Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100292
Name   oriT_p53638_75 in_silico
Organism   Escherichia coli 53638
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_010720 (52016..52557 [-], 542 nt)
oriT length   542 nt
IRs (inverted repeats)      243..255, 257..269  (TATTTAATAATTC..GAATTATTAAATA)
 311..318, 321..328  (GCAAAAAC..GTTTTTGC)
Location of nic site      337..338
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 542 nt

>oriT_p53638_75
TTACTCTGGCCATAAGATAAAACCTTTCATCATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGTGCCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGGGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCATTTGTTAATTACATGATTTAAAACGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCAGGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   363 GenBank   WP_000986946
Name   TraI_p53638_75 insolico UniProt ID   A0A0E0SS41
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191760.36 Da        Isoelectric Point: 5.7360

>WP_000986946.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVTNVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVAQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVTERVTAQSHSLTLRNAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFADLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAVGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMQKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGQVQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGSGDRMRFTKSDRECGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRTATSERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTPGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(575-626)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51620..73679

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EC53638_RS27530 (Ec53638_A0076) 47111..47545 + 435 WP_000845938 conjugation system SOS inhibitor PsiB -
EC53638_RS27535 (Ec53638_A0077) 47542..48261 + 720 WP_000116339 plasmid SOS inhibition protein A -
EC53638_RS27540 (Ec53638_A0078) 48261..48779 + 519 WP_001178555 hypothetical protein -
EC53638_RS32820 48897..49049 + 153 Protein_61 DUF5431 family protein -
EC53638_RS27550 (Ec53638_A0079) 48994..49116 + 123 WP_223200913 Hok/Gef family protein -
EC53638_RS30300 49541..49796 - 256 Protein_63 hypothetical protein -
EC53638_RS27565 (Ec53638_A0083) 50097..50384 + 288 WP_000107525 hypothetical protein -
EC53638_RS27570 (Ec53638_A0084) 50503..51324 + 822 WP_001234488 DUF932 domain-containing protein -
EC53638_RS27575 (Ec53638_A0086) 51620..52210 - 591 WP_000252679 transglycosylase SLT domain-containing protein virB1
EC53638_RS27580 (Ec53638_A0087) 52545..52928 + 384 WP_024174439 conjugal transfer relaxosome DNA-binding protein TraM -
EC53638_RS27585 (Ec53638_A0088) 53062..53793 + 732 WP_248698826 conjugal transfer transcriptional regulator TraJ -
EC53638_RS30310 (Ec53638_A0089) 53930..54157 + 228 WP_000089265 conjugal transfer relaxosome protein TraY -
EC53638_RS27590 (Ec53638_A0090) 54190..54555 + 366 WP_000991525 type IV conjugative transfer system pilin TraA -
EC53638_RS27595 (Ec53638_A0091) 54570..54881 + 312 WP_000012118 type IV conjugative transfer system protein TraL traL
EC53638_RS27600 (Ec53638_A0092) 54903..55469 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
EC53638_RS27605 (Ec53638_A0093) 55456..56184 + 729 WP_001230815 type-F conjugative transfer system secretin TraK traK
EC53638_RS27610 (Ec53638_A0094) 56184..57611 + 1428 WP_000146660 F-type conjugal transfer pilus assembly protein TraB traB
EC53638_RS27615 (Ec53638_A0095) 57601..58191 + 591 WP_000002786 conjugal transfer pilus-stabilizing protein TraP -
EC53638_RS27620 (Ec53638_A0096) 58178..58402 + 225 WP_001057277 hypothetical protein -
EC53638_RS27625 (Ec53638_A0097) 58399..58914 + 516 WP_000724024 type IV conjugative transfer system lipoprotein TraV traV
EC53638_RS30315 (Ec53638_A0098) 59049..59309 + 261 WP_001278691 conjugal transfer protein TraR -
EC53638_RS27635 (Ec53638_A0099) 59435..62065 + 2631 WP_001063854 type IV secretion system protein TraC virb4
EC53638_RS27640 (Ec53638_A0100) 62062..62448 + 387 WP_000213409 type-F conjugative transfer system protein TrbI -
EC53638_RS27645 (Ec53638_A0101) 62445..63077 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
EC53638_RS27650 (Ec53638_A0102) 63074..64066 + 993 WP_000830845 conjugal transfer pilus assembly protein TraU traU
EC53638_RS27655 (Ec53638_A0103) 64096..64401 + 306 WP_000224419 hypothetical protein -
EC53638_RS27660 (Ec53638_A0104) 64410..65048 + 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
EC53638_RS27665 (Ec53638_A0105) 65045..66853 + 1809 WP_000821842 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EC53638_RS27670 (Ec53638_A0106) 66880..67137 + 258 WP_000864339 conjugal transfer protein TrbE -
EC53638_RS27675 (Ec53638_A0107) 67130..67873 + 744 WP_001030382 type-F conjugative transfer system pilin assembly protein TraF traF
EC53638_RS27680 (Ec53638_A0108) 67889..68236 + 348 WP_001287902 conjugal transfer protein TrbA -
EC53638_RS27685 (Ec53638_A0109) 68355..68639 + 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
EC53638_RS27690 (Ec53638_A0110) 68626..69171 + 546 WP_000052619 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EC53638_RS27695 (Ec53638_A0111) 69101..69463 + 363 WP_001443292 P-type conjugative transfer protein TrbJ -
EC53638_RS27700 (Ec53638_A0112) 69463..70836 + 1374 WP_024174425 conjugal transfer pilus assembly protein TraH traH
EC53638_RS27705 (Ec53638_A0010) 70833..73679 + 2847 WP_001007043 conjugal transfer mating-pair stabilization protein TraG traG
EC53638_RS27710 (Ec53638_A0011) 73676..74185 + 510 WP_000628109 conjugal transfer entry exclusion protein TraS -
EC53638_RS27715 (Ec53638_A0012) 74199..74984 + 786 WP_000850431 hypothetical protein -

Host bacterium

ID   754 GenBank   NC_010720
Plasmid name   p53638_75 Incompatibility group   IncFII
Plasmid size   75089 bp Coordinate of oriT [Strand]   52016..52557 [-]
Host baterium   Escherichia coli 53638

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -