Gene

KWMTBOMO07950

Pre Gene Modal

BGIBMGA000990

Annotation

EXD1_BOMMO_RecName:_Full%3DpiRNA_biogenesis_protein_EXD1;_short=BmExd1;_altname:_full=Exonuclease_3'-5'_domain-containing_protein_1,Exonuclease_3'-5'_domain-like-containing_protein_1,Inactive_exonuclease_EXD1

Location

Bomo_Chr13(+):10872885-10875526      View in EpiBrowser

Full name

piRNA biogenesis protein EXD1      

Alternative Name

Exonuclease 3'-5' domain-containing protein 1
Exonuclease 3'-5' domain-like-containing protein 1
Inactive exonuclease EXD1

Location in the cell

Cytoplasmic   Reliability : 2.869

CDS

ATGGACAACCTCTACACAAAAGGAGAACTGTTACAAGTTCACACAAAAAACTACGACGTCTTTGAAGGTAGATTCTATAGTATGGCCCAAGATAAGACCAAAATATCACTATATGATGTCAAGGAAATTCCACATGGTGATGCTAATGATGGAGTCCTTCATTACTATGATTCTGAAATAAGAGAAGTGGTGAAACTCCAGGAGTCTACTGAAAAGAAAGTTCTCAAAATATCGCAAACGAAATATGAAGAAATCCTCAAAATATCAAAAAAATACATTTTCATAAACCAAGTTGATAAAAGTTTCCATGAAGCTGTGGATGATTTGAACCAGCAAGATTTTATTGCTGTTAGCGGTGATGGTGCAAATATGGGGAGAAAATGCAAGATGCCATTTCTTGTTTTGTCCACTGACCACCAGATCTATATCTTTGACATCCAGGTGATGCAATATCATGCATTTGAATCAGGCTTAAAAAAAATTTTGGAAGGTGATTCTCCAAAAAAGATTGCACATGATTGTAGAAAATTGTCTGATTGTCTATATCATAAACACAATGTTAAGCTGAAATCAGTTTTTGATACTCAGGTTGGTGATTTAATAATCACTAAGAATAAGAAGGTCACTTTACCAAACAAAGTGAGATCTCTGGGAGAATGTTTGACCAATTACCTGGGTCTACAACAAAACACCATTGACGAAAAGCTTGATATTGTTCAAAGTACAGAAAGGCCACTTTCAGTGAAGATCAAGGATAGTCTGGCAAGGAATATTGCATTTTTACACCATCTGTCTGAAGTTATTAATGAAGAAATGCAGTTACCGTTTTACAGAGGTGTTGAATGCTATATTGAAAACATTCGTTCTTCAGACGATTTTAAAGCCTGGGAACTATGTGGAAAATTAAATCAAATACCAAAGGAGTTTAGAAACGCTATTGACTATTAA

Protein

MDNLYTKGELLQVHTKNYDVFEGRFYSMAQDKTKISLYDVKEIPHGDANDGVLHYYDSEIREVVKLQESTEKKVLKISQTKYEEILKISKKYIFINQVDKSFHEAVDDLNQQDFIAVSGDGANMGRKCKMPFLVLSTDHQIYIFDIQVMQYHAFESGLKKILEGDSPKKIAHDCRKLSDCLYHKHNVKLKSVFDTQVGDLIITKNKKVTLPNKVRSLGECLTNYLGLQQNTIDEKLDIVQSTERPLSVKIKDSLARNIAFLHHLSEVINEEMQLPFYRGVECYIENIRSSDDFKAWELCGKLNQIPKEFRNAIDY

Description

RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity. The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease.
RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity (By similarity). The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease (By similarity).

Subunit

Homodimer (PubMed:26669262). Component of the PET complex, at least composed of EXD1, SIWI, TDRD12 and piRNAs (PubMed:26669262).
Homodimer (By similarity). Component of the PET complex, at least composed of EXD1, PIWIL2, TDRD12 and piRNAs (By similarity).

