Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101515
Name   oriT_B7S79|unnamed6 in_silico
Organism   Escherichia coli strain B7S79
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SJSV01000032 (4775..5126 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (ACCGCTAG..CTAGCGGT)
 192..198, 206..212  (TATAAAA..TTTTATA)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 352 nt

>oriT_B7S79|unnamed6
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGAGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1349 GenBank   WP_001611029
Name   traI_E0E06_RS21210_B7S79|unnamed6 insolico UniProt ID   A0A075MCD1
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191983.83 Da        Isoelectric Point: 5.9594

>WP_001611029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGLPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFIDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRECGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMTGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPRTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

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

(575-625)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   479 GenBank   WP_001151524
Name   WP_001151524_B7S79|unnamed6 insolico UniProt ID   A0A5W2DT22
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14517.48 Da        Isoelectric Point: 5.0516

>WP_001151524.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W2DT22

ID   480 GenBank   WP_001369361
Name   WP_001369361_B7S79|unnamed6 insolico UniProt ID   B7LI64
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15409.70 Da        Isoelectric Point: 9.9240

>WP_001369361.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure


Source ID Structure
AlphaFold DB B7LI64


T4CP

ID   978 GenBank   WP_001064245
Name   traC_E0E06_RS21100_B7S79|unnamed6 insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99159.81 Da        Isoelectric Point: 5.8486

>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.



ID   979 GenBank   WP_021526192
Name   traD_E0E06_RS21195_B7S79|unnamed6 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83648.41 Da        Isoelectric Point: 5.1126

>WP_021526192.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPVSPAINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQ
REQNPDIQQKMQRREEVNINVHRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 4204..30631

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
E0E06_RS20995 (E0E06_21000) 1..396 + 396 Protein_0 hypothetical protein -
E0E06_RS21000 (E0E06_21005) 465..899 + 435 WP_000845962 conjugation system SOS inhibitor PsiB -
E0E06_RS21005 (E0E06_21010) 896..1658 + 763 Protein_2 plasmid SOS inhibition protein A -
E0E06_RS27695 1837..1986 + 150 Protein_3 plasmid maintenance protein Mok -
E0E06_RS21010 (E0E06_21015) 1928..2053 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
E0E06_RS27700 2354..2627 - 274 Protein_5 hypothetical protein -
E0E06_RS21020 (E0E06_21025) 2679..2975 + 297 WP_001272245 hypothetical protein -
E0E06_RS21025 (E0E06_21030) 3086..3907 + 822 WP_001234487 DUF932 domain-containing protein -
E0E06_RS21030 (E0E06_21035) 4204..4794 - 591 WP_001376243 transglycosylase SLT domain-containing protein virB1
E0E06_RS21035 (E0E06_21040) 5127..5510 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
E0E06_RS21040 (E0E06_21045) 5697..6386 + 690 WP_000283385 conjugal transfer transcriptional regulator TraJ -
E0E06_RS21045 (E0E06_21050) 6485..6880 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
E0E06_RS21050 (E0E06_21055) 6913..7278 + 366 WP_000994779 type IV conjugative transfer system pilin TraA -
E0E06_RS21055 (E0E06_21060) 7293..7604 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
E0E06_RS21060 (E0E06_21065) 7626..8192 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
E0E06_RS21065 (E0E06_21070) 8179..8907 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
E0E06_RS21070 (E0E06_21075) 8907..10334 + 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
E0E06_RS21075 (E0E06_21080) 10324..10914 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
E0E06_RS21080 (E0E06_21085) 10901..11098 + 198 WP_001324648 conjugal transfer protein TrbD -
E0E06_RS21085 (E0E06_21090) 11110..11361 + 252 WP_001038342 conjugal transfer protein TrbG -
E0E06_RS21090 (E0E06_21095) 11358..11873 + 516 WP_000809838 type IV conjugative transfer system lipoprotein TraV traV
E0E06_RS21095 (E0E06_21100) 12008..12229 + 222 WP_001278689 conjugal transfer protein TraR -
E0E06_RS21100 (E0E06_21105) 12389..15016 + 2628 WP_001064245 type IV secretion system protein TraC virb4
E0E06_RS21105 (E0E06_21110) 15013..15399 + 387 WP_000099686 type-F conjugative transfer system protein TrbI -
E0E06_RS21110 (E0E06_21115) 15396..16028 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
E0E06_RS21115 (E0E06_21120) 16025..17017 + 993 WP_000830180 conjugal transfer pilus assembly protein TraU traU
E0E06_RS21120 (E0E06_21125) 17026..17664 + 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
E0E06_RS21125 (E0E06_21130) 17661..19469 + 1809 WP_000821849 type-F conjugative transfer system mating-pair stabilization protein TraN traN
E0E06_RS21130 (E0E06_21135) 19496..19753 + 258 WP_000864318 conjugal transfer protein TrbE -
E0E06_RS21135 (E0E06_21140) 19746..20489 + 744 WP_001030377 type-F conjugative transfer system pilin assembly protein TraF traF
E0E06_RS21140 (E0E06_21145) 20505..20852 + 348 WP_001287910 conjugal transfer protein TrbA -
E0E06_RS21145 (E0E06_21150) 20854..21168 - 315 WP_000415566 protein ArtA -
E0E06_RS21150 (E0E06_21155) 21249..21533 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
E0E06_RS21155 (E0E06_21160) 21520..22065 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
E0E06_RS21160 (E0E06_21165) 21995..22336 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
E0E06_RS27705 22323..22703 + 381 Protein_35 F-type conjugal transfer protein TrbF -
E0E06_RS21170 (E0E06_21175) 22703..24076 + 1374 WP_001517790 conjugal transfer pilus assembly protein TraH traH
E0E06_RS21175 (E0E06_21180) 24073..26895 + 2823 WP_001007018 conjugal transfer mating-pair stabilization protein TraG traG
E0E06_RS21180 (E0E06_21185) 26911..27408 + 498 WP_000605857 entry exclusion protein -
E0E06_RS21185 (E0E06_21190) 27440..28171 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -
E0E06_RS21195 (E0E06_21200) 28424..30631 + 2208 WP_021526192 type IV conjugative transfer system coupling protein TraD virb4
E0E06_RS21200 (E0E06_21205) 30640..31038 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
E0E06_RS21205 (E0E06_21210) 31038..31265 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1959 GenBank   NZ_SJSV01000032
Plasmid name   B7S79|unnamed6 Incompatibility group   IncFIC
Plasmid size   42990 bp Coordinate of oriT [Strand]   4775..5126 [+]
Host baterium   Escherichia coli strain B7S79

Cargo genes

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