Research workbench
Crystal structure of C/EBPBETA bzip homodimer bound to a DNA fragment from the tom-1A promoter
Analyse Crystal structure of C/EBPBETA bzip homodimer bound to a DNA fragment from the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1GTW
- Type
- protein + DNA
- Length
- 164 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CAAT/ENHANCER binding protein beta; 5'-D(*AP*AP*TP*GP*TP*GP*GP*CP*GP*CP*…
- UniProt
- P17676
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 89% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CAAT/ENHANCER binding protein beta | protein | 65 | 88% helix, 0% strand | P17676 |
| B | CAAT/ENHANCER binding protein beta | protein | 67 | 91% helix, 0% strand | P17676 |
| C | 5'-D(*AP*AP*TP*GP*TP*GP*GP*CP*GP*CP* AP*AP*TP*CP*CP*T)-3' | dna | 16 | — | — |
| D | 5'-D(*TP*AP*GP*GP*AP*TP*TP*GP*CP*GP* CP*CP*AP*CP*AP*T)-3' | dna | 16 | — | — |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.69 | 0.79 | 32 | empty |
| 2 | 148 | 0.47 | 0.78 | 18 | empty |
| 3 | 82 | 0.36 | 0.76 | 13 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1007 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 668 Ų buried · 54 hydrogen bonds · nucleic-nucleic
- A–C · 415 Ų buried · 13 hydrogen bonds · protein-nucleic
- B–C · 373 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–D · 371 Ų buried · 5 hydrogen bonds · protein-nucleic
Compared structures
- 1GTW · crystal structure of C/EBPbeta bZip homodimer bound to a DNA fragment from the tom-1A… · the same entry in another collection · chain A against A, TM-score 1.00
- P17676 · AlphaFold monomer V2.0 prediction for CCAAT/ENHANCER-binding protein beta (P17676) · a predicted model of the same protein · chain B 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 P17676
- Elsewhere: RCSB PDB 1GTW · PDBe 1GTW · UniProt P17676
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