01/3D Structure
? About the 3D Viewer
Mol* (pronounced "molstar") is an open-source molecular visualization tool used by the Protein Data Bank and AlphaFold Database. Learn more at molstar.org.
Controls:
- Rotate: Click and drag
- Zoom: Scroll wheel or pinch
- Pan: Right-click and drag (or two-finger drag)
- Reset: Double-click to reset view
What am I looking at?
This is a predicted 3D structure of the protein. The ribbon diagram shows the protein backbone—helices appear as coils, sheets as arrows, and loops as simple lines. The shape determines how the protein functions: where it binds to other molecules, how it catalyzes reactions, and how mutations might disrupt its activity.
Color legend:
The structure is colored by pLDDT confidence score, which indicates how confident AlphaFold is in each region's predicted position:
- Blue (>90): Very high confidence
- Cyan (70-90): Confident
- Yellow (50-70): Low confidence
- Orange (<50): Very low confidence, likely disordered
02/AI Analysis
TLDR
VCP is a protein essential for breaking down damaged proteins in cells, and when mutated, causes a family of diseases affecting muscles, bones, and the brain including frontotemporal dementia and ALS. Scientists used AI to predict the 3D structure of VCP carrying the R191Q mutation, achieving good overall confidence (83% average), though this ultra-rare variant (seen in only 1 of 1.5 million chromosomes) has been reported in just one patient with semantic dementia. The structural prediction suggests R191Q may disrupt normal protein function, but the extreme rarity and limited clinical data make it uncertain whether this variant alone causes disease.
Detailed Analysis
Works Cited
Similar Research
03/Research Data
ClinVar Classification
Not found in ClinVar
Population Frequency
6.84e-07
Extremely rare (<0.01%)
AC: 1 / AN: 1461866
Disease Associations
677 totalShowing 5 of 677 associations
AI Research Brief
04/AlphaFold Metrics
No visualization images available.
05/Domain Annotations
Structural Domains & Regions
Functional Sites
Binding Partners
Gene Ontology
06/Structural Caption
VCP R191Q variant shows well-folded ATPase domains with disordered C-terminus harboring UBXN6-binding motif; mutation affects conserved N-terminal residue.
Average pLDDT of 82.9 with 85% high-confidence residues indicates a well-predicted core structure. C-terminal regions (residues 708-806) show reduced confidence, consistent with predicted disorder.
Two disordered regions (708-727, 768-806) align with low-confidence predictions. The UBXN6 interaction site and PIM motif (797-806) fall within the disordered C-terminus, suggesting binding-induced folding. Gly-rich stretch (777-793) contributes to flexibility.
R191Q mutation in the N-terminal domain may alter local electrostatics and hydrogen bonding, potentially affecting ATPase activity and inter-domain communication critical for VCP hexamer function.
07/Peptide Therapeutics
Aggregation Analysis
Aggregation propensity analysis identifies 1 hotspots (average score: 0.02) using Pawar+KyteDoolittle+charge algorithm.
08/Known Inhibitors
Known Binders from ChEMBL
09/Candidate Peptides
De Novo Peptide Design Pipeline
Pipeline: BoltzGen (de novo binder design) → Boltz-2 rescore → 8-gate wetlab filter → PK + BBB advisory gates. Target site selected from UniProt curated annotations, P2Rank pocket prediction, and aggregation propensity (in that priority order). Advisory gates annotate each candidate with estimated serum half-life, renal/immunogenicity risk, and (for CNS targets) a recommended blood-brain-barrier shuttle conjugation — without silently dropping designs.
Loading candidate statistics...
Sequences are withheld pending IP review. Full candidate data (sequences,
scores, CIF files) is available to authorized reviewers via the
/api/private/candidates/{fold_id} endpoint with
X-Private-Key.
Legacy candidates (charge-complementary)
Target Region
Residues 265–269 (0.80 aggregation score)Candidate ID
CP-VCP-001
(7 residues · computational design)
10/Agent Findings
Clinical Agent (1)
The R191Q variant in VCP is a pathogenic mutation associated with inclusion body myopathy with Paget disease and frontotemporal dementia (IBMPFD), and establishing baseline data collection represents the critical first step in tracking disease progression and phenotypic variability in affected patients. This initial data gathering will enable clinicians to establish natural history patterns, identify early biomarkers, and develop standardized outcome measures for future therapeutic trials targeting VCP-related proteinopathies. The baseline characterization is essential for determining genotype-phenotype correlations and optimizing patient monitoring protocols across the multi-system manifestations of this devastating neurodegenerative condition.
Supplements Agent (1)
The current research landscape shows minimal direct supplement or peptide therapeutic development specifically targeting VCP R191Q variant in IBMPFD/ALS/FTD contexts. Most research focuses on VCP inhibitors and cellular mechanisms rather than nutritional or peptide-based interventions for this specific variant.
Peptide Agent (1)
VCP R191Q: 10 known binders (top: 24.0 nM); 1 candidate peptides designed