Research workbench
Crystal structure of deah-box ATPase PRP22 with bound ssrna
Analyse Crystal structure of deah-box ATPase PRP22 with bound ssrna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6I3P
- Type
- protein + RNA
- Length
- 2,545 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative pre-mRNA splicing factor; RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')
- UniProt
- G0S700
- Pockets
- 20 · best druggability 0.89
Structure
x-ray diffraction · 5 distinct chains · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative pre-mRNA splicing factor | protein | 626 | 43% helix, 20% strand | G0S700 |
| E, F, G, H | RNA (5'-R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3') | rna | 9 | — | — |
| B | Putative pre-mRNA splicing factor | protein | 623 | 43% helix, 20% strand | G0S700 |
| C | Putative pre-mRNA splicing factor | protein | 630 | 42% helix, 20% strand | G0S700 |
| D | Putative pre-mRNA splicing factor | protein | 630 | 41% helix, 20% strand | G0S700 |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 984 | 0.89 | 0.91 | 114 | empty |
| 2 | 1082 | 0.89 | 0.91 | 119 | empty |
| 3 | 968 | 0.89 | 0.91 | 103 | empty |
| 4 | 1109 | 0.88 | 0.89 | 113 | empty |
| 5 | 371 | 0.59 | 0.76 | 52 | empty |
Interfaces
9 interfaces between chains.
- B–F · 1367 Ų buried · 27 hydrogen bonds · protein-nucleic
- A–E · 1356 Ų buried · 23 hydrogen bonds · protein-nucleic
- D–H · 1353 Ų buried · 23 hydrogen bonds · protein-nucleic
- C–G · 1302 Ų buried · 25 hydrogen bonds · protein-nucleic
- C–D · 676 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6I3P · Crystal structure of DEAH-box ATPase Prp22 with bound ssRNA · 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 G0S700
- Elsewhere: RCSB PDB 6I3P · PDBe 6I3P · UniProt G0S700
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