MolNFT v1 · #179013 · protein + DNA
Crystal structure of the DNA binding domain of human transcription factor erf in the oxidized form, in complex with double-stranded DNA accggaagtg
7JSL · DNA (5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*G)-3'): “Crystal structure of the DNA binding domain of human transcription factor erf in the oxidized form, in…”. X-ray diffraction, 6 pockets (best druggability 0.40). MolNFT v1 #179013 on…
- PDB
- 7JSL
- Type
- protein + DNA
- Length
- 409 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*G)-3'); DNA…
- UniProt
- P50548
- Pockets
- 6 · best druggability 0.40
Structure
x-ray diffraction · 4 distinct chains · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A, F, I | DNA (5'-D(*AP*CP*CP*GP*GP*AP*AP*GP*TP*G)-3') | dna | 10 | — | — |
| C, D, G, K | DNA (5'-D(*CP*AP*CP*TP*TP*CP*CP*GP*GP*T)-3') | dna | 10 | — | — |
| J, E, L | Ets domain-containing transcription factor erf | protein | 82 | 44% helix, 17% strand | P50548 |
| H | Ets domain-containing transcription factor erf | protein | 83 | 45% helix, 17% strand | P50548 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 168 | 0.40 | 0.73 | 21 | empty |
| 2 | 93 | 0.37 | 0.75 | 23 | empty |
| 3 | 101 | 0.37 | 0.75 | 24 | empty |
| 4 | 123 | 0.36 | 0.73 | 14 | empty |
| 5 | 74 | 0.28 | 0.73 | 10 | empty |
Interfaces
24 interfaces between chains.
- J–H · 701 Ų buried · 2 hydrogen bonds · protein-protein
- E–L · 672 Ų buried · 2 hydrogen bonds · protein-protein
- D–E · 548 Ų buried · 10 hydrogen bonds · protein-nucleic
- C–J · 543 Ų buried · 10 hydrogen bonds · protein-nucleic
- G–H · 540 Ų buried · 8 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7JSL · Crystal structure of the DNA binding domain of human transcription factor ERF in the… · the same entry in another collection · chain L against L, 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 P50548
- Elsewhere: RCSB PDB 7JSL · PDBe 7JSL · UniProt P50548
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