基因總覽
RNF8 是人類的 protein-coding gene,產物為 ring finger protein 8,屬於 RNF8 family。其蛋白質長 485 個胺基酸,包含 FHA domain 與 RING-type zinc finger,並有一段被註記為無序的區域。作為 E3 ubiquitin-protein ligase,RNF8 參與蛋白質泛素化;來源所述的主要角色與 DNA 損傷訊號傳遞相關。蛋白質亦具有與 PIWIL1 互作所需的區域,提供其結構與互作特性的基本線索。
基因異名與舊稱
異名取自 HGNC,可能包含歷史名稱;蛋白質名稱以 UniProt 註解為準。
染色體位置與基因結構
查看實際轉錄本與 exon 註解
| Transcript | Genomic coordinates | Exons |
|---|---|---|
| ENST00000373479 ★ | 37,353,983–37,394,734 | 8 |
| ENST00000469731 | 37,353,974–37,394,737 | 7 |
| ENST00000854574 | 37,353,974–37,394,737 | 7 |
| ENST00000854575 | 37,353,974–37,394,737 | 6 |
| ENST00000854576 | 37,353,974–37,394,737 | 7 |
| ENST00000854577 | 37,353,974–37,394,737 | 6 |
| ENST00000918865 | 37,353,974–37,394,737 | 8 |
| ENST00000918866 | 37,353,974–37,394,737 | 8 |
| ENST00000918867 | 37,353,974–37,394,737 | 5 |
| ENST00000918868 | 37,353,974–37,394,737 | 4 |
| ENST00000952611 | 37,353,974–37,394,737 | 7 |
| ENST00000952612 | 37,353,974–37,394,737 | 9 |
顯示 12/21 個蛋白質編碼轉錄本;canonical 優先。
帶型與著絲點依 Ensembl 座標繪製;核染色體長度以 GRCh38 第 1 號染色體為共同尺度。黃色標記表示本基因位置,細小區間加粗以利辨識;實際基因長度與 exon 見下方資料。
分子功能與生物學過程
RNF8 是 E3 ubiquitin-protein ligase,參與 DNA 損傷後的訊號傳遞,尤其協助損傷位點形成有利於修復蛋白募集的泛素化標記。DNA 雙股斷裂發生後,ATM 磷酸化的 MDC1 會將 RNF8 招募至受損位置;RNF8 隨後促進 histones H2A 與 H2AX 的 Lys-63 連結泛素化,推動 TP53BP1 與 BRCA1 形成損傷誘發焦點,也協助 UIMC1-BRCC3 與 PAXIP1/PTIP 等因子進入損傷區域。RNF8 還能以 Lys-6 連結方式泛素化 NBN,促進其募集。
在 DNA 複製間交聯損傷處,RNF8 同樣促進 H2A、H2AX 的 Lys-63 連結泛素化,進而招募 FAAP20 與 Fanconi anemia complex,參與交聯修復。H2A 泛素化也與斷裂區域兩側、依賴 ATM 的轉錄沉默有關,可能有助於避免轉錄與修復中間產物相互衝突。RNF8 亦可泛素化非組蛋白底物,例如 PCNA;Lys-63 連結的多聚泛素化通常不會使底物遭到降解。
RNF8 也能催化 Lys-48 連結的多聚泛素化,促使部分蛋白質降解,例如 CHEK2、JMJD2A/KDM4A 與 KU80/XRCC5。KU80/XRCC5 的降解與非同源末端接合修復有關;DNA 損傷後,RNF8 與 RNF168 協同促進 JMJD2A/KDM4A 泛素化及降解,使 H4K20me2 標記得以顯露,並促進 TP53BP1 到達損傷處。RNF8 也促使 DNA polymerase delta 的次單元 POLD4/p12 降解;缺少 POLD4 時,該複合體的校對活性較高。
RNF8 偏向形成 Lys-48 或 Lys-63 連結泛素鏈的調節方式仍未明,可能與其結合不同 E2 ligase 有關。例如,磷酸化 HERC2 促進 RNF8 與 UBE2N/UBC13 結合,偏向形成 Lys-63 連結泛素鏈。除損傷訊號外,RNF8 參與較高階染色質結構與染色質去凝縮;它也藉由促進 histone H2B 泛素化,間接引發 H4K16ac,形成有利於 ATM kinase 活化的染色質環境。其功能另涉及精子發生時組蛋白替換、免疫系統的 class switch recombination,以及在缺少 BRCA1 與 TP53BP1 時促進 RAD51 在雙股斷裂處組裝。部分其他作用仍屬可能性,例如有助於紡錘體檢查點啟動後退出有絲分裂、調節細胞質分裂或影響 RXRA 調控的轉錄活性。
Promoter 與基因調控
