Research workbench
Crystallographic analysis of oxygenated and deoxygenated states of arthropod hemocyanin shows unusual differences
Analyse Crystallographic analysis of oxygenated and deoxygenated states of arthropod… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OXY
- Type
- protein
- Length
- 573 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemocyanin (subunit type II)
- UniProt
- P04253
- Ligands
- CU, OXY
- Pockets
- 9 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemocyanin (subunit type II) | protein | 573 | 36% helix, 19% strand | P04253 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 145 | 0.65 | 0.87 | 31 | empty |
| 2 | 268 | 0.58 | 0.78 | 36 | empty |
| 3 | 256 | 0.52 | 0.75 | 41 | empty |
| 4 | 73 | 0.49 | 0.83 | 25 | empty |
| 5 | 138 | 0.44 | 0.76 | 16 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 1OXY · Crystallographic analysis of oxygenated and deoxygenated states of arthropod hemocyanin… · the same entry in another collection · chain A against A, TM-score 1.00
- P04253 · AlphaFold monomer V2.0 prediction for hemocyanin II (P04253) · a predicted model of the same protein · 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 P04253
- Elsewhere: RCSB PDB 1OXY · PDBe 1OXY · UniProt P04253
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