Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102365
Name   oriT_FWSEC0126|unnamed2 in_silico
Organism   Escherichia coli strain FWSEC0126
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRGR01000077 (24611..24734 [+], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 90..95, 107..112  (AAATAA..TTATTT)
 57..62, 70..75  (TGATTT..AAATCA)
 41..48, 61..68  (AAAAACAA..TTGTTTTT)
 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_FWSEC0126|unnamed2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1788 GenBank   WP_000986952
Name   traI_C9Z76_RS27205_FWSEC0126|unnamed2 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: 192153.68 Da        Isoelectric Point: 5.9476

>WP_000986952.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEVFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAATRTQTPGPVSQDGQDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVWALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREHGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGQQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVTERVTAQSNSLTLRNAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKISGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ESGWVETPGHSVSDSAKVFASVTQMEMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARTGETSLETAISHQKSALHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTDLGREINA
QIKRGDLLYVDVAKGYGTGMLVSRASYEAEKSILRHILEGKEAVTPLMERVPGALMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDTQTLASFLHDT
QLQQRSGETLDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALLAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
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)

(575-627)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   708 GenBank   WP_000124981
Name   WP_000124981_FWSEC0126|unnamed2 insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9

ID   709 GenBank   WP_001254386
Name   WP_001254386_FWSEC0126|unnamed2 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   1371 GenBank   WP_086211063
Name   traC_C9Z76_RS27075_FWSEC0126|unnamed2 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: 99173.83 Da        Isoelectric Point: 5.8486

>WP_086211063.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
ELINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   1372 GenBank   WP_136780241
Name   traD_C9Z76_RS27190_FWSEC0126|unnamed2 insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82876.47 Da        Isoelectric Point: 5.0504

>WP_136780241.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGRDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPVSSVINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 24039..52297

