Silkworm Genome Informatics Database

Gene

KWMTBOMO06757

Pre Gene Modal

BGIBMGA012027

Annotation

PREDICTED:_mismatch_repair_endonuclease_PMS2_isoform_X1_[Bombyx_mori]

Location

Bomo_Chr11(+):14361722-14370911 View in EpiBrowser

Full name

Mismatch repair endonuclease PMS2

Alternative Name

DNA mismatch repair protein PMS2
PMS1 protein homolog 2

Location in the cell

Nuclear Reliability : 3.958

CDS

ATGGACAATTTAGGTACACCTTCAAGTGATATAAAACCCATAAATGAAAATACTGTTCATAAAATTTGTTCGGGACAGGTAGTTTTGAACTTGGCTGTAGCAGTTAAGGAATTAGTGGAAAATTCACTGGATGCAGGAGCTACCAAAATTGATATTAGATGCAAGAATTATGGTATGGATAGCATTGAAGTTTCAGACAATGGTTCAGGAGTTAATGAAGATAATTTTGCAGCATTGACCTTAAAATATCATACATCAAAATTGAGTGACTACTCAGATTTGCTTGGAGTATCAAGTTTTGGTTTTAGAGGTGAAGCTCTTAGTTCACTTTGTGCTTTGGCAAATCTGACTGTAACTACCAGGCATAAAAATTCCAATTATGCAATTAAAATAGAATACGATCTTAAAGGTAACATTGTAAAGACAACACCATGTTCTAGGCAAATTGGAACAACCGTTACTTGTACAAATCTGTTTCATTCCTTGCCAGTGAGACAAAAGGAATTTCATAACAATGTAAAAAGAGAATTCAACAAAATGACGCATTTACTATATGCATACTGTTTAATTTCAATAGGTGTTAAAATTACGTGTACGAATCAGGCATCTTCCAATACAAAATCTGTAGTAGTTGAAACGCATGGCTCCTCGTATAAAGACAACATTGCCAGTATATTTGGTCTTAAACAACTACAGACAATAATCGAAATAAAACCCGAATACACTCAAAACATAAAAGATAATATTTTTAAAGGTCTATCTAGTGAAGTAGCTCATGATCAACAAAGTTTTGTCATCGAAGATGTGGACATTAACCTATCAGAAGATTCCAACGACAACGAGTCTGAAGCTATTGCAAAAGATGAAATTAAATCACAAGGATATAAAAACATTGTTAAACCGTTTGAATTTATAGGTTTTGTATCTTCGTGTGAACATGGGCGTGGTAGATCTAGTACAGACAGACAGTTCTTCTTCGTAAATAACAGGCCTTGTGAACCAATTAAAATAACTAAACTCATAAATGAAGTTTACAGACAATACAATCCAAACCAATATCCTTTTGTTTTTCTGAATGTTAATGTTGAAAGATCGTCTGTAGACATAAATCTAACGCCGGATAAAAGAAAATTATTTTTAACCAAAGAGAAAAATATATTGGACGTTTTAAAAGTTTCTTTACTTAAGTTATTTGAAAGTATACCGCGGACATTGAAAGTAGACTCTTCCCAAAATGTTTCTATTTCGAAAGATCATAAACCAGAATTAGATCAACCGAGAATTTTTACGTCTTTCCTGCAACAATTCGATAAAAAATCAAAGCTTTGTGATCCTATTTCAAAAAGGGAAGATTTAAATAAAGTTGATTTAAAAAGAAAATCTACAGCAATTACTGACTACATTACTATGAAAAGTAAAAGACTAGAACAACCCTGTTCAAGTATTAATGAATCAAAATTGATGTCCAGTGATATTAATACCAATGAATTGCTTGATTCAGAAGAGATCCCTCAAGTCCCTATGAAATCTGAGGGGCGCAGTGATGACAAAAATGTTACAGAATTAATACCTCGACCAACAAATATAGAAACGCCGATAATTATATCTGACCAAATTAAATCTGAAGAAACTGAAATCACAGAGGAAAAAGAGATTATATATTTAGACTATTGCAACGAAATGCCAAATACACAGATAAAACAGTTATCAGAACAAGTTGTAGAGCAAACTTATACCATTAACTGCAAAACAAAAACAAAACCTAAGATACATTTACCACCGGGATCTAAAAAAACCTCCGAAAGCTACAATAAAGTTTTAACGGTGACAGACAAAGAAGACTTAGGTAAGAACCACAGGAGATCAGTAATTTTAAAAACTTCTTTGCAGCATGTCCAGGCTTTAACAGAAATTTATAATAGAAATAATGAAAGGATATTACCTACTAAAGTGAAATTTAAAAGCGCCATTAATCCAGTATTCAATAAAAAATGTGAAGAAGAATTGATACGAGAAATATCTAAGGATTCATTTAAGAAGATGCATATTGTGGGGCAATTTAATTTGGGTTTCATAATAACACAACTAGAAGATGATCTTTTTGTAATAGACCAACATGCTACTGATGAGATTTATAATTTTGAAACCTTACAGCGTACAACAGAACTAACCAGTCAAAAATTGGTGATCCCACAACAACTAGAGTTAACAGGTGTAAACGAAGAAATACTAATGGACAACATAGATATTTTCAAAAAGAACGGTTTTACATTTGAAGTAAATAAGGAGGCATTGCCAACGAAACGTGTAAAACTTTTGACTATACCAATGTCGAAAAATTGGTTATTTGGAAAGGAAGATATCGAAGAAATGCTCTTTATGTTAAGGGAAGCTCCGACCGAACATTGCAGGCCGAGTAGAGTAAGAGCAATGTTCGCATCGAGAGCTTGCAGAAAGTCTGTCATGATTGGCACAGCTTTGAAAAAATCCGACATGAGAACGCTGGTCGACCATATGGCAGAAATTGATAAGCCGTGGAACTGTCCACATGGACGCCCCACCATAAGGCATTTGGTCAACTTAGCTATGGTCCAAACTGAGTACAGCAGTGGATATAAATTTTGA

