Research workbench
Structure of anthrax edema factor-calmodulin-ALPHA,BETA- methyleneadenosine 5'-triphosphate complex reveals an alternative mode of ATP binding to the catalytic site
Analyse Structure of anthrax edema factor-calmodulin-ALPHA,BETA- methyleneadenosine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1S26
- Type
- protein
- Length
- 1,882 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Calmodulin-sensitive adenylate cyclase; Calmodulin
- EC
- 4.6.1.1
- UniProt
- P40136, P62158
- Ligands
- APC, CA, YB
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Calmodulin-sensitive adenylate cyclase (EC 4.6.1.1) | protein | 485 | 39% helix, 16% strand | P40136 |
| B | Calmodulin-sensitive adenylate cyclase (EC 4.6.1.1) | protein | 465 | 37% helix, 16% strand | P40136 |
| C | Calmodulin-sensitive adenylate cyclase (EC 4.6.1.1) | protein | 503 | 38% helix, 16% strand | P40136 |
| D, E, F | Calmodulin | protein | 143 | 55% helix, 7% strand | P62158 |
Ligands and binding sites
- APC · Diphosphomethylphosphonic acid adenosyl ester · ligand · 3 copies · chains A, B, C
- CA · Calcium ion · metal · 6 copies · chains D, E, F
- YB · Ytterbium (III) ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1005 | 0.80 | 0.81 | 86 | YB, APC |
| 2 | 882 | 0.79 | 0.82 | 82 | YB, APC |
| 3 | 1133 | 0.78 | 0.80 | 86 | YB, APC |
| 4 | 944 | 0.77 | 0.80 | 79 | empty |
| 5 | 977 | 0.77 | 0.79 | 80 | empty |
Interfaces
6 interfaces between chains.
- C–F · 2940 Ų buried · 29 hydrogen bonds · protein-protein
- A–D · 2892 Ų buried · 23 hydrogen bonds · protein-protein
- B–E · 2215 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 694 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 686 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 1S26 · Structure of Anthrax Edema Factor-Calmodulin-alpha,beta-methyleneadenosine… · the same entry in another collection · chain F against F, TM-score 1.00
- P40136 · AlphaFold monomer V2.0 prediction for calmodulin-sensitive adenylate cyclase (P40136) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 1S26 · PDBe 1S26 · UniProt P40136 · UniProt P62158
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