MolNFT v1 · #178530 · protein + DNA

Structure of FOXM1 homodimer bound to a palindromic DNA site

7FJ2 · Forkhead box protein M1: “Structure of FOXM1 homodimer bound to a palindromic DNA site”. X-ray diffraction, 4 pockets (best druggability 0.61). MolNFT v1 #178530 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7FJ2
Type: protein + DNA
Length: 394 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Forkhead box protein M1; DNA (5'- D(*AP*CP*CP*GP*TP*AP*AP*AP*CP*AP*TP*GP*TP*TP*TP*AP*CP*GP…
UniProt: Q08050
Pockets: 4 · best druggability 0.61

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, E	Forkhead box protein M1	protein	79	47% helix, 16% strand	Q08050
B	Forkhead box protein M1	protein	76	47% helix, 14% strand	Q08050
C, D, G, H	DNA (5'- D(APCPCPGPTPAPAPAPCPAPTPGPTPTPTPAPCPGPGPT)-3')	dna	20	—	—
F	Forkhead box protein M1	protein	80	46% helix, 14% strand	Q08050

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	307	0.61	0.79	44	empty
2	246	0.57	0.79	38	empty
3	50	0.31	0.77	11	empty
4	50	0.26	0.74	16	empty

Interfaces

13 interfaces between chains.

G–H · 883 Å² buried · 82 hydrogen bonds · nucleic-nucleic
C–D · 875 Å² buried · 89 hydrogen bonds · nucleic-nucleic
B–C · 445 Å² buried · 8 hydrogen bonds · protein-nucleic
F–G · 443 Å² buried · 5 hydrogen bonds · protein-nucleic
A–D · 442 Å² buried · 10 hydrogen bonds · protein-nucleic

Compared structures

7FJ2 · Structure of FOXM1 homodimer bound to a palindromic DNA site · the same entry in another collection · chain H against H, TM-score 1.00
Q08050 · AlphaFold monomer V2.0 prediction for forkhead box protein M1 (Q08050) · a predicted model of the same protein · chain B 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 Q08050
Elsewhere: RCSB PDB 7FJ2 · PDBe 7FJ2 · UniProt Q08050

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