Research workbench
Crystal structure of adenosylhomocysteinase from elizabethkingia anophelis NUHP1 in complex with NAD and adenosine
Analyse Crystal structure of adenosylhomocysteinase from elizabethkingia anophelis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6APH
- Type
- protein
- Length
- 432 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenosylhomocysteinase
- EC
- 3.3.1.1
- UniProt
- A0A077EDS4
- Ligands
- NAD, ADN
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenosylhomocysteinase (EC 3.3.1.1) | protein | 432 | 49% helix, 16% strand | A0A077EDS4 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · chains A
- ADN · Adenosine · ligand · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · 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 | 358 | 0.70 | 0.83 | 55 | NAD, ADN |
| 2 | 114 | 0.40 | 0.75 | 15 | empty |
| 3 | 68 | 0.32 | 0.75 | 14 | empty |
| 4 | 62 | 0.30 | 0.75 | 19 | empty |
| 5 | 58 | 0.28 | 0.74 | 14 | empty |
Compared structures
- 6APH · Crystal structure of Adenosylhomocysteinase from Elizabethkingia anophelis NUHP1 in… · 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 A0A077EDS4
- Elsewhere: RCSB PDB 6APH · PDBe 6APH · UniProt A0A077EDS4
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