Silkworm Genome Informatics Database

Gene

KWMTBOMO06604

Pre Gene Modal

BGIBMGA011797

Annotation

PREDICTED:_LOW_QUALITY_PROTEIN:_DNA_excision_repair_protein_haywire_[Bombyx_mori]

Location

Bomo_Chr11(-):11387613-11401661 View in EpiBrowser

Full name

General transcription and DNA repair factor IIH helicase subunit XPB

Alternative Name

ATP-dependent DNA helicase hay
DNA excision repair protein haywire
ERCC-3 homolog protein
ERCC3Dm

Location in the cell

Nuclear Reliability : 2.616

CDS

ATGGGGCCCCCGAAGAAATTCAAGAGATATGACTCAAAAGGAGGAAGTGATAGATCAAGTAAAAAGAAAAAAGTAGATGAGGATATAACAATAGATCTTGTAGATGATGATAATGCAGAAAACGATGGGGTCCCTGTTGCTGCCATGCAAGATGCTGAGAAGAATGATCAAGTACCTGAAGACGAATTTGGTGCTAAAGATTATAGAAGTCAAATGCCGCTTAAACCAGACAACGCCAGTCGTCCTTTATGGGTGGCACCCAATGGACATATTTTCTTGGAAGCATTTTCTCCAGTTTACAAACATGCTCATGATTTTTTGATTGCTATAGCTGAACCAGTTTGCAGACCCCAACACATACATGAATACAAATTGACAGCGTACAGTTTGTACGCGGCAGTTTCGGTGGGCCTACAGACCAATGACATTATTGAGTACCTGCAGAGACTGAGCAAGTGTGCTGTACCGGCCGGCATCGTAGAGTTCATTAAACTATGTACCCTCTCTTATGGTAAAGTGAAGCTGGTGTTAAAACATAACAGGTATCTAGTCGAGAGTAAGCACGTGGAGGTACTGCAGAAGCTATTGAAAGATCCAGTGATTCAACAGTGCAGGCTGCGACGCGACGGCGACGAGGATCTGCTGTCCAACGACCTGCCCGCCAAGCCAGCCACGTCCCTCGCCAAACCAGGTGAAGAAAAACCACCGGCGGCGAACGGCGCTGTGCCCGACGACATCAGTCAGTTCTATCAGCAACTAGATAAGGATGACGACGAGGAGGAGACCTCTGGTGTTACTGCCAACGCAGCTGTTGCCTTTGAAGTGGATCCTGACAAAATCGAAGTAATACAAAAACGTTGTATCGAGTTGGAGCATCCATTGCTGGCTGAGTACGACTTCCGGAACGACTCCATCAATCCGGACATCAACATTGATCTTAAACCAACTGCCGTTTTGCGACCTTATCAAGAGAAGAGCTTGAGGAAAATGTTCGGCAACGGCAGGGCGAGGTCAGGCGTGATAGTGTTGCCGTGCGGCGCCGGCAAGTCGCTGGTGGGCGTGACGGCGGTGTGCACGGTGCGCAAGCGCGCCCTCGTGCTCTGCAACTCCGGCGTCTCCGTGGAACAGTGGAAGCAACAGTTCAAGTGCTGGTCCACGGCGGACGACAGCATGATCTGCAGGTTCACATCAGAAGCCAAGGACAAGCCGATGGGAGCGGGTATCCTCGTAACGACGTATTCCATGATAACTCACGGACAGAGACGCTCGTGGGAGGCCGAACAGACGATGAAGTGGCTCCAGGCCCAGGAGTGGGGCCTGGTCGTGCTCGACGAAGTGCACACGATACCTGCCAAAATGTTCCGCAGGGTGCTCACCATCGTGCACTCGCACGCCAAACTGGGTTTGACGGCGACCCTGCTGCGAGAGGACGACAAGATCGCGGACCTGAACTTCCTGATAGGCCCGAAGCTGTACGAGGCGAACTGGCTCGAGCTGCAGGCGGCCGGCTACATCGCGCGCGTGCAGTGCGCCGAGGTGTGGTGCCCCATGACGCCAGAGTTCTACAGGGAATACCTAGTGCAGAAAATAAACAAGAAAATGTTGTTGTACGTAATGAACCCGTCGAAGTTCCGCGCGTGCCAGTACCTGGTGCGCTACCACGAGCGGCGCGGCGACAAGACCATCGTGTTCTCCGACAACGTGTTCGCGCTCAGGCACTACGCCGTCAAGATGAACAAGCCATACATCTACGGGCCGACGTCCCAGAGCGAGCGAATACAGATCCTCCAGAATTTCAAGTTCAACCCTAAAGTGAATACGATATTCGTGAGTAAAGTCGCCGACACCAGCTTCGATCTGCCCGAAGCGAACGTGCTTATACAGATCTCTTCGCACGGAGGCTCCAGGCGACAAGAGGCACAGAGATTAGGTCGTATTTTAAGAGCAAAGAAAGGCGCTTTGGCCGAAGAATATAATGCCTTTTTCTACACTCTAGTATCACAAGACACCTTGGAGATGGCTTACAGTAGAAAAAGACAAAGATTTCTTGTTAATCAGGGTTACAGTTATAAGGTTATAACAGAACTAAAAGGTATGGATCAAGAGCCCGATATGCTGTATGGCACCCGCGAGGAACAAGGCACTTTACTCTCACAGGTGCTGGCGGCCTCTGAGACAGAGTGCGAGGAGGAGCGGGAGGGCGCGGTGGGGGGCGTGTCGCGGCGGGGGGGCGCGCTGTCGTCGCTGGCGGGCGCGGACGACGCGCTCTACGTGGAGCGCCGCGGCAACCAACACAACAAACATCCTCTCTTCAAGAAGTTCCGATATTAG

