基因總覽
TPR(translocated promoter region, nuclear basket protein)是蛋白質編碼基因,產物屬於 TPR family,為核孔複合體(NPC)的組成成分。NPC 是核膜上的運輸複合體;TPR 位於其核內側,形成稱為 nuclear basket 的纖維結構。蛋白質特徵資料將其部分區段標示為與 NPC 結合、核輸入及特定互作相關,也包含多個預測為無序的區域。除核孔周邊的結構角色外,TPR 亦與染色質在細胞核周邊的分布,以及有絲分裂期間的紡錘體檢查點訊號有關。
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 |
|---|---|---|
| ENST00000367478 ★ | 186,311,652–186,375,253 | 51 |
| ENST00001145219 | 186,311,188–186,375,253 | 51 |
| ENST00000613151 | 186,353,871–186,375,325 | 18 |
| ENST00000451586 | 186,373,393–186,375,693 | 3 |
顯示 4/4 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
TPR 是核孔複合體(NPC)的支架成分,參與核膜兩側的蛋白質與 mRNA 運輸,支持正常的核質運輸。它也參與細胞間期核周邊染色質區域的建立,並與 NPC 周圍異染色質排除區的形成或維持有關,因而兼具核孔結構與核內空間組織的角色。
在 RNA 調控方面,TPR 參與未剪接 mRNA 的品質控制與核內滯留。與 NUP153 協同時,它能以不依賴 NXF1 或 KHDRBS1 的方式,調節帶有 constitutive transport element(CTE)的未剪接 mRNA 核輸出;同時抑制這類 mRNA 與大型多核糖體的結合及翻譯起始。來源指出,TPR 不參與由 Rev response element(RRE)介導的未剪接 mRNA 輸出,顯示其作用並非涵蓋所有未剪接 mRNA 的出口途徑。
TPR 也與熱休克基因的 mRNA 輸出相關。在壓力誘發條件下,它可同時關聯 HSP70 啟動子染色質及由該啟動子轉錄的 mRNA;並與 HSF1 的互作增加,促進壓力誘發 HSP70 mRNA 的輸出。此外,TPR 可調節活化的 MAPK1/ERK2 與 huntingtin/HTT 的核質運輸,並可能作為 XPO1/CRM1 介導之核輸出複合體的停靠位置。不過,部分研究認為 TPR 對核蛋白輸出的調節作用有限。
在有絲分裂中,TPR 作為紡錘體組裝檢查點(SAC)的空間調節因子,協助檢查點蛋白 MAD1L1 與 MAD2L1 在染色體排列前、後期轉換期間,及時有效地被募集至尚未附著的動粒。來源亦指出 TPR 的 N 端參與致癌激酶活化;此描述限於來源所述的功能,不足以據此推論特定疾病中的因果關係。
Promoter 與基因調控
>TPR ENST00000367478 GRCh38 chr1:186375153-186376253 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 TAAAACATAGGCTACACTCAAAGTGCTACCGGTTTCTTTTAATTCTCCTCCTGAAGAATTAACCCGGGTC CTTAAATTCCCGGGTACTGAATCACTCAGTGCCACCTCCCCACCACCAAAAACCATTTAGGTACGCCGTT TCACACAAGGTAAGTTCGTCAGAAGTGTGTGCCGGAGTGACTGTCCATATGGTTCCAACACTGTCCCTTC CTTTTTCTCTTGAAAAGAGAGCACACACACACACACACACACACACACACTACACTTAGGCTGACTTACC TGTTTTCAGAATGTGCACTCGTGGCAGACAATTACCTCGGACGGTCTCTCCGCCGGAGATGGGGGTTTCG GGCCCAAGTACCAGCCTCTAGGGGCCAGATTCCCTCCGGTCTCAATTCACTGCCACTGAATTCATCAGAA AGCGACCTACTTCCCACACCTCACTTCCCACTCCAAAGCCAGGGACTTGGGAGTCAGGTGGCGCAGATTG ATGACGTAAAAGCCCCCCCTCCCTTCCCCGCAGAGCCTCAGCCAAAGCGACTGCGGTCGCCACCCCGCCC CCTTCTGGGCGCCATAGAGAGCGTGGCGGTATCCCGGAGCCTGCCGTCCGGCCCTACCGGGACCGATGCC CTCTAGTGGCTCAGTGTCCAGAAGCCGCCAACGAGGACGATCCATGGCATCCCGGGGCTTTGACGGTAAG GTCACCAGCTCTTCAGGGAGGGCCAAGGGGTGACGAGTACGTATGTGGCGCCACCGTGCGGACAGCGGTT ACGGGGCCGAGATAGGAGAGCCAGGGGAGCGGGGAGAAAAACGGAAGCTGAGAGGGCGGTGCAGCATTGG GCTCCCGGAAAAGAATGAGAAAAACACTACATTTCCCAGAGCCCTACAAGGCCTGAAGTGGGTGGAGCTG GAAGCCGGAAAATTGGGTGCGCAAGAGGATCAGGGATAGCCTCTGAGCTCGGGTTCCCAGGGTTCGTAGC TTCCAACGGCTGCGCGCGCACTTCGGTCGCGGGCGGTGAGGTGCTGTTGCTGAAACGCTGCCGCTGAGGG TGGACTCGATTTCCCAGGGTCCCGCCGCGGGAGTCTCCGGCGGGCGGGCGC
EPDnew 實驗支持 promoter/TSS · 2 筆
| EPDnew ID | TSS(1-based) | 股向 | 來源顯示區間 |
|---|---|---|---|
| TPR_1 ↗ | 1:186,375,228 | 負股 | 186,375,218–186,375,277 |
| TPR_2 ↗ | 1:186,375,734 | 負股 | 186,375,724–186,375,783 |
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