>RNF8 ENST00000373479 GRCh38 chr6:37352983-37354083 strand=1 5′→3′ 相對 TSS:-1000 到 +100 bp;1101 bp 依轉錄本 TSS 擷取的基因組序列;TSS = 0,兩端包含,未驗證為 promoter AGGCGGAGGTTGCAGTGAGCTGAGATCGCACCACTCCAGGCTGCACTCCAGCCTGGGTGACAGGGCGAGA CCCTGTCTGTAATCAGTAATAATAATAATAAAATTAACAGCTTTATTGAGTATAATTTACATGCCATAAA ATTCACCCACTGGAAGTTTACACTTTCTTCACTTTACAGGGTCTCACTCTGTCGCCCAGGCTGGGATGCA GTGGCGCCATGTCGGCTCACTGCAACCTCTGCCTCCCGGGGTCAGGTGATCCTCCCACCTCAGCCTCCCA AGTAGCCGGACTACAGGTGTGCACCACCACACCTAGCTAATTTTTCTTTTTTTTCTTTTTTCCTTTCTCT CCCTCCCTTCCTCCTTTTTTTTTTTTTTTTTTTGTAGATACGGTGTCTCCCCATGTGGCCAGGTTGGTCA CAACTCCTGAACTCAAGTGATCCGCGCGTCTCGACCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACT GCGTCCGGCCACACTTCCATGACTTTTTAATAAACTTATACAGTTGTACAATTGTCACCACAATCCACTT TTAGAACATTTCTATTACCGCTTTCCTCCAATTTTTTCAAGCCCATCTGCATTCAATACCCGCTCCCACA CCTCGCCCCAGGTAACTGTGCTCTTTGTCTTTGTAGATTTGCCTAGTGTAATTTATTTTTTACTTCGGTA ATATAAGTAGGTCGTGCAAAATAGAGACTATTTAGCAACAGACTAGGCAGACTTAAATCCGATGGAAAGT TTAAAGTTGTTTAAAAGTGGGCTATAGTTTCACATGACTTTTTTAAAAAGAGGAAAGGTGAGAAGAGGTT CCAGTCTGGGGCGGCTAGGACTGGGGTGATGGTTCTGGAGGCGGCGAGGGAAGGTGTGAGGCGAGGAGAC CTCTCGAATCGCGCCCGCCCCGCCCAGGGCCGGATTGGCTCCCAACCCACCCTCTTTGCTCCAGGGCGGC CGCCGTCCTCTTGCGCAGGCGTAGTGCTCCTGCTTCCTGGCCGAGGGCGGGCGAGCGGAGCCTGCTTTCG CAGCGATCGCGAGCGTGTGGCGATTGCTTCTGTCTGTTATTTAGATATGGA
EPDnew 實驗支持 promoter/TSS · 1 筆
| EPDnew ID | TSS(1-based) | 股向 | 來源顯示區間 |
|---|---|---|---|
| RNF8_1 ↗ | 6:37,353,983 | 正股 | 37,353,934–37,353,993 |
EPDnew human v006 · UCSC hg38,GRCh38/hg38,透過 UCSC 取得。TSS 具有 CAGE/RAMPAGE 等實驗資料支持;任意擷取的上下游區間仍需另行判讀調控功能,不能視為整段皆經功能驗證。
EPD 封存狀態 ↗ · UCSC 資料說明 ↗ · EPD team, SIB Swiss Institute of Bioinformatics; UCSC Genome Browser · CC BY 4.0
查看已取得的調控/motif 註解
ENSR6_B9F67 · promoter · 37353493–37354101 · regulatory
ENSR6_C5P46 · enhancer · 37354102–37355263 · regulatory
· motif · 37353807–37353819 · motif
· motif · 37353873–37353885 · motif
· motif · 37353974–37353985 · motif
· motif · 37353974–37353985 · motif
· motif · 37354491–37354502 · motif
· motif · 37354493–37354504 · motif
· motif · 37354702–37354715 · motif
· motif · 37354725–37354738 · motif
· motif · 37356693–37356706 · motif
· motif · 37356693–37356706 · motif
· motif · 37356806–37356818 · motif
· motif · 37356806–37356821 · motif
· motif · 37356811–37356823 · motif
蛋白質結構域與序列
參考蛋白質長度:485 aa
RNF8 蛋白長 485 個胺基酸,位於第 38–92 位的 FHA domain,以及第 403–441 位的 RING-type zinc finger。第 68–72 位區域被註記為與 PIWIL1 互作所需;第 181–220 位則被註記為無序區域。該蛋白屬於 RNF8 family。
