Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101639
Name   oriT_FWSEC0397|unnamed1 in_silico
Organism   Escherichia coli strain FWSEC0397
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRNU01000076 (80164..80482 [-], 319 nt)
oriT length   319 nt
IRs (inverted repeats)      159..165, 173..179  (TATAAAA..TTTTATA)
 91..99, 103..111  (AGCGGCGTT..AACGCCGCT)
 71..77, 85..91  (TTTAAAT..ATTTAAA)
 73..78, 80..85  (TAAATC..GATTTA)
 60..65, 73..78  (GATTTA..TAAATC)
 7..14, 17..24  (GCAAAAAC..GTTTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 319 nt

>oriT_FWSEC0397|unnamed1
CCCCACGCAAAAACAAGTTTTTGCTGATTTGCGTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCTGATTTATTTAAAGCGGCGTTGTTAACGCCGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTATTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAACTCTGGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1431 GenBank   WP_028985880
Name   traI_C9172_RS24170_FWSEC0397|unnamed1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191666.00 Da        Isoelectric Point: 5.7642

>WP_028985880.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
AGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVIMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGHDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGEASLESAISHQKSALHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLHVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEDIRRETERRADEIVRKMAEEKPDQP
DGKTEQAVRAIAGQEQDRASSSERETALPESVLRESQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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   562 GenBank   WP_001151535
Name   WP_001151535_FWSEC0397|unnamed1 insolico UniProt ID   A0A085NWE2
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14569.59 Da        Isoelectric Point: 4.8742

>WP_001151535.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQIEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A085NWE2


T4CP

ID   1096 GenBank   WP_136848487
Name   traD_C9172_RS24185_FWSEC0397|unnamed1 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: 83608.36 Da        Isoelectric Point: 5.1107

>WP_136848487.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
KRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPVSPAINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQ
REQNPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   1097 GenBank   WP_028985888
Name   traC_C9172_RS24315_FWSEC0397|unnamed1 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: 99305.01 Da        Isoelectric Point: 5.7352

>WP_028985888.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDSTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAE
TLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFRQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(467-770)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51198..81086

