Research workbench
Hepatocyte nuclear factor 1B bound to DNA: MODY5 gene product
Analyse Hepatocyte nuclear factor 1B bound to DNA: MODY5 gene product in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2H8R
- Type
- protein + DNA
- Length
- 392 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hepatocyte nuclear factor 1-beta; 5'- D(*CP*TP*TP*GP*GP*TP*TP*AP*AP*TP*AP*AP*TP*TP*CP*AP*C…
- UniProt
- P35680
- Pockets
- 7 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 68% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hepatocyte nuclear factor 1-beta | protein | 176 | 68% helix, 0% strand | P35680 |
| B | Hepatocyte nuclear factor 1-beta | protein | 176 | 68% helix, 0% strand | P35680 |
| E | 5'- D(*CP*TP*TP*GP*GP*TP*TP*AP*AP*TP*AP*AP*TP*TP*CP*AP*CP*CP*AP *G)-3' | dna | 20 | — | — |
| F | 5'- D(*GP*CP*TP*GP*GP*TP*GP*AP*AP*TP*TP*AP*TP*TP*AP*AP*CP*CP*AP *a)-3' | dna | 20 | — | — |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 788 | 0.76 | 0.81 | 73 | empty |
| 2 | 124 | 0.62 | 0.87 | 25 | empty |
| 3 | 167 | 0.50 | 0.78 | 27 | empty |
| 4 | 95 | 0.36 | 0.75 | 15 | empty |
| 5 | 115 | 0.36 | 0.74 | 16 | empty |
Interfaces
6 interfaces between chains.
- E–F · 827 Ų buried · 77 hydrogen bonds · nucleic-nucleic
- A–F · 729 Ų buried · 9 hydrogen bonds · protein-nucleic
- B–E · 723 Ų buried · 11 hydrogen bonds · protein-nucleic
- A–E · 719 Ų buried · 17 hydrogen bonds · protein-nucleic
- B–F · 715 Ų buried · 19 hydrogen bonds · protein-nucleic
Compared structures
- 2H8R · Hepatocyte Nuclear Factor 1b bound to DNA: MODY5 Gene Product · the same entry in another collection · chain A against A, TM-score 1.00
- P35680 · AlphaFold monomer V2.0 prediction for hepatocyte nuclear factor 1-beta (P35680) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P35680
- Elsewhere: RCSB PDB 2H8R · PDBe 2H8R · UniProt P35680
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