Research workbench
Crystal structure of the conserved archaeal protein Q6M145. northeast structural genomics consortium target MRR63
Analyse Crystal structure of the conserved archaeal protein Q6M145. northeast… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C0B
- Type
- protein
- Length
- 1,264 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Conserved archaeal protein Q6M145
- UniProt
- Q6M145
- Ligands
- CA
- Pockets
- 14 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 38% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Conserved archaeal protein Q6M145 | protein | 316 | 38% helix, 22% strand | Q6M145 |
| B | Conserved archaeal protein Q6M145 | protein | 318 | 40% helix, 22% strand | Q6M145 |
| C | Conserved archaeal protein Q6M145 | protein | 317 | 37% helix, 22% strand | Q6M145 |
| D | Conserved archaeal protein Q6M145 | protein | 313 | 39% helix, 22% strand | Q6M145 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 939 | 0.79 | 0.81 | 77 | empty |
| 2 | 756 | 0.70 | 0.77 | 82 | empty |
| 3 | 92 | 0.70 | 0.93 | 19 | empty |
| 4 | 56 | 0.70 | 0.97 | 15 | empty |
| 5 | 611 | 0.64 | 0.75 | 60 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1470 Ų buried · 17 hydrogen bonds · protein-protein
- A–C · 1054 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 147 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 35 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 12 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered).
Compared structures
- 3C0B · Crystal structure of the conserved archaeal protein Q6M145. Northeast Structural Genomics… · 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 Q6M145
- Elsewhere: RCSB PDB 3C0B · PDBe 3C0B · UniProt Q6M145
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