Research workbench
Crystal structure of putative diflavin flavoprotein a 5 (fragment 1- 254) from nostoc sp. pcc 7120, northeast structural genomics consortium target NSR435A , northeast structural genomics consortium (nesg) target NSR435A
Analyse Crystal structure of putative diflavin flavoprotein a 5 (fragment 1- 254) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4FEK
- Type
- protein
- Length
- 500 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative diflavin flavoprotein a 5
- EC
- 1.-.-.-
- UniProt
- Q8Z0C1
- Ligands
- PO4, CL
- Pockets
- 7 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative diflavin flavoprotein a 5 (EC 1.-.-.-) | protein | 252 | 35% helix, 27% strand | Q8Z0C1 |
| B | Putative diflavin flavoprotein a 5 (EC 1.-.-.-) | protein | 248 | 33% helix, 27% strand | Q8Z0C1 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
- CL · Chloride ion · ion · chains A
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.67 | 0.95 | 20 | empty |
| 2 | 328 | 0.60 | 0.78 | 39 | empty |
| 3 | 101 | 0.49 | 0.81 | 20 | PO4 |
| 4 | 107 | 0.46 | 0.79 | 21 | PO4 |
| 5 | 51 | 0.36 | 0.80 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 321 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 4FEK · Crystal Structure of putative diflavin flavoprotein A 5 (fragment 1-254) from Nostoc sp.… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8Z0C1 · AlphaFold monomer V2.0 prediction for putative diflavin flavoprotein a 5 (Q8Z0C1) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q8Z0C1
- Elsewhere: RCSB PDB 4FEK · PDBe 4FEK · UniProt Q8Z0C1
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