Research workbench
A 2.2A crystal structure of the AP2 domain of PF14_0633 from P. falciparum, bound as a domain-swapped dimer to its cognate DNA
Analyse A 2.2A crystal structure of the AP2 domain of PF14_0633 from P. falciparum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IGM
- Type
- protein + DNA
- Length
- 149 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PF14_0633 protein; 5'-D(*TP*GP*CP*AP*TP*GP*CP*A)-3'
- UniProt
- Q8IKH2
- Pockets
- 2 · best druggability 0.33
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | PF14_0633 protein | protein | 62 | 29% helix, 31% strand | Q8IKH2 |
| W, X, C | 5'-D(*TP*GP*CP*AP*TP*GP*CP*A)-3' | dna | 8 | — | — |
| A | PF14_0633 protein | protein | 56 | 34% helix, 34% strand | Q8IKH2 |
| D | 5'-D(*TP*GP*CP*AP*TP*GP*CP*A)-3' | dna | 7 | — | — |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.33 | 0.77 | 16 | empty |
| 2 | 85 | 0.31 | 0.73 | 21 | empty |
Interfaces
7 interfaces between chains.
- B–A · 1592 Ų buried · 14 hydrogen bonds · protein-protein
- B–X · 469 Ų buried · 9 hydrogen bonds · protein-nucleic
- A–D · 461 Ų buried · 12 hydrogen bonds · protein-nucleic
- A–C · 399 Ų buried · 10 hydrogen bonds · protein-nucleic
- B–W · 391 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 3IGM · A 2.2A crystal structure of the AP2 domain of PF14_0633 from P. falciparum, bound as a… · the same entry in another collection · chain B against B, 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 Q8IKH2
- Elsewhere: RCSB PDB 3IGM · PDBe 3IGM · UniProt Q8IKH2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.