Research workbench
Structure of raca-DNA complex; P21 form
Analyse Structure of raca-DNA complex; P21 form in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5I44
- Type
- protein + DNA
- Length
- 752 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chromosome-anchoring protein raca; DNA (5'-D(*TP*GP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*CP*A)-3'…
- UniProt
- P45870
- Pockets
- 18 · best druggability 0.79
Structure
x-ray diffraction · 7 distinct chains · 53% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, E, F | Chromosome-anchoring protein raca | protein | 68 | 54% helix, 13% strand | P45870 |
| A, D, J | Chromosome-anchoring protein raca | protein | 67 | 51% helix, 10% strand | P45870 |
| G | Chromosome-anchoring protein raca | protein | 68 | 53% helix, 10% strand | P45870 |
| H | Chromosome-anchoring protein raca | protein | 64 | 55% helix, 3% strand | P45870 |
| I | Chromosome-anchoring protein raca | protein | 65 | 48% helix, 6% strand | P45870 |
| K | Chromosome-anchoring protein raca | protein | 66 | 55% helix, 11% strand | P45870 |
| U, T, Z, R, P, W | DNA (5'-D(*TP*GP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*CP*A)-3') | dna | 14 | — | — |
Pockets
18 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1087 | 0.79 | 0.81 | 109 | empty |
| 2 | 86 | 0.72 | 0.96 | 19 | empty |
| 3 | 80 | 0.70 | 0.95 | 17 | empty |
| 4 | 96 | 0.70 | 0.94 | 24 | empty |
| 5 | 442 | 0.65 | 0.78 | 22 | empty |
Interfaces
48 interfaces between chains.
- R–P · 642 Ų buried · 62 hydrogen bonds · nucleic-nucleic
- U–W · 637 Ų buried · 57 hydrogen bonds · nucleic-nucleic
- T–Z · 636 Ų buried · 64 hydrogen bonds · nucleic-nucleic
- A–U · 420 Ų buried · 16 hydrogen bonds · protein-nucleic
- H–T · 410 Ų buried · 9 hydrogen bonds · protein-nucleic
Compared structures
- 5I44 · Structure of RacA-DNA complex; P21 form · the same entry in another collection · chain W against W, 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 P45870
- Elsewhere: RCSB PDB 5I44 · PDBe 5I44 · UniProt P45870
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