Research workbench
Structure of a synaptic gamma-delta resolvase tetramer covalently linked to two cleaved dnas
Analyse Structure of a synaptic gamma-delta resolvase tetramer covalently linked to two… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZR2
- Type
- protein + DNA
- Length
- 435 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tcagtgtccgataatttat; Aaa; Ttatcggacactg; Transposon gamma-delta resolvase
- UniProt
- P03012
- Pockets
- 6 · best druggability 0.68
Structure
x-ray diffraction · 5 distinct chains · 53% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X, J | Tcagtgtccgataatttat | dna | 19 | — | — |
| Z, I | Aaa | dna | 3 | — | — |
| Y, K | Ttatcggacactg | dna | 13 | — | — |
| A | Transposon gamma-delta resolvase | protein | 183 | 52% helix, 10% strand | P03012 |
| B | Transposon gamma-delta resolvase | protein | 182 | 54% helix, 10% strand | P03012 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 587 | 0.68 | 0.78 | 60 | empty |
| 2 | 96 | 0.57 | 0.85 | 17 | empty |
| 3 | 278 | 0.56 | 0.77 | 26 | empty |
| 4 | 188 | 0.48 | 0.76 | 25 | empty |
| 5 | 98 | 0.41 | 0.77 | 13 | empty |
Interfaces
13 interfaces between chains.
- X–A · 854 Ų buried · 15 hydrogen bonds · protein-nucleic
- J–B · 812 Ų buried · 16 hydrogen bonds · protein-nucleic
- A–B · 647 Ų buried · 1 hydrogen bond · protein-protein
- J–K · 596 Ų buried · 43 hydrogen bonds · nucleic-nucleic
- Y–A · 596 Ų buried · 8 hydrogen bonds · protein-nucleic
Compared structures
- 1ZR2 · Structure of a Synaptic gamma-delta Resolvase Tetramer Covalently Linked to two Cleaved… · the same entry in another collection · chain B against B, TM-score 1.00
- P03012 · AlphaFold monomer V2.0 prediction for transposon gamma-delta resolvase (P03012) · a predicted model of the same protein · chain A against A, TM-score 0.88
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 P03012
- Elsewhere: RCSB PDB 1ZR2 · PDBe 1ZR2 · UniProt P03012
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