MolNFT v1 · #128877 · protein
Carbon regulatory pii-like protein sbtb from synechocystis sp. 6803 in apo state, trigonal crystal form
5O3P · Membrane-associated protein SLR1513: “Carbon regulatory pii-like protein sbtb from synechocystis sp. 6803 in apo state, trigonal crystal form”. X-ray diffraction, 4 pockets (best druggability 0.68). MolNFT v1 #128877 on GenesisL1…
- PDB
- 5O3P
- Type
- protein
- Length
- 297 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Membrane-associated protein SLR1513
- UniProt
- P73954
- Pockets
- 4 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 32% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Membrane-associated protein SLR1513 | protein | 97 | 33% helix, 42% strand | P73954 |
| B | Membrane-associated protein SLR1513 | protein | 101 | 32% helix, 42% strand | P73954 |
| C | Membrane-associated protein SLR1513 | protein | 99 | 32% helix, 41% strand | P73954 |
Ligands and binding sites
- 1PE · Pentaethylene glycol · additive · 2 copies · chains A, B, C
- PEG · Di(hydroxyethyl)ether · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 230 | 0.68 | 0.85 | 37 | empty |
| 2 | 264 | 0.65 | 0.82 | 26 | 1PE |
| 3 | 253 | 0.63 | 0.81 | 28 | 1PE |
| 4 | 59 | 0.28 | 0.74 | 17 | PEG |
Interfaces
3 interfaces between chains.
- A–C · 930 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 872 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 863 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 5O3P · Carbon regulatory PII-like protein SbtB from Synechocystis sp. 6803 in Apo state… · the same entry in another collection · chain A against A, TM-score 1.00
- P73954 · AlphaFold monomer V2.0 prediction for membrane-associated protein SLR1513 (P73954) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 P73954
- Elsewhere: RCSB PDB 5O3P · PDBe 5O3P · UniProt P73954
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