Gene

KWMTBOMO10036

Pre Gene Modal

BGIBMGA005689

Annotation

PREDICTED:_DNA_polymerase_nu-like_[Plutella_xylostella]

Location

Bomo_Chr17(-):733060-734239      View in EpiBrowser

Full name

DNA polymerase I       + More
DNA polymerase theta      

Alternative Name

DNA polymerase eta

Location in the cell

Cytoplasmic   Reliability : 1.178

CDS

ATGGTACTGACGGAAGCTCGGCTTCGAGCTGCGGTCCCTCCTGTATCAGCCCGACTGTTACTTCAAATACACGACGAGCTGGTTTGGGAGGTGGCCGATGAAGATATCAAAAGAGCAGCCGGTATAATTAAAGAAGTGATGGAAGATTGTGGGCGACACTGCTTTTTAACAATCAGACTCCCGGTGTCAATTTCCGTTGGGAAAAACTGGGGCGAGATGAGTGAGTTTGAAGACTTTTAA

Protein

MVLTEARLRAAVPPVSARLLLQIHDELVWEVADEDIKRAAGIIKEVMEDCGRHCFLTIRLPVSISVGKNWGEMSEFEDF

Description

In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity.
DNA polymerase that promotes microhomology-mediated end-joining (MMEJ), an alternative non-homologous end-joining (NHEJ) machinery triggered in response to double-strand breaks in DNA (PubMed:25642963, PubMed:25643323). MMEJ is an error-prone repair pathway that produces deletions of sequences from the strand being repaired and promotes genomic rearrangements, such as telomere fusions, some of them leading to cellular transformation (PubMed:25642963, PubMed:25643323). POLQ acts as an inhibitor of homology-recombination repair (HR) pathway by limiting RAD51 accumulation at resected ends (PubMed:25642963). POLQ-mediated MMEJ may be required to promote the survival of cells with a compromised HR repair pathway, thereby preventing genomic havoc by resolving unrepaired lesions (By similarity). The polymerase acts by binding directly the 2 ends of resected double-strand breaks, allowing microhomologous sequences in the overhangs to form base pairs. It then extends each strand from the base-paired region using the opposing overhang as a template. Requires partially resected DNA containing 2 to 6 base pairs of microhomology to perform MMEJ (PubMed:25643323). The polymerase activity is highly promiscuous: unlike most polymerases, promotes extension of ssDNA and partial ssDNA (pssDNA) substrates (PubMed:18503084, PubMed:21050863, PubMed:22135286). Also exhibits low-fidelity DNA synthesis, translesion synthesis and lyase activity, and it is implicated in interstrand-cross-link repair, base excision repair and DNA end-joining (PubMed:14576298, PubMed:18503084, PubMed:19188258, PubMed:24648516). Involved in somatic hypermutation of immunoglobulin genes, a process that requires the activity of DNA polymerases to ultimately introduce mutations at both A/T and C/G base pairs (By similarity).

Catalytic Activity

a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1)

Biophysicochemical Properties

1.095 uM for dATP:T
0.622 uM for dATP: abasic site
3.08 uM for dGTP: no template

Subunit

Single-chain monomer with multiple functions.
Homomultimer; forms dimers and multimers (PubMed:25643323). Interacts with RAD51 (PubMed:25642963). Interacts with ORC2 and ORC4 (PubMed:24989122).

Similarity

Belongs to the DNA polymerase type-A family.

Keywords

3D-structure   Acetylation   Alternative splicing   ATP-binding   Chromosome   Coiled coil   Complete proteome   DNA damage   DNA repair   DNA-directed DNA polymerase   Nucleotide-binding   Nucleotidyltransferase   Nucleus   Polymorphism   Reference proteome   Transferase  

Feature

chain  DNA polymerase theta
splice variant  In isoform 2.
sequence variant  In dbSNP:rs34778629.

