#sources_sinks — Public Fediverse posts

A lymphocyte antigen that is a type I membrane protein with 1 extracellular immunoglobulin-like fold. Signal peptide: (1-30); extracellular region: (31-152); TM domain (153-175); intracellular SY-phospho-IDR (175-289). The soluble urine/blood plasma form does not have signals cward of K194.

Human B and T lymphocyte associated (#BTLA:p, #CD272:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

A lymphocyte antigen that is a type I membrane protein with 1 extracellular immunoglobulin-like fold. Signal peptide: (1-30); extracellular region: (31-152); TM domain (153-175); intracellular SY-phospho-IDR (175-289). The soluble urine/blood plasma form does not have signals cward of K194.

Human B and T lymphocyte associated (#BTLA:p, #CD272:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

A tissue antigen that is a type I membrane protein with 1 extracellular TNF receptor domain. Signal peptide: (1-28); extracellular region: (29-249); TM domain (250-272); intracellular ST-phospho-IDR region (273-427). The soluble urine/amniotic fluid form does not have signals cward of R194.

Human nerve growth factor receptor (#NGFR:p, #CD271:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

A tissue antigen that is a type I membrane protein with 1 extracellular TNF receptor domain. Signal peptide: (1-28); extracellular region: (29-249); TM domain (250-272); intracellular ST-phospho-IDR region (273-427). The soluble urine/amniotic fluid form does not have signals cward of R194.

Human nerve growth factor receptor (#NGFR:p, #CD271:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This fibroblast antigen is a type I membrane protein with 1 extracellular F5/8 type C domain. Signal peptide: (1-23); extracellular region: (24-498); TM domain (399-421); intracellular SY-phospho-IDR+kinase region (422-855). The soluble urine/blood plasma form does not have signals cward of R341.

Human discoidin domain receptor tyrosine kinase 2 (#DDR2:p, #CD167B:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This fibroblast antigen is a type I membrane protein with 1 extracellular F5/8 type C domain. Signal peptide: (1-23); extracellular region: (24-498); TM domain (399-421); intracellular SY-phospho-IDR+kinase region (422-855). The soluble urine/blood plasma form does not have signals cward of R341.

Human discoidin domain receptor tyrosine kinase 2 (#DDR2:p, #CD167B:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This antigen is a type I membrane protein with 1 extracellular F5/8 type C domain. Signal peptide: (1-20); glycosylated extracellular region: (21-416); TM (417-439); intracellular Y-phospho-IDRs + kinase domain (440-913). The soluble urine/milk/blood plasma form does not have signals cward of R341.

Human discoidin domain receptor tyrosine kinase 1 (#DDR1:p, #CD167:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This antigen is a type I membrane protein with 1 extracellular F5/8 type C domain. Signal peptide: (1-20); glycosylated extracellular region: (21-416); TM (417-439); intracellular Y-phospho-IDRs + kinase domain (440-913). The soluble urine/milk/blood plasma form does not have signals cward of R341.

Human discoidin domain receptor tyrosine kinase 1 (#DDR1:p, #CD167:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This lymphocyte antigen is a type I membrane protein with 2 extracellular immunoglobulin-like folds. Signal peptide: (1-20); glycosylated extracellular region: (21-237); TM domain (238-260); intracellular Y-phospho-IDR (261-335). The soluble urine form has no signals cward of K147.

Human signaling lymphocytic activation molecule family member 1 (#SLAMF1:p, #CD150:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This lymphocyte antigen is a type I membrane protein with 2 extracellular immunoglobulin-like folds. Signal peptide: (1-20); glycosylated extracellular region: (21-237); TM domain (238-260); intracellular Y-phospho-IDR (261-335). The soluble urine form has no signals cward of K147.

Human signaling lymphocytic activation molecule family member 1 (#SLAMF1:p, #CD150:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This solid tissue surface antigen is a type I membrane protein with 5 extracellular immunoglobulin-like folds. Signal peptide: (1-23); N-glycosylated extracellular region: (24-559); TM domain (560-582); intracellular SY-phospho-IDR (583-646). The soluble urine/blood/CSF form does not have signals cward of K507.

Human melanoma cell adhesion molecule (#MCAM:p, #CD146:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This solid tissue surface antigen is a type I membrane protein with 5 extracellular immunoglobulin-like folds. Signal peptide: (1-23); N-glycosylated extracellular region: (24-559); TM domain (560-582); intracellular SY-phospho-IDR (583-646). The soluble urine/blood/CSF form does not have signals cward of K507.

