MolNFT v1 · #106079 · protein + DNA
Human tfiib-related factor 2 (BRF2) and tbp bound to RPPH1 promoter
4ROE · Transcription factor iiib 50 kda subunit: “Human tfiib-related factor 2 (BRF2) and tbp bound to RPPH1 promoter”. X-ray diffraction, 1 ligand (MG), 9 pockets (best druggability 0.71). MolNFT v1 #106079 on GenesisL1: 3D structure…
- PDB
- 4ROE
- Type
- protein + DNA
- Length
- 537 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription factor iiib 50 kda subunit; Tata-box-binding protein; Template strand…
- UniProt
- Q9HAW0, P20226
- Ligands
- MG
- Pockets
- 9 · best druggability 0.71
Structure
x-ray diffraction · 4 distinct chains · 48% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription factor iiib 50 kda subunit | protein | 307 | 61% helix, 1% strand | Q9HAW0 |
| B | Tata-box-binding protein | protein | 177 | 27% helix, 38% strand | P20226 |
| N | Template strand | dna | 26 | — | — |
| T | Non-template strand | dna | 27 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains N, T
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 905 | 0.71 | 0.76 | 57 | MG |
| 2 | 126 | 0.56 | 0.83 | 20 | empty |
| 3 | 262 | 0.52 | 0.75 | 31 | empty |
| 4 | 115 | 0.46 | 0.79 | 21 | empty |
| 5 | 166 | 0.40 | 0.73 | 26 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2049 Ų buried · 36 hydrogen bonds · protein-protein
- N–T · 1136 Ų buried · 97 hydrogen bonds · nucleic-nucleic
- B–T · 866 Ų buried · 8 hydrogen bonds · protein-nucleic
- B–N · 775 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–T · 527 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 4ROE · Human TFIIB-related factor 2 (Brf2) and TBP bound to RPPH1 promoter · the same entry in another collection · chain A against A, TM-score 1.00
- P20226 · AlphaFold monomer V2.0 prediction for tata-box-binding protein (P20226) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q9HAW0 · AlphaFold monomer V2.0 prediction for transcription factor iiib 50 kda subunit (Q9HAW0) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9HAW0
- Every structure of UniProt P20226
- Elsewhere: RCSB PDB 4ROE · PDBe 4ROE · UniProt Q9HAW0 · UniProt P20226
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.