Research workbench
Three-dimensional structure of cobt in complex with the reaction products of 5-methylbenzimidazole and namn
Analyse Three-dimensional structure of cobt in complex with the reaction products of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1JHO
- Type
- protein
- Length
- 346 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nicotinate MONONUCLEOTIDE:5,6-dimethylbenzimidazole phosphoribosyltransferase
- UniProt
- Q05603
- Ligands
- RMB, NIO
- Pockets
- 1 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nicotinate MONONUCLEOTIDE:5,6-dimethylbenzimidazole phosphoribosyltransferase | protein | 346 | 52% helix, 11% strand | Q05603 |
Ligands and binding sites
- RMB · N1-(5'-phospho-alpha-ribosyl)-5-methylbenzimidazole · ligand · chains A
- NIO · Nicotinic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 166 | 0.67 | 0.87 | 34 | RMB, NIO |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1JHO · Three-dimensional Structure of CobT in Complex with the Reaction Products of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q05603 · AlphaFold monomer V2.0 prediction for nicotinate-nucleotide-- dimethylbenzimidazole… · a predicted model of the same protein · 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 Q05603
- Elsewhere: RCSB PDB 1JHO · PDBe 1JHO · UniProt Q05603
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