Research workbench
Crystal structure of anthrax edema factor (ef) in complex with calmodulin and 3' deoxy-ATP
Analyse Crystal structure of anthrax edema factor (ef) in complex with calmodulin and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XFV
- Type
- protein
- Length
- 5,286 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Calmodulin-sensitive adenylate cyclase; Calmodulin 2
- EC
- 4.6.1.1
- UniProt
- P40136, P62158
- Ligands
- 3AT, CA, MG
- Pockets
- 20 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Calmodulin-sensitive adenylate cyclase (EC 4.6.1.1) | protein | 735 | 40% helix, 11% strand | P40136 |
| O, P, Q, R, S, T | Calmodulin 2 | protein | 146 | 47% helix, 7% strand | P62158 |
Ligands and binding sites
- 3AT · 3'-deoxyadenosine-5'-triphosphate · ligand · 6 copies · chains A, B, C, D, E, F
- CA · Calcium ion · metal · 18 copies · chains O, P, Q, R, S, T
- MG · Magnesium ion · metal · 12 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 412 | 0.74 | 0.84 | 55 | empty |
| 2 | 377 | 0.73 | 0.84 | 46 | empty |
| 3 | 842 | 0.72 | 0.77 | 74 | empty |
| 4 | 865 | 0.72 | 0.77 | 79 | empty |
| 5 | 384 | 0.72 | 0.83 | 48 | empty |
Interfaces
11 interfaces between chains.
- D–R · 2950 Ų buried · 26 hydrogen bonds · protein-protein
- C–Q · 2944 Ų buried · 25 hydrogen bonds · protein-protein
- B–P · 2938 Ų buried · 25 hydrogen bonds · protein-protein
- F–T · 2937 Ų buried · 26 hydrogen bonds · protein-protein
- E–S · 2935 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 1XFV · Crystal structure of anthrax edema factor (EF) in complex with calmodulin and 3' deoxy-ATP · the same entry in another collection · chain T against T, 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 P40136
- Every structure of UniProt P62158
- Elsewhere: RCSB PDB 1XFV · PDBe 1XFV · UniProt P40136 · UniProt P62158
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.