Research workbench
Crystal structure of dbd plasma treated zebrafish TRF2 myb-domain complexed with DNA
Analyse Crystal structure of dbd plasma treated zebrafish TRF2 myb-domain complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7C4Q
- Type
- protein + DNA
- Length
- 155 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Terfa protein; DNA (5'-D(*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*G)-3'); DNA…
- UniProt
- Q4QRH9
- Pockets
- 3 · best druggability 0.41
Structure
x-ray diffraction · 5 distinct chains · 62% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Terfa protein | protein | 54 | 63% helix, 0% strand | Q4QRH9 |
| C | DNA (5'-D(*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*G)-3') | dna | 12 | — | — |
| D, F | DNA (5'-D(*CP*CP*CP*TP*AP*AP*CP*CP*CP*TP*AP*A)-3') | dna | 12 | — | — |
| B | Terfa protein | protein | 55 | 62% helix, 0% strand | Q4QRH9 |
| E | DNA (5'-D(*TP*TP*AP*GP*GP*GP*TP*TP*AP*G)-3') | dna | 10 | — | — |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 126 | 0.41 | 0.75 | 14 | empty |
| 2 | 71 | 0.40 | 0.80 | 10 | empty |
| 3 | 50 | 0.27 | 0.75 | 10 | empty |
Interfaces
8 interfaces between chains.
- C–D · 544 Ų buried · 60 hydrogen bonds · nucleic-nucleic
- B–F · 490 Ų buried · 9 hydrogen bonds · protein-nucleic
- A–D · 486 Ų buried · 12 hydrogen bonds · protein-nucleic
- A–C · 471 Ų buried · 10 hydrogen bonds · protein-nucleic
- E–F · 459 Ų buried · 42 hydrogen bonds · nucleic-nucleic
Compared structures
- 7C4Q · Crystal structure of DBD plasma treated zebrafish TRF2 myb-domain complexed with DNA · 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 Q4QRH9
- Elsewhere: RCSB PDB 7C4Q · PDBe 7C4Q · UniProt Q4QRH9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.