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mutLBSgeneDB |
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| Gene summary for RGMB |
 Gene summary |
| Basic gene Info. | Gene symbol | RGMB |
| Gene name | repulsive guidance molecule family member b | |
| Synonyms | DRAGON | |
| Cytomap | UCSC genome browser: 5q15 | |
| Type of gene | protein-coding | |
| RefGenes | NM_173670.2, NM_001012761.2, | |
| Description | DRG11-responsive axonal guidance and outgrowth of neuriteRGM domain family member BRGM domain family, member Brepulsive guidance molecule B | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 612687 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000174136 | ||
| HPRD : 15243 | ||
| Vega : OTTHUMG00000162745 | ||
| Protein | UniProt: Q6NW40 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_RGMB | |
| BioGPS: 285704 | ||
| Pathway | NCI Pathway Interaction Database: RGMB | |
| KEGG: RGMB | ||
| REACTOME: RGMB | ||
| Pathway Commons: RGMB | ||
| Context | iHOP: RGMB | |
| ligand binding site mutation search in PubMed: RGMB | ||
| UCL Cancer Institute: RGMB | ||
| 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 |
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| Ligand binding site mutations for RGMB |
| 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 | M301 | V302L | COAD | 1 | M301 | V302M | LUAD | 1 | A300 | R300H | UCEC | 1 | M301 | V302M | 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 RGMB |
| 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 |
| (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 RGMB from PDB |
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| Differential gene expression and gene-gene network for RGMB |
| 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 RGMB |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0003873 | Arthritis, Rheumatoid | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for RGMB |
| 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 RGMB go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | III | Peptide ligand (PRO,SER,TYR,LEU,PHE,CYS,GLY,LEU,PHE,GLY,ASP) | 4bq6 | D | A300 M301 | III | Peptide ligand (PRO,SER,TYR,LEU,PHE,CYS,GLY,LEU,PHE,GLY,ASP) | 4bq6 | F | A300 M301 | III | Peptide ligand (PRO,SER,TYR,LEU,PHE,CYS,GLY,LEU,PHE,GLY,ASP) | 4bq7 | D | A300 M301 | III | Peptide ligand (PRO,SER,TYR,LEU,PHE,CYS,GLY,LEU,PHE,GLY,ASP) | 4bq7 | F | A300 M301 | III | Peptide ligand (SER,TYR,LEU,PHE,CYS,GLY,LEU,PHE,GLY,ASP) | 4bq8 | C | M301 |
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| Conservation information for LBS of RGMB |
| Multiple alignments for Q6NW40 in multiple species |
| LBS | AA sequence | # species | Species |
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