Research workbench
6-deoxyerythronolide B synthase (debs) hybrid module (M3/1) in complex with antibody fragment 1B2
Analyse 6-deoxyerythronolide B synthase (debs) hybrid module (M3/1) in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7M7E
- Type
- protein
- Length
- 2,230 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 6-deoxyerythronolide-B synthase ERYA2, modules 3 and 4, ERYAI,6-deoxyerythronolide-B…
- EC
- 2.3.1.94
- UniProt
- Q03132
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 3 distinct chains · 24% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | 6-deoxyerythronolide-B synthase ERYA2, modules 3 and 4, ERYAI,6-deoxyerythronolide-B synthase ERYA3, modules 5 and 6 chimera (EC 2.3.1.94) | protein | 908 | 33% helix, 16% strand | Q03132 |
| C | 1B2 (heavy chain) | protein | 205 | 3% helix, 47% strand | — |
| D | 1B2 (light chain) | protein | 209 | 8% helix, 35% strand | — |
Pockets
20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1082 | 0.86 | 0.87 | 119 | empty |
| 2 | 387 | 0.68 | 0.81 | 39 | empty |
| 3 | 353 | 0.68 | 0.81 | 49 | empty |
| 4 | 401 | 0.68 | 0.80 | 50 | empty |
| 5 | 123 | 0.66 | 0.88 | 24 | empty |
Interfaces
5 interfaces between chains.
- B–A · 2768 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1588 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 600 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 402 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 352 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7M7E · 6-Deoxyerythronolide B synthase (DEBS) hybrid module (M3/1) in complex with antibody… · the same entry in another collection · chain B against B, 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 Q03132
- Elsewhere: RCSB PDB 7M7E · PDBe 7M7E · UniProt Q03132
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.