Research workbench
Plasmodium falciparum ssb complex with ssdna
Analyse Plasmodium falciparum ssb complex with ssdna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ULP
- Type
- protein + DNA
- Length
- 507 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Single-strand binding protein; DNA (35-mer)
- UniProt
- Q8I415
- Pockets
- 11 · best druggability 0.79
Structure
x-ray diffraction · 5 distinct chains · 9% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Single-strand binding protein | protein | 114 | 9% helix, 57% strand | Q8I415 |
| B | Single-strand binding protein | protein | 114 | 9% helix, 57% strand | Q8I415 |
| C | Single-strand binding protein | protein | 116 | 9% helix, 56% strand | Q8I415 |
| D | Single-strand binding protein | protein | 113 | 9% helix, 58% strand | Q8I415 |
| R, Q | DNA (35-mer) | dna | 25 | — | — |
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1046 | 0.79 | 0.81 | 81 | empty |
| 2 | 769 | 0.73 | 0.78 | 67 | empty |
| 3 | 182 | 0.52 | 0.78 | 27 | empty |
| 4 | 57 | 0.49 | 0.86 | 23 | empty |
| 5 | 91 | 0.46 | 0.81 | 15 | empty |
Interfaces
13 interfaces between chains.
- A–R · 1577 Ų buried · 23 hydrogen bonds · protein-nucleic
- C–D · 1570 Ų buried · 36 hydrogen bonds · protein-protein
- D–Q · 1510 Ų buried · 23 hydrogen bonds · protein-nucleic
- A–B · 1510 Ų buried · 35 hydrogen bonds · protein-protein
- C–Q · 1480 Ų buried · 24 hydrogen bonds · protein-nucleic
Compared structures
- 3ULP · Plasmodium falciparum SSB complex with ssDNA · the same entry in another collection · 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 Q8I415
- Elsewhere: RCSB PDB 3ULP · PDBe 3ULP · UniProt Q8I415
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