MolNFT v1 · #25314 · protein
Crystal structure of a putative aminomethyltransferase (ygfz) from escherichia COLI at 1.30 a resolution
1VLY · Unknown protein from 2D-page: “Crystal structure of a putative aminomethyltransferase (ygfz) from escherichia COLI at 1.30 a resolution”. X-ray diffraction, 2 ligands (CA, CL), 5 pockets (best druggability 0.72). MolNFT v1 #25314 on…
- PDB
- 1VLY
- Type
- protein
- Length
- 323 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Unknown protein from 2D-page
- UniProt
- P39179
- Ligands
- CA, CL
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 21% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Unknown protein from 2D-page | protein | 323 | 21% helix, 34% strand | P39179 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
- CL · Chloride ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 3 copies · chains A
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.72 | 0.99 | 18 | ACT |
| 2 | 158 | 0.50 | 0.78 | 20 | empty |
| 3 | 68 | 0.40 | 0.79 | 18 | EDO |
| 4 | 59 | 0.34 | 0.77 | 13 | empty |
| 5 | 58 | 0.29 | 0.74 | 15 | empty |
Modifications
Observed in the structure: 9 modified (engineered).
Compared structures
- 1VLY · Crystal structure of a putative aminomethyltransferase (ygfz) from escherichia coli at… · 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 P39179
- Elsewhere: RCSB PDB 1VLY · PDBe 1VLY · UniProt P39179
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