蛋白質三維結構
細胞內定位
RNF8 位於細胞核與細胞質,也可出現在 midbody;DNA 雙股斷裂後會被募集至損傷位置,未封端端粒處的募集則標示為 By similarity。 細胞分裂期間,其分布隨階段改變:前期核膜解體時呈點狀分布於全細胞,末期可見於細胞核及細胞質,晚期末期與細胞質分裂時則定位於連接子細胞的微管橋 midbody。 精子發生期間,PIWIL1 可將 RNF8 暫留於細胞質;PIWIL1 泛素化並降解後,RNF8 會被釋出。
深綠色圓點:來源記載的蛋白質定位;數量不表示含量。
未繪示構造:Midbody;Chromosome, telomere。這些構造未在通用細胞圖中標點,仍保留來源定位名稱。
動物細胞結構示意;器官大小與數量不按比例。點選細胞構造可查看定位註解。
交互作用與訊號網絡
拖曳節點後放開可帶動位置變化;點選夥伴查看證據。位置與連線長度不代表結合強度,圖中未推定夥伴彼此之間的關係。
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RNF8 可形成同源二聚體,並與 UBE2N、UBE2V2 組成包含 RNF8 同源二聚體及 E2 異源二聚體的 E2–E3 泛素連接酶複合體。它也與 UBE2E1、UBE2E2、UBE2E3 等 class III E2,以及 UBE2N 互作。RNF8 透過 FHA domain 結合 ATM 磷酸化的 MDC1,也可透過同一 domain 與磷酸化 HERC2 互作;此外,資料記載其與 RXRA、WRAP53/TCAB1 及 PIWIL1 互作。PIWIL1 互作與 RNF8 滯留於細胞質相關。另在人類 herpesvirus 1 感染情境下,病毒蛋白 ICP0 可與 RNF8 的 FHA domain 互作,並導致 RNF8 經蛋白酶體降解。
疾病與遺傳關聯
Contextual Functional Evidence Matrix
矩陣以「功能主張」為列,以細胞情境、干預條件、量測結果與證據來源為欄,方便比較同一功能在不同條件下的支持情形。只有含情境與實驗資訊的紀錄會列入矩陣;一般功能註解另列於下方。
功能註解總覽 · 6 筆
| 功能面向 | 功能敘述 | 證據類型 | 可查核來源 |
|---|---|---|---|
| 功能 | RNF8 是 E3 ubiquitin-protein ligase,參與 DNA 損傷訊號傳遞。它促進 H2A、H2AX 的 Lys-63 連結泛素化以招募修復因子,也能以 Lys-48 連結泛素化促使特定底物降解;並參與 DNA 交聯修復、染色質調節、ATM 活化、精子發生及免疫系統的 class switch recombination。其泛素鏈連結偏好的調節方式仍未明,部分細胞分裂與轉錄相關作用則僅屬可能性。 | 含實驗來源 | 證據與來源E3 ubiquitin-protein ligase that plays a key role in DNA damage signaling via 2 distinct roles: by mediating the 'Lys-63'-linked ubiquitination of histones H2A and H2AX and promoting the recruitment of DNA repair proteins at double-strand breaks (DSBs) sites, and by catalyzing 'Lys-48'-linked ubiquitination to remove target proteins from DNA damage sites. Following DNA DSBs, it is recruited to the sites of damage by ATM-phosphorylated MDC1 and catalyzes the 'Lys-63'-linked ubiquitination of histones H2A and H2AX, thereby promoting the formation of TP53BP1 and BRCA1 ionizing radiation-induced foci (IRIF). Also controls the recruitment of UIMC1-BRCC3 (RAP80-BRCC36) and PAXIP1/PTIP to DNA damage sites. Promotes the recruitment of NBN to DNA damage sites by catalyzing 'Lys-6'-linked ubiquitination of NBN. Also recruited at DNA interstrand cross-links (ICLs) sites and catalyzes 'Lys-63'-linked ubiquitination of histones H2A and H2AX, leading to recruitment of FAAP20/C1orf86 and Fanconi anemia (FA) complex, followed by interstrand