Search Database
Select Protein (1 found)
| UniProt ID | Gene Symbol | Protein Name | Organism | Length | Action |
|---|---|---|---|---|---|
| O43175 | PHGDH | D-3-phosphoglycerate dehydrogenase (3-PGDH) (EC 1.1.1.95) … | Homo sapiens (Human) | 533 aa |
Protein Details: O43175 (PHGDH)
Protein Information
| Accession | O43175 |
|---|---|
| Protein Names | D-3-phosphoglycerate dehydrogenase (3-PGDH) (EC 1.1.1.95) (2-oxoglutarate reductase) (EC 1.1.1.399) (Malate dehydrogenase) (EC 1.1.1.37) |
| Gene Symbol | PHGDH |
| Organism | Homo sapiens (Human) |
| Length | 533 aa |
| Isoforms | No isoforms |
| Related PMIDs | 29733200 31251020 31382980 36430497 31251020 (mass) 32651440 (mass) 36430497 (mass) |
| Database Sources | CysModDBdbPTMSwissPalm |
These studies detected palmitoylation of this protein in the samples.
Protein Sequence
Types:
Experimental Database High Prediction Non-palmitylated Cys
Experimental Database High Prediction Non-palmitylated Cys
1-501MAFANLRKVL11ISDSLDPCCR21KILQDGGLQV31VEKQNLSKEE41LIAELQDCEG
51-10051LIVRSATKVT61ADVINAAEKL71QVVGRAGTGV81DNVDLEAATR91KGILVMNTPN
101-150101GNSLSAAELT111CGMIMCLARQ121IPQATASMKD131GKWERKKFMG141TELNGKTLGI
151-200151LGLGRIGREV161ATRMQSFGMK171TIGYDPIISP181EVSASFGVQQ191LPLEEIWPLC
201-250201DFITVHTPLL211PSTTGLLNDN221TFAQCKKGVR231VVNCARGGIV241DEGALLRALQ
251-300251SGQCAGAALD261VFTEEPPRDR271ALVDHENVIS281CPHLGASTKE291AQSRCGEEIA
301-350301VQFVDMVKGK311SLTGVVNAQA321LTSAFSPHTK331PWIGLAEALG341TLMRAWAGSP
351-400351KGTIQVITQG361TSLKNAGNCL371SPAVIVGLLK381EASKQADVNL391VNAKLLVKEA
401-450401GLNVTTSHSP411AAPGEQGFGE421CLLAVALAGA431PYQAVGLVQG441TTPVLQGLNG
451-500451AVFRPEVPLR461RDLPLLLFRT471QTSDPAMLPT481MIGLLAEAGV491RLLSYQTSLV
501-533501SDGETWHVMG511ISSLLPSLEA521WKQHVTEAFQ531FHF
Palmitoylation Sites Details
| Position | Database | Domains | Literature (PMID/Cell-Tissue) | Mass(PMID/Cell-Tissue) | Prediction Scores |
|---|---|---|---|---|---|
| 18 | - |
HeLa
(37611173)
|
cerebral cortex
(36430497)
|
GPS-Palm: 0.92
Deep-Palm: 0.98
|
|
| 19 | - | - |
cerebral cortex
(36430497)
|
GPS-Palm: 0.88
Deep-Palm: 0.98
|
|
| 48 | D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain Formate/glycerate dehydrogenase catalytic domain-like | - |
Unknown
(32651440)
|
GPS-Palm: 0.81
Deep-Palm: 0.97
|
|
| 111 | - | - |
LNCaP
(31251020)
|
GPS-Palm: 0.70
Deep-Palm: 0.80
|
|
| 116 | - | - |
LNCaP
(31251020)
|
GPS-Palm: 0.82
Deep-Palm: 0.92
|
|
| 200 | - | - | - |
Deep-Palm: 0.83
|
|
| 225 | - | - | - |
GPS-Palm: 0.82
Deep-Palm: 0.95
|
|
| 234 | - | - | - |
GPS-Palm: 0.84
Deep-Palm: 0.98
|
|
| 254 | - | - |
cerebral cortex
(36430497)
|
GPS-Palm: 0.86
Deep-Palm: 0.98
|
|
| 281 | - | - |
cerebral cortex
(36430497)
|
GPS-Palm: 0.68
Deep-Palm: 0.96
|
|
| 295 | - | - |
LNCaP
(31251020)
Unknown
(32651440)
|
Deep-Palm: 0.87
|
|
| 369 | SWISSPALM DBPTM CYSMODDB | - | - |
cerebral cortex
(36430497)
|
GPS-Palm: 0.85
Deep-Palm: 0.98
|
| 421 | - | - | - |
Deep-Palm: 0.98
|
Score Interpretation:
• GPS-Palm: Thresholds - High (≥0.8920), Medium (≥0.7766), Low (≥0.6484), Very Low (<0.6484)
• Deep-Palm: Higher score indicates higher probability of palmitoylation (High ≥0.9)
• GPS-Palm: Thresholds - High (≥0.8920), Medium (≥0.7766), Low (≥0.6484), Very Low (<0.6484)
• Deep-Palm: Higher score indicates higher probability of palmitoylation (High ≥0.9)
Tissue/Cell Line Expression
Literature Data - Tissue/Cell Line Expression
Tissue Specificity Index (TSI): 0.364
4
cerebral cortex
Specificity: 0.267
4/4 (100.0%)
3
LNCaP
Specificity: 0.200
3/3 (100.0%)
2
HAP1 cell
Specificity: 0.133
2/2 (100.0%)
1
U937 cell
Specificity: 0.067
1/1 (100.0%)
1
293T cell
Specificity: 0.067
1/1 (100.0%)
Mass Spectrometry Data - Tissue/Cell Line Expression
Tissue Specificity Index (TSI): 1.000
4
Cerebral Cortex (Mass)
Specificity: 0.267
4/4 (100.0%)
Palmitoylation Distribution by Study and Tissue/Cell Line
Chart Explanation: Each bar represents a study (PMID).
Blue bars: Literature data, Orange bars: Mass Spectrometry data.
The colored bottom segment shows palmitoylated samples, while the gray top segment shows non-palmitoylated samples.
Conservation score for cysteine
PhyloP for Cysteine
PhastCons Conservation Scores for Cysteine
TCGA Cysteine Mutation Information
Note: Mutations indicate amino acid changes that may create potential palmitoylation sites.
| Position | Amino Acid Change | Frequency | Type | Function | Cancer Type |
|---|---|---|---|---|---|
| 254 | C → Y | 0.001887 | SNP | Missense Mutation | UCEC |
| 295 | C → Y | 0.002288 | SNP | Missense Mutation | STAD |