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mutLBSgeneDB |
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| Gene summary for NR4A1 |
 Gene summary |
| Basic gene Info. | Gene symbol | NR4A1 |
| Gene name | nuclear receptor subfamily 4, group A, member 1 | |
| Synonyms | GFRP1|HMR|N10|NAK-1|NGFIB|NP10|NUR77|TR3 | |
| Cytomap | UCSC genome browser: 12q13 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001202233.1, NM_001202234.1,NM_002135.4,NM_173157.2,NM_173158.1, | |
| Description | ST-59TR3 orphan receptorearly response protein NAK1growth factor-inducible nuclear protein N10hormone receptornerve growth factor IB nuclear receptor variant 1nuclear hormone receptor NUR/77nuclear receptor subfamily 4 group A member 1orphan nucle | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 139139 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000123358 | ||
| HPRD : 00744 | ||
| Vega : OTTHUMG00000150393 | ||
| Protein | UniProt: P22736 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_NR4A1 | |
| BioGPS: 3164 | ||
| Pathway | NCI Pathway Interaction Database: NR4A1 | |
| KEGG: NR4A1 | ||
| REACTOME: NR4A1 | ||
| Pathway Commons: NR4A1 | ||
| Context | iHOP: NR4A1 | |
| ligand binding site mutation search in PubMed: NR4A1 | ||
| UCL Cancer Institute: NR4A1 | ||
| 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:0002042 | cell migration involved in sprouting angiogenesis | 18059339 | GO:0045944 | positive regulation of transcription from RNA polymerase II promoter | 22427340 |
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| Ligand binding site mutations for NR4A1 |
| 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 | L562 | L562M | BRCA | 1 | L449 | R450H | GBM | 1 | L562 | L562M | KIRC | 1 | E445 | E445D | LUAD | 1 | R515 | R515P | LUAD | 1 | L493 | S492F | SKCM | 1 | L562 | L562M | STAD | 1 | L562 | L562M | 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 NR4A1 |
| 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 | L562 | L562M | -1.4569713 | L449 | R450H | -1.222481 | R515 | R515P | -1.2127468 | E445 | E445D | -1.0197953 | L493 | S492F | -0.38125807 |
| (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 NR4A1 from PDB |
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| Differential gene expression and gene-gene network for NR4A1 |
| 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 NR4A1 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0021655 | Insulin Resistance | 2 | Biomarker, GeneticVariation |
| umls:C0014175 | Endometriosis | 1 | Biomarker |
| umls:C0151744 | Myocardial Ischemia | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for NR4A1 |
| 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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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of NR4A1 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | ZJ0 | 1-(3,5-DIMETHOXYPHENYL)DECAN-1-ONE | 4kzi | A | E445 R515 | T94 | 1-(3,4,5-TRIHYDROXYPHENYL)NONAN-1-ONE | 4jgv | A | L493 |
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| Conservation information for LBS of NR4A1 |
| Multiple alignments for P22736 in multiple species |
| LBS | AA sequence | # species | Species | A442 | LLLESAFLELF | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | C566 | ELRTLCTQGLQ | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | D514 | LVLITDRHGLQ | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | D594 | DKIFMDTLPF | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | D594 | DKIFMDTLSF | 2 | Mus musculus, Rattus norvegicus | E440 | QDLLLESAFLE | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | E445 | ESAFLELFILR | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | F443 | LLESAFLELFI | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | F489 | DSILAFSRSLH | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | F489 | DNILAFSRSLH | 2 | Mus