Research workbench
Structure of a CYS2HIS2 zinc FINGER/TATA box complex (TATAZF;CLONE #6)
Analyse Structure of a CYS2HIS2 zinc FINGER/TATA box complex (TATAZF;CLONE #6) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1G2F
- Type
- protein + DNA
- Length
- 240 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*AP*CP*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*GP*AP*G)-3'…
- UniProt
- P08046
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | 5'-D(*GP*AP*CP*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*GP*AP*G)-3' | dna | 16 | — | — |
| B, E | 5'-D(*TP*CP*CP*TP*TP*TP*TP*AP*TP*AP*GP*CP*GP*TP*CP*C)-3' | dna | 16 | — | — |
| C | Tata box zinc finger protein | protein | 89 | 40% helix, 13% strand | P08046 |
| F | Tata box zinc finger protein | protein | 87 | 40% helix, 14% strand | P08046 |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains C, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 85 | 0.59 | 0.88 | 17 | empty |
| 2 | 94 | 0.56 | 0.85 | 17 | empty |
| 3 | 92 | 0.39 | 0.77 | 24 | empty |
| 4 | 82 | 0.38 | 0.77 | 21 | empty |
Interfaces
11 interfaces between chains.
- A–C · 1094 Ų buried · 22 hydrogen bonds · protein-nucleic
- D–F · 1026 Ų buried · 21 hydrogen bonds · protein-nucleic
- A–B · 727 Ų buried · 63 hydrogen bonds · nucleic-nucleic
- D–E · 724 Ų buried · 64 hydrogen bonds · nucleic-nucleic
- B–C · 476 Ų buried · 3 hydrogen bonds · protein-nucleic
Compared structures
- 1G2F · Structure of a CYS2HIS2 zinc FINGER/TATA box complex (TATAZF;CLONE #6) · the same entry in another collection · chain F against F, TM-score 1.00
- P08046 · AlphaFold monomer V2.0 prediction for early growth response protein 1 (P08046) · a predicted model of the same protein · chain F against A, TM-score 0.90
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 P08046
- Elsewhere: RCSB PDB 1G2F · PDBe 1G2F · UniProt P08046
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