Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101549
Name   oriT_KE24|unnamed1 in_silico
Organism   Escherichia coli strain KE24
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAPVBW010000002 (79976..80099 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      92..99, 113..120  (ATAATGTA..TACATTAT)
 90..95, 107..112  (AAATAA..TTATTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
 3..10, 15..22  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT_KE24|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1372 GenBank   WP_000948349
Name   traI_O2X06_RS23760_KE24|unnamed1 insolico UniProt ID   C8CGS7
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191729.35 Da        Isoelectric Point: 5.7956

>WP_000948349.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   488 GenBank   WP_001254388
Name   WP_001254388_KE24|unnamed1 insolico UniProt ID   W9A0Z2
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9072.20 Da        Isoelectric Point: 10.2071

>WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB W9A0Z2

ID   489 GenBank   WP_001151562
Name   WP_001151562_KE24|unnamed1 insolico UniProt ID   A0A7I0KNG1
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14420.36 Da        Isoelectric Point: 4.8624

>WP_001151562.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A7I0KNG1


T4CP

ID   1003 GenBank   WP_001568120
Name   traD_O2X06_RS23765_KE24|unnamed1 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 83207.84 Da        Isoelectric Point: 5.1644

>WP_001568120.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQEN
HPDIQQHMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(173-560)

  Protein structure



No available structure.



ID   1004 GenBank   WP_000069777
Name   traC_O2X06_RS23865_KE24|unnamed1 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99195.86 Da        Isoelectric Point: 6.1126

>WP_000069777.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(468-764)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 52227..80671

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O2X06_RS23765 (O2X06_23725) 52227..54425 - 2199 WP_001568120 type IV conjugative transfer system coupling protein TraD virb4
O2X06_RS23770 (O2X06_23730) 54476..55213 - 738 WP_000199901 hypothetical protein -
O2X06_RS23775 (O2X06_23735) 55416..56147 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
O2X06_RS23780 (O2X06_23740) 56196..56681 - 486 WP_020241360 surface exclusion inner membrane protein -
O2X06_RS23785 (O2X06_23745) 56697..59519 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
O2X06_RS23790 (O2X06_23750) 59516..60889 - 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
O2X06_RS23795 (O2X06_23755) 60876..61268 - 393 WP_000660701 F-type conjugal transfer protein TrbF -
O2X06_RS23800 (O2X06_23760) 61249..61596 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
O2X06_RS23805 (O2X06_23765) 61526..62071 - 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
O2X06_RS23810 (O2X06_23770) 62058..62342 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
O2X06_RS23815 (O2X06_23775) 62423..62758 + 336 WP_000736414 hypothetical protein -
O2X06_RS23820 (O2X06_23780) 62739..63080 - 342 WP_000556795 conjugal transfer protein TrbA -
O2X06_RS23825 (O2X06_23785) 63094..63837 - 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
O2X06_RS23830 (O2X06_23790) 63830..64087 - 258 WP_000864309 conjugal transfer protein TrbE -
O2X06_RS23835 (O2X06_23795) 64114..65964 - 1851 WP_269695776 type-F conjugative transfer system mating-pair stabilization protein TraN traN
O2X06_RS23840 (O2X06_23800) 65961..66599 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
O2X06_RS23845 (O2X06_23805) 66608..66913 - 306 WP_000224418 hypothetical protein -
O2X06_RS23850 (O2X06_23810) 66943..67935 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
O2X06_RS23855 (O2X06_23815) 67932..68564 - 633 WP_001203738 type-F conjugative transfer system protein TraW traW
O2X06_RS23860 (O2X06_23820) 68561..68947 - 387 WP_000214085 type-F conjugative transfer system protein TrbI -
O2X06_RS23865 (O2X06_23825) 68944..71574 - 2631 WP_000069777 type IV secretion system protein TraC virb4
O2X06_RS24425 71700..71913 - 214 Protein_77 hypothetical protein -
O2X06_RS23870 (O2X06_23830) 71941..72159 - 219 WP_000556746 hypothetical protein -
O2X06_RS23875 (O2X06_23835) 72239..72712 - 474 WP_000549566 hypothetical protein -
O2X06_RS23880 (O2X06_23840) 72705..72926 - 222 WP_001278694 conjugal transfer protein TraR -
O2X06_RS23885 (O2X06_23845) 73061..73576 - 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
O2X06_RS23890 (O2X06_23850) 73573..73825 - 253 Protein_82 conjugal transfer protein TrbG -
O2X06_RS23895 (O2X06_23855) 73818..74138 - 321 WP_001057275 conjugal transfer protein TrbD virb4
O2X06_RS23900 (O2X06_23860) 74125..74715 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
O2X06_RS23905 (O2X06_23865) 74705..76132 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
O2X06_RS23910 (O2X06_23870) 76132..76860 - 729 WP_001577028 type-F conjugative transfer system secretin TraK traK
O2X06_RS23915 (O2X06_23875) 76847..77413 - 567 WP_000399776 type IV conjugative transfer system protein TraE traE
O2X06_RS23920 (O2X06_23880) 77435..77746 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
O2X06_RS23925 (O2X06_23885) 77761..78120 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
O2X06_RS23930 (O2X06_23890) 78154..78381 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
O2X06_RS23935 (O2X06_23895) 78475..79161 - 687 WP_000332487 PAS domain-containing protein -
O2X06_RS23940 (O2X06_23900) 79355..79738 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
O2X06_RS23945 (O2X06_23905) 80069..80671 + 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
O2X06_RS23950 (O2X06_23910) 80967..81788 - 822 WP_001234489 DUF932 domain-containing protein -
O2X06_RS23955 (O2X06_23915) 81907..82194 - 288 WP_000107526 hypothetical protein -
O2X06_RS23960 (O2X06_23920) 82495..82792 + 298 Protein_96 hypothetical protein -
O2X06_RS23965 (O2X06_23925) 83110..83235 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
O2X06_RS23970 (O2X06_23930) 83177..83326 - 150 Protein_98 DUF5431 family protein -
O2X06_RS23975 (O2X06_23935) 83500..84263 - 764 Protein_99 plasmid SOS inhibition protein A -
O2X06_RS23980 (O2X06_23940) 84260..84694 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1993 GenBank   NZ_JAPVBW010000002
Plasmid name   KE24|unnamed1 Incompatibility group   IncFIB
Plasmid size   111141 bp Coordinate of oriT [Strand]   79976..80099 [-]
Host baterium   Escherichia coli strain KE24

Cargo genes

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