cross-link repair. H2A ubiquitination also mediates the ATM-dependent transcriptional silencing at regions flanking DSBs in cis, a mechanism to avoid collision between transcription and repair intermediates. Promotes the formation of 'Lys-63'-linked polyubiquitin chains via interactions with the specific ubiquitin-conjugating UBE2N/UBC13 and ubiquitinates non-histone substrates such as PCNA. Substrates that are polyubiquitinated at 'Lys-63' are usually not targeted for degradation. Also catalyzes the formation of 'Lys-48'-linked polyubiquitin chains via interaction with the ubiquitin-conjugating UBE2L6/UBCH8, leading to degradation of substrate proteins such as CHEK2, JMJD2A/KDM4A and KU80/XRCC5: it is still unclear how the preference toward 'Lys-48'- versus 'Lys-63'-linked ubiquitination is regulated but it could be due to RNF8 ability to interact with specific E2 specific ligases. For instance, interaction with phosphorylated HERC2 promotes the association between RNF8 and UBE2N/UBC13 and favors the specific formation of 'Lys-63'-linked ubiquitin chains. Promotes non-homologous end joining (NHEJ) by promoting the 'Lys-48'-linked ubiquitination and degradation the of KU80/XRCC5. Following DNA damage, mediates the ubiquitination and degradation of JMJD2A/KDM4A in collaboration with RNF168, leading to unmask H4K20me2 mark and promote the recruitment of TP53BP1 at DNA damage sites. Following DNA damage, mediates the ubiquitination and degradation of POLD4/p12, a subunit of DNA polymerase delta. In the absence of POLD4, DNA polymerase delta complex exhibits higher proofreading activity. In addition to its function in damage signaling, also plays a role in higher-order chromatin structure by mediating extensive chromatin decondensation. Involved in the activation of ATM by promoting histone H2B ubiquitination, which indirectly triggers histone H4 'Lys-16' acetylation (H4K16ac), establishing a chromatin environment that promotes efficient activation of ATM kinase. Required in the testis, where it plays a role in the replacement of histones during spermatogenesis. At uncapped telomeres, promotes the joining of deprotected chromosome ends by inducing H2A ubiquitination and TP53BP1 recruitment, suggesting that it may enhance cancer development by aggravating