ENSR1_B3CZN3 · promoter · 186375243–186375848 · regulatory
ENSR1_53LSLDJ · CTCF_binding_site · 186375489–186375510 · regulatory
ENSR1_53LSLF4 · CTCF_binding_site · 186375611–186375632 · regulatory
ENSR1_53LSLFF · CTCF_binding_site · 186375682–186375703 · regulatory
ENSR1_53LSLFS · CTCF_binding_site · 186375767–186375788 · regulatory
ENSR1_B3CZN5 · enhancer · 186375849–186376503 · regulatory
ENSR1_53LSLWJ · CTCF_binding_site · 186378512–186378533 · regulatory
· motif · 186375020–186375030 · motif
· motif · 186375346–186375356 · motif
· motif · 186375428–186375448 · motif
· motif · 186375435–186375446 · motif
· motif · 186375435–186375448 · motif
· motif · 186375483–186375498 · motif
· motif · 186375491–186375507 · motif
· motif · 186375520–186375535 · motif
· motif · 186375543–186375556 · motif
· motif · 186375546–186375558 · motif
· motif · 186375613–186375629 · motif
· motif · 186375684–186375700 · motif
· motif · 186375692–186375702 · motif
· motif · 186375742–186375752 · motif
· motif · 186375752–186375765 · motif
· motif · 186375752–186375765 · motif
· motif · 186375769–186375785 · motif
· motif · 186378514–186378530 · motif
蛋白質結構域與序列
參考蛋白質長度:2363 aa
TPR 蛋白長 2,363 個胺基酸,屬於 TPR family。其第 437–513 位區段與 NPC 結合有關;第 1,812–1,867 位區段則足以且必須用於核輸入。第 14–117 位及 1,218–1,320 位區段對 HSF1 互作具有必要性。序列註解另將 912–935、1,454–1,474、1,619–1,674、1,803–2,134 及 2,227–2,363 位區段標示為無序區域。
蛋白質三維結構
細胞內定位
細胞間期,TPR 位於 NPC 核內側並構成 nuclear basket;來源亦記載過其位於 NPC 細胞質側邊緣的觀察。 它可在核與細胞質間穿梭,並依賴 XPO1/CRM1 及 Importin alpha/Importin beta receptor 進入細胞核。 有絲分裂期間,TPR 至前期前中期仍與核膜相關,之後轉至紡錘體及動粒相關區域,並在末期與胞質分裂時回到重建中的核膜。
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:Chromosome, centromere, kinetochore。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。
更多交互作用夥伴 · 已取得 1 個夥伴
- MAD1L1Q9Y6D9 · UniProt INTERACTION · 2 experiments
TPR 是 NPC 的一部分,並與 NUP153 直接互作;它也與 XPO1/CRM1 核輸出複合體、Importin alpha/Importin beta receptor 及 dynein 1 complex 相關。TPR 可形成同源二聚體。其與 KPNB1 的互作依賴 RanGTP;與 MAPK1/ERK2 的互作涉及兩者的磷酸化形式,且需要 MAPK1/ERK2 二聚化,並在 EGF 刺激後增加。TPR 亦與 HSF1、huntingtin/HTT、MAD1L1、MAD2L1、TTK、DYNLL1 等互作;其中 HSF1 互作會隨壓力反應增強。與擴增 polyglutamine 的聚集型 huntingtin/HTT 互作則受抑制。
疾病與遺傳關聯
TPR 相關染色體重排曾見於乳突狀甲狀腺癌:TPR 的 5′端與 NTRK1 蛋白激酶區域相接,形成融合蛋白 TRK-T1。另有資料記載 TPR 參與與 MET 的致瘤性重排,但未提供更多機制細節。此外,TPR 基因變異被報告與常染色體隱性神經發育疾病 Intellectual developmental disorder, autosomal recessive 79 有關;該疾病自嬰兒期出現,可有整體發展遲緩、嚴重智能障礙、言語能力差或缺失、共濟失調及出生後小頭症。
