Silkworm Genome Informatics Database

Gene

KWMTBOMO06211

Pre Gene Modal

BGIBMGA001792

Annotation

PREDICTED:_protein_artemis-like_isoform_X2_[Bombyx_mori]

Location

Bomo_Chr11(+):2480983-2483534 View in EpiBrowser

Full name

Protein artemis

Alternative Name

DNA cross-link repair 1C protein
SNM1-like protein
Protein A-SCID
SNM1 homolog C

Location in the cell

Cytoplasmic Reliability : 1.137 Nuclear Reliability : 1.327

CDS

ATGTCCGAGGTCTCGGCGACTATCGTGGAGTATGAAAGCAATTGTGGACCCATCATGAGACACATAAGAACATTAAAGTTGGAATCAACAACAATAACTTTAATAATGGATGACGGGAGCCATAAGTATTTGAATGTCAAAACGATACCGGCCGGCCACTGCCTCGGATCTGTCATGTTTCTATTTGAGATAAACAATCAGACGATACTGTACACAGGGGACTTCAGAATGAATCCAGAGAACATATCTGCTTTTGGACAACTGCACAAAGATAACATGCCAATTAAAATAAACACAATTTACCTTGATACCACATTCCAGAATGAAAGTTTTGACAATTTCCCACGCAGGAAAGACAGCATCCGAATGTTGGTCAATCATATAAAGCAGTGGGTAGACGGAGAACCTACCAACAGAATAGCCTTGCATACATCTGCTCGTTATGGCTACGAATTTGTTTTCAATGAAATCTACAACATTTTAAACATGAAGACTTATGTTAGTGATGATAAATGGGCATTGTACAGCAAATTACCATCTGTTAAAGGGATCACGAACCACAGCGAAGATACGATGATACATTTATCAATGAGACACCGTTCAATGGACAATGAAAACTCGCCCTTAGACAGCCGAGACGGCGTTATATATGTATGTTTCGCGACGCATTGCAGCCGAGAGGAATTGAATTTTTTCGTCAGTTATTTTACACCGGACAAGGTTGTCGGTTTCAGGGATCAGTTTATACCGAAAGCGGGCACGAAACGATGTCACGTCTTTGAGCCAACGAGAACGGTGAAGATTCGTAAATTCAATAACAATAATGCATTTAATAAAATCGATCCGAGCATTGTAAATGATTTATTTTGA

Protein

MSEVSATIVEYESNCGPIMRHIRTLKLESTTITLIMDDGSHKYLNVKTIPAGHCLGSVMFLFEINNQTILYTGDFRMNPENISAFGQLHKDNMPIKINTIYLDTTFQNESFDNFPRRKDSIRMLVNHIKQWVDGEPTNRIALHTSARYGYEFVFNEIYNILNMKTYVSDDKWALYSKLPSVKGITNHSEDTMIHLSMRHRSMDNENSPLDSRDGVIYVCFATHCSREELNFFVSYFTPDKVVGFRDQFIPKAGTKRCHVFEPTRTVKIRKFNNNNAFNKIDPSIVNDLF

Description

Required for V(D)J recombination, the process by which exons encoding the antigen-binding domains of immunoglobulins and T-cell receptor proteins are assembled from individual V, (D), and J gene segments. V(D)J recombination is initiated by the lymphoid specific RAG endonuclease complex, which generates site specific DNA double strand breaks (DSBs). These DSBs present two types of DNA end structures: hairpin sealed coding ends and phosphorylated blunt signal ends. These ends are independently repaired by the non homologous end joining (NHEJ) pathway to form coding and signal joints respectively. This protein likely exhibits single-strand specific 5'-3' exonuclease activity in isolation, and may acquire endonucleolytic activity on 5' and 3' hairpins and overhangs when in a complex with PRKDC. The latter activity may be required specifically for the resolution of closed hairpins prior to the formation of the coding joint. May also be required for the repair of complex DSBs induced by ionizing radiation, which require substantial end-processing prior to religation by NHEJ.
Required for V(D)J recombination, the process by which exons encoding the antigen-binding domains of immunoglobulins and T-cell receptor proteins are assembled from individual V, (D), and J gene segments. V(D)J recombination is initiated by the lymphoid specific RAG endonuclease complex, which generates site specific DNA double strand breaks (DSBs). These DSBs present two types of DNA end structures: hairpin sealed coding ends and phosphorylated blunt signal ends. These ends are independently repaired by the non homologous end joining (NHEJ) pathway to form coding and signal joints respectively. This protein exhibits single-strand specific 5'-3' exonuclease activity in isolation and acquires endonucleolytic activity on 5' and 3' hairpins and overhangs when in a complex with PRKDC. The latter activity is required specifically for the resolution of closed hairpins prior to the formation of the coding joint. May also be required for the repair of complex DSBs induced by ionizing radiation, which require substantial end-processing prior to religation by NHEJ.

