MolNFT v1 · #2855 · protein + DNA

Crystal structure of a human tbp core domain-human tfiib core domain complex bound to an extended, modified adenoviral major late promoter (admlp)

1C9B · Admlp tata-box DNA containing iib recognition element: “Crystal structure of a human tbp core domain-human tfiib core domain complex bound to an extended, modified…”. X-ray diffraction, 20 pockets (best druggability 0.75). MolNFT v1…

PDB: 1C9B
Type: protein + DNA
Length: 2,115 residues
Chains: 20
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Admlp tata-box DNA containing iib recognition element; General transcription factor iib…
UniProt: Q00403, P20226
Pockets: 20 · best druggability 0.75

Structure

x-ray diffraction · 4 distinct chains · 47% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C, G, K, O, S	Admlp tata-box DNA containing iib recognition element	dna	18	—	—
D, H, L, P, T	Admlp tata-box DNA containing iib recognition element	dna	18	—	—
A, E, I, M, Q	General transcription factor iib	protein	207	65% helix, 0% strand	Q00403
B, F, J, N, R	Tata box binding protein	protein	180	27% helix, 32% strand	P20226

Pockets

20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	949	0.75	0.78	75	empty
2	949	0.74	0.78	79	empty
3	783	0.71	0.77	50	empty
4	772	0.70	0.77	49	empty
5	694	0.68	0.76	51	empty

Interfaces

50 interfaces between chains.

D–B · 837 Å² buried · 9 hydrogen bonds · protein-nucleic
H–F · 826 Å² buried · 8 hydrogen bonds · protein-nucleic
L–J · 811 Å² buried · 6 hydrogen bonds · protein-nucleic
T–R · 785 Å² buried · 8 hydrogen bonds · protein-nucleic
P–N · 777 Å² buried · 8 hydrogen bonds · protein-nucleic

Compared structures

1C9B · Crystal structure of a human tbp core domain-human tfiib core domain complex bound to an… · the same entry in another collection · chain R against R, TM-score 1.00

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 Q00403
Every structure of UniProt P20226
Elsewhere: RCSB PDB 1C9B · PDBe 1C9B · UniProt Q00403 · UniProt P20226

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