Similarity

Belongs to the EXD1 family.

Keywords

3D-structure   Complete proteome   Cytoplasm   Meiosis   Reference proteome   RNA-binding   RNA-mediated gene silencing   Alternative splicing   Polymorphism  

Feature

chain  piRNA biogenesis protein EXD1
splice variant  In isoform 2.
sequence variant  In dbSNP:rs522063.

Uniprot

H9IUR0   A0A158N7N9   A0A212FA25   S4NNP1   A0A2A4JVM0   A0A194R435   + More
A0A2H1W061   A0A194QEK3   A0A0L7L1U9   A0A2J7RFV2   A0A2J7RFV8   A0A1W4XPM8   A0A067QUM6   A0A067R1Q8   A0A2J7PN93   B7P8W9   V5H9Q5   A0A131YAC7   K1QXC0   A0A224YSX7   A0A2R5LME7   A0A131YVU9   A0A2T7PLX6   N6TAR9   U4UN96   A0A2G8LI45   T1IXR4   R7VH01   A0A293N4R6   A0A151MUZ2   A0A2B4SEQ1   A0A151MV39   A0A1E1XBB6   G1KC49   A0A3M6UWT9   A0A182WCL0   G1NF98   A0A182LZ97   A0A2D4M251   I3NEZ6   A0A2D4M239   A0A2D4L3L2   D2GW91   G1MEF5   A0A2P8Y281   A0A0T6BAJ1   A0A3Q0GSE7   A0A182RXG7   A0A182YI45   A0A3Q0GMW3   A0A1U7RJR5   A0A1U8D3K9   F6XAA5   A0A1U8D3F1   A0A2K5YQW3   W4YND1   A0A1S3AKJ8   A0A087V1P4   A0A2K5YQW0   A0A2K6LTF7   G3WW68   H0VH70   Q16PQ9   A0A1S3HIB3   A0A1S3HF89   G1QTB8   A0A383ZZ90   A0A2K6LTE4   A0A2Y9HHZ2   A0A1S4FU23   A0A2I3H0S1   A0A384D131   S7MHY0   A0A3Q7TIB9   D4AD21   G1T664   A0A2Y9IRE6   A0A2U3XZ50   A0A384D081   A0A3Q7UI02   A0A287APJ8   A0A3Q7QBM5   Q8NHP7   G1NVN8   H2NMW3   A0A2I2ZA85   L5K1S9   A0A2K6CW17  

Pubmed

19121390    26669262    22118469    23622113    26354079    26227816    + More
24845553    25765539    22992520    28797301    26830274    23537049    29023486    23254933    22293439    28503490    30382153    20838655    20010809    29403074    25244985    17495919    21709235    21993624    17510324    15057822    15632090    24813606    14702039    16572171    15489334    22398555    23258410   