Protein

MGPPKKFKRYDSKGGSDRSSKKKKVDEDITIDLVDDDNAENDGVPVAAMQDAEKNDQVPEDEFGAKDYRSQMPLKPDNASRPLWVAPNGHIFLEAFSPVYKHAHDFLIAIAEPVCRPQHIHEYKLTAYSLYAAVSVGLQTNDIIEYLQRLSKCAVPAGIVEFIKLCTLSYGKVKLVLKHNRYLVESKHVEVLQKLLKDPVIQQCRLRRDGDEDLLSNDLPAKPATSLAKPGEEKPPAANGAVPDDISQFYQQLDKDDDEEETSGVTANAAVAFEVDPDKIEVIQKRCIELEHPLLAEYDFRNDSINPDINIDLKPTAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAVCTVRKRALVLCNSGVSVEQWKQQFKCWSTADDSMICRFTSEAKDKPMGAGILVTTYSMITHGQRRSWEAEQTMKWLQAQEWGLVVLDEVHTIPAKMFRRVLTIVHSHAKLGLTATLLREDDKIADLNFLIGPKLYEANWLELQAAGYIARVQCAEVWCPMTPEFYREYLVQKINKKMLLYVMNPSKFRACQYLVRYHERRGDKTIVFSDNVFALRHYAVKMNKPYIYGPTSQSERIQILQNFKFNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGALAEEYNAFFYTLVSQDTLEMAYSRKRQRFLVNQGYSYKVITELKGMDQEPDMLYGTREEQGTLLSQVLAASETECEEEREGAVGGVSRRGGALSSLAGADDALYVERRGNQHNKHPLFKKFRY

Description

ATP-dependent 3'-5' DNA helicase, component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. In NER, TFIIH acts by opening DNA around the lesion to allow the excision of the damaged oligonucleotide and its replacement by a new DNA fragment. The ATPase activity of haywire/XPB/ERCC3, but not its helicase activity, is required for DNA opening. In transcription, TFIIH has an essential role in transcription initiation. When the pre-initiation complex (PIC) has been established, TFIIH is required for promoter opening and promoter escape. The ATP-dependent helicase activity of haywire/XPB/ERCC3 is required for promoter opening and promoter escape. Phosphorylation of the C-terminal tail (CTD) of the largest subunit of RNA polymerase II by the kinase module CAK controls the initiation of transcription.