Subunit

Interacts with ATM, BRCA1, PRKDC and TP53BP1. Also exhibits ATM- and phosphorylation-dependent interaction with the MRN complex, composed of MRE11, RAD50, and NBN (By similarity).
Interacts with ATM, BRCA1, PRKDC and TP53BP1. Also exhibits ATM- and phosphorylation-dependent interaction with the MRN complex, composed of MRE11, RAD50, and NBN.

Similarity

Belongs to the EF-1-beta/EF-1-delta family.
Belongs to the DNA repair metallo-beta-lactamase (DRMBL) family.

Keywords

Adaptive immunity Alternative splicing Complete proteome DNA damage DNA recombination DNA repair Endonuclease Exonuclease Hydrolase Immunity Magnesium Nuclease Nucleus Phosphoprotein Reference proteome SCID 3D-structure Disease mutation Polymorphism

Feature

chain  Protein artemis
splice variant  In isoform 3.
sequence variant  In Omenn syndrome; dbSNP:rs121908159.

Uniprot

A0A194QAR3 A0A2W1BHH9 A0A1E1WS68 A0A212EZM6 A0A2H1WF70 N6UC24 + More
K7JPN7 A0A1S3DLK9 A0A2Z5TRC6 A0A067R1R8 A0A087ZVH9 A0A2J7PUM3 D6WZE5 A0A2A3ER42 A0A151I7T0 A0A1Y1N5K8 A0A195DZG0 A0A2P8ZJQ1 A0A0M8ZZG6 F4WCY0 A0A310SFB5 A0A232F3W7 A0A1W4WSD0 E2C6B8 B0X3C4 A0A154PP67 A0A212CC14 A0A151JY47 A0A1B0DC75 A0A158NB18 A0A1B6E9Y2 A0A1B6J9C3 A0A1D2MW33 A0A151WXZ2 V4A3J4 C3YPJ3 Q32MX8 S4RFM2 A0A1D1V1R7 A0A0T6B8H2 Q8K4J0-2 A0A2J8QJP2 A0A2I2ZB06 A0A2J8VKL4 Q96SD1-4 A0A2K6AKS5 A0A2K6ND80 A0A182N057 E5FGH7 E5FGH6 A0A2K6JQ38 A0A2K6JQ50 E5FGI2 E5FGH9 E5FGI3 A0A2K5X8W2 A0A1D5QCS2 E5FGH5 A0A2K5X8T2 E5FGG9

EC Number

3.1.-.-

Pubmed

26354079 28756777 22118469 23537049 20075255 26760975 + More
24845553 18362917 19820115 28004739 29403074 21719571 28648823 20798317 21347285 27289101 23254933 18563158 15489334 19468303 27649274 15699179 16141072 12504013 12177301 12615897 21183079 22398555 11336668 12055248 14702039 15164054 11955432 15071507 15468306 14744996 15574326 15574327 15456891 15723659 15811628 15936993 19690332 23186163 12406895 12921762 12592555 12569164 15731174 25362486 20975951 17431167

EMBL

KQ459463 KPJ00511.1 KZ150374 PZC71123.1 GDQN01001185 JAT89869.1 + More
AGBW02011242 OWR46940.1 ODYU01008272 SOQ51713.1 APGK01029568 KB740735 KB632302 ENN79205.1 ERL91777.1 FX985783 BBA93670.1 KK852984 KDR12848.1 NEVH01021195 PNF20023.1 KQ971372 EFA09718.1 KZ288193 PBC34160.1 KQ978396 KYM94225.1 GEZM01015454 GEZM01015453 JAV91636.1 KQ980050 KYN18014.1 PYGN01000035 PSN56700.1 KQ435792 KOX74265.1 GL888074 EGI67961.1 KQ765174 OAD54108.1 NNAY01001022 OXU25454.1 GL453058 EFN76517.1 DS232312 EDS39816.1 KQ435007 KZC13681.1 MKHE01000023 OWK03384.1 KQ981533 KYN40113.1 AJVK01030620 ADTU01010746 GEDC01002593 JAS34705.1 GECU01037315 GECU01027925 GECU01016805 GECU01011934 JAS70391.1 JAS79781.1 JAS90901.1 JAS95772.1 LJIJ01000479 ODM97014.1 KQ982665 KYQ52561.1 KB202283 ESO91307.1 GG666538 EEN57777.1 AL732620 BC108935 AAI08936.1 BDGG01000002 GAU93527.1 LJIG01009162 KRT83632.1 AF387731 AK037126 AK052369 AK088810 NBAG03000034 PNI96437.1 PNI96439.1 CABD030068136 CABD030068137 CABD030068138 CABD030068139 CABD030068140 NDHI03003418 PNJ58068.1 AJ296101 AF395747 AF395748 AF395749 AF395750 AF395751 AF395752 AK021422 DQ504427 AC069544 AL360083 CH471072 BC000863 BC009185 BC022254 HM486784 ADQ01120.1 HM486783 ADQ01119.1 HM486789 ADQ01125.1 HM486786 ADQ01122.1 AHZZ02034837 AHZZ02034838 HM486790 ADQ01126.1 AQIA01070118 AQIA01070119 AQIA01070120 AQIA01070121 AQIA01070122 AQIA01070123 JSUE03042906 JSUE03042907 JSUE03042908 HM486782 ADQ01118.1 HM486776 ADQ01112.1