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9172_RS24175 (C9172_24225) 50564..50791 + 228 WP_000450527 toxin-antitoxin system antitoxin VapB -
C9172_RS24180 (C9172_24230) 50791..51189 + 399 WP_000911320 type II toxin-antitoxin system VapC family toxin -
C9172_RS24185 (C9172_24235) 51198..53405 - 2208 WP_136848487 type IV conjugative transfer system coupling protein TraD virb4
C9172_RS24190 (C9172_24240) 53687..54166 - 480 WP_001473214 hypothetical protein -
C9172_RS24195 (C9172_24245) 54370..55101 - 732 WP_028985894 conjugal transfer complement resistance protein TraT -
C9172_RS24200 (C9172_24250) 55133..55630 - 498 WP_032211977 entry exclusion protein -
C9172_RS24205 (C9172_24255) 55646..58468 - 2823 WP_028985893 conjugal transfer mating-pair stabilization protein TraG traG
C9172_RS24210 (C9172_24260) 58465..59838 - 1374 WP_000944332 conjugal transfer pilus assembly protein TraH traH
C9172_RS24215 (C9172_24265) 59825..60217 - 393 WP_000662207 F-type conjugal transfer protein TrbF -
C9172_RS24220 (C9172_24270) 60171..60485 - 315 WP_001366111 P-type conjugative transfer protein TrbJ -
C9172_RS24225 (C9172_24275) 60475..61020 - 546 WP_001457363 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9172_RS24230 (C9172_24280) 61007..61297 - 291 WP_021521297 type-F conjugative transfer system pilin chaperone TraQ -
C9172_RS24240 (C9172_24290) 61693..62034 - 342 WP_000556797 conjugal transfer protein TrbA -
C9172_RS24245 (C9172_24295) 62048..62791 - 744 WP_001030373 type-F conjugative transfer system pilin assembly protein TraF traF
C9172_RS24250 (C9172_24300) 62784..63041 - 258 WP_000864346 conjugal transfer protein TrbE -
C9172_RS24255 (C9172_24305) 63055..64959 - 1905 WP_050481379 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9172_RS24260 (C9172_24310) 65053..65433 - 381 WP_028985891 hypothetical protein -
C9172_RS24265 (C9172_24315) 65430..66068 - 639 WP_001035184 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9172_RS24270 (C9172_24320) 66261..66500 + 240 WP_001066128 hypothetical protein -
C9172_RS24275 (C9172_24325) 66497..66676 - 180 WP_000970212 hypothetical protein -
C9172_RS24280 (C9172_24330) 66697..66821 - 125 Protein_68 TraU family protein -
C9172_RS24285 (C9172_24335) 66877..67323 - 447 WP_001289131 hypothetical protein -
C9172_RS24295 (C9172_24345) 68050..68592 - 543 WP_032211976 hypothetical protein -
C9172_RS24300 (C9172_24350) 68606..69598 - 993 WP_000817328 conjugal transfer pilus assembly protein TraU traU
C9172_RS24305 (C9172_24355) 69595..70227 - 633 WP_000877293 type-F conjugative transfer system protein TraW traW
C9172_RS24310 (C9172_24360) 70224..70610 - 387 WP_028985889 type-F conjugative transfer system protein TrbI -
C9172_RS24315 (C9172_24365) 70607..73234 - 2628 WP_028985888 type IV secretion system protein TraC virb4
C9172_RS24320 (C9172_24370) 73394..73615 - 222 WP_001278980 conjugal transfer protein TraR -
C9172_RS24325 (C9172_24375) 73750..74265 - 516 WP_028985887 type IV conjugative transfer system lipoprotein TraV traV
C9172_RS24330 (C9172_24380) 74262..74582 - 321 WP_028985886 conjugal transfer protein TrbD -
C9172_RS24335 (C9172_24385) 74569..75156 - 588 WP_000002895 conjugal transfer pilus-stabilizing protein TraP -
C9172_RS24340 (C9172_24390) 75146..76576 - 1431 WP_000146622 F-type conjugal transfer pilus assembly protein TraB traB
C9172_RS24345 (C9172_24395) 76576..77304 - 729 WP_028985884 type-F conjugative transfer system secretin TraK traK
C9172_RS24350 (C9172_24400) 77291..77857 - 567 WP_000399759 type IV conjugative transfer system protein TraE traE
C9172_RS24355 (C9172_24405) 77879..78190 - 312 WP_000012099 type IV conjugative transfer system protein TraL traL
C9172_RS24360 (C9172_24410) 78205..78558 - 354 WP_028985883 type IV conjugative transfer system pilin TraA -
C9172_RS24365 (C9172_24415) 78593..78820 - 228 WP_024180943 conjugal transfer relaxosome protein TraY -
C9172_RS24370 (C9172_24420) 78939..79586 - 648 WP_136848489 transcriptional regulator TraJ family protein -
C9172_RS24375 (C9172_24425) 79780..80163 - 384 WP_001151535 conjugal transfer relaxosome DNA-binding protein TraM -
C9172_RS24380 (C9172_24430) 80439..81086 + 648 WP_000602507 transglycosylase SLT domain-containing protein virB1
C9172_RS24385 (C9172_24435) 81382..82203 - 822 WP_001234499 DUF932 domain-containing protein -
C9172_RS24390 (C9172_24440) 82322..82609 - 288 WP_000107543 hypothetical protein -
C9172_RS24400 (C9172_24450) 82766..83068 - 303 WP_001272236 hypothetical protein -
C9172_RS24635 (C9172_24455) 83092..83162 - 71 Protein_91 single-stranded DNA-binding protein -

Host bacterium

ID   2083 GenBank   NZ_RRNU01000076
Plasmid name   FWSEC0397|unnamed1 Incompatibility group   IncFIB
Plasmid size   83162 bp Coordinate of oriT [Strand]   80164..80482 [-]
Host baterium   Escherichia coli strain FWSEC0397

Cargo genes

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