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mutLBSgeneDB |
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| Gene summary for NGF |
 Gene summary |
| Basic gene Info. | Gene symbol | NGF |
| Gene name | nerve growth factor (beta polypeptide) | |
| Synonyms | Beta-NGF|HSAN5|NGFB | |
| Cytomap | UCSC genome browser: 1p13.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_002506.2, | |
| Description | beta-nerve growth factornerve growth factor, beta subunit | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 162030 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000134259 | ||
| HPRD : 08874 | ||
| Vega : OTTHUMG00000011880 | ||
| Protein | UniProt: P01138 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_NGF | |
| BioGPS: 4803 | ||
| Pathway | NCI Pathway Interaction Database: NGF | |
| KEGG: NGF | ||
| REACTOME: NGF | ||
| Pathway Commons: NGF | ||
| Context | iHOP: NGF | |
| ligand binding site mutation search in PubMed: NGF | ||
| UCL Cancer Institute: NGF | ||
| Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0008625 | extrinsic apoptotic signaling pathway via death domain receptors | 14985763 | GO:0048812 | neuron projection morphogenesis | 17724343 |
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| Ligand binding site mutations for NGF |
| 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 | E132 | E132K | SKCM | 3 | F222 | R224Q | BLCA | 1 | R49 | R49H | COAD | 1 | R190 | R190G | COAD | 1 | W197 | H196Y | GBM | 1 | F222 | R221W | STAD | 1 | K153 | K153R | THCA | 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 NGF |
| 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 | E132 | E132K | -1.2752776 | F222 | R224Q | -1.0820342 | R49 | R49H | -0.96523029 | W197 | H196Y | -0.83068182 | R190 | R190G | -0.80702696 | K153 | K153R | -0.78618506 | F222 | R221W | -0.21340657 |
| (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 NGF from PDB |
| PDB ID | PDB title | PDB structure | 1SG1 | Crystal Structure of the Receptor-Ligand Complex between Nerve Growth Factor and the Common Neurotrophin Receptor p75 |  |
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| Differential gene expression and gene-gene network for NGF |
| 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 NGF |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0020075 | NEUROPATHY, HEREDITARY SENSORY AND AUTONOMIC, TYPE V | 4 | Biomarker, GeneticVariation |
| umls:C0020429 | Hyperalgesia | 4 | Biomarker, Therapeutic |
| umls:C0021368 | Inflammation | 3 | Biomarker |
| umls:C0878773 | Urinary Bladder, Overactive | 3 | Biomarker, Therapeutic |
| umls:C0010692 | Cystitis | 2 | Biomarker |
| umls:C0027889 | Hereditary Sensory and Autonomic Neuropathies | 2 | Biomarker, GeneticVariation |
| umls:C0017658 | Glomerulonephritis | 2 | Biomarker |
| umls:C0019337 | Heroin Dependence | 2 | Biomarker |
| umls:C0031117 | Peripheral Nervous System Diseases | 2 | Biomarker |
| umls:C0002622 | Amnesia | 2 | Therapeutic |
| umls:C0038220 | Status Epilepticus | 2 | Biomarker |
| umls:C0085129 | Bronchial Hyperreactivity | 1 | Biomarker |
| umls:C0236736 | Cocaine-Related Disorders | 1 | Biomarker |
| umls:C0010043 | Corneal Ulcer | 1 | Therapeutic |
| umls:C0014549 | Epilepsy, Tonic-Clonic | 1 | Biomarker |
| umls:C0424295 | Hyperkinesis | 1 | Biomarker |
| umls:C0022661 | Kidney Failure, Chronic | 1 | Biomarker |
| umls:C0752347 | Lewy Body Disease | 1 | Biomarker |
| umls:C0273115 | Lung Injury | 1 | Therapeutic |
| umls:C0027707 | Nephritis, Interstitial | 1 | Biomarker |
| umls:C0027746 | Nerve Degeneration | 1 | Therapeutic |
