Research workbench
Crystal structure of ybea CP74 W48F
Analyse Crystal structure of ybea CP74 W48F in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CFY
- Type
- protein
- Length
- 587 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosomal RNA large subunit methyltransferase H,RIBOSOMAL RNA large subunit…
- EC
- 2.1.1.177
- UniProt
- P0A8I8
- Pockets
- 6 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 39% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosomal RNA large subunit methyltransferase H,RIBOSOMAL RNA large subunit methyltransferase H (EC 2.1.1.177) | protein | 146 | 37% helix, 17% strand | P0A8I8 |
| B | Ribosomal RNA large subunit methyltransferase H,RIBOSOMAL RNA large subunit methyltransferase H (EC 2.1.1.177) | protein | 144 | 38% helix, 20% strand | P0A8I8 |
| C | Ribosomal RNA large subunit methyltransferase H,RIBOSOMAL RNA large subunit methyltransferase H (EC 2.1.1.177) | protein | 145 | 41% helix, 17% strand | P0A8I8 |
| D | Ribosomal RNA large subunit methyltransferase H,RIBOSOMAL RNA large subunit methyltransferase H (EC 2.1.1.177) | protein | 152 | 41% helix, 18% strand | P0A8I8 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 970 | 0.76 | 0.79 | 70 | empty |
| 2 | 290 | 0.62 | 0.79 | 36 | empty |
| 3 | 542 | 0.62 | 0.75 | 52 | empty |
| 4 | 78 | 0.33 | 0.74 | 12 | empty |
| 5 | 66 | 0.33 | 0.76 | 16 | empty |
Interfaces
6 interfaces between chains.
- C–D · 4504 Ų buried · 80 hydrogen bonds · protein-protein
- A–B · 4374 Ų buried · 73 hydrogen bonds · protein-protein
- B–D · 541 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 329 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 133 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
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 P0A8I8
- Elsewhere: RCSB PDB 7CFY · PDBe 7CFY · UniProt P0A8I8
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