MolNFT v1 · #136952 · protein
Crystal structure of human integrator INTS9-INTS11 ctd complex
5V8W · Integrator complex subunit 9: “Crystal structure of human integrator INTS9-INTS11 ctd complex”. X-ray diffraction, 5 pockets (best druggability 0.67). MolNFT v1 #136952 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5V8W
- Type
- protein
- Length
- 708 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Integrator complex subunit 9; Integrator complex subunit 11
- EC
- 3.1.27.-
- UniProt
- Q9NV88, Q5TA45
- Pockets
- 5 · best druggability 0.67
Structure
x-ray diffraction · 5 distinct chains · 34% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Integrator complex subunit 9 | protein | 77 | 32% helix, 34% strand | Q9NV88 |
| B | Integrator complex subunit 11 (EC 3.1.27.-) | protein | 104 | 34% helix, 30% strand | Q5TA45 |
| D | Integrator complex subunit 11 (EC 3.1.27.-) | protein | 104 | 37% helix, 30% strand | Q5TA45 |
| F | Integrator complex subunit 11 (EC 3.1.27.-) | protein | 87 | 30% helix, 31% strand | Q5TA45 |
| H | Integrator complex subunit 11 (EC 3.1.27.-) | protein | 105 | 35% helix, 28% strand | Q5TA45 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 604 | 0.67 | 0.76 | 54 | empty |
| 2 | 302 | 0.53 | 0.75 | 33 | empty |
| 3 | 368 | 0.53 | 0.73 | 37 | empty |
| 4 | 245 | 0.51 | 0.75 | 31 | empty |
| 5 | 108 | 0.41 | 0.76 | 21 | empty |
Interfaces
9 interfaces between chains.
- C–D · 1386 Ų buried · 33 hydrogen bonds · protein-protein
- A–B · 1352 Ų buried · 27 hydrogen bonds · protein-protein
- G–H · 1322 Ų buried · 33 hydrogen bonds · protein-protein
- E–F · 1209 Ų buried · 28 hydrogen bonds · protein-protein
- F–H · 674 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5V8W · Crystal structure of human Integrator IntS9-IntS11 CTD complex · the same entry in another collection · chain H against H, TM-score 1.00
- Q5TA45 · AlphaFold monomer V2.0 prediction for integrator complex subunit 11 (Q5TA45) · a predicted model of the same protein · chain F against A, TM-score 0.90
- Q9NV88 · AlphaFold monomer V2.0 prediction for integrator complex subunit 9 (Q9NV88) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 Q9NV88
- Every structure of UniProt Q5TA45
- Elsewhere: RCSB PDB 5V8W · PDBe 5V8W · UniProt Q9NV88 · UniProt Q5TA45
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