telomere-induced genome instability in case of telomeric crisis. Promotes the assembly of RAD51 at DNA DSBs in the absence of BRCA1 and TP53BP1 Also involved in class switch recombination in immune system, via its role in regulation of DSBs repair. May be required for proper exit from mitosis after spindle checkpoint activation and may regulate cytokinesis. May play a role in the regulation of RXRA-mediated transcriptional activity. Not involved in RXRA ubiquitination by UBE2E2 PMID 11322894 ↗ · PMID 14981089 ↗ · PMID 17724460 ↗ · PMID 18001824 ↗ · PMID 18001825 ↗ · PMID 18006705 ↗ · PMID 18077395 ↗ · PMID 18337245 ↗ · PMID 18948756 ↗ · PMID 19015238 ↗ · PMID 19124460 ↗ · PMID 19202061 ↗ · PMID 19203578 ↗ · PMID 19203579 ↗ · PMID 20550933 ↗ · PMID 21558560 ↗ · PMID 21857671 ↗ · PMID 21911360 ↗ · PMID 22266820 ↗ · PMID 22373579 ↗ · PMID 22531782 ↗ · PMID 22705371 ↗ · PMID 22865450 ↗ · PMID 22980979 ↗ · PMID 23115235 ↗ · PMID 23233665 ↗ |
| 分子活性 | S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine. | 含實驗來源 | 證據與來源S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine. PMID 23115235 ↗ |
| 分子活性 | RNF8 參與蛋白質修飾,具體類別為蛋白質泛素化。 | 資料庫紀錄 | |
| 交互作用 | RNF8 可形成同源二聚體,並與由 UBE2N 和 UBE2V2 組成的 E2 異源二聚體形成 E2–E3 泛素連接酶複合體。它與多種 E2 蛋白及 RXRA 互作,也透過 FHA domain 結合 ATM 磷酸化的 MDC1,以及磷酸化 HERC2。RNF8 還與 PIWIL1、WRAP53/TCAB1 互作;與 PIWIL1 的互作會使 RNF8 滯留於細胞質。PIWIL1 相關結果標示為 By similarity。 | 含實驗來源 | 證據與來源Homodimer. Forms a E2-E3 ubiquitin ligase complex composed of the RNF8 homodimer and a E2 heterodimer of UBE2N and UBE2V2. Interacts with class III E2s, including UBE2E1, UBE2E2, and UBE2E3 and with UBE2N. Interacts with RXRA. Interacts (via FHA domain) with ATM-phosphorylated MDC1. Interacts (via FHA domain) with 'Thr-4827' phosphorylated HERC2 (via C-terminus). Interacts with PIWIL1; leading to sequester RNF8 in the cytoplasm (By similarity). Interacts with WRAP53/TCAB1 PMID 11322894 ↗ · PMID 14981089 ↗ · PMID 16215985 ↗ · PMID 18001824 ↗ · PMID 18001825 ↗ · PMID 18006705 ↗ · PMID 18678647 ↗ · PMID 20023648 ↗ · PMID 22266820 ↗ · PMID 22589545 ↗ · PMID 22980979 ↗ · PMID 25512560 ↗ |
| 交互作用 | 在微生物感染情境下,RNF8 透過 FHA domain 與已磷酸化的人類 herpesvirus 1 蛋白 ICP0 互作;此互作會導致 RNF8 經蛋白酶體降解。 | 含實驗來源 | 證據與來源(Microbial infection) Interacts (via FHA domain) with phosphorylated human herpesvirus 1 ICP0 protein; leading to RNF8 degradation by the proteasome PMID 22405594 ↗ |