musculus, Rattus norvegicus | H372 | SLVRAHLDSGP | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | H372 | SLIRAHLDSGP | 2 | Mus musculus, Rattus norvegicus | H494 | FSRSLHSLGVD | 2 | Mus musculus, Rattus norvegicus | H494 | FSRSLHSLLVD | 1 | Homo sapiens | H494 | FSRSLHSLVVD | 1 | Bos taurus | H494 | FSRSLHGLVVD | 1 | Canis lupus familiaris | I512 | SALVLITDRHG | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | I591 | PIVDKIFMDTL | 4 | Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | I591 | PIIDKIFMDTL | 1 | Homo sapiens | K456 | LAYRSKPGEGK | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | K456 | LAYRSKPAEGK | 2 | Bos taurus, Canis lupus familiaris | K558 | SRLLGKLPELR | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L373 | LVRAHLDSGPS | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | L373 | LIRAHLDSGPS | 1 | Mus musculus | L373 | LIRAHLDSGPN | 1 | Rattus norvegicus | L437 | PGDQDLLLESA | 4 | Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L437 | PADQDLLLESA | 1 | Homo sapiens | L444 | LESAFLELFIL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L449 | LELFILRLAYR | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L493 | AFSRSLHSLGV | 2 | Mus musculus, Rattus norvegicus | L493 | AFSRSLHSLLV | 1 | Homo sapiens | L493 | AFSRSLHSLVV | 1 | Bos taurus | L493 | AFSRSLHGLVV | 1 | Canis lupus familiaris | L496 | RSLHSLGVDVP | 2 | Mus musculus, Rattus norvegicus | L496 | RSLHSLLVDVP | 1 | Homo sapiens | L496 | RSLHSLVVDIP | 1 | Bos taurus | L496 | RSLHGLVVDVP | 1 | Canis lupus familiaris | L497 | SLHSLGVDVPA | 2 | Mus musculus, Rattus norvegicus | L497 | SLHSLLVDVPA | 1 | Homo sapiens | L497 | SLHSLVVDIPA | 1 | Bos taurus | L497 | SLHGLVVDVPA | 1 | Canis lupus familiaris | L506 | PAFACLSALVL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L509 | ACLSALVLITD | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L555 | SCLSRLLGKLP | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L556 | CLSRLLGKLPE | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L559 | RLLGKLPELRT | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L562 | GKLPELRTLCT | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | L570 | LCTQGLQRIFY | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | L570 | LCTQGLQRIFC | 2 | Mus musculus, Rattus norvegicus | P377 | HLDSGPSTAKL | 3 | Homo sapiens, Mus musculus, Canis lupus familiaris | P377 | HLDSGPNTAKL | 1 | Rattus norvegicus | P377 | HLDSGPSTSKL | 1 | Bos taurus | Q528 | RVEELQNRIAS | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | R454 | LRLAYRSKPGE | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | R454 | LRLAYRSKPAE | 2 | Bos taurus, Canis lupus familiaris | R515 | VLITDRHGLQE | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | R515 | VLITDRHGLQD | 2 | Mus musculus, Rattus norvegicus | R563 | KLPELRTLCTQ | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | S441 | DLLLESAFLEL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | T513 | ALVLITDRHGL | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | T567 | LRTLCTQGLQR | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | T595 | KIFMDTLPF | 3 | Homo sapiens, Bos taurus, Canis lupus familiaris | T595 | KIFMDTLSF | 2 | Mus musculus, Rattus norvegicus | V498 | LHSLGVDVPAF | 2 | Mus musculus, Rattus norvegicus | V498 | LHSLLVDVPAF | 1 | Homo sapiens | V498 | LHSLVVDIPAF | 1 | Bos taurus | V498 | LHGLVVDVPAF | 1 | Canis lupus familiaris | V500 | SLGVDVPAFAC | 2 | Mus musculus, Rattus norvegicus | V500 | SLLVDVPAFAC | 1 | Homo sapiens | V500 | SLVVDIPAFAC | 1 | Bos taurus | V500 | GLVVDVPAFAC | 1 | Canis lupus familiaris | V510 | CLSALVLITDR | 5 | Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus, Canis lupus familiaris | Y453 | ILRLAYRSKPG | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | Y453 | ILRLAYRSKPA | 2 | Bos taurus, Canis lupus familiaris |
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