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mutLBSgeneDB |
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| Gene summary for CD4 |
 Gene summary |
| Basic gene Info. | Gene symbol | CD4 |
| Gene name | CD4 molecule | |
| Synonyms | CD4mut | |
| Cytomap | UCSC genome browser: 12p13.31 | |
| Type of gene | protein-coding | |
| RefGenes | NM_000616.4, NM_001195014.2,NM_001195015.2,NM_001195016.2,NM_001195017.2, NR_036545.1, | |
| Description | CD4 antigen (p55)CD4 receptorT-cell surface antigen T4/Leu-3T-cell surface glycoprotein CD4 | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 186940 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000010610 | ||
| HPRD : 01740 | ||
| Vega : OTTHUMG00000168514 | ||
| Protein | UniProt: P01730 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_CD4 | |
| BioGPS: 920 | ||
| Pathway | NCI Pathway Interaction Database: CD4 | |
| KEGG: CD4 | ||
| REACTOME: CD4 | ||
| Pathway Commons: CD4 | ||
| Context | iHOP: CD4 | |
| ligand binding site mutation search in PubMed: CD4 | ||
| UCL Cancer Institute: CD4 | ||
| 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:0006948 | induction by virus of host cell-cell fusion | 9166430 | GO:0030217 | T cell differentiation | 1533274 | GO:0032507 | maintenance of protein location in cell | 15128768 | GO:0045058 | T cell selection | 9551897 | GO:0045234 | protein palmitoleylation | 15128768 | GO:0045860 | positive regulation of protein kinase activity | 2118992 | GO:0050863 | regulation of T cell activation | 1533274 |
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| Ligand binding site mutations for CD4 |
| 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 | Q58 | S56F | SKCM | 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 CD4 |
| 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 | Q58 | S56F | -0.37642616 |
| (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 CD4 from PDB |
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| Differential gene expression and gene-gene network for CD4 |
| 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 CD4 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0162526 | AIDS-Related Opportunistic Infections | 1 | Biomarker |
| umls:C0017661 | Glomerulonephritis, IGA | 1 | Biomarker |
| umls:C0013264 | Muscular Dystrophy, Duchenne | 1 | Biomarker |
| umls:C0027746 | Nerve Degeneration | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for CD4 |
| 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 | DB00098 | Anti-thymocyte Globulin (Rabbit) | Biotech |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of CD4 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 CD4 |
| Multiple alignments for P01730 in multiple species |
| LBS | AA sequence | # species | Species | C445 | SEKKTCQCPHR | 4 | Homo sapiens, Mus musculus, Macaca mulatta, Pan troglodytes | C445 | SEKKTCQCSHR | 2 | Rattus norvegicus, Canis lupus familiaris | C447 | KKTCQCPHRFQ | 3 | Homo sapiens, Macaca mulatta, Pan troglodytes | C447 | KKTCQCPHRMQ | 1 | Mus musculus | C447 | KKTCQCSHRMQ | 1 | Rattus norvegicus | C447 | KKTCQCSHRIQ | 1 | Canis lupus familiaris | I435 | ERMSQIKRLLS | 3 | Homo sapiens, Canis lupus familiaris, Macaca mulatta | I435 | ARMSQIKRLLS | 2 | Mus musculus, Rattus norvegicus | I435 | QRMSQIKRLLS | 1 | Pan troglodytes | K115 | EVEDQKEEVQL | 1 | Homo sapiens | K115 | ELENRKEEVEL | 1 | Mus musculus | K115 | ELENKKEEVEL | 1 | Rattus norvegicus | K115 | D-TDKRQEVEL | 1 | Canis lupus familiaris | K115 | EVENKKEEVEL | 1 | Macaca mulatta | K115 | EVGDQKEEVQL | 1 | Pan troglodytes | K443 | LLSEKKTCQCP | 4 | Homo sapiens, Mus musculus, Macaca mulatta, Pan troglodytes | K443 | LLSEKKTCQCS | 2 | Rattus norvegicus, Canis lupus familiaris | L438 | SQIKRLLSEKK | 6 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris, Macaca mulatta, Pan troglodytes | L439 | QIKRLLSEKKT | 6 | Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris, Macaca mulatta, Pan troglodytes | Q58 | WKNSNQIKILG | 2 | Homo sapiens, Macaca mulatta | Q58 | WKFSDQRKILG | 1 | Mus musculus | Q58 | WKSSDQKTILG | 1 | Rattus norvegicus | Q58 | WRDSSMVQILG | 1 | Canis lupus familiaris | Q58 | WKNSNQTKILG | 1 | Pan troglodytes | T444 | LSEKKTCQCPH | 4 | Homo sapiens, Mus musculus, Macaca mulatta, Pan troglodytes | T444 | LSEKKTCQCSH | 2 | Rattus norvegicus, Canis lupus familiaris |
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