Protein

MDNLGTPSSDIKPINENTVHKICSGQVVLNLAVAVKELVENSLDAGATKIDIRCKNYGMDSIEVSDNGSGVNEDNFAALTLKYHTSKLSDYSDLLGVSSFGFRGEALSSLCALANLTVTTRHKNSNYAIKIEYDLKGNIVKTTPCSRQIGTTVTCTNLFHSLPVRQKEFHNNVKREFNKMTHLLYAYCLISIGVKITCTNQASSNTKSVVVETHGSSYKDNIASIFGLKQLQTIIEIKPEYTQNIKDNIFKGLSSEVAHDQQSFVIEDVDINLSEDSNDNESEAIAKDEIKSQGYKNIVKPFEFIGFVSSCEHGRGRSSTDRQFFFVNNRPCEPIKITKLINEVYRQYNPNQYPFVFLNVNVERSSVDINLTPDKRKLFLTKEKNILDVLKVSLLKLFESIPRTLKVDSSQNVSISKDHKPELDQPRIFTSFLQQFDKKSKLCDPISKREDLNKVDLKRKSTAITDYITMKSKRLEQPCSSINESKLMSSDINTNELLDSEEIPQVPMKSEGRSDDKNVTELIPRPTNIETPIIISDQIKSEETEITEEKEIIYLDYCNEMPNTQIKQLSEQVVEQTYTINCKTKTKPKIHLPPGSKKTSESYNKVLTVTDKEDLGKNHRRSVILKTSLQHVQALTEIYNRNNERILPTKVKFKSAINPVFNKKCEEELIREISKDSFKKMHIVGQFNLGFIITQLEDDLFVIDQHATDEIYNFETLQRTTELTSQKLVIPQQLELTGVNEEILMDNIDIFKKNGFTFEVNKEALPTKRVKLLTIPMSKNWLFGKEDIEEMLFMLREAPTEHCRPSRVRAMFASRACRKSVMIGTALKKSDMRTLVDHMAEIDKPWNCPHGRPTIRHLVNLAMVQTEYSSGYKF

Description

Component of the post-replicative DNA mismatch repair system (MMR). Heterodimerizes with MLH1 to form MutL alpha. DNA repair is initiated by MutS alpha (MSH2-MSH6) or MutS beta (MSH2-MSH3) binding to a dsDNA mismatch, then MutL alpha is recruited to the heteroduplex. Assembly of the MutL-MutS-heteroduplex ternary complex in presence of RFC and PCNA is sufficient to activate endonuclease activity of PMS2. It introduces single-strand breaks near the mismatch and thus generates new entry points for the exonuclease EXO1 to degrade the strand containing the mismatch. DNA methylation would prevent cleavage and therefore assure that only the newly mutated DNA strand is going to be corrected. MutL alpha (MLH1-PMS2) interacts physically with the clamp loader subunits of DNA polymerase III, suggesting that it may play a role to recruit the DNA polymerase III to the site of the MMR. Also implicated in DNA damage signaling, a process which induces cell cycle arrest and can lead to apoptosis in case of major DNA damages.