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9Z76_RS26965 (C9Z76_27015) 20312..20746 + 435 WP_053528507 conjugation system SOS inhibitor PsiB -
C9Z76_RS26970 (C9Z76_27020) 20743..21505 + 763 Protein_29 plasmid SOS inhibition protein A -
C9Z76_RS28210 21678..21827 + 150 Protein_30 plasmid maintenance protein Mok -
C9Z76_RS26975 (C9Z76_27025) 21769..21894 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
C9Z76_RS28215 22195..22515 - 321 Protein_32 hypothetical protein -
C9Z76_RS28220 (C9Z76_27040) 22517..22804 + 288 WP_053528561 hypothetical protein -
C9Z76_RS26995 (C9Z76_27045) 22922..23743 + 822 WP_001234467 DUF932 domain-containing protein -
C9Z76_RS27000 (C9Z76_27050) 24039..24629 - 591 WP_282704997 transglycosylase SLT domain-containing protein -
C9Z76_RS27010 (C9Z76_27060) 24974..25357 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
C9Z76_RS27015 (C9Z76_27065) 25548..26234 + 687 WP_000332481 PAS domain-containing protein -
C9Z76_RS27020 (C9Z76_27070) 26328..26555 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
C9Z76_RS27025 (C9Z76_27075) 26589..26954 + 366 WP_000340270 type IV conjugative transfer system pilin TraA -
C9Z76_RS27030 (C9Z76_27080) 26969..27280 + 312 WP_024210820 type IV conjugative transfer system protein TraL traL
C9Z76_RS27035 (C9Z76_27085) 27302..27868 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
C9Z76_RS27040 (C9Z76_27090) 27855..28583 + 729 WP_250207102 type-F conjugative transfer system secretin TraK traK
C9Z76_RS27045 (C9Z76_27095) 28583..30031 + 1449 WP_053528384 F-type conjugal transfer pilus assembly protein TraB traB
C9Z76_RS27050 (C9Z76_27100) 30021..30611 + 591 WP_053528383 conjugal transfer pilus-stabilizing protein TraP -
C9Z76_RS27055 (C9Z76_27105) 30598..30918 + 321 WP_053528382 conjugal transfer protein TrbD virb4
C9Z76_RS27060 (C9Z76_27110) 30911..31162 + 252 WP_001038342 conjugal transfer protein TrbG -
C9Z76_RS27065 (C9Z76_27115) 31159..31674 + 516 WP_000809906 type IV conjugative transfer system lipoprotein TraV traV
C9Z76_RS27070 (C9Z76_27120) 31809..32030 + 222 WP_001278692 conjugal transfer protein TraR -
C9Z76_RS27075 (C9Z76_27125) 32190..34817 + 2628 WP_086211063 type IV secretion system protein TraC virb4
C9Z76_RS27080 (C9Z76_27130) 34814..35200 + 387 WP_000099690 type-F conjugative transfer system protein TrbI -
C9Z76_RS27085 (C9Z76_27135) 35197..35829 + 633 WP_053528548 type-F conjugative transfer system protein TraW traW
C9Z76_RS27090 (C9Z76_27140) 35826..36818 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
C9Z76_RS27095 (C9Z76_27145) 36839..37018 + 180 WP_136780237 hypothetical protein -
C9Z76_RS27100 (C9Z76_27150) 37015..37254 - 240 WP_021572675 hypothetical protein -
C9Z76_RS27105 (C9Z76_27155) 37447..38085 + 639 WP_053528426 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9Z76_RS27110 (C9Z76_27160) 38082..38453 + 372 WP_072163738 hypothetical protein -
C9Z76_RS27115 (C9Z76_27165) 38479..38586 + 108 Protein_57 HNH endonuclease -
C9Z76_RS27120 (C9Z76_27170) 38622..40472 + 1851 WP_053528427 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9Z76_RS27125 (C9Z76_27175) 40499..40756 + 258 WP_053528428 conjugal transfer protein TrbE -
C9Z76_RS27130 (C9Z76_27180) 40749..41492 + 744 WP_053528429 type-F conjugative transfer system pilin assembly protein TraF traF
C9Z76_RS27135 (C9Z76_27185) 41506..41847 + 342 WP_053528430 conjugal transfer protein TrbA -
C9Z76_RS27145 (C9Z76_27195) 42245..42529 + 285 WP_053528432 type-F conjugative transfer system pilin chaperone TraQ -
C9Z76_RS27150 (C9Z76_27200) 42516..43061 + 546 WP_053528433 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9Z76_RS27155 (C9Z76_27205) 42991..43332 + 342 WP_136780239 P-type conjugative transfer protein TrbJ -
C9Z76_RS27160 (C9Z76_27210) 43319..43711 + 393 WP_053528595 F-type conjugal transfer protein TrbF -
C9Z76_RS27165 (C9Z76_27215) 43698..45071 + 1374 WP_086211090 conjugal transfer pilus assembly protein TraH traH
C9Z76_RS27170 (C9Z76_27220) 45068..47893 + 2826 WP_086211091 conjugal transfer mating-pair stabilization protein TraG traG
C9Z76_RS27175 (C9Z76_27225) 47890..48399 + 510 WP_053528440 conjugal transfer entry exclusion protein TraS -
C9Z76_RS27180 (C9Z76_27230) 48413..49144 + 732 WP_024187508 conjugal transfer complement resistance protein TraT -
C9Z76_RS27185 (C9Z76_27235) 49348..49827 + 480 WP_001473214 hypothetical protein -
C9Z76_RS27190 (C9Z76_27240) 50108..52297 + 2190 WP_136780241 type IV conjugative transfer system coupling protein TraD virb4
C9Z76_RS27195 (C9Z76_27245) 52306..52704 - 399 WP_000911317 type II toxin-antitoxin system VapC family toxin -
C9Z76_RS27200 (C9Z76_27250) 52704..52931 - 228 WP_000450530 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   2809 GenBank   NZ_RRGR01000077
Plasmid name   FWSEC0126|unnamed2 Incompatibility group   IncFIB
Plasmid size   69009 bp Coordinate of oriT [Strand]   24611..24734 [+]
Host baterium   Escherichia coli strain FWSEC0126

Cargo genes

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