Uniprot

A0A2W1BFK0   A0A2A4JFN8   A0A0N1PH49   A0A3S2M1B8   A0A212FF85   T1L2Y9   + More
T1FSM3   A0A3M6U1F0   A0A2C9LMK3   A0A1B6CG48   A0A2T7P6B0   A0A3L8DPU1   A0A026WZ04   A0A151ID78   A0A0J7KBD8   C3Y3L8   A0A210R250   A0A195DXA4   A0A0L8FME7   A0A0P4WB57   F4X125   A0A1S3IZE0   E2BWA9   A0A3M6UPC0   A0A151XD47   A0A195B6M6   A0A195FNH9   A0A158NH93   E9J3A9   E2AIH8   A0A357EHG9   A0A0G0XNY0   A0A0S4LFW8   A0A136JMH5   A0A3A0C811   A0A088A3Y3   H3D8M0   A0A154PQJ8   C3YL74   A0A1G1W895   V4APT7   A0A3S2P8W3   C3ZGQ2   A0A2A3EJC9   A0A2U3XKN4   A0A368ZF48   A0A3B3DP09   A0A3B3DNU0   A0A3B3C8Q7   A0A2H0YD47   A0A1A8B235   A0A1G1Y0U7   A0A1V4JB06   A0A3B3CAP1   A0A1V4JBI1   A0A383W4H7   A0A383VV09   A0A383WPU4   A0A0F8BW20   Q86KS9   A0A2M8EN27   A0A3Q0DJC0   A0A0G1V556   A0A2N5K557   G5BBK7   A0A1G2B2D2   A0A0G1WCF8   F1NMU1   W4Y482   A0A0G1IW44   A0A3D2NR33   G7NXQ6   G7MKI4   A0A0G0BK44   S7N8M0   M3X2F1   W5M2N8   A0A2K6GFC8   L5L363   A0A099ZSI0   A0A2E0BIR8   O75417-2   G1P9X3   A0A358KP71   L5MDN5   A0A0D9R4C0   G1QAP6   A0A2K5TUT9   A0A2K5TUT2   A0A1D5QQG1   F7HNQ3   A0A2K6CHP7   A0A096MM12   A0A1B8Y6K8   A0A0G1M876   A0A2K5CWA9   F7DN50   Q59EE4   A0A2K6CHP5  

EC Number

2.7.7.7

Pubmed

28756777    26354079    22118469    23254933    30382153    15562597    + More
30249741    24508170    18563158    28812685    21719571    20798317    21347285    21282665    30148503    30199629    15496914    27774985    29451363    25835551    12097910    15875012    21993625    15592404    22002653    17975172    23258410    29337314    10395804    14576298    16641997    18503084    19188258    19608861    20700469    20624954    21050863    22135286    25409685    24648516    24989122    25642963    25643323    21993624    17431167    20431018    19892987   