Proteomes

UP000053268 UP000007151 UP000019118 UP000030742 UP000002358 UP000079169 + More
UP000027135 UP000005203 UP000235965 UP000007266 UP000242457 UP000078542 UP000078492 UP000245037 UP000053105 UP000007755 UP000215335 UP000192223 UP000008237 UP000002320 UP000076502 UP000078541 UP000092462 UP000005205 UP000094527 UP000075809 UP000030746 UP000001554 UP000000589 UP000245300 UP000186922 UP000001519 UP000005640 UP000233140 UP000233200 UP000075884 UP000233180 UP000028761 UP000233100 UP000006718

PRIDE

Q8K4J0 Q96SD1

Pfam

PF07522   DRMBL        + More
PF00753   Lactamase_B
PF01249   Ribosomal_S21e
PF12706   Lactamase_B_2
PF00736   EF1_GNE
PF10587   EF-1_beta_acid

Interpro

IPR011084   DRMBL        + More
IPR036866   RibonucZ/Hydroxyglut_hydro
IPR038579   Ribosomal_S21e_sf
IPR001931   Ribosomal_S21e
IPR018279   Ribosomal_S21e_CS
IPR001279   Metallo-B-lactamas
IPR014038   EF1B_bsu/dsu_GNE
IPR018940   EF-1_beta_acid_region_euk
IPR001326   Transl_elong_EF1B_B/D_CS
IPR014717   Transl_elong_EF1B/ribosomal_S6
IPR036219   eEF-1beta-like_sf

SUPFAM

SSF56281 SSF56281 + More
SSF54984 SSF54984

Gene 3D

3.60.15.10 3.30.1230.20 3.30.70.60

CDD

cd00292 EF1B

ProteinModelPortal

A0A194QAR3 A0A2W1BHH9 A0A1E1WS68 A0A212EZM6 A0A2H1WF70 N6UC24 + More
K7JPN7 A0A1S3DLK9 A0A2Z5TRC6 A0A067R1R8 A0A087ZVH9 A0A2J7PUM3 D6WZE5 A0A2A3ER42 A0A151I7T0 A0A1Y1N5K8 A0A195DZG0 A0A2P8ZJQ1 A0A0M8ZZG6 F4WCY0 A0A310SFB5 A0A232F3W7 A0A1W4WSD0 E2C6B8 B0X3C4 A0A154PP67 A0A212CC14 A0A151JY47 A0A1B0DC75 A0A158NB18 A0A1B6E9Y2 A0A1B6J9C3 A0A1D2MW33 A0A151WXZ2 V4A3J4 C3YPJ3 Q32MX8 S4RFM2 A0A1D1V1R7 A0A0T6B8H2 Q8K4J0-2 A0A2J8QJP2 A0A2I2ZB06 A0A2J8VKL4 Q96SD1-4 A0A2K6AKS5 A0A2K6ND80 A0A182N057 E5FGH7 E5FGH6 A0A2K6JQ38 A0A2K6JQ50 E5FGI2 E5FGH9 E5FGI3 A0A2K5X8W2 A0A1D5QCS2 E5FGH5 A0A2K5X8T2 E5FGG9

PDB

5AHO E-value=7.26281e-10, Score=151

KEGG

101739667 K10887 DNA cross-link repair 1C protein [EC:3.1.-.-] | (RefSeq) protein artemis-like

PATHWAY

03450 Non-homologous end-joining - Bombyx mori (domestic silkworm)

GO

GO:0003735 GO:0006412 GO:0005840 GO:0006303 GO:0003684 GO:0035312 GO:0000784 GO:0031848 GO:0036297 GO:0003746 GO:0005853 GO:0016021 GO:0033151 GO:0070419 GO:0030183 GO:0002250 GO:0008409 GO:0000723 GO:0000014 GO:0006310 GO:0006302 GO:0005654 GO:0005634 GO:0051276 GO:0005794 GO:0010212 GO:0004519

Subcellular location

Nucleus

Length:

289

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.18884

Exp number, first 60 AAs:

0.12707

Total prob of N-in:

0.03076

outside

1 - 289

Pi

197.374724

Theta

148.098268

Tajima's D

0.95159

CLR

17.402698

CSRT

0.646267686615669

Interpretation

Possibly Positive selection

Sequence

Summary

Ontologies

Topology

Population Genetic Test Statistics