EMBL

BABH01000658    AGBW02009529    OWR50580.1    GAIX01013851    JAA78709.1    NWSH01000547    + More
PCG75738.1    KQ460761    KPJ12568.1    ODYU01005447    SOQ46316.1    KQ459299    KPJ01896.1    JTDY01003524    KOB69410.1    NEVH01004410    PNF39707.1    PNF39708.1    KK852917    KDR13862.1    KK852811    KDR15932.1    NEVH01023957    PNF17798.1    ABJB010207539    ABJB010295509    ABJB010501444    DS660824    EEC03041.1    GANP01004438    JAB80030.1    GEFM01000396    JAP75400.1    JH818278    EKC38348.1    GFPF01007703    MAA18849.1    GGLE01006574    MBY10700.1    GEDV01005885    JAP82672.1    PZQS01000003    PVD34404.1    APGK01037606    KB740948    ENN77374.1    KB632288    ERL91480.1    MRZV01000070    PIK59924.1    JH431661    AMQN01004538    KB293746    ELU15581.1    GFWV01023316    MAA48043.1    AKHW03004924    KYO28371.1    LSMT01000112    PFX27037.1    KYO28372.1    GFAC01002648    JAT96540.1    RCHS01000557    RMX57984.1    AXCM01001478    IACM01070106    IACM01070108    LAB27410.1    AGTP01002270    AGTP01002271    AGTP01002272    AGTP01002273    AGTP01002274    AGTP01002275    IACM01070111    IACM01070112    LAB27424.1    IACL01113034    LAB15433.1    GL192356    EFB13799.1    ACTA01040374    PYGN01001027    PSN38340.1    LJIG01002654    KRT84286.1    AAGJ04111396    AAGJ04111397    KL867280    KFM83533.1    AEFK01010259    AEFK01010260    AEFK01010261    AAKN02015898    AAKN02015899    CH477774    EAT36364.1    ADFV01034090    ADFV01034091    ADFV01034092    ADFV01034093    ADFV01034094    ADFV01034095    ADFV01034096    ADFV01034097    ADFV01034098    ADFV01034099    KE161462    EPQ03984.1    AABR07072914    CH473949    EDL79907.1    AAGW02024529    AEMK02000004    AK123414    AK292524    AK302864    AC012652    AC022408    BC030628    AAPE02025717    ABGA01338794    ABGA01338795    ABGA01338796    ABGA01338797    ABGA01338798    ABGA01338799    ABGA01338800    ABGA01338801    ABGA01338802    ABGA01338803    NDHI03003606    PNJ16164.1    CABD030095600    CABD030095601    CABD030095602    KB031042    ELK05525.1   

Proteomes

UP000005204    UP000007151    UP000218220    UP000053240    UP000053268    UP000037510    + More
UP000235965    UP000192223    UP000027135    UP000001555    UP000005408    UP000245119    UP000019118    UP000030742    UP000230750    UP000014760    UP000050525    UP000225706    UP000001646    UP000275408    UP000075920    UP000001645    UP000075883    UP000005215    UP000008912    UP000245037    UP000189705    UP000075900    UP000076408    UP000002280    UP000233140    UP000007110    UP000079721    UP000054359    UP000233180    UP000007648    UP000005447    UP000008820    UP000085678    UP000001073    UP000248481    UP000261680    UP000286642    UP000002494    UP000001811    UP000248482    UP000245341    UP000291021    UP000008227    UP000286641    UP000005640    UP000001074    UP000001595    UP000001519    UP000010552    UP000233120   

PRIDE

H9IUR0    D4AD21    Q8NHP7   

Pfam

PF01612   DNA_pol_A_exo1        + More
PF12661   hEGF
PF07645   EGF_CA
PF00754   F5_F8_type_C
PF00431   CUB
PF07699   Ephrin_rec_like
PF00057   Ldl_recept_a
PF00008   EGF
PF02494   HYR
PF00084   Sushi

Interpro

IPR036397   RNaseH_sf        + More
IPR012337   RNaseH-like_sf       
IPR002562   3'-5'_exonuclease_dom       
IPR000421   FA58C       
IPR009030   Growth_fac_rcpt_cys_sf       
IPR016186   C-type_lectin-like/link_sf       
IPR013320   ConA-like_dom_sf       
IPR036055   LDL_receptor-like_sf       
IPR035914   Sperma_CUB_dom_sf       
IPR002172   LDrepeatLR_classA_rpt       
IPR000859   CUB_dom       
IPR001304   C-type_lectin-like       
IPR001881   EGF-like_Ca-bd_dom       
IPR035976   Sushi/SCR/CCP_sf       
IPR011641   Tyr-kin_ephrin_A/B_rcpt-like       
IPR023415   LDLR_class-A_CS       
IPR003410   HYR_dom       
IPR000152   EGF-type_Asp/Asn_hydroxyl_site       
IPR000742   EGF-like_dom       
IPR000436   Sushi_SCR_CCP_dom       
IPR016187   CTDL_fold       
IPR008979   Galactose-bd-like_sf       
IPR013032   EGF-like_CS       
IPR018097   EGF_Ca-bd_CS       
IPR025609   Lsm14-like_N       

