MolNFT v1 · #149860 · protein
Escherichia COLI dps
6GCM · DNA protection during starvation protein: “Escherichia COLI dps”. X-ray diffraction, 20 pockets (best druggability 0.80). MolNFT v1 #149860 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6GCM
- Type
- protein
- Length
- 3,703 residues
- Chains
- 24
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA protection during starvation protein
- EC
- 1.16.-.-
- UniProt
- P0ABT2
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 5 distinct chains · 73% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA protection during starvation protein (EC 1.16.-.-) | protein | 155 | 72% helix, 1% strand | P0ABT2 |
| B, C, E, F, G, H, I, J, K, L, c, d, g, h, i, j, k, l, m | DNA protection during starvation protein (EC 1.16.-.-) | protein | 154 | 73% helix, 1% strand | P0ABT2 |
| D, e | DNA protection during starvation protein (EC 1.16.-.-) | protein | 156 | 72% helix, 1% strand | P0ABT2 |
| b | DNA protection during starvation protein (EC 1.16.-.-) | protein | 159 | 72% helix, 1% strand | P0ABT2 |
| f | DNA protection during starvation protein (EC 1.16.-.-) | protein | 151 | 74% helix, 1% strand | P0ABT2 |
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 | 1134 | 0.80 | 0.81 | 103 | empty |
| 2 | 68 | 0.75 | 0.99 | 20 | empty |
| 3 | 67 | 0.75 | 0.98 | 19 | empty |
| 4 | 67 | 0.75 | 0.98 | 21 | empty |
| 5 | 66 | 0.74 | 0.98 | 21 | empty |
Interfaces
65 interfaces between chains.
- k–m · 1646 Ų buried · 20 hydrogen bonds · protein-protein
- A–C · 1641 Ų buried · 19 hydrogen bonds · protein-protein
- b–d · 1636 Ų buried · 19 hydrogen bonds · protein-protein
- g–i · 1631 Ų buried · 18 hydrogen bonds · protein-protein
- E–G · 1628 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 6GCM · Escherichia coli DPS · the same entry in another collection · chain J against J, 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 P0ABT2
- Elsewhere: RCSB PDB 6GCM · PDBe 6GCM · UniProt P0ABT2
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