Research workbench
Structure of signal recognition particle receptor (sr) in complex with signal recognition particle (srp) and ribosome nascent chain complex
Analyse Structure of signal recognition particle receptor (sr) in complex with signal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GO5
- Type
- protein + RNA
- Length
- 972 residues
- Chains
- 9
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Srp RNA; Ribosomal RNA; Signal recognition particle 19 kda protein (SRP19); Signal…
- UniProt
- P61010, P08240, P47758, Q8L805
- Pockets
- 15 · best druggability 0.78
Structure
electron microscopy · 9 distinct chains · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Srp RNA | rna | 127 | — | — |
| 9 | Ribosomal RNA | rna | 90 | — | — |
| B | Signal recognition particle 19 kda protein (SRP19) | protein | 107 | 30% helix, 16% strand | — |
| W | Signal recognition particle 54 kda protein (SRP54) | protein | 109 | 65% helix, 0% strand | P61010 |
| 1 | Signal recognition particle receptor alpha subunit (sr a) | protein | 125 | 41% helix, 21% strand | P08240 |
| 2 | Signal recognition particle receptor beta subunit (sr B) | protein | 188 | 40% helix, 22% strand | P47758 |
| 5 | Ribosomal protein L35 | protein | 64 | 75% helix, 0% strand | Q8L805 |
| 4 | Ribosomal protein L23 | protein | 81 | 31% helix, 30% strand | — |
| 6 | Ribosomal protein L31 | protein | 81 | 38% helix, 25% strand | — |
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 880 | 0.78 | 0.81 | 82 | empty |
| 2 | 448 | 0.65 | 0.79 | 30 | empty |
| 3 | 546 | 0.64 | 0.76 | 34 | empty |
| 4 | 173 | 0.57 | 0.81 | 28 | empty |
| 5 | 86 | 0.52 | 0.83 | 21 | empty |
Interfaces
9 interfaces between chains.
- A–B · 973 Ų buried · 43 hydrogen bonds · protein-nucleic
- 1–2 · 973 Ų buried · 15 hydrogen bonds · protein-protein
- 9–6 · 693 Ų buried · 36 hydrogen bonds · protein-nucleic
- A–W · 637 Ų buried · 21 hydrogen bonds · protein-nucleic
- 5–4 · 332 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 2GO5 · Structure of signal recognition particle receptor (SR) in complex with signal recognition… · the same entry in another collection · chain W against W, TM-score 1.00
- P47758 · AlphaFold monomer V2.0 prediction for signal recognition particle receptor subunit beta… · a predicted model of the same protein · chain 2 against A, TM-score 0.99
- P08240 · AlphaFold monomer V2.0 prediction for signal recognition particle receptor subunit alpha… · a predicted model of the same protein · chain 1 against A, TM-score 0.88
- Q8L805 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L35 (Q8L805) · a predicted model of the same protein · chain 5 against A, TM-score 0.86
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 P61010
- Every structure of UniProt P08240
- Every structure of UniProt P47758
- Every structure of UniProt Q8L805
- Elsewhere: RCSB PDB 2GO5 · PDBe 2GO5 · UniProt P61010 · UniProt P08240 · UniProt P47758 · UniProt Q8L805
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