Research workbench
Lpoa (yram) C-domain from haemophilus influenzae, a regulator of PBP1A
Analyse Lpoa (yram) C-domain from haemophilus influenzae, a regulator of PBP1A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CKM
- Type
- protein
- Length
- 318 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Yram (HI1655)
- UniProt
- P45299
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Yram (HI1655) | protein | 318 | 44% helix, 20% strand | P45299 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 437 | 0.64 | 0.78 | 56 | SO4 |
| 2 | 109 | 0.43 | 0.77 | 19 | BME |
Modifications
Observed in the structure: 9 modified, 1 disulfide (engineered, disulfide).
Compared structures
- 3CKM · LpoA (YraM) C-domain from Haemophilus influenzae, a regulator of PBP1A · the same entry in another collection · chain A against A, TM-score 1.00
- P45299 · AlphaFold monomer V2.0 prediction for penicillin-binding protein activator lpoa (P45299) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P45299
- Elsewhere: RCSB PDB 3CKM · PDBe 3CKM · UniProt P45299
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