This website uses cookies to ensure you get the best experience on our website.
- Table of Contents
Plan chromogenic PGK1 IHC in paraffin sections with the IHC-validated antibody at 1:25 (datasheet M01449-1 IHC-P). Score cytoplasmic and nuclear staining by cell type, using kidney glomeruli as a positive reference (HPA tissue IHC).
Expected localisation, validated protocols, controls and antibodies — the at-a-glance facts below, then the full design guide.
| Expected localisation | Cytoplasmic and nuclear tissue staining (HPA tissue IHC) | |
| Staining pattern | Widespread cytoplasmic and nuclear staining (HPA tissue IHC) | |
| Antigen retrieval | Citrate pH 6 HIER, heat-mediated (datasheet M01449-1) | |
| Positive control | Breast+4 more · see all | |
| Negative control | Smooth muscle |
| Fixation | Use formaldehyde-fixed paraffin sections (datasheet M01449-1 IHC-P). (selected-SKU IHC image M01449-1) | |
| Caveat | Staining may include protein from another gene (HPA tissue IHC) | |
| Regulation | Staining intensity varies by cell type (HPA tissue IHC) | |
| Isoform / epitope | 2 isoforms; epitope differences unspecified (UniProt) |
Compare the catalog antibody’s IHC-P protocol (datasheet: M01449-1) with two published PGK1 staining protocols (PMC3869792; PMC5787500).
| Sample | Formaldehyde-fixed, paraffin-embedded human kidney tissue (datasheet M01449-1) |
| Fixation | Image formalin-fixed; duration unreported (datasheet M01449-1); verify before use. |
| Sectioning | 4–5 µm sections on charged slides (standard) |
| Deparaffinisation | Xylene, graded ethanol series to water (standard) |
| Antigen retrieval | Heat retrieval: Citrate pH 6 (datasheet M01449-1); 20 min, 95–100 °C (standard) |
| Peroxidase block | 3% H2O2, 10 min, room temperature (standard) |
| Blocking | 10% normal serum of the secondary host, 30 min, room temperature (standard) |
| Primary antibody | Mouse monoclonal (clone 1086CT10.2.1) anti-PGK1, 1:25 (datasheet M01449-1) |
| Primary incubation | 1 hours at 37°C (datasheet M01449-1) |
| Detection | HRP-polymer secondary, DAB chromogen 5–10 min (standard) |
| Counterstain | Hematoxylin, blue, dehydrate and mount (standard) |
| Expected result | PGK1-positive staining in glandular cells of breast (HPA tissue IHC: High). HPA tissue profile: Ubiquitous cytoplasmic and nuclear expression. No signal in the no-primary control. |
PGK1 is annotated in the cytosol and, under hypoxic conditions, the mitochondrial matrix; it has no transmembrane segment (UniProt P00558). For tissue IHC, expect widespread cytoplasmic and nuclear staining (HPA: tissue IHC profile), including strong staining in several glandular cell populations and kidney glomerular cells (HPA: High). Interpret specificity cautiously: HPA rates the tissue profile Approved with medium agreement between staining and RNA data and warns that the antibodies may target proteins from multiple genes (HPA: tissue IHC reliability).
| Cytoplasmic staining, sometimes with nuclear staining, is strongest in breast or cervix glandular cells and kidney glomerular cells. | This fits the reported tissue pattern (HPA: ubiquitous cytoplasmic and nuclear expression; High in these cells). Assess the named cell population, rather than treating every cell in a positive tissue as equally stained (HPA: cell-level IHC ratings). The pattern is supportive, though the cross-gene warning limits attribution of every stained structure to PGK1 (HPA: tissue IHC caution). |
| Staining outlines cell membranes or extracellular structures while the expected intracellular staining is absent. | A dominant surface or extracellular pattern does not fit the reported cytoplasmic and nuclear tissue profile (HPA: tissue IHC profile) or the absence of a transmembrane segment (UniProt P00558 topology). Treat it as suspect and compare it with control sections and the IHC-validated antibody's documented pattern (general IHC practice). |
| Smooth muscle cells stain strongly, especially if neighboring known-positive cells show little signal. | HPA reports PGK1 as not detected in smooth muscle cells (HPA: Smooth muscle). Check cell identification and investigate nonspecific binding or endogenous detection activity with appropriate controls (general IHC practice). This reference pattern does not make every individual smooth muscle cell an absolute negative control, given the reported cross-gene caution (HPA: tissue IHC caution). |
| Brown signal spreads across tissue, empty spaces, or the whole section without clear cell boundaries. | Such diffuse signal is difficult to assign to the reported intracellular pattern (HPA: tissue IHC profile). Inspect a no-primary control, washing, blocking, and the detection chemistry before scoring cells (general IHC practice). A stained background alone cannot establish PGK1 localization, particularly when the tissue assessment already carries a cross-gene warning (HPA: tissue IHC caution). |
| A known-positive population, such as breast glandular cells, has no visible stain. | That result conflicts with the reported high staining in that population (HPA: Breast glandular cells, High). First verify that the expected cells are present and that the chromogenic run worked, using a matched positive control (general IHC practice). Review the catalog antibody's IHC-P instructions before interpreting a blank slide as absent PGK1 (general IHC practice). |
| Antibody validation and attribution | Four listed antibodies have Approved IHC status (HPA: HPA045385, HPA073644, HPA073656, CAB010065). The tissue profile has medium agreement with RNA data and a warning about targeting proteins from multiple genes (HPA: tissue IHC reliability). An Approved pattern therefore warrants cell-level interpretation and appropriate controls; it is not proof that each positive cell contains only PGK1-derived signal. |
| Compartment and hypoxic targeting | UniProt places PGK1 in cytosol and mitochondrial matrix and describes hypoxia-associated mitochondrial targeting (UniProt P00558). HPA tissue IHC reports cytoplasmic and nuclear staining (HPA: tissue IHC profile). Do not infer a mitochondrial shift from an ordinary chromogenic section alone; assessing organelle colocalization requires a suitable localization assay (general IHC practice). |
