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Crystal structure of bz junction in diverse sequence
Analyse Crystal structure of bz junction in diverse sequence in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ZUO
- Type
- protein + DNA
- Length
- 278 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Double-stranded RNA-specific adenosine deaminase; DNA (5'…
- EC
- 3.5.4.37
- UniProt
- P55265
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 6 distinct chains · 50% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Double-stranded RNA-specific adenosine deaminase (EC 3.5.4.37) | protein | 51 | 49% helix, 18% strand | P55265 |
| B | Double-stranded RNA-specific adenosine deaminase (EC 3.5.4.37) | protein | 66 | 47% helix, 14% strand | P55265 |
| C | Double-stranded RNA-specific adenosine deaminase (EC 3.5.4.37) | protein | 64 | 50% helix, 17% strand | P55265 |
| D | Double-stranded RNA-specific adenosine deaminase (EC 3.5.4.37) | protein | 63 | 54% helix, 14% strand | P55265 |
| E | DNA (5'- D(*GP*TP*CP*GP*CP*GP*CP*GP*CP*GP*AP*TP*AP*AP*AP*CP*C)-3') | dna | 17 | — | — |
| F | DNA (5'- D(*AP*CP*GP*GP*TP*TP*TP*AP*TP*CP*GP*CP*GP*CP*GP*CP*G)-3') | dna | 17 | — | — |
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 592 | 0.70 | 0.79 | 49 | empty |
| 2 | 407 | 0.57 | 0.74 | 31 | empty |
| 3 | 305 | 0.54 | 0.76 | 21 | empty |
Interfaces
12 interfaces between chains.
- E–F · 734 Ų buried · 78 hydrogen bonds · nucleic-nucleic
- D–F · 455 Ų buried · 5 hydrogen bonds · protein-nucleic
- B–E · 376 Ų buried · 6 hydrogen bonds · protein-nucleic
- C–F · 373 Ų buried · 6 hydrogen bonds · protein-nucleic
- A–E · 361 Ų buried · 5 hydrogen bonds · protein-nucleic
Compared structures
- 5ZUO · Crystal Structure of BZ junction in diverse sequence · the same entry in another collection · chain F against F, TM-score 1.00
- P55265 · AlphaFold monomer V2.0 prediction for double-stranded RNA-specific adenosine deaminase… · a predicted model of the same protein · chain C against A, TM-score 0.95
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 P55265
- Elsewhere: RCSB PDB 5ZUO · PDBe 5ZUO · UniProt P55265
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