Human melanoma cell adhesion molecule (#MCAM:p, #CD146:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This T cell antigen is a type I membrane protein with 2 extracellular immunoglobulin-like folds. Signal peptide: (1-26); extracellular region: (27-242); TM domain (243-265); intracellular S-phospho-IDR (266-551). The soluble urine form only has rare signals cward of R230.

Human interleukin 2 receptor subunit beta (#IL2RB:p, #CD122:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

This T cell antigen is a type I membrane protein with 2 extracellular immunoglobulin-like folds. Signal peptide: (1-26); extracellular region: (27-242); TM domain (243-265); intracellular S-phospho-IDR (266-551). The soluble urine form only has rare signals cward of R230.

Human interleukin 2 receptor subunit beta (#IL2RB:p, #CD122:p)―HPA mRNA tissue & cell type distributions paired with GPMDB protein tissue & cell type tabbulations. #proteomics #sources_sinks

While CD99L1:g turned out to be a pseudogene, this protein is a type I membrane protein without extracellular folds. Signal peptide: (1-[24-28]); extracellular region: ([25-29]-185); TM domain (186-208); intracellular phospho-IDR (209-262). The soluble urine form only has rare signals cward of K163.

Human cluster of differentiation member 99-like 2 (#CD99L2:p)―HPA mRNA tissue & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

While CD99L1:g turned out to be a pseudogene, this protein is a type I membrane protein without extracellular folds. Signal peptide: (1-[24-28]); extracellular region: ([25-29]-185); TM domain (186-208); intracellular phospho-IDR (209-262). The soluble urine form only has rare signals cward of K163.

Human cluster of differentiation member 99-like 2 (#CD99L2:p)―HPA mRNA tissue & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

Part of the largely forgotten XG blood group of antigens, this one is a type I membrane protein without any extracellular structure. Signal peptide: (1-21); extracellular region: (22-125); TM domain (126-148); intracellular ST-phospho-IDR (149-185); T41, S48+glycosyl. The soluble form in urine has no signals cward of V135.

Human cluster of differentiation member 99 (#CD99:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

Part of the largely forgotten XG blood group of antigens, this one is a type I membrane protein without any extracellular structure. Signal peptide: (1-21); extracellular region: (22-125); TM domain (126-148); intracellular ST-phospho-IDR (149-185); T41, S48+glycosyl. The soluble form in urine has no signals cward of V135.

Human cluster of differentiation member 99 (#CD99:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

FCAR:p may be found in the monocyte lineage: a type I membrane protein with 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-21); extracellular region: (22-227); TM domain (228-246); intracellular S-phospho-IDR (247-287); N79, N141, N186+glycosyl. The soluble form in urine has no signals cward of R230.

Human cluster of differentiation member 89 (#CD89:p/#FCAR:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

FCAR:p may be found in the monocyte lineage: a type I membrane protein with 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-21); extracellular region: (22-227); TM domain (228-246); intracellular S-phospho-IDR (247-287); N79, N141, N186+glycosyl. The soluble form in urine has no signals cward of R230.

Human cluster of differentiation member 89 (#CD89:p/#FCAR:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

CD84 may be found in platelets, myeloid & lymphoid leukocytes: it is a type I membrane protein with 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-21); extracellular region: (22-259); TM domain (224-246); intracellular Y-phospho-IDR (247-345). The soluble form found in urine has no signals cward of R131.

Human cluster of differentiation member 84 (#CD84:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

CD84 may be found in platelets, myeloid & lymphoid leukocytes: it is a type I membrane protein with 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-21); extracellular region: (22-259); TM domain (224-246); intracellular Y-phospho-IDR (247-345). The soluble form found in urine has no signals cward of R131.

Human cluster of differentiation member 84 (#CD84:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This myeloid linage cell type I membrane protein has 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-17); extracellular region: (18-259); TM domain (260-282); intracellular S-phospho-IDR (283-364); N209, N230+glycosyl. The soluble form found in urine has no signals cward of R225

Human cluster of differentiation member 33 (#CD33:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This myeloid linage cell type I membrane protein has 2 extracellular Immunoglobulin-like folds. Signal peptide: (1-17); extracellular region: (18-259); TM domain (260-282); intracellular S-phospho-IDR (283-364); N209, N230+glycosyl. The soluble form found in urine has no signals cward of R225

Human cluster of differentiation member 33 (#CD33:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This leukocyte type I membrane protein has a extracellular TNF receptor-like fold. Signal peptide: (1-20); extracellular region: (21-385); TM domain (386-408); intracellular S-phospho-IDR (409-595); N101, N276+glycosyl. The soluble form found in urine has no signals cward of R299

Human cluster of differentiation member 30 (#CD30:p, aka TNFRSF8:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This leukocyte type I membrane protein has a extracellular TNF receptor-like fold. Signal peptide: (1-20); extracellular region: (21-385); TM domain (386-408); intracellular S-phospho-IDR (409-595); N101, N276+glycosyl. The soluble form found in urine has no signals cward of R299

Human cluster of differentiation member 30 (#CD30:p, aka TNFRSF8:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This type I membrane protein prefers to adorn T-cells, sampling the environment with a single immunoglobulin-like fold. Signal peptide: (1-25); extracellular region: (26-177); TM domain (178-200); intracellular Y-phospho-IDR (201-240). The soluble form found in urine has no signals cward of R148 & an internal cut at L130-V131.