SUPFAM

SSF53098   SSF53098        + More
SSF56436   SSF56436       
SSF57184   SSF57184       
SSF57424   SSF57424       
SSF49899   SSF49899       
SSF57535   SSF57535       
SSF49785   SSF49785       
SSF49854   SSF49854       

Gene 3D

3.30.420.10     2.60.120.260     2.60.120.290     3.10.100.10     4.10.400.10    

CDD

cd00033  CCP
cd00112  LDLa
cd00041  CUB

ProteinModelPortal

H9IUR0   A0A158N7N9   A0A212FA25   S4NNP1   A0A2A4JVM0   A0A194R435   + More
A0A2H1W061   A0A194QEK3   A0A0L7L1U9   A0A2J7RFV2   A0A2J7RFV8   A0A1W4XPM8   A0A067QUM6   A0A067R1Q8   A0A2J7PN93   B7P8W9   V5H9Q5   A0A131YAC7   K1QXC0   A0A224YSX7   A0A2R5LME7   A0A131YVU9   A0A2T7PLX6   N6TAR9   U4UN96   A0A2G8LI45   T1IXR4   R7VH01   A0A293N4R6   A0A151MUZ2   A0A2B4SEQ1   A0A151MV39   A0A1E1XBB6   G1KC49   A0A3M6UWT9   A0A182WCL0   G1NF98   A0A182LZ97   A0A2D4M251   I3NEZ6   A0A2D4M239   A0A2D4L3L2   D2GW91   G1MEF5   A0A2P8Y281   A0A0T6BAJ1   A0A3Q0GSE7   A0A182RXG7   A0A182YI45   A0A3Q0GMW3   A0A1U7RJR5   A0A1U8D3K9   F6XAA5   A0A1U8D3F1   A0A2K5YQW3   W4YND1   A0A1S3AKJ8   A0A087V1P4   A0A2K5YQW0   A0A2K6LTF7   G3WW68   H0VH70   Q16PQ9   A0A1S3HIB3   A0A1S3HF89   G1QTB8   A0A383ZZ90   A0A2K6LTE4   A0A2Y9HHZ2   A0A1S4FU23   A0A2I3H0S1   A0A384D131   S7MHY0   A0A3Q7TIB9   D4AD21   G1T664   A0A2Y9IRE6   A0A2U3XZ50   A0A384D081   A0A3Q7UI02   A0A287APJ8   A0A3Q7QBM5   Q8NHP7   G1NVN8   H2NMW3   A0A2I2ZA85   L5K1S9   A0A2K6CW17  

PDB

5FIS     E-value=5.62245e-133,     Score=1214

KEGG

101735386    K18740 exonuclease 3'-5' domain-containing protein 1 | (RefSeq) exonuclease 3'-5' domain-containing

GO

GO:0003723   GO:0042803   GO:0031047   GO:0034587   GO:0051321   GO:0090305   GO:0043186   GO:1990923   GO:0003676   GO:0008408   GO:0005509   GO:0016021   GO:0006139   GO:0006807   GO:0016810   GO:0007169   GO:0016020   GO:0006412   GO:0016876   GO:0043039  

Subcellular location

Cytoplasm   Component of the meiotic nuage, also named P granule, a germ-cell-specific organelle required to repress transposon activity during meiosis.   With evidence from 4 publications.

Length:

315

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.01412

Exp number, first 60 AAs:

0

Total prob of N-in:

0.02191

outside

1  -  315

 

 

Pi

177.597696

Theta

162.408883

Tajima's D

0.279644

CLR

0

CSRT

0.449577521123944

Interpretation

Uncertain