MolNFT v1 · #68638 · protein
Crystal structure of SLR1438 protein from synechocystis sp. pcc 6803, northeast structural genomics consortium target SGR112
3K25: “Crystal structure of SLR1438 protein from synechocystis sp. pcc 6803, northeast structural genomics…”. X-ray diffraction, 1 ligand (PO4), 6 pockets (best druggability 0.47). MolNFT v1 #68638 on GenesisL1: 3D structure, binding sites…
- PDB
- 3K25
- Type
- protein
- Length
- 578 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SLR1438 protein
- UniProt
- P73504
- Ligands
- PO4
- Pockets
- 6 · best druggability 0.47
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | SLR1438 protein | protein | 289 | 7% helix, 50% strand | P73504 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 179 | 0.47 | 0.75 | 24 | empty |
| 2 | 104 | 0.45 | 0.79 | 19 | empty |
| 3 | 82 | 0.43 | 0.80 | 19 | PO4 |
| 4 | 91 | 0.35 | 0.74 | 16 | empty |
| 5 | 53 | 0.32 | 0.77 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1425 Ų buried · 25 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 3K25 · Crystal Structure of Slr1438 protein from Synechocystis sp. PCC 6803, Northeast… · the same entry in another collection · chain A against A, 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 P73504
- Elsewhere: RCSB PDB 3K25 · PDBe 3K25 · UniProt P73504
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