MolNFT v1 · #9113 · protein
Amino acid sequence of a globin from the sea cucumber caudina (molpadia) arenicola
1HLM · Hemoglobin (cyano met): “Amino acid sequence of a globin from the sea cucumber caudina (molpadia) arenicola”. X-ray diffraction, 3 ligands (ACE, HEM, CYN), 3 pockets (best druggability 0.80). MolNFT v1 #9113 on GenesisL1: 3D…
- PDB
- 1HLM
- Type
- protein
- Length
- 158 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemoglobin (cyano met)
- UniProt
- P80017
- Ligands
- ACE, HEM, CYN
- Pockets
- 3 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 56% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemoglobin (cyano met) | protein | 158 | 56% helix, 0% strand | P80017 |
Ligands and binding sites
- ACE · Acetyl group · ligand · chains A
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- CYN · Cyanide ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 526 | 0.80 | 0.86 | 47 | CYN, HEM |
| 2 | 53 | 0.33 | 0.78 | 14 | empty |
| 3 | 51 | 0.26 | 0.74 | 13 | empty |
Modifications
Observed in the structure: 1 covalent (covalent ligand).
Compared structures
- 1HLM · Amino acid sequence of a globin from the sea cucumber caudina (molpadia) arenicola · the same entry in another collection · chain A against A, TM-score 1.00
- P80017 · AlphaFold monomer V2.0 prediction for globin D, coelomic (P80017) · a predicted model of the same protein · chain A against A, TM-score 0.83
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 P80017
- Elsewhere: RCSB PDB 1HLM · PDBe 1HLM · UniProt P80017
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