The protein encoded by this gene is a member of the AAA protein family (ATPases associated with diverse cellular activities), and is the homolog of the yeast Vps4 protein. In humans, two paralogs of the yeast protein have been identified. The former share a high degree of aa sequence similarity with each other, and also with yeast Vps4 and mouse Skd1 proteins. Mouse Skd1 (suppressor of K+ transport defect 1) has been shown to be a yeast Vps4 ortholog. Functional studies indicate that both human paralogs associate with the endosomal compartments, and are involved in intracellular protein trafficking, similar to Vps4 protein in yeast. The gene encoding this paralog has been mapped to chromosome 18; the gene for the other resides on chromosome 16. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for VPS4B. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = VPS4B upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of VPS4B, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr18:63,138,172–63,139,185 | 283.7 kb | Distal (>10kb) Multiome | 304 | |
| chr18:63,290,280–63,291,260 | 131.6 kb | Distal (>10kb) Multiome | 134 | |
| chr18:63,317,892–63,318,708 | 104.2 kb | Distal (>10kb) Multiome | 432 | |
| chr18:63,319,616–63,321,341 | 102.2 kb | Distal (>10kb) Multiome | 620 | |
| chr18:63,365,958–63,368,108 | 54.9 kb | Distal (>10kb) Multiome | 1040 | |
| chr18:63,421,682–63,423,287 | 31 bp | At TSS Multiome | 939 | |
| chr18:63,427,341–63,427,743 | 4.9 kb | Proximal (<10kb) | 133 |
Genomic view of the VPS4B locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.