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mutLBSgeneDB |
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| Gene summary for PTPRB |
 Gene summary |
| Basic gene Info. | Gene symbol | PTPRB |
| Gene name | protein tyrosine phosphatase, receptor type, B | |
| Synonyms | HPTP-BETA|HPTPB|PTPB|R-PTP-BETA|VEPTP | |
| Cytomap | UCSC genome browser: 12q15-q21 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001109754.2, NM_001206971.1,NM_001206972.1,NM_002837.4, | |
| Description | VE-PTPprotein tyrosine phosphatase, receptor type, beta polypeptidereceptor-type tyrosine-protein phosphatase betavascular endothelial protein tyrosine phosphatase | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 176882 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000127329 | ||
| HPRD : 01474 | ||
| Vega : OTTHUMG00000169499 | ||
| Protein | UniProt: P23467 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_PTPRB | |
| BioGPS: 5787 | ||
| Pathway | NCI Pathway Interaction Database: PTPRB | |
| KEGG: PTPRB | ||
| REACTOME: PTPRB | ||
| Pathway Commons: PTPRB | ||
| Context | iHOP: PTPRB | |
| ligand binding site mutation search in PubMed: PTPRB | ||
| UCL Cancer Institute: PTPRB | ||
| Assigned class in mutLBSgeneDB | B: This gene belongs to targetable_mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0016311 | dephosphorylation | 19116766 |
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| Ligand binding site mutations for PTPRB |
| Lollipop-style diagram of mutations at LBS in amino-acid sequence. We represented ligand binding site mutations only. (You can see big image via clicking.)  : non-synonymous mutation on LBS, Circle size denotes number of samples. |
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| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | R1715 | V1713M | BRCA | 1 | G1907 | G1907V | HNSC | 1 | R1910 | T1911N | LUSC | 1 | R1715 | V1713M | UCEC | 1 |
| cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma. |
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| Protein structure related information for PTPRB |
| Relative protein structure stability change (ΔΔE) using Mupro 1.1 Mupro score denotes assessment of the effect of mutations on thermodynamic stability. (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability) |
 : nsSNV at non-LBS : nsSNV at LBS |
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| nsSNVs sorted by the relative stability change of protein structure by each mutation Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene. |
| LBS | AAchange of nsSNV | Relative stability change | G1907 | G1907V | -1.0676127 | R1715 | V1713M | -0.88935205 | R1910 | T1911N | -0.42682541 |
| (MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132) |
| Structure image for PTPRB from PDB |
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| Differential gene expression and gene-gene network for PTPRB |
| Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types |
| Differential co-expressed gene network based on protein-protein interaction data (CePIN) |
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| Phenotype information for PTPRB |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0018923 | Hemangiosarcoma | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for PTPRB |
| Gene expression profile of anticancer drug treated cell-lines (CCLE) Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient. |
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| Gene-centered drug-gene interaction network |
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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Experimental | DB06989 | {4-[2-BENZYL-3-METHOXY-2-(METHOXYCARBONYL)-3-OXOPROPYL]PHENYL}SULFAMIC ACID | Small molecule |  |
