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mutLBSgeneDB |
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| Gene summary for APOBEC3F |
 Gene summary |
| Basic gene Info. | Gene symbol | APOBEC3F |
| Gene name | apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3F | |
| Synonyms | A3F|ARP8|BK150C2.4.MRNA|KA6 | |
| Cytomap | UCSC genome browser: 22q13.1 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001006666.1, NM_145298.5, | |
| Description | DNA dC->dU-editing enzyme APOBEC-3Fapolipoprotein B editing enzyme catalytic polypeptide-like 3Fapolipoprotein B mRNA editing enzyme cytidine deaminaseapolipoprotein B mRNA-editing enzyme catalytic polypeptide-like 3Finduced upon T-cell activation | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 608993 | |
| HGNC : HGNC | ||
| HPRD : 16415 | ||
| Protein | UniProt: Q8IUX4 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_APOBEC3F | |
| BioGPS: 200316 | ||
| Pathway | NCI Pathway Interaction Database: APOBEC3F | |
| KEGG: APOBEC3F | ||
| REACTOME: APOBEC3F | ||
| Pathway Commons: APOBEC3F | ||
| Context | iHOP: APOBEC3F | |
| ligand binding site mutation search in PubMed: APOBEC3F | ||
| UCL Cancer Institute: APOBEC3F | ||
| 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:0002230 | positive regulation of defense response to virus by host | 17121840 | GO:0009972 | cytidine deamination | 17121840 | GO:0010529 | negative regulation of transposition | 16527742 | GO:0016553 | base conversion or substitution editing | 17121840 | GO:0045071 | negative regulation of viral genome replication | 16378963 | GO:0045087 | innate immune response | 17121840 | GO:0045869 | negative regulation of single stranded viral RNA replication via double stranded DNA intermediate | 17121840 | GO:0048525 | negative regulation of viral process | 17121840 | GO:0051607 | defense response to virus | 21835787 | GO:0070383 | DNA cytosine deamination | 21835787 | GO:0080111 | DNA demethylation | 21496894 |
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| Ligand binding site mutations for APOBEC3F |
| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | H249 | H249N | GBM | 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 APOBEC3F |
| 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 | H249 | H249N | -0.77685431 |
| (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 APOBEC3F from PDB |
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| Differential gene expression and gene-gene network for APOBEC3F |
| 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 APOBEC3F |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for APOBEC3F |
| 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 APOBEC3F go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | ZN | ZINC(2+) | 4iou | A | H249 | ZN | ZINC(2+) | 4iou | B | H249 | ZN | ZINC(2+) | 4iou | C | H249 | ZN | ZINC(2+) | 4iou | D | H249 | ZN | ZINC(2+) | 4j4j | A | H249 | ZN | ZINC(2+) | 4j4j | B | H249 | ZN | ZINC(2+) | 3wus | A | H249 | ZN | ZINC(2+) | 3wus | B | H249 |
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| Conservation information for LBS of APOBEC3F |
| Multiple alignments for Q8IUX4 in multiple species |
| LBS | AA sequence | # species | Species |
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