EMBL

KZ150179    PZC72525.1    NWSH01001549    PCG70887.1    KQ460044    KPJ18303.1    + More
RSAL01000075    RVE48907.1    AGBW02008849    OWR52383.1    CAEY01000991    AMQM01003615    KB096222    ESO07298.1    RCHS01002416    RMX47437.1    GEDC01024884    JAS12414.1    PZQS01000006    PVD28941.1    QOIP01000005    RLU22450.1    KK107063    EZA60981.1    KQ977985    KYM98348.1    LBMM01010055    KMQ87698.1    GG666484    EEN64894.1    NEDP02000770    OWF55047.1    KQ980204    KYN17239.1    KQ428760    KOF65881.1    GDRN01056033    JAI65882.1    GL888525    EGI59836.1    GL451103    EFN80013.1    RCHS01001045    RMX55480.1    KQ982294    KYQ58285.1    KQ976574    KYM80156.1    KQ981387    KYN42028.1    ADTU01015319    ADTU01015320    ADTU01015321    GL768061    EFZ12677.1    GL439791    EFN66768.1    DOJO01000080    HBR50928.1    LCCH01000003    KKS26152.1    CZPZ01000016    CUS36481.1    JZQY01000074    KXJ98364.1    QEVE01000001    RIK61430.1    KQ435041    KZC14173.1    GG666526    EEN58944.1    MHCP01000019    OGY23892.1    KB201362    ESO96805.1    CM012454    RVE60440.1    GG666620    EEN48278.1    KZ288239    PBC31296.1    QPJN01000002    RCW89124.1    PEYG01000004    PIS35867.1    HADY01022854    SBP61339.1    MHIE01000010    OGY45892.1    LSYS01008075    OPJ69386.1    OPJ69385.1    FNXT01001141    SZX72558.1    FNXT01000921    SZX69328.1    FNXT01001367    SZX79488.1    KQ042129    KKF18725.1    AAFI01000051    EAL68549.1    PFSI01000067    PJC24135.1    LCPQ01000010    KKW01576.1    PJQI01000293    PLS78801.1    JH169419    EHB06668.1    MHKE01000014    OGY83342.1    LCQH01000007    KKW16275.1    AADN05000813    AAGJ04163470    LCHB01000001    KKT27394.1    DPTA01000019    HCJ52577.1    CM001277    EHH51069.1    CM001254    EHH16104.1    LBQB01000003    KKP69803.1    KE163702    EPQ13386.1    AANG04001815    AHAT01020438    AHAT01020439    AHAT01020440    AHAT01020441    AHAT01020442    AHAT01020443    AHAT01020444    AHAT01020445    AHAT01020446    AHAT01020447    KB030347    ELK18077.1    KL898248    KGL85254.1    NZVE01000052    MAR18772.1    AF052573    AY338826    AC069239    AC079841    AF043628    AAPE02022540    AAPE02022541    DOPF01000070    HBV33600.1    KB101593    ELK36447.1    AQIB01110849    AQIB01110850    AQIB01110851    AQIB01110852    AQIB01110853    AQIB01110854    AQIB01110855    AQIB01110856    AQIB01110857    AQIB01110858    AQIA01040623    JSUE03022997    JSUE03022998    JSUE03022999    JSUE03023000    JSUE03023001    AHZZ02019723    KV460409    OCA18582.1    LCKU01000041    KKU04307.1    AB209867    BAD93104.1   

Proteomes

UP000218220    UP000053240    UP000283053    UP000007151    UP000015104    UP000015101    + More
UP000275408    UP000076420    UP000245119    UP000279307    UP000053097    UP000078542    UP000036403    UP000001554    UP000242188    UP000078492    UP000053454    UP000007755    UP000085678    UP000008237    UP000075809    UP000078540    UP000078541    UP000005205    UP000000311    UP000263538    UP000198736    UP000070691    UP000265844    UP000005203    UP000007303    UP000076502    UP000030746    UP000242457    UP000245341    UP000253016    UP000261560    UP000190648    UP000256970    UP000002195    UP000189704    UP000235033    UP000006813    UP000034059    UP000000539    UP000007110    UP000009130    UP000011712    UP000018468    UP000233160    UP000010552    UP000053641    UP000005640    UP000001074    UP000029965    UP000233100    UP000006718    UP000233120    UP000028761    UP000008143    UP000233020    UP000002281   

PRIDE

O75417    Q59EE4   

Pfam

PF00476   DNA_pol_A        + More
PF00270   DEAD
PF00271   Helicase_C
PF18049   DNA_pol_P_Exo
PF01367   5_3_exonuc
PF02739   5_3_exonuc_N
PF01612   DNA_pol_A_exo1

Interpro

IPR002298   DNA_polymerase_A        + More
IPR036397   RNaseH_sf       
IPR001098   DNA-dir_DNA_pol_A_palm_dom       
IPR011545   DEAD/DEAH_box_helicase_dom       
IPR001650   Helicase_C       
IPR036390   WH_DNA-bd_sf       
IPR014001   Helicase_ATP-bd       
IPR027417   P-loop_NTPase       
IPR019760   DNA-dir_DNA_pol_A_CS       
IPR040940   DNA_pol_P_Exo       
IPR014014   RNA_helicase_DEAD_Q_motif       
IPR012337   RNaseH-like_sf       
IPR018320   DNA_polymerase_1       
IPR002421   5-3_exonuclease_N       
IPR020045   DNA_polI_H3TH       
IPR020046   5-3_exonucl_a-hlix_arch_N       
IPR008918   HhH2       
IPR029060   PIN-like_dom_sf       
IPR036279   5-3_exonuclease_C_sf       
IPR002562   3'-5'_exonuclease_dom       