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 | TPR 是核孔複合體的支架成分,支持蛋白質與 mRNA 的核質運輸,也參與核周邊染色質區域及 NPC 相關異染色質排除區的組織。它調控特定 CTE 未剪接 mRNA 的輸出與翻譯,參與壓力誘發 HSP70 mRNA 輸出,並可調節 MAPK1/ERK2、huntingtin/HTT 運輸及紡錘體檢查點蛋白募集;其對核蛋白輸出的作用被部分作者認為有限。 | 含實驗來源 | 證據與來源Component of the nuclear pore complex (NPC), a complex required for the trafficking across the nuclear envelope. Functions as a scaffolding element in the nuclear phase of the NPC essential for normal nucleocytoplasmic transport of proteins and mRNAs, plays a role in the establishment of nuclear-peripheral chromatin compartmentalization in interphase, and in the mitotic spindle checkpoint signaling during mitosis. Involved in the quality control and retention of unspliced mRNAs in the nucleus; in association with NUP153, regulates the nuclear export of unspliced mRNA species bearing constitutive transport element (CTE) in a NXF1- and KHDRBS1-independent manner. Negatively regulates both the association of CTE-containing mRNA with large polyribosomes and translation initiation. Does not play any role in Rev response element (RRE)-mediated export of unspliced mRNAs. Implicated in nuclear export of mRNAs transcribed from heat shock gene promoters; associates both with chromatin in the HSP70 promoter and with mRNAs transcribed from this promoter under stress-induced conditions. Modulates the nucleocytoplasmic transport of activated MAPK1/ERK2 and huntingtin/HTT and may serve as a docking site for the XPO1/CRM1-mediated nuclear export complex. According to some authors, plays a limited role in the regulation of nuclear protein export. Also plays a role as a structural and functional element of the perinuclear chromatin distribution; involved in the formation and/or maintenance of NPC-associated perinuclear heterochromatin exclusion zones (HEZs). Finally, acts as a spatial regulator of the spindle-assembly checkpoint (SAC) response ensuring a timely and effective recruitment of spindle checkpoint proteins like MAD1L1 and MAD2L1 to unattached kinetochore during the metaphase-anaphase transition before chromosome congression. Its N-terminus is involved in activation of oncogenic kinases PMID 11952838 ↗ · PMID 15654337 ↗ · PMID 17897941 ↗ · PMID 18794356 ↗ · PMID 18981471 ↗ · PMID 19273613 ↗ · PMID 20133940 ↗ · PMID 20407419 ↗ · PMID 21613532 ↗ · PMID 22253824 ↗ · PMID 9864356 ↗ |
| 交互作用 | TPR 可形成同源二聚體,並作為核孔複合體的一部分,與多種輸送、細胞骨架及檢查點蛋白互作。部分互作具有特定條件,例如 TPR 與 KPNB1 的結合依賴 RanGTP,與 MAPK1/ERK2 的互作在 EGF 刺激後增強,與 HSF1 的互作則隨壓力反應增加;聚集且帶有擴增 polyglutamine 的 huntingtin/HTT 會抑制其與 TPR 的互作。 | 含實驗來源 | 證據與來源Interacts with IFI204 (via C-terminal region). Interacts with IFI203 (By similarity). Homodimer. Part of the nuclear pore complex (NPC). Associates with the XPO1/CRM1-mediated nuclear export complex, the Importin alpha/Importin beta receptor and the dynein 1 complex. Interacts (via C-terminal domain) with the KPNB1; the interaction occurs in a RanGTP-dependent manner. Interacts (via C-terminal regionand phosphorylated form) with MAPK1/ERK2 (via phosphorylated form); the interaction requires dimerization of MAPK1/ERK2 and increases following EGF stimulation. Interacts with MAPK3/ERK1; the interaction increases following EGF