| umls:C0027765 | Nervous System Diseases | 1 | Therapeutic |
| umls:C0525041 | Neurobehavioral Manifestations | 1 | Therapeutic |
| umls:C0524851 | Neurodegenerative Diseases | 1 | Therapeutic |
| umls:C0600467 | Neurogenic Inflammation | 1 | Biomarker |
| umls:C0030567 | Parkinson Disease | 1 | Biomarker |
| umls:C0242422 | Parkinsonian Disorders | 1 | Therapeutic |
| umls:C0403447 | Renal Insufficiency, Chronic | 1 | Biomarker |
| umls:C0036572 | Seizures | 1 | Biomarker |
| umls:C0037299 | Skin Ulcer | 1 | Therapeutic |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
| 29084 | R221W | Pathogenic | Germline | MedGen:C0020075 OMIM:608654 Orphanet:ORPHA64752 SNOMED CT:128206006 |
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| Pharmacological information for NGF |
| 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 |
| Approved|vet_approved | DB01407 | Clenbuterol | Small molecule |  |
| Investigational | DB05892 | RI 624 | Biotech |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of NGF go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS |
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| Conservation information for LBS of NGF |
| Multiple alignments for P01138 in multiple species |
| LBS | AA sequence | # species | Species | D137 | EFSVCDSVSVW | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | D137 | EFSVCDSISVW | 1 | Bos taurus | E132 | IFHRGEFSVCD | 2 | Homo sapiens, Pan troglodytes | E132 | VFHMGEFSVCD | 2 | Mus musculus, Rattus norvegicus | E132 | VFHRGEFSVCD | 1 | Bos taurus | F128 | SSHPIFHRGEF | 2 | Homo sapiens, Pan troglodytes | F128 | STHPVFHMGEF | 2 | Mus musculus, Rattus norvegicus | F128 | SSHPVFHRGEF | 1 | Bos taurus | F133 | FHRGEFSVCDS | 3 | Homo sapiens, Bos taurus, Pan troglodytes | F133 | FHMGEFSVCDS | 2 | Mus musculus, Rattus norvegicus | F175 | FKQYFFETKCR | 4 | Homo sapiens, Rattus norvegicus, Bos taurus, Pan troglodytes | F175 | FRQYFFETKCR | 1 | Mus musculus | F207 | TTTHTFVKALT | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Pan troglodytes | F222 | QAAWRFIRIDT | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Pan troglodytes | G131 | PIFHRGEFSVC | 2 | Homo sapiens, Pan troglodytes | G131 | PVFHMGEFSVC | 2 | Mus musculus, Rattus norvegicus | G131 | PVFHRGEFSVC | 1 | Bos taurus | I152 | TTATDIKGKEV | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Pan troglodytes | K153 | TATDIKGKEVM | 3 | Homo sapiens, Bos taurus, Pan troglodytes | K153 | TATDIKGKEVT | 2 | Mus musculus, Rattus norvegicus | R190 | VDSGCRGIDSK | 2 | Homo sapiens, Pan troglodytes | R190 | VESGCRGIDSK | 2 | Mus musculus, Rattus norvegicus | R190 | VDSGCRGIDAK | 1 | Bos taurus | R49 | LDTALRRARSA | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | R49 | LDTVLRRAHSA | 1 | Bos taurus | S138 | FSVCDSVSVWV | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | S138 | FSVCDSISVWV | 1 | Bos taurus | S140 | VCDSVSVWVGD | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | S140 | VCDSISVWVGD | 1 | Bos taurus | V139 | SVCDSVSVWVG | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | V139 | SVCDSISVWVG | 1 | Bos taurus | V141 | CDSVSVWVGDK | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | V141 | CDSISVWVGDK | 1 | Bos taurus | W142 | DSVSVWVGDKT | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | W142 | DSISVWVGDKT | 1 | Bos taurus | W197 | IDSKHWNSYCT | 4 | Homo sapiens, Mus musculus, Rattus norvegicus, Pan troglodytes | W197 | IDAKHWNSYCT | 1 | Bos taurus | Y173 | SVFKQYFFETK | 4 | Homo sapiens, Rattus norvegicus, Bos taurus, Pan troglodytes | Y173 | SVFRQYFFETK | 1 | Mus musculus |
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