MolNFT v1 · #106078 · protein + DNA

Human tfiib-related factor 2 (BRF2) and tbp bound to TRNAU1 promoter

4ROD · Transcription factor iiib 50 kda subunit: “Human tfiib-related factor 2 (BRF2) and tbp bound to TRNAU1 promoter”. X-ray diffraction, 6 pockets (best druggability 0.73). MolNFT v1 #106078 on GenesisL1: 3D structure, binding sites and…

PDB: 4ROD
Type: protein + DNA
Length: 534 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
Pockets: 6 · best druggability 0.73

Structure

x-ray diffraction · 4 distinct chains · 49% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Transcription factor iiib 50 kda subunit	protein	302	62% helix, 1% strand	Q9HAW0
B	Tata-box-binding protein	protein	177	27% helix, 38% strand	P20226
N	Template strand	dna	27	—	—
T	Non-template strand	dna	28	—	—

Pockets

6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1136	0.73	0.77	85	empty
2	625	0.64	0.75	48	empty
3	272	0.53	0.75	31	empty
4	109	0.50	0.82	17	empty
5	164	0.50	0.78	27	empty

Interfaces

6 interfaces between chains.

A–B · 2182 Å² buried · 33 hydrogen bonds · protein-protein
N–T · 1233 Å² buried · 121 hydrogen bonds · nucleic-nucleic
B–T · 861 Å² buried · 6 hydrogen bonds · protein-nucleic
B–N · 757 Å² buried · 5 hydrogen bonds · protein-nucleic
A–T · 594 Å² buried · 8 hydrogen bonds · protein-nucleic

Compared structures

4ROD · Human TFIIB-related factor 2 (Brf2) and TBP bound to TRNAU1 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 4ROD · PDBe 4ROD · UniProt Q9HAW0 · UniProt P20226

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.