MolNFT v1 · #12104 · protein + DNA
Crystal structure of a ternary sap-1/SRF/C-fos sre DNA complex
1K6O · 5'-D(*CP*AP*CP*AP*GP*GP*AP*TP*GP*TP*CP*CP*AP*TP*AP*TP*TP*AP…: “Crystal structure of a ternary sap-1/SRF/C-fos sre DNA complex”. X-ray diffraction, 5 pockets (best druggability 0.72). MolNFT v1 #12104 on GenesisL1: 3D structure…
- PDB
- 1K6O
- Type
- protein + DNA
- Length
- 304 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*CP*AP*CP*AP*GP*GP*AP*TP*GP*TP*CP*CP*AP*TP*AP*TP*TP*AP *GP*GP*AP*CP*A)-3'…
- UniProt
- P28324, P11831
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 5 distinct chains · 45% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | 5'-D(*CP*AP*CP*AP*GP*GP*AP*TP*GP*TP*CP*CP*AP*TP*AP*TP*TP*AP *GP*GP*AP*CP*A)-3' | dna | 23 | — | — |
| E | 5'-D(*TP*GP*TP*CP*CP*TP*AP*AP*TP*AP*TP*GP*GP*AP*CP*AP*TP*CP *CP*TP*GP*TP*G)-3' | dna | 23 | — | — |
| A | Ets-domain protein elk-4 | protein | 89 | 36% helix, 13% strand | P28324 |
| B | Serum response factor | protein | 85 | 47% helix, 14% strand | P11831 |
| C | Serum response factor | protein | 84 | 51% helix, 13% strand | P11831 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 472 | 0.72 | 0.82 | 46 | empty |
| 2 | 179 | 0.52 | 0.79 | 20 | empty |
| 3 | 120 | 0.42 | 0.76 | 15 | empty |
| 4 | 74 | 0.36 | 0.77 | 18 | empty |
| 5 | 52 | 0.35 | 0.80 | 11 | empty |
Interfaces
9 interfaces between chains.
- B–C · 1864 Ų buried · 12 hydrogen bonds · protein-protein
- D–E · 1030 Ų buried · 90 hydrogen bonds · nucleic-nucleic
- D–B · 616 Ų buried · 11 hydrogen bonds · protein-nucleic
- E–B · 604 Ų buried · 12 hydrogen bonds · protein-nucleic
- D–C · 557 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 1K6O · Crystal Structure of a Ternary SAP-1/SRF/c-fos SRE DNA Complex · the same entry in another collection · chain C against C, TM-score 1.00
- P28324 · AlphaFold monomer V2.0 prediction for ets domain-containing protein elk-4 (P28324) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P11831 · AlphaFold monomer V2.0 prediction for serum response factor (P11831) · 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 P28324
- Every structure of UniProt P11831
- Elsewhere: RCSB PDB 1K6O · PDBe 1K6O · UniProt P28324 · UniProt P11831
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.