stimulation. Interacts (via coiled coil region) with NUP153; the interaction is direct. Interacts with HSF1; the interaction increases in a stress-responsive manner and stimulates export of stress-induced HSP70 mRNA. Interacts with huntingtin/HTT; the interaction is inhibited by aggregated huntingtin/HTT forms with expanded polyglutamine stretch. Interacts with MAD1L1 (via N-terminal region), MAD2L1, and TTK; the interactions occurs in a microtubule-independent manner. Interacts (via middle region) with DYNLL1. Interacts with DCTN1, dynein, NUP153 and tubulin. Interacts with MTA1. Interacts with ZC3HC1; this interaction mediates ZC3HC1 nuclear envelopes (NE)-association but also required for proper positioning of a substantial amount of TPR at the nuclear basket (NB) PMID 12802065 ↗ · PMID 15229283 ↗ · PMID 15654337 ↗ · PMID 17897941 ↗ · PMID 18794356 ↗ · PMID 18981471 ↗ · PMID 19273613 ↗ · PMID 19835572 ↗ · PMID 20133940 ↗ · PMID 22253824 ↗ · PMID 24970816 ↗ · PMID 34440706 ↗ |
| 細胞定位 | TPR 在細胞間期主要位於 NPC 核內側並形成 nuclear basket,但也有其位於 NPC 細胞質側邊緣的觀察。它可在核質間穿梭;有絲分裂時由核膜轉至動態的紡錘體基質,並出現在動粒相關區域,之後於末期及胞質分裂期間回到重建中的核膜。它與 MAD2L1 在紡錘體基質共定位,但未在動粒共定位。 | 含實驗來源 | 證據與來源Nucleus; Nucleus membrane / Peripheral membrane protein / Nucleoplasmic side; Nucleus envelope; Nucleus, nuclear pore complex; Cytoplasm; Cytoplasm, cytoskeleton, spindle; Chromosome, centromere, kinetochore; Nucleus membrane / Peripheral membrane protein / Cytoplasmic side; Detected as discrete intranuclear foci with IFI204 (By similarity). In interphase, localizes to the nucleoplasmic side of the nuclear pore complex (NPC) core structure, forming a fibrous structure called the nuclear basket. Detected exclusively to the cytoplasmic margin of NPC. Docking to the inner nucleoplasmic side of the NPC is mediated through binding to nucleoporins. Anchored by NUP153 to the NPC. The assembly of the NPC is a stepwise process in which Trp-containing peripheral structures assemble after other components, including p62. Detected as filaments that emanate from the nuclear basket of the NPC and extend to the nucleolus to delineate a chromatin-free network extending from the nuclear envelope to the perinucleolar region. Detected in diffuse and discrete spheroidal intranuclear foci. Nucleocytoplasmic shuttling protein imported into the nucleus in a XPO1/CRM1- and Importin alpha/Importin beta receptor-dependent manner. Remains localized to the nuclear membrane after poliovirus (PV) infection. During mitosis, remains associated with the nuclear envelope until prometaphase. Associated with the mitotic spindle from late prometaphase until anaphase. Reorganized during mitosis in a viscous and dynamic nuclear-derived spindle matrix that embeds the microtubule spindle apparatus from pole to pole in a microtubule-independent manner. Recruited