MolNFT v1 · #34430 · protein
Crystal structure of a cyclized protein fusion of LMO4 lim domains 1 and 2 with the lim interacting domain of LDB1
2DFY · Fusion protein of lim domain transcription factor LMO4 and…: “Crystal structure of a cyclized protein fusion of LMO4 lim domains 1 and 2 with the lim interacting domain of…”. X-ray diffraction, 1 ligand (ZN), 1 pocket (best…
- PDB
- 2DFY
- Type
- protein
- Length
- 316 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fusion protein of lim domain transcription factor LMO4 and lim domain-binding protein 1
- UniProt
- P61969
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 13% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X, C | Fusion protein of lim domain transcription factor LMO4 and lim domain-binding protein 1 | protein | 158 | 13% helix, 35% strand | P61969 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 412 | 0.65 | 0.79 | 37 | empty |
Interfaces
1 interface between chains.
- X–C · 438 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2DFY · Crystal structure of a cyclized protein fusion of LMO4 LIM domains 1 and 2 with the LIM… · the same entry in another collection · chain X against X, TM-score 1.00
- P61969 · AlphaFold monomer V2.0 prediction for lim domain transcription factor LMO4 (P61969) · a predicted model of the same protein · chain X against A, TM-score 0.83
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 P61969
- Elsewhere: RCSB PDB 2DFY · PDBe 2DFY · UniProt P61969
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