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Crystal structure of the 2/2 hemoglobin from synechococcus sp. pcc 7002 in the cyanomet state and with covalently attached heme
Analyse Crystal structure of the 2/2 hemoglobin from synechococcus sp. pcc 7002 in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4L2M
- Type
- protein
- Length
- 246 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cyanoglobin
- UniProt
- Q8RT58
- Ligands
- HEB, SO4, CYN
- Pockets
- 2 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cyanoglobin | protein | 123 | 70% helix, 0% strand | Q8RT58 |
Ligands and binding sites
- HEB · Heme B/C · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 3 copies · chains A, B
- CYN · Cyanide ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 655 | 0.75 | 0.81 | 69 | HEB, CYN |
| 2 | 292 | 0.72 | 0.85 | 34 | HEB, CYN |
Interfaces
1 interface between chains.
- A–B · 412 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent (covalent ligand).
Compared structures
- 4L2M · Crystal structure of the 2/2 hemoglobin from Synechococcus sp. PCC 7002 in the cyanomet… · 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 Q8RT58
- Elsewhere: RCSB PDB 4L2M · PDBe 4L2M · UniProt Q8RT58
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