| 細胞定位 | RNF8 可見於細胞核、細胞質、midbody 與端粒;未封端端粒處的定位標示為 By similarity。DNA 損傷後會被募集至損傷處。細胞分裂期間,其分布隨階段改變,並在細胞質分裂時出現在連接子細胞的微管橋 midbody;來源指出它似乎不與細胞週期中任何時段的凝縮染色體相關。精子發生期間,PIWIL1 將 RNF8 暫留於細胞質,待 PIWIL1 泛素化並降解後 RNF8 才釋出。 | 含實驗來源 | 證據與來源Nucleus; Cytoplasm; Midbody; Chromosome, telomere; Recruited at uncapped telomeres (By similarity). Following DNA damage, such as double-strand breaks, recruited to the sites of damage. During prophase, concomitant with nuclear envelope breakdown, localizes throughout the cell, with a dotted pattern. In telophase, again in the nucleus and also with a discrete dotted pattern in the cytoplasm. In late telophase and during cytokinesis, localizes in the midbody of the tubulin bridge joining the daughter cells. Does not seem to be associated with condensed chromosomes at any time during the cell cycle. During spermatogenesis, sequestered in the cytoplasm by PIWIL1: RNF8 is released following ubiquitination and degradation of PIWIL1 PMID 11322894 ↗ · PMID 14981089 ↗ · PMID 16215985 ↗ · PMID 23233665 ↗ |
核酸與蛋白質序列
GTAGTGCTCCTGCTTCCTGGCCGAGGGCGGGCGAGCGGAG40CCTGCTTTCGCAGCGATCGCGAGCGTGTGGCGATTGCTTC80TGTCTGTTATTTAGATATGGAAGCTGAGGGGATGCACAGA120GGCAGCCAGAACCTAGGTCAGGGTCTCGCTCGGTGCTGAC160CGCCCCCGGGGTCGAGTAGGCGATGGGGGAGCCCGGCTTC200TTCGTCACAGGAGACCGCGCCGGTGGCCGGAGCTGGTGCC240TGCGGCGGGTGGGGATGAGCGCCGGGTGGCTGCTGCTGGA280AGATGGGTGCGAGGTGACTGTAGGACGAGGATTTGGTGTC320ACATACCAACTGGTATCAAAAATCTGCCCCCTGATGATTT360CTCGAAACCACTGTGTTTTGAAGCAGAATCCTGAGGGCCA400ATGGACAATTATGGACAACAAGAGTCTAAATGGTGTTTGG440CTGAACAGAGCGCGTCTGGAACCTTTAAGGGTCTATTCCA480TTCATCAGGGAGACTACATCCAACTTGGAGTGCCTCTGGA520AAATAAGGAGAATGCGGAGTATGAATATGAAGTTACTGAA560GAAGACTGGGAGACAATATATCCTTGTCTTTCCCCAAAGA600ATGACCAAATGATAGAAAAAAATAAGGAATTGAGAACTAA640AAGGAAATTCAGTTTGGATGAATTAGCAGGTCCTGGAGCT680GAAGGCCCCTCAAATTTGAAATCCAAAATAAATAAAGTGT720CTTGTGAATCTGGTCAGCCAGTGAAATCACAGGGGAAAGG760TGAAGTGGCCAGTACACCCTCTGACAATTTGGATCCTAAG800TTGACTGCCCTTGAGCCAAGTAAGACCACAGGGGCTCCCA840TTTACCCTGGCTTCCCCAAAGTCACAGAGGTTCATCATGA880GCAGAAAGCCTCAAACTCTTCAGCATCTCAGAGAAGCTTA920CAGATGTTTAAGGTGACCATGTCCAGGATTCTGAGGCTCA960cDNA 使用 DNA 字母 T;mRNA 模式改以 U 顯示。轉錄本保留已註解的非編碼區,未另外加入 poly(A) 尾;非編碼 RNA 的參考轉錄本也可能仍需後續加工。數字為所選序列的 1-based 位置。長序列以黃色捲軸瀏覽,可複製或下載完整轉錄本與蛋白質;基因組 DNA 隨捲動取得所需範圍。