Research workbench
Phob effector domain in complex with pho box DNA.
Analyse Phob effector domain in complex with pho box DNA. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1GXP
- Type
- protein + DNA
- Length
- 500 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphate regulon transcriptional regulatory protein…
- UniProt
- P08402
- Pockets
- 9 · best druggability 0.59
Structure
x-ray diffraction · 5 distinct chains · 36% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphate regulon transcriptional regulatory protein | protein | 103 | 37% helix, 22% strand | P08402 |
| B | Phosphate regulon transcriptional regulatory protein | protein | 101 | 37% helix, 22% strand | P08402 |
| C, G | 5'-D(*GP*AP*GP*CP*TP*GP*TP*CP*AP*TP* AP*AP*AP*GP*TP*TP*GP*TP*CP*AP*CP*GP*G)-3' | dna | 23 | — | — |
| D, H | 5'-D(*CP*CP*CP*GP*TP*GP*AP*CP*AP*AP* CP*TP*TP*TP*AP*TP*GP*AP*CP*AP*GP*CP*T)-3' | dna | 23 | — | — |
| E, F | Phosphate regulon transcriptional regulatory protein | protein | 102 | 34% helix, 22% strand | P08402 |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 283 | 0.59 | 0.78 | 30 | empty |
| 2 | 252 | 0.57 | 0.78 | 29 | empty |
| 3 | 136 | 0.43 | 0.76 | 17 | empty |
| 4 | 158 | 0.42 | 0.74 | 19 | empty |
| 5 | 141 | 0.40 | 0.74 | 17 | empty |
Interfaces
15 interfaces between chains.
- C–D · 979 Ų buried · 72 hydrogen bonds · nucleic-nucleic
- G–H · 978 Ų buried · 69 hydrogen bonds · nucleic-nucleic
- F–H · 520 Ų buried · 14 hydrogen bonds · protein-nucleic
- B–D · 513 Ų buried · 14 hydrogen bonds · protein-nucleic
- E–G · 479 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 1GXP · PhoB effector domain in complex with pho box DNA. · 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 P08402
- Elsewhere: RCSB PDB 1GXP · PDBe 1GXP · UniProt P08402
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