MolNFT v1 · #38146 · protein + RNA
Structure of signal recognition particle receptor (sr) in complex with signal recognition particle (srp) and ribosome nascent chain complex
2GO5 · Srp RNA: “Structure of signal recognition particle receptor (sr) in complex with signal recognition particle (srp) and…”. Electron microscopy, 15 pockets (best druggability 0.78). MolNFT v1 #38146 on GenesisL1: 3D structure, binding…
- 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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