Catalytic Activity

ATP + H2O = ADP + H(+) + phosphate

Subunit

Component of the 7-subunit TFIIH core complex composed of haywire/XPB/ERCC3, XPD/ERCC2, GTF2H1, GTF2H2, GTF2H3, GTF2H4 and GTF2H5, which is active in NER. The core complex associates with the 3-subunit CDK-activating kinase (CAK) module composed of CCNH/cyclin H, CDK7 and MNAT1 to form the 10-subunit holoenzyme (holo-TFIIH) active in transcription. Interacts with PUF60. Interacts with ATF7IP. Interacts with Epstein-Barr virus EBNA2.

Similarity

Belongs to the helicase family. RAD25/XPB subfamily.

Keywords

ATP-binding Complete proteome DNA damage DNA repair DNA-binding Helicase Hydrolase Nucleotide-binding Nucleus Reference proteome

Feature

chain General transcription and DNA repair factor IIH helicase subunit XPB

Uniprot

A0A3S2LKI1 A0A2W1BHW1 A0A194QQG3 A0A194PX48 D6WEU3 A0A336M8X8 + More
A0A336M4N2 N6TWJ3 N6TZ62 U4UBP8 A0A0T6BCJ9 A0A1Q3F426 A0A1B6E978 Q16KH8 Q16JU4 B0WI20 A0A182H9N0 W8BI97 A0A084WUJ8 A0A1W5C8V3 A0A0K8UYD2 A0A1S4HDZ5 A0A182IZP8 A0A182HPS5 A0A182VML4 A0A182PGC3 A0A182UJ71 A0A182MXB9 A0A182X003 A0A1I8MEY2 W5JXB0 T1PJB3 A0A182QX29 A0A1I8QDV0 A0A154P0R8 A0A026WFU6 A0A182WD96 A0A182FW78 A0A182RAJ0 A0A0L0BR20 A0A0A1XNT6 A0A088A138 A0A182MQ73 A0A1B6GA12 B4J1K5 A0A2A3EN14 B4HLV8 B4N6Q5 B3NCL7 A0A1B0CNG7 A0A0L7QUH7 B4PE26 B7Z0G1 Q02870 B4KVX7 B4LET7 A0A0P4VST7 F4WR81 A0A1Y1MEN7 A0A1W4UWP2 B4QP78 A0A0V0G770 A0A158NVF5 A0A158NVF4 A0A069DWY2 A0A0J9RSS4 E0VCI8 A0A232F865 A0A1Q3F4C1 A0A151J2Z8 A0A224X7U7 A0A023F5L2 A0A2R7WGC3 A0A0M3QWA1 A0A067QZB7 B3M5C1 Q2LZJ4 B4H6P5 A0A1A9VYG8 E2AW10 A0A1A9Z3I2 A0A0M9A381 A0A3B0J514 A0A1A9Y9J3 A0A1A9WU53 A0A1L8DGX6 A0A1J1HXV6 A0A1B0FC49 A0A2Z5TU28 A0A151X0B3 A0A146LTX2 A0A151I3R9 T1HPF2 K7J022 A0A182YQ89 L7MF25 A0A1E1X4Q9 A0A131XN85 A0A023FMB8 A0A224YRL5

EC Number

3.6.4.12

Pubmed

28756777 26354079 18362917 19820115 23537049 17510324 + More
26483478 24495485 24438588 12364791 25315136 20920257 23761445 24508170 26108605 25830018 17994087 17550304 10731132 12537568 12537572 12537573 12537574 16110336 17569856 17569867 1454518 1458540 12537569 27129103 21719571 28004739 21347285 26334808 22936249 20566863 28648823 25474469 24845553 15632085 20798317 26760975 26823975 20075255 25244985 25576852 28503490 28049606 28797301

