Research workbench
The U1 part of saccharomyces cerevisiae spliceosomal pre-a complex (delta bs-a ACT1)
Analyse The U1 part of saccharomyces cerevisiae spliceosomal pre-a complex (delta bs-a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7OQC
- Type
- protein + RNA
- Length
- 3,699 residues
- Chains
- 18
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein NAM8; ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta…
- UniProt
- Q00539, Q03776, P53207, Q03782, P32605, Q05900, P40018, P43321, Q12330, P54999, P40204, Q02260, Q06217, Q07508, P39682, Q00916
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 18 distinct chains · 44% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F | Protein NAM8 | protein | 267 | 24% helix, 20% strand | Q00539 |
| I | ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-A),ACT1 pre- mRNA (delta bs-A),ACT1 pre-mRNA (delta bs-a) | rna | 63 | — | — |
| E | U1 small nuclear ribonucleoprotein component PRP42 | protein | 544 | 68% helix, 0% strand | Q03776 |
| J | U1 small nuclear ribonucleoprotein component SNU71 | protein | 105 | 49% helix, 8% strand | P53207 |
| 1 | U1 snrna | rna | 558 | — | — |
| G | 56 kda U1 small nuclear ribonucleoprotein component | protein | 239 | 44% helix, 15% strand | Q03782 |
| A | U1 small nuclear ribonucleoprotein a | protein | 132 | 34% helix, 16% strand | P32605 |
| C | U1 small nuclear ribonucleoprotein C | protein | 195 | 41% helix, 2% strand | Q05900 |
| b | Small nuclear ribonucleoprotein-associated protein B | protein | 121 | 26% helix, 31% strand | P40018 |
| d | Small nuclear ribonucleoprotein sm D3 | protein | 93 | 19% helix, 40% strand | P43321 |
| e | Small nuclear ribonucleoprotein E | protein | 77 | 14% helix, 42% strand | Q12330 |
| f | Small nuclear ribonucleoprotein F | protein | 73 | 8% helix, 59% strand | P54999 |
| g | Small nuclear ribonucleoprotein G | protein | 72 | 4% helix, 50% strand | P40204 |
| h | Small nuclear ribonucleoprotein sm D1 | protein | 107 | 24% helix, 35% strand | Q02260 |
| i | Small nuclear ribonucleoprotein sm D2 | protein | 99 | 18% helix, 46% strand | Q06217 |
| H | Protein LUC7 | protein | 192 | 65% helix, 3% strand | Q07508 |
| D | Pre-mRNA-processing factor 39 | protein | 576 | 60% helix, 2% strand | P39682 |
| B | U1 small nuclear ribonucleoprotein 70 kda homolog | protein | 186 | 37% helix, 16% strand | Q00916 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 657 | 0.87 | 0.92 | 85 | empty |
| 2 | 1085 | 0.86 | 0.87 | 106 | empty |
| 3 | 947 | 0.85 | 0.86 | 94 | empty |
| 4 | 648 | 0.83 | 0.88 | 71 | empty |
| 5 | 712 | 0.82 | 0.87 | 57 | empty |
Interfaces
64 interfaces between chains.
- E–D · 3616 Ų buried · 21 hydrogen bonds · protein-protein
- E–C · 3167 Ų buried · 22 hydrogen bonds · protein-protein
- 1–C · 2519 Ų buried · 42 hydrogen bonds · protein-nucleic
- 1–A · 2470 Ų buried · 51 hydrogen bonds · protein-nucleic
- E–G · 2259 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 7OQC · The U1 part of Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1) · the same entry in another collection · chain b against b, 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 Q00539
- Every structure of UniProt Q03776
- Every structure of UniProt P53207
- Every structure of UniProt Q03782
- Every structure of UniProt P32605
- Every structure of UniProt Q05900
- Every structure of UniProt P40018
- Every structure of UniProt P43321
- Every structure of UniProt Q12330
- Every structure of UniProt P54999
- Every structure of UniProt P40204
- Every structure of UniProt Q02260
- Every structure of UniProt Q06217
- Every structure of UniProt Q07508
- Every structure of UniProt P39682
- Every structure of UniProt Q00916
- Elsewhere: RCSB PDB 7OQC · PDBe 7OQC · UniProt Q00539 · UniProt Q03776 · UniProt P53207 · UniProt Q03782 · UniProt P32605 · UniProt Q05900 · UniProt P40018 · UniProt P43321 · UniProt Q12330 · UniProt P54999 · UniProt P40204 · UniProt Q02260 · UniProt Q06217 · UniProt Q07508 · UniProt P39682 · UniProt Q00916
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