Subunit

Heterodimer of PMS2 and MLH1 (MutL alpha). Forms a ternary complex with MutS alpha (MSH2-MSH6) or MutS beta (MSH2-MSH3). Part of the BRCA1-associated genome surveillance complex (BASC), which contains BRCA1, MSH2, MSH6, MLH1, ATM, BLM, PMS2 and the RAD50-MRE11-NBS1 protein complex. This association could be a dynamic process changing throughout the cell cycle and within subnuclear domains. Interacts with MTMR15/FAN1.

Similarity

Belongs to the DNA mismatch repair MutL/HexB family.

Keywords

Complete proteome DNA damage DNA repair Endonuclease Hydrolase Nuclease Nucleus Reference proteome Tumor suppressor

Feature

chain Mismatch repair endonuclease PMS2

Uniprot

H9JR67 A0A2A4JKV4 A0A2H1WZ54 A0A194R447 A0A3S2P780 A0A0L7LDG5 + More
A0A224XBK4 A0A3P8RK93 B0XBR6 E9FWK5 B9EJ22 Q3UJP0 A0A1B0CBD2 A0A336KPN0 P54279 A0A1B6DPV6 A0A1B6C4L8

EC Number

3.1.-.-

Pubmed

19121390 26354079 26227816 21292972 12040188 15489334 + More
19468303 10349636 11042159 11076861 11217851 12466851 16141073 7628019

EMBL

BABH01016402 BABH01016403 NWSH01001104 PCG72591.1 ODYU01012166 SOQ58331.1 + More
KQ460779 KPJ12299.1 RSAL01000007 RVE54098.1 JTDY01001566 KOB73512.1 GFTR01008102 JAW08324.1 DS232648 EDS44415.1 GL732526 EFX87911.1 AC121917 BC141287 CH466529 AAI41288.1 EDL19032.1 AK146365 BAE27115.1 AJWK01005056 UFQS01000700 UFQT01000700 SSX06277.1 SSX26631.1 U28724 GEDC01009645 JAS27653.1 GEDC01028846 GEDC01025856 JAS08452.1 JAS11442.1

Proteomes

UP000005204 UP000218220 UP000053240 UP000283053 UP000037510 UP000265080 + More
UP000002320 UP000000305 UP000000589 UP000092461

PRIDE

H9JR67 P54279

Pfam

PF01119 DNA_mis_repair + More
PF08676 MutL_C

Interpro

IPR042121   MutL_C_regsub        + More
IPR002099   DNA_mismatch_repair_N
IPR014721   Ribosomal_S5_D2-typ_fold_subgr
IPR014762   DNA_mismatch_repair_CS
IPR038973   MutL/Mlh/Pms
IPR013507   DNA_mismatch_S5_2-like
IPR037198   MutL_C_sf
IPR042120   MutL_C_dimsub
IPR036890   HATPase_C_sf
IPR014790   MutL_C
IPR020568   Ribosomal_S5_D2-typ_fold
IPR003594   HATPase_C

SUPFAM

SSF54211   SSF54211        + More
SSF118116   SSF118116
SSF55874   SSF55874

Gene 3D

2.30.42.20 3.30.1370.100 3.30.230.10 3.30.565.10

CDD

cd00075 HATPase_c

ProteinModelPortal

H9JR67 A0A2A4JKV4 A0A2H1WZ54 A0A194R447 A0A3S2P780 A0A0L7LDG5 + More
A0A224XBK4 A0A3P8RK93 B0XBR6 E9FWK5 B9EJ22 Q3UJP0 A0A1B0CBD2 A0A336KPN0 P54279 A0A1B6DPV6 A0A1B6C4L8

PDB

1H7U E-value=1.08389e-102, Score=957

KEGG

101741322 K10858 DNA mismatch repair protein PMS2 | (RefSeq) mismatch repair endonuclease PMS2

PATHWAY

03430 Mismatch repair - Bombyx mori (domestic silkworm)
03460 Fanconi anemia pathway - Bombyx mori (domestic silkworm)

GO

GO:0016887 GO:0030983 GO:0006298 GO:0032300 GO:0005524 GO:0004519 GO:0032389 GO:0042493 GO:0003677 GO:0032138 GO:0051321 GO:0036464 GO:0005634 GO:0005829 GO:0016446 GO:0048304 GO:0005654 GO:0015630 GO:0016447 GO:0006281 GO:0005886 GO:0006974 GO:0048298 GO:0046872 GO:0006355 GO:0043565 GO:0016567 GO:0016020 GO:0006260

PANTHER

PTHR10073

Subcellular location

Nucleus

Length:

874

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.06007

Exp number, first 60 AAs:

0.00059

Total prob of N-in:

0.00218

outside

1 - 874

Pi

242.876901

Theta

170.113645

Tajima's D

1.171039

CLR

0.141578

CSRT

0.706514674266287

Interpretation

Uncertain

Sequence

Summary

Ontologies

Topology

Population Genetic Test Statistics