| Choice of comparison cells | HPA rates glandular cells in breast, cervix, fallopian tube, gallbladder, and parathyroid gland as High, as well as kidney glomerular cells and lymph-node non-germinal-center cells (HPA: tissue IHC ratings). Smooth muscle cells are Not detected (HPA: Smooth muscle). Compare the specified cells within a section; a tissue name alone does not identify which cells should be scored. |
| Testis interpretation | HPA rates elongated or late spermatids High (HPA: Testis), while UniProt describes expression mainly in spermatogonia and localization to the sperm principal piece (UniProt P00558). These records address different observations and should be kept distinct. Identify the germ-cell stage before comparing testis staining with either description. |
| IF/ICC question: What pattern is reported? | HPA approves localization to the sperm mid piece, principal piece, and end piece in its ICC-IF record (HPA: subcellular summary). That record also warns that the supporting antibodies target proteins from multiple genes (HPA: subcellular caution). Use this as localization context, not as a paraffin-section staining rule. |
| Situation | Likely cause | Next action |
|---|---|---|
| No stain in a section expected to contain high-staining cells. | The expected cell population may be absent from the field, or the staining run may have failed (HPA: cell-level High ratings; general IHC practice). | Locate the named cells on a counterstained section and run a matched positive control; review the catalog antibody's IHC-P instructions and the detection steps (general IHC practice). |
| All cells look uniformly positive, obscuring differences between populations. | Excess background, strong detection, or insufficient discrimination during scoring can obscure cell-specific staining (general IHC practice). | Compare a no-primary control, inspect blank areas, and review primary-antibody and detection conditions using the catalog IHC-P guidance (general IHC practice). Reassess named populations against HPA's cell-level ratings (HPA: tissue IHC ratings). |
| Smooth muscle appears strongly positive. | The cell identity may be mistaken, or nonspecific binding or endogenous detection activity may contribute (HPA: Smooth muscle, Not detected; general IHC practice). | Confirm the cells morphologically and compare control sections. If using enzyme-based chromogenic detection, check the relevant endogenous-activity control before assigning the signal to PGK1 (general IHC practice). |
| Signal is predominantly membranous or extracellular. | This distribution conflicts with the reported intracellular profile and lack of a transmembrane segment (HPA: tissue IHC profile; UniProt P00558 topology). | Check the no-primary control and tissue morphology, then compare with intracellular staining in a documented positive population (general IHC practice; HPA: High-rated populations). |
| Nuclear staining appears alongside cytoplasmic staining. | Nuclear staining is included in HPA's tissue IHC profile, despite UniProt's cytosol and mitochondrial-matrix localization annotations (HPA: tissue IHC profile; UniProt P00558). | Record nuclear and cytoplasmic staining separately. Do not reject an otherwise matching section solely for nuclear signal; retain the cross-gene attribution caveat (HPA: tissue IHC profile and caution). |
| Testis staining seems inconsistent with a chosen reference. | The references emphasize different stages: late spermatids in tissue IHC and mainly spermatogonia in UniProt's tissue description (HPA: Testis, High; UniProt P00558). | Identify the stained germ-cell stage and report the observation against each source separately. Avoid treating either statement as a stage-independent positive-control rule (HPA: Testis; UniProt P00558). |
Comprehensive Human Protein Atlas IHC scoring per tissue (reliability: Approved — Medium consistency between antibody staining and RNA expression data. Caution, targets protein from more than one gene.). Rows are taken directly from the HPA tissue chart — click any row's HPA link to view the source.
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Breast | Glandular cells | High | Protein (IHC) | HPA → |
| Cervix | Glandular cells | High | Protein (IHC) | HPA → |
| Fallopian tube | Glandular cells | High | Protein (IHC) | HPA → |
| Gallbladder | Glandular cells | High | Protein (IHC) | HPA → |
| Kidney | Cells in glomeruli | High | Protein (IHC) | HPA → |
| Tissue | Cell type | Level | Evidence | Source |
|---|---|---|---|---|
| Smooth muscle | Smooth muscle cells | Not detected | Protein (IHC) | HPA → |
Use matched controls and compartment-aware scoring to troubleshoot PGK1 staining in paraffin sections; interpret IF findings separately.
Anti-PGK1 antibodies have IHC images from human paraffin sections and IF/ICC images from HepG2 and U87 cells (catalog image captions); the listed reagents include human, mouse, and rat reactivity (catalog applications and reactivity).
M01449-1 has IHC images from human kidney and liver paraffin sections, while PA2045 has an IHC image from a human lung cancer paraffin section (catalog image captions). A01449 has an ICC image from HepG2 cells, and PB9774 has an IF image from U87 cells (catalog image captions).
Which to pick: For tissue IHC, choose M01449-1 for formaldehyde-fixed paraffin sections with citrate retrieval (M01449-1 image caption), or PA2045 for paraffin sections with EDTA retrieval; PA2045’s fixative is unreported (PA2045 image caption). For IF/ICC, choose A01449 for the HepG2 example or PB9774 for the U87 example; both list IF and ICC applications (catalog applications and image captions). For cross-species tissue IHC, PA2045 lists human, mouse, and rat reactivity, while the monoclonal M01449-1 lists human and mouse reactivity (catalog reactivity and clone fields).