SUPFAM

SSF46785   SSF46785        + More
SSF52540   SSF52540       
SSF53098   SSF53098       
SSF47807   SSF47807       
SSF88723   SSF88723       

Gene 3D

3.30.420.10    

CDD

cd00079  HELICc
cd09898  H3TH_53EXO

ProteinModelPortal

A0A2W1BFK0   A0A2A4JFN8   A0A0N1PH49   A0A3S2M1B8   A0A212FF85   T1L2Y9   + More
T1FSM3   A0A3M6U1F0   A0A2C9LMK3   A0A1B6CG48   A0A2T7P6B0   A0A3L8DPU1   A0A026WZ04   A0A151ID78   A0A0J7KBD8   C3Y3L8   A0A210R250   A0A195DXA4   A0A0L8FME7   A0A0P4WB57   F4X125   A0A1S3IZE0   E2BWA9   A0A3M6UPC0   A0A151XD47   A0A195B6M6   A0A195FNH9   A0A158NH93   E9J3A9   E2AIH8   A0A357EHG9   A0A0G0XNY0   A0A0S4LFW8   A0A136JMH5   A0A3A0C811   A0A088A3Y3   H3D8M0   A0A154PQJ8   C3YL74   A0A1G1W895   V4APT7   A0A3S2P8W3   C3ZGQ2   A0A2A3EJC9   A0A2U3XKN4   A0A368ZF48   A0A3B3DP09   A0A3B3DNU0   A0A3B3C8Q7   A0A2H0YD47   A0A1A8B235   A0A1G1Y0U7   A0A1V4JB06   A0A3B3CAP1   A0A1V4JBI1   A0A383W4H7   A0A383VV09   A0A383WPU4   A0A0F8BW20   Q86KS9   A0A2M8EN27   A0A3Q0DJC0   A0A0G1V556   A0A2N5K557   G5BBK7   A0A1G2B2D2   A0A0G1WCF8   F1NMU1   W4Y482   A0A0G1IW44   A0A3D2NR33   G7NXQ6   G7MKI4   A0A0G0BK44   S7N8M0   M3X2F1   W5M2N8   A0A2K6GFC8   L5L363   A0A099ZSI0   A0A2E0BIR8   O75417-2   G1P9X3   A0A358KP71   L5MDN5   A0A0D9R4C0   G1QAP6   A0A2K5TUT9   A0A2K5TUT2   A0A1D5QQG1   F7HNQ3   A0A2K6CHP7   A0A096MM12   A0A1B8Y6K8   A0A0G1M876   A0A2K5CWA9   F7DN50   Q59EE4   A0A2K6CHP5  

PDB

4X0P     E-value=4.15273e-09,     Score=140

KEGG

101737846    K16618 DNA polymerase nu [EC:2.7.7.7] | (RefSeq) DNA polymerase nu-like

GO

GO:0006261   GO:0003887   GO:0003677   GO:0005524   GO:0005737   GO:0004386   GO:0006281   GO:0004518   GO:0008408   GO:0022616   GO:0070987   GO:0005634   GO:0016446   GO:0097681   GO:0006302   GO:0051260   GO:0006974   GO:0043142   GO:0006284   GO:0051575   GO:2000042   GO:0003682   GO:0003684   GO:0042802   GO:0000724   GO:0005694   GO:0005654   GO:0006260   GO:0004553   GO:0006508   GO:0004672   GO:0030677   GO:0016155   GO:0003824  

PANTHER

PTHR10133  

Subcellular location

Nucleus   Enriched in chromatin in response to ultaviolet (UV) light (PubMed:25642963). Binds to chromatin during early G1 (PubMed:24989122).   With evidence from 17 publications.
Chromosome   Enriched in chromatin in response to ultaviolet (UV) light (PubMed:25642963). Binds to chromatin during early G1 (PubMed:24989122).   With evidence from 17 publications.

Length:

79

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.00275

Exp number, first 60 AAs:

0.00118

Total prob of N-in:

0.34086

outside

1  -  79

 

 

Pi

420.080552

Theta

207.129482

Tajima's D

3.236572

CLR

0.403367

CSRT

0.989750512474376

Interpretation

Uncertain