| Experimental | DB07068 | (4-{4-[(TERT-BUTOXYCARBONYL)AMINO]-2,2-BIS(ETHOXYCARBONYL)BUTYL}PHENYL)SULFAMIC ACID | Small molecule |  |
| Experimental | DB07127 | {4-[2,2-BIS(5-METHYL-1,2,4-OXADIAZOL-3-YL)-3-PHENYLPROPYL]PHENYL}SULFAMIC ACID | Small molecule |  |
| Experimental | DB08678 | (4-ETHYLPHENYL)SULFAMIC ACID | Small molecule |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of PTPRB go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | 4UN | {4-[2,2-BIS(5-METHYL-1,2,4-OXADIAZOL-3-YL)-3-PHENYLPROPYL]PHENYL}SULFAMIC ACID | 2h04 | A | G1907 R1910 | UA1 | N-(TERT-BUTOXYCARBONYL)-L-TYROSYL-N-METHYL-4-(SULFOAMINO)-L-PHENYLALANINAMIDE | 2i4g | A | R1715 R1910 | 2UN | [4-(2-BENZYL-3-METHOXY-2-METHOXYCARBONYL-3-OXOPROPYL)PHENYL]SULFAMIC ACID | 2h02 | A | R1910 | 2UN | [4-(2-BENZYL-3-METHOXY-2-METHOXYCARBONYL-3-OXOPROPYL)PHENYL]SULFAMIC ACID | 2h02 | B | R1910 | 3UN | (4-{4-[(TERT-BUTOXYCARBONYL)AMINO]-2,2-BIS(ETHOXYCARBONYL)BUTYL}PHENYL)SULFAMIC ACID | 2h03 | A | R1910 | UA1 | N-(TERT-BUTOXYCARBONYL)-L-TYROSYL-N-METHYL-4-(SULFOAMINO)-L-PHENYLALANINAMIDE | 2i4h | A | R1910 | UA5 | (4-ETHYLPHENYL)SULFAMIC ACID | 2i5x | A | R1910 | UA5 | (4-ETHYLPHENYL)SULFAMIC ACID | 2i5x | B | R1910 |
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| Conservation information for LBS of PTPRB |
| Multiple alignments for P23467 in multiple species |
| LBS | AA sequence | # species | Species | A1906 | VVHCSAGVGRT | 2 | Homo sapiens, Mus musculus | A1906 | VVHCSAGVGRS | 1 | Drosophila melanogaster | C1904 | PTVVHCSAGVG | 2 | Homo sapiens, Mus musculus | C1904 | PIVVHCSAGVG | 1 | Drosophila melanogaster | D1870 | YTVWPDHGVPE | 2 | Homo sapiens, Mus musculus | D1870 | FTTWPDFGVPN | 1 | Drosophila melanogaster | G1907 | VHCSAGVGRTG | 2 | Homo sapiens, Mus musculus | G1907 | VHCSAGVGRSG | 1 | Drosophila melanogaster | G1909 | CSAGVGRTGTF | 2 | Homo sapiens, Mus musculus | G1909 | CSAGVGRSGTF | 1 | Drosophila melanogaster | H1871 | TVWPDHGVPET | 2 | Homo sapiens, Mus musculus | H1871 | TTWPDFGVPNP | 1 | Drosophila melanogaster | H1945 | RLHRVHMVQTE | 2 | Homo sapiens, Mus musculus | H1945 | RKERVWMVQTE | 1 | Drosophila melanogaster | I1736 | NRYNNILPYDA | 2 | Homo sapiens, Mus musculus | I1736 | NRFTNILPYDH | 1 | Drosophila melanogaster | K1811 | EKGRVKCDHYW | 2 | Homo sapiens, Mus musculus | K1811 | EKGREKCDQYW | 1 | Drosophila melanogaster | N1734 | GKNRYNNILPY | 2 | Homo sapiens, Mus musculus | N1734 | PKNRFTNILPY | 1 | Drosophila melanogaster | N1735 | KNRYNNILPYD | 2 | Homo sapiens, Mus musculus | N1735 | KNRFTNILPYD | 1 | Drosophila melanogaster | Q1948 | RVHMVQTECQY | 2 | Homo sapiens, Mus musculus | Q1948 | RVWMVQTEQQY | 1 | Drosophila melanogaster | R1715 | LKDVGRNQSCD | 1 | Homo sapiens | R1715 | LKHVGRDQPCT | 1 | Drosophila melanogaster | R1715 | LKDVGRSQSCD | 1 | Mus musculus | R1732 | NRGKNRYNNIL | 2 | Homo sapiens, Mus musculus | R1732 | NRPKNRFTNIL | 1 | Drosophila melanogaster | R1809 | CVEKGRVKCDH | 2 | Homo sapiens, Mus musculus | R1809 | CFEKGREKCDQ | 1 | Drosophila melanogaster | R1910 | SAGVGRTGTFI | 1 | Homo sapiens | R1910 | SAGVGRSGTFI | 1 | Drosophila melanogaster | R1910 | SAGVGRTGTFV | 1 | Mus musculus | S1905 | TVVHCSAGVGR | 2 | Homo sapiens, Mus musculus | S1905 | IVVHCSAGVGR | 1 | Drosophila melanogaster | V1908 | HCSAGVGRTGT | 2 | Homo sapiens, Mus musculus | V1908 | HCSAGVGRSGT | 1 | Drosophila melanogaster | Y1733 | RGKNRYNNILP | 2 | Homo sapiens, Mus musculus | Y1733 | RPKNRFTNILP | 1 | Drosophila melanogaster |
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