Research workbench
Crystal structure of a NTF2-like protein of unknown function (SBAL_0622) from shewanella baltica OS155 at 1.75 a resolution
Analyse Crystal structure of a NTF2-like protein of unknown function (SBAL_0622) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3BLZ
- Type
- protein
- Length
- 1,483 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NTF2-like protein of unknown function
- UniProt
- A3D088
- Pockets
- 16 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, G, J | NTF2-like protein of unknown function | protein | 124 | 30% helix, 48% strand | A3D088 |
| F, H, I, K, L | NTF2-like protein of unknown function | protein | 123 | 30% helix, 48% strand | A3D088 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 28 copies · chains A, B, C, D, G, E, F, H, I, J, K, L
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains B, E, F, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1155 | 0.85 | 0.85 | 141 | EDO |
| 2 | 500 | 0.78 | 0.85 | 53 | EDO |
| 3 | 437 | 0.77 | 0.85 | 55 | EDO |
| 4 | 162 | 0.65 | 0.86 | 29 | empty |
| 5 | 361 | 0.60 | 0.77 | 36 | EDO |
Interfaces
22 interfaces between chains.
- I–J · 1449 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1448 Ų buried · 15 hydrogen bonds · protein-protein
- K–L · 1441 Ų buried · 16 hydrogen bonds · protein-protein
- E–F · 1439 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1438 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 3BLZ · Crystal structure of a ntf2-like protein of unknown function (sbal_0622) from shewanella… · 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 A3D088
- Elsewhere: RCSB PDB 3BLZ · PDBe 3BLZ · UniProt A3D088
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