Research workbench
Bacillus circulans strain 251 cyclodextrin glycosyl transferase mutant D135N
Analyse Bacillus circulans strain 251 cyclodextrin glycosyl transferase mutant D135N in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OT2
- Type
- protein
- Length
- 686 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyclomaltodextrin glucanotransferase
- EC
- 2.4.1.19
- UniProt
- P43379
- Ligands
- GLC, BGC, CA
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 23% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cyclomaltodextrin glucanotransferase (EC 2.4.1.19) | protein | 686 | 23% helix, 30% strand | P43379 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 15 copies · chains A
- BGC · beta-D-glucopyranose · sugar · 3 copies · chains A
- CA · Calcium ion · metal · 3 copies · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 3 copies · chains A
- ACY · Acetic acid · additive · 3 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 403 | 0.76 | 0.86 | 60 | MPD |
| 2 | 370 | 0.65 | 0.79 | 38 | BGC, GLC, MPD |
| 3 | 126 | 0.43 | 0.76 | 31 | CA, ACY |
| 4 | 87 | 0.36 | 0.76 | 18 | MPD |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1OT2 · Bacillus circulans strain 251 Cyclodextrin glycosyl transferase mutant D135N · the same entry in another collection · chain A against A, TM-score 1.00
- P43379 · AlphaFold monomer V2.0 prediction for cyclomaltodextrin glucanotransferase (P43379) · a predicted model of the same protein · chain A against A, 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 P43379
- Elsewhere: RCSB PDB 1OT2 · PDBe 1OT2 · UniProt P43379
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