 36% helix, 35% strand | P9WQ35 |
| B | Nanobody NB4 | protein | 117 | 10% helix, 47% strand | — |
Ligands and binding sites
- ONM · 3'-O-(N-methylanthraniloyl)-guanosine-5'-triphosphate · ligand · chains A
- MN · Manganese (II) ion · metal · 3 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 102 | 0.40 | 0.76 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 745 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
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 P9WQ35
- Elsewhere: RCSB PDB 7YZ9 · PDBe 7YZ9 · UniProt P9WQ35
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