Human cluster of differentiation member 7 (#CD7:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This type I membrane protein prefers to adorn T-cells, sampling the environment with a single immunoglobulin-like fold. Signal peptide: (1-25); extracellular region: (26-177); TM domain (178-200); intracellular Y-phospho-IDR (201-240). The soluble form found in urine has no signals cward of R148 & an internal cut at L130-V131.

Human cluster of differentiation member 7 (#CD7:p)―HPA mRNA tissue + cell type distributions & GPMDB protein tissue + cell type tabbulations. #proteomics #sources_sinks

This cell surface form of this protein is found on leukocytes: it has several TNF receptor domains in its extracellular region, a TM domain (189-211) & a phosphoIDR intracellular region. The soluble form found in urine has no signal cward of R131.

Human cluster of differentiation member 27 (#CD27:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This cell surface form of this protein is found on leukocytes: it has several TNF receptor domains in its extracellular region, a TM domain (189-211) & a phosphoIDR intracellular region. The soluble form found in urine has no signal cward of R131.

Human cluster of differentiation member 27 (#CD27:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This tiny little guy (25-84) is secreted, mainly by the liver, to block the efflux of iron from cells. It is processed into the peptides (60-84) or (65-84) that physically occlude the pore of the iron transport protein SLC40A1. Its antimicrobial activity is to starve bacteria of iron by removing any iron sources in surrounding tissue.

Human hepcidin antimicrobial peptide (#HAMP:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This tiny little guy (25-84) is secreted, mainly by the liver, to block the efflux of iron from cells. It is processed into the peptides (60-84) or (65-84) that physically occlude the pore of the iron transport protein SLC40A1. Its antimicrobial activity is to starve bacteria of iron by removing any iron sources in surrounding tissue.

Human hepcidin antimicrobial peptide (#HAMP:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This protein is a type I cell membrane protein, with a single TM domain (686-708) and a pyro-Glu N-terminus formed at Q18 following the removal of its signal peptide. This form dominates in solid tissues & cells. In fluids, the TM & intracellular regions have been removed creating an observable soluble form (C-terminus: L655).

Human cluster of differentiation member 248 (#CD248:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This protein is a type I cell membrane protein, with a single TM domain (686-708) and a pyro-Glu N-terminus formed at Q18 following the removal of its signal peptide. This form dominates in solid tissues & cells. In fluids, the TM & intracellular regions have been removed creating an observable soluble form (C-terminus: L655).

Human cluster of differentiation member 248 (#CD248:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

mRNA for this protein is mainly associated with bone marrow & lung tissue, although at quite low levels. The protein seems to end up in the urine quite quickly, via transport by blood & CSF. Its mature N-terminus is D19.

Human osteoclast associated Ig-like receptor (#OSCAR:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

mRNA for this protein is mainly associated with bone marrow & lung tissue, although at quite low levels. The protein seems to end up in the urine quite quickly, via transport by blood & CSF. Its mature N-terminus is D19.

Human osteoclast associated Ig-like receptor (#OSCAR:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This protein is secreted, bristling with phosphorylation at >30 S/T acceptors & O-linked glycosylation at 5 T acceptors. There are 3 easily distinguished splice variants (SPP1-201, SPP1-202, SPP1-203), with the mature N-terminus for all at I17. It is the major phosphoprotein in human urine & milk where it keeps divalent cations (esp. Ca²⁺) in solution.

Human secreted phosphoprotein 1 (SPP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This protein is secreted, bristling with phosphorylation at >30 S/T acceptors & O-linked glycosylation at 5 T acceptors. There are 3 easily distinguished splice variants (SPP1-201, SPP1-202, SPP1-203), with the mature N-terminus for all at I17. It is the major phosphoprotein in human urine & milk where it keeps divalent cations (esp. Ca²⁺) in solution.