EMBL

RSAL01000080 RVE48630.1 KZ150049 PZC74438.1 KQ461190 KPJ07205.1 + More
KQ459590 KPI97339.1 KQ971318 EFA00328.1 UFQT01000554 SSX25233.1 SSX25232.1 APGK01049768 APGK01049769 KB741156 ENN73635.1 ENN73636.1 KB631941 ERL87360.1 LJIG01001860 KRT85080.1 GFDL01012758 JAV22287.1 GEDC01002806 JAS34492.1 CH477957 EAT34802.1 CH477990 EAT34570.1 DS231941 EDS28102.1 JXUM01121146 KQ566467 KXJ70112.1 GAMC01017131 GAMC01017129 JAB89424.1 ATLV01027094 KE525423 KFB53892.1 AAAB01008986 EAA00171.4 GDHF01020761 JAI31553.1 APCN01003270 ADMH02000039 ETN68024.1 KA648210 AFP62839.1 AXCN02001682 KQ434792 KZC05451.1 KK107234 EZA54927.1 JRES01001499 KNC22428.1 GBXI01001631 JAD12661.1 AXCM01007405 GECZ01010507 JAS59262.1 CH916366 EDV96925.1 KZ288215 PBC32652.1 CH480815 EDW40990.1 CH964161 EDW80044.1 CH954178 EDV51314.1 AJWK01020298 AJWK01020299 KQ414735 KOC62214.1 CM000159 EDW94022.1 AE014296 ACL83286.1 S50517 X68309 L02965 AY051975 BT025199 CH933809 EDW19528.2 CH940647 EDW70194.1 GDKW01001034 JAI55561.1 GL888284 EGI63247.1 GEZM01033278 JAV84289.1 CM000363 EDX09976.1 GECL01002564 JAP03560.1 ADTU01027132 GBGD01000553 JAC88336.1 CM002912 KMY98856.1 DS235053 EEB11094.1 NNAY01000790 OXU26497.1 GFDL01012633 JAV22412.1 KQ980313 KYN16701.1 GFTR01008001 JAW08425.1 GBBI01002263 JAC16449.1 KK854787 PTY18714.1 CP012525 ALC43783.1 KK853163 KDR10417.1 CH902618 EDV40626.1 CH379069 EAL29513.2 CH479214 EDW33473.1 GL443213 EFN62432.1 KQ435776 KOX74919.1 OUUW01000002 SPP76695.1 GFDF01008490 JAV05594.1 CVRI01000036 CRK92919.1 CCAG010016063 FX985847 BBA93734.1 KQ982617 KYQ53772.1 GDHC01011125 GDHC01007930 JAQ07504.1 JAQ10699.1 KQ976478 KYM83804.1 ACPB03017115 ACPB03017116 ACPB03017117 GACK01003245 JAA61789.1 GFAC01004944 JAT94244.1 GEFH01001560 JAP67021.1 GBBK01002103 JAC22379.1 GFPF01007253 MAA18399.1

Proteomes

UP000283053 UP000053240 UP000053268 UP000007266 UP000019118 UP000030742 + More
UP000008820 UP000002320 UP000069940 UP000249989 UP000030765 UP000007062 UP000075880 UP000075840 UP000075903 UP000075885 UP000075902 UP000075884 UP000076407 UP000095301 UP000000673 UP000075886 UP000095300 UP000076502 UP000053097 UP000075920 UP000069272 UP000075900 UP000037069 UP000005203 UP000075883 UP000001070 UP000242457 UP000001292 UP000007798 UP000008711 UP000092461 UP000053825 UP000002282 UP000000803 UP000009192 UP000008792 UP000007755 UP000192221 UP000000304 UP000005205 UP000009046 UP000215335 UP000078492 UP000092553 UP000027135 UP000007801 UP000001819 UP000008744 UP000078200 UP000000311 UP000092445 UP000053105 UP000268350 UP000092443 UP000091820 UP000183832 UP000092444 UP000075809 UP000078540 UP000015103 UP000002358 UP000076408

PRIDE

B7Z0G1 Q02870

Pfam

PF04851   ResIII        + More
PF16203   ERCC3_RAD25_C
PF13625   Helicase_C_3
PF09696   Ctf8
PF00071   Ras
PF10545   MADF_DNA_bdg

