Research workbench
Crystal structure of human spliceosomal U1 snrnp
Analyse Crystal structure of human spliceosomal U1 snrnp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CW1
- Type
- protein
- Length
- 2,809 residues
- Chains
- 36
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Small nuclear ribonucleoprotein sm D3; Small nuclear ribonucleoprotein-associated…
- UniProt
- P62318, P14678, P62314, P62316, P62306, P62304, P62308, P08621, P09234
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.34
Structure
x-ray diffraction · 19 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D, S, T, U | Small nuclear ribonucleoprotein sm D3 | protein | 76 | 0% helix, 0% strand | P62318 |
| A, H | Small nuclear ribonucleoprotein-associated proteins B and B | protein | 64 | 0% helix, 0% strand | P14678 |
| B, M, O | Small nuclear ribonucleoprotein sm D1 | protein | 77 | 0% helix, 0% strand | P62314 |
| C | Small nuclear ribonucleoprotein sm D2 | protein | 88 | 0% helix, 0% strand | P62316 |
| F, 2 | Small nuclear ribonucleoprotein F | protein | 76 | 0% helix, 0% strand | P62306 |
| E, W, X, Y | Small nuclear ribonucleoprotein E | protein | 75 | 0% helix, 0% strand | P62304 |
| G, 3, 4, 5 | Small nuclear ribonucleoprotein G | protein | 73 | 0% helix, 0% strand | P62308 |
| K, 6, 7, 8 | U1 small nuclear ribonucleoprotein 70 kda | protein | 120 | 0% helix, 0% strand | P08621 |
| L | U1 small nuclear ribonucleoprotein C | protein | 57 | 0% helix, 0% strand | P09234 |
| P | Small nuclear ribonucleoprotein sm D2 | protein | 86 | 0% helix, 0% strand | P62316 |
| Z | Small nuclear ribonucleoprotein F | protein | 70 | 0% helix, 0% strand | P62306 |
| 9, l | U1 small nuclear ribonucleoprotein C | protein | 58 | 0% helix, 0% strand | P09234 |
| I | Small nuclear ribonucleoprotein-associated proteins B and B | protein | 63 | 0% helix, 0% strand | P14678 |
| N | Small nuclear ribonucleoprotein sm D1 | protein | 76 | 0% helix, 0% strand | P62314 |
| Q | Small nuclear ribonucleoprotein sm D2 | protein | 89 | 0% helix, 0% strand | P62316 |
| 1 | Small nuclear ribonucleoprotein F | protein | 75 | 0% helix, 0% strand | P62306 |
| 0 | U1 small nuclear ribonucleoprotein C | protein | 54 | 0% helix, 0% strand | P09234 |
| J | Small nuclear ribonucleoprotein-associated proteins B and B | protein | 63 | 0% helix, 0% strand | P14678 |
| R | Small nuclear ribonucleoprotein sm D2 | protein | 85 | 0% helix, 0% strand | P62316 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains 9, l
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 86 | 0.34 | 0.72 | 25 | empty |
| 2 | 52 | 0.28 | 0.73 | 17 | empty |
| 3 | 54 | 0.28 | 0.72 | 16 | empty |
Interfaces
36 interfaces between chains.
- N–Q · 165 Ų buried · 0 hydrogen bonds · protein-protein
- M–P · 149 Ų buried · 0 hydrogen bonds · protein-protein
- E–G · 148 Ų buried · 0 hydrogen bonds · protein-protein
- 2–Y · 141 Ų buried · 0 hydrogen bonds · protein-protein
- O–R · 140 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3CW1 · Crystal Structure of Human Spliceosomal U1 snRNP · the same entry in another collection · chain G against G, 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 P62318
- Every structure of UniProt P14678
- Every structure of UniProt P62314
- Every structure of UniProt P62316
- Every structure of UniProt P62306
- Every structure of UniProt P62304
- Every structure of UniProt P62308
- Every structure of UniProt P08621
- Every structure of UniProt P09234
- Elsewhere: RCSB PDB 3CW1 · PDBe 3CW1 · UniProt P62318 · UniProt P14678 · UniProt P62314 · UniProt P62316 · UniProt P62306 · UniProt P62304 · UniProt P62308 · UniProt P08621 · UniProt P09234
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