Research workbench
Protein ternary complex working for DNA replication initiation
Analyse Protein ternary complex working for DNA replication initiation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E15
- Type
- protein
- Length
- 1,153 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ssdna-specific exonuclease; GINS51; DNA polymerase II small subunit
- EC
- 2.7.7.7, 3.1.11.1
- UniProt
- Q5JGL0, Q5JF31, Q5JET1
- Pockets
- 11 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ssdna-specific exonuclease | protein | 462 | 48% helix, 15% strand | Q5JGL0 |
| B, E | GINS51 | protein | 55 | 16% helix, 38% strand | Q5JF31 |
| C, F | DNA polymerase II small subunit (EC 2.7.7.7, 3.1.11.1) | protein | 61 | 56% helix, 10% strand | Q5JET1 |
| D | Ssdna-specific exonuclease | protein | 459 | 48% helix, 15% strand | Q5JGL0 |
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 893 | 0.78 | 0.81 | 83 | empty |
| 2 | 1131 | 0.76 | 0.78 | 95 | empty |
| 3 | 252 | 0.51 | 0.74 | 23 | empty |
| 4 | 94 | 0.40 | 0.77 | 24 | empty |
| 5 | 73 | 0.38 | 0.78 | 17 | empty |
Interfaces
5 interfaces between chains.
- D–E · 930 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 915 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 661 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 645 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 410 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7E15 · Protein ternary complex working for DNA replication initiation · the same entry in another collection · 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 Q5JGL0
- Every structure of UniProt Q5JF31
- Every structure of UniProt Q5JET1
- Elsewhere: RCSB PDB 7E15 · PDBe 7E15 · UniProt Q5JGL0 · UniProt Q5JF31 · UniProt Q5JET1
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