Interpro

IPR014001   Helicase_ATP-bd        + More
IPR032438   ERCC3_RAD25_C
IPR032830   XPB/Ssl2_N
IPR001650   Helicase_C
IPR027417   P-loop_NTPase
IPR006935   Helicase/UvrB_N
IPR001161   XPB/Ssl2
IPR018607   Ctf8
IPR005225   Small_GTP-bd_dom
IPR001806   Small_GTPase
IPR003578   Small_GTPase_Rho
IPR006578   MADF-dom

SUPFAM

SSF52540 SSF52540

CDD

cd00079 HELICc

ProteinModelPortal

A0A3S2LKI1 A0A2W1BHW1 A0A194QQG3 A0A194PX48 D6WEU3 A0A336M8X8 + More
A0A336M4N2 N6TWJ3 N6TZ62 U4UBP8 A0A0T6BCJ9 A0A1Q3F426 A0A1B6E978 Q16KH8 Q16JU4 B0WI20 A0A182H9N0 W8BI97 A0A084WUJ8 A0A1W5C8V3 A0A0K8UYD2 A0A1S4HDZ5 A0A182IZP8 A0A182HPS5 A0A182VML4 A0A182PGC3 A0A182UJ71 A0A182MXB9 A0A182X003 A0A1I8MEY2 W5JXB0 T1PJB3 A0A182QX29 A0A1I8QDV0 A0A154P0R8 A0A026WFU6 A0A182WD96 A0A182FW78 A0A182RAJ0 A0A0L0BR20 A0A0A1XNT6 A0A088A138 A0A182MQ73 A0A1B6GA12 B4J1K5 A0A2A3EN14 B4HLV8 B4N6Q5 B3NCL7 A0A1B0CNG7 A0A0L7QUH7 B4PE26 B7Z0G1 Q02870 B4KVX7 B4LET7 A0A0P4VST7 F4WR81 A0A1Y1MEN7 A0A1W4UWP2 B4QP78 A0A0V0G770 A0A158NVF5 A0A158NVF4 A0A069DWY2 A0A0J9RSS4 E0VCI8 A0A232F865 A0A1Q3F4C1 A0A151J2Z8 A0A224X7U7 A0A023F5L2 A0A2R7WGC3 A0A0M3QWA1 A0A067QZB7 B3M5C1 Q2LZJ4 B4H6P5 A0A1A9VYG8 E2AW10 A0A1A9Z3I2 A0A0M9A381 A0A3B0J514 A0A1A9Y9J3 A0A1A9WU53 A0A1L8DGX6 A0A1J1HXV6 A0A1B0FC49 A0A2Z5TU28 A0A151X0B3 A0A146LTX2 A0A151I3R9 T1HPF2 K7J022 A0A182YQ89 L7MF25 A0A1E1X4Q9 A0A131XN85 A0A023FMB8 A0A224YRL5

PDB

6O9M E-value=0, Score=2634

KEGG

101736904 K10843 DNA excision repair protein ERCC-3 [EC:3.6.4.12] | (RefSeq) DNA excision repair protein haywi

PATHWAY

03022 Basal transcription factors - Bombyx mori (domestic silkworm)
03420 Nucleotide excision repair - Bombyx mori (domestic silkworm)

GO

GO:0004003 GO:0003677 GO:0007064 GO:0031390 GO:0006367 GO:0006289 GO:0005524 GO:0043138 GO:0006468 GO:0033683 GO:0006366 GO:0097550 GO:0009411 GO:0005675 GO:0008134 GO:0000112 GO:0005525 GO:0007264 GO:0003924 GO:0040008 GO:1903025 GO:0042127 GO:0006355 GO:0000381 GO:0043140 GO:0005634 GO:0001111 GO:0004386 GO:0001113 GO:0016787 GO:0006811 GO:0016020 GO:0006260

Subcellular location

Nucleus

Length:

776

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.19172

Exp number, first 60 AAs:

0

Total prob of N-in:

0.00728

outside

1 - 776

Pi

175.578871

Theta

155.025869

Tajima's D

0.09552

CLR

211.003982

CSRT

0.400029998500075

Interpretation

Uncertain

Sequence

Summary

Ontologies

Topology

Population Genetic Test Statistics