to the reforming nuclear envelope during telophase and cytokinesis. Detected at kinetochores during prometaphase. Colocalizes with MAD2L1 in the spindle matrix but not at kinetochore. Colocalizes with dynein, dynactin, tubulin at kinetochore during the metaphase-anaphase transition. Colocalizes with DYNLL1 at the mitotic spindle PMID 12802065 ↗ · PMID 11514627 ↗ · PMID 11952838 ↗ · PMID 18794356 ↗ · PMID 9024684 ↗ · PMID 9828100 ↗ · PMID 9864356 ↗ · PMID 12424524 ↗ · PMID 7798308 ↗ · PMID 11839768 ↗ · PMID 15229283 ↗ · PMID 18981471 ↗ · PMID 19273613 ↗ |
| 疾病關聯 | 乳突狀甲狀腺癌曾發現涉及 TPR 的染色體異常,其中 TPR 基因的 5′端與 NTRK1 蛋白激酶區域發生染色體內重排,形成融合蛋白 TRK-T1。該融合蛋白約 55 kDa,並可與辨識 NTRK1 羧基末端的抗體反應;此資料描述的是腫瘤中的重排及融合產物。 | 含實驗來源 | 證據與來源A chromosomal aberration involving TPR has been found in papillary thyroid carcinomas (PTCs). Intrachromosomal rearrangement that links the 5'-end of the TPR gene to the protein kinase domain of NTRK1 forms the fusion protein TRK-T1. TRK-T1 is a 55 kDa protein reacting with antibodies against the carboxy terminus of the NTRK1 protein PMID 1532241 ↗ |
| 疾病關聯 | 資料記載 TPR 參與與 MET 的致瘤性重排,但未說明具體重排形式、融合產物或其分子作用細節。 | 含實驗來源 | |
| 疾病關聯 | Intellectual developmental disorder, autosomal recessive 79 是自嬰兒期出現的常染色體隱性神經發育疾病,特徵包括整體發展遲緩、嚴重智能障礙、言語能力差或缺失、共濟失調及出生後小頭症。資料指出,影響該基因的變異會造成此疾病。 | 含實驗來源 | 證據與來源Intellectual developmental disorder, autosomal recessive 79 MRT79 An autosomal recessive neurodevelopmental disorder apparent from infancy and characterized by global developmental delay, severe intellectual disability, poor or absent speech, ataxia, and postnatal microcephaly. The disease is caused by variants affecting the gene represented in this entry MIM: 620393 PMID 34494102 ↗ |
核酸與蛋白質序列
CTTCGGTCGCGGGCGGTGAGGTGCTGTTGCTGAAACGCTG40CCGCTGAGGGTGGACTCGATTTCCCAGGGTCCCGCCGCGG80GAGTCTCCGGCGGGCGGGCGCGCGCGAGCCACCGAGCGAG120GTGATAGAGGCGGCGGCCCAGGCGTCTGGGTCCTGCTGGT160CTTCGCCTTTCTTCTCCGCTTCTACCCCGTCGGCCGCTGC200CACTGGGGTCCCTGGCCCCACCGACATGGCGGCGGTGTTG240CAGCAAGTCCTGGAGCGCACGGAGCTGAACAAGCTGCCCA280AGTCTGTCCAGAACAAACTTGAAAAGTTCCTTGCTGATCA320GCAATCCGAGATCGATGGCCTGAAGGGGCGGCATGAGAAA360TTTAAGGTGGAGAGCGAACAACAGTATTTTGAAATAGAAA400AGAGGTTGTCCCACAGTCAGGAGAGACTTGTGAATGAAAC440CCGAGAGTGTCAAAGCTTGCGGCTTGAGCTAGAGAAACTC480AACAATCAACTGAAGGCACTAACTGAGAAAAACAAAGAAC520TTGAAATTGCTCAGGATCGCAATATTGCCATTCAGAGCCA560ATTTACAAGAACAAAGGAAGAATTAGAAGCTGAGAAAAGA600GACTTAATTAGAACCAATGAGAGACTATCTCAAGAACTTG640AATACTTAACAGAGGATGTTAAACGTCTGAATGAAAAACT680TAAAGAAAGCAATACAACAAAGGGTGAACTTCAGTTAAAA720TTGGATGAACTTCAAGCTTCTGATGTTTCTGTTAAGTATC760GAGAAAAACGCTTGGAGCAAGAAAAGGAATTGCTACATAG800TCAGAATACATGGCTGAATACAGAGTTGAAAACCAAAACT840GATGAACTTCTGGCTCTTGGAAGAGAAAAAGGGAATGAGA880TTCTAGAGCTTAAATGTAATCTTGAAAATAAAAAAGAAGA920GGTTTCTAGACTGGAAGAACAAATGAATGGCTTAAAAACA960cDNA 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。