Human secreted phosphoprotein 1 (SPP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

The big Kahuna of protein hormones tends to be rather illusive in proteomics data. The proprotein version of the sequence is observable in the source of the protein (pancreatic islets). In urine, the mature protein is below it's LOD; in its place the peptide removed to generate the mature hormone (57-87, C-peptide) may be observed.

Human insulin (INS:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

The big Kahuna of protein hormones tends to be rather illusive in proteomics data. The proprotein version of the sequence is observable in the source of the protein (pancreatic islets). In urine, the mature protein is below it's LOD; in its place the peptide removed to generate the mature hormone (57-87, C-peptide) may be observed.

Human insulin (INS:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This little guy starts out life as a type I plasma membrane protein in many tissues, with a single TM domain (169-191): this is rarely observed. The common form is caused by a proteolytic cleavage at V156 that generates a soluble protein that migrates through CSF & blood to urine. The N-terminus of both forms is either Y20 or S22.

Human phosphoinositide-3-kinase interacting protein 1 (PIK3IP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This little guy starts out life as a type I plasma membrane protein in many tissues, with a single TM domain (169-191): this is rarely observed. The common form is caused by a proteolytic cleavage at V156 that generates a soluble protein that migrates through CSF & blood to urine. The N-terminus of both forms is either Y20 or S22.

Human phosphoinositide-3-kinase interacting protein 1 (PIK3IP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This small (260 residue) secreted protein is named for its activity: dismantling DNA chains. Extracellular DNA is an enormous PITA: the resulting sticky nets (snotballs) are weaponized by neutrophils to snare bacteria. Most of the protein's function have been examined in blood, although pee & poop serve as is its main reservoirs in humans. Mature N-terminus: L23.

Human deoxyribonuclease 1 (DNASE1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This small (260 residue) secreted protein is named for its activity: dismantling DNA chains. Extracellular DNA is an enormous PITA: the resulting sticky nets (snotballs) are weaponized by neutrophils to snare bacteria. Most of the protein's function have been examined in blood, although pee & poop serve as is its main reservoirs in humans. Mature N-terminus: L23.

Human deoxyribonuclease 1 (DNASE1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

TFF1:r & TFF1:p do spike in some cancers, but the mechanism invoking them & whether they are simply an inadvertent ectopic effect or activation of some mechanism is unknown.

Human trefoil factor 1 (TFF1:p)―HPA mRNA cancer tissue distributions & GPMDB protein cancer tissue tabbulations. #proteomics #sources_sinks

TFF1:r & TFF1:p do spike in some cancers, but the mechanism invoking them & whether they are simply an inadvertent ectopic effect or activation of some mechanism is unknown.

Human trefoil factor 1 (TFF1:p)―HPA mRNA cancer tissue distributions & GPMDB protein cancer tissue tabbulations. #proteomics #sources_sinks

This very small (60 residue) secreted protein is named for having 3 disulphide bonds. It is produced by the stomach's epithelium and has a proposed role in the preservation of the gastric surface mucus layer. How it ends up the blood & how it is concentrated in the urine has remained a puzzle. The mature protein's N-terminus is E25.

Human trefoil factor 1 (TFF1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This very small (60 residue) secreted protein is named for having 3 disulphide bonds. It is produced by the stomach's epithelium and has a proposed role in the preservation of the gastric surface mucus layer. How it ends up the blood & how it is concentrated in the urine has remained a puzzle. The mature protein's N-terminus is E25.

Human trefoil factor 1 (TFF1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

Once you get past the awful name, this small secreted protein is produced in epithelium cells in the epidermus & esophagous and sees its highest concentration in urine. It has no agreed upon function in either place, although it is not for lack of trying to find one. The mature protein's N-terminus is L23.

Human secreted LY6/PLAUR domain containing 1 (SLURP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

Once you get past the awful name, this small secreted protein is produced in epithelium cells in the epidermus & esophagous and sees its highest concentration in urine. It has no agreed upon function in either place, although it is not for lack of trying to find one. The mature protein's N-terminus is L23.

Human secreted LY6/PLAUR domain containing 1 (SLURP1:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This small secreted protein is pretty much tailor-made to illustrate the importance of sources-and-sinks when trying to understand mRNA & protein tissue concentration, particularly wrt clinical applications. Mature protein N-terminus is V22.

Human guanylate cyclase activator 2A (GUCA2A:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks

This small secreted protein is pretty much tailor-made to illustrate the importance of sources-and-sinks when trying to understand mRNA & protein tissue concentration, particularly wrt clinical applications. Mature protein N-terminus is V22.

Human guanylate cyclase activator 2A (GUCA2A:p)―HPA mRNA tissue distributions & GPMDB protein tissue tabbulations. #proteomics #sources_sinks