Research workbench
Crystal structure of pmod soluble domain from methylocystis sp. atcc 49242 (rockwell)
Analyse Crystal structure of pmod soluble domain from methylocystis sp. atcc 49242… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CPD
- Type
- protein
- Length
- 253 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pmod
- Ligands
- CU1, SO4
- Pockets
- 1 · best druggability 0.28
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pmod | protein | 126 | 10% helix, 55% strand | — |
| B | Pmod | protein | 127 | 9% helix, 54% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 57 | 0.28 | 0.74 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1053 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6CPD · Crystal structure of PmoD soluble domain from Methylocystis sp. ATCC 49242 (Rockwell) · 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
- Elsewhere: RCSB PDB 6CPD · PDBe 6CPD
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