MolNFT v1 · #145050 · protein
Crystal structure of E.COLI phosphopantetheine adenylyltransferase (PPAT/COAD) in complex with 2-((3-BROMOBENZYL)AMINO)-5-methyl-[1,2, 4]TRIAZOLO[1,5-A]PYRIMIDIN-7(4H)-one
6CCM: “Crystal structure of E.COLI phosphopantetheine adenylyltransferase (PPAT/COAD) in complex with…”. X-ray diffraction, 2 ligands (EXP, SO4), 2 pockets (best druggability 0.63). MolNFT v1 #145050 on GenesisL1: 3D structure, binding…
- PDB
- 6CCM
- Type
- protein
- Length
- 318 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphopantetheine adenylyltransferase
- EC
- 2.7.7.3
- UniProt
- P0A6I6
- Ligands
- EXP, SO4
- Pockets
- 2 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphopantetheine adenylyltransferase (EC 2.7.7.3) | protein | 160 | 46% helix, 18% strand | P0A6I6 |
| B | Phosphopantetheine adenylyltransferase (EC 2.7.7.3) | protein | 158 | 49% helix, 18% strand | P0A6I6 |
Ligands and binding sites
- EXP · 2-{[(3-bromophenyl)methyl]amino}-5-methyl[1,2, 4]triazolo[1,5-a]pyrimidin-7(6H)-one · ligand · chains A
- SO4 · Sulfate ion · ion · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 297 | 0.63 | 0.80 | 38 | SO4 |
| 2 | 315 | 0.62 | 0.79 | 39 | EXP, SO4 |
Interfaces
1 interface between chains.
- A–B · 1202 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 6CCM · Crystal structure of E.coli Phosphopantetheine Adenylyltransferase (PPAT/CoaD) in complex… · the same entry in another collection · chain A against A, TM-score 1.00
- P0A6I6 · AlphaFold monomer V2.0 prediction for phosphopantetheine adenylyltransferase (P0A6I6) · a predicted model of the same protein · chain B 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 P0A6I6
- Elsewhere: RCSB PDB 6CCM · PDBe 6CCM · UniProt P0A6I6
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