Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102723
Name   oriT_pCFSAN004181P in_silico
Organism   Escherichia coli strain GB089
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP012499 (176615..176738 [-], 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_pCFSAN004181P
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTCTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2004 GenBank   WP_000986971
Name   traI_CO57_RS00750_pCFSAN004181P 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: 192129.86 Da        Isoelectric Point: 5.8508

>WP_000986971.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Escherichia]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIRAAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAESRMQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTTGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLISDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKIPVAEGERLRVTGKIPGLRISGGDRLQVASVSEDAMTVVVPGRAEPASLPVGYSPFTALKL
ESGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFTDLGREINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETIDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDAIVLVDNVYHRIAGISRDDGLITLQDTDGNSRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVMAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIALGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSEDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAEEKPDQP
DDKTEQAVRDIAGQERDRAVTSEREAVLPESVLREPQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

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)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   816 GenBank   WP_001254381
Name   WP_001254381_pCFSAN004181P insolico UniProt ID   _
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9037.10 Da        Isoelectric Point: 9.9851

>WP_001254381.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Escherichia]
MRRRNAKAGTSRTISVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure



No available structure.



ID   817 GenBank   WP_001151555
Name   WP_001151555_pCFSAN004181P insolico UniProt ID   _
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14461.36 Da        Isoelectric Point: 4.5221

>WP_001151555.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MAKVQAYVSDEIVYKINEIVERRRAEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESAFNQAEFNKVL
LECAIKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.




T4CP

ID   1648 GenBank   WP_000009375
Name   traD_CO57_RS00765_pCFSAN004181P insolico UniProt ID   _
Length   714 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 714 a.a.        Molecular weight: 81137.72 Da        Isoelectric Point: 5.1669

>WP_000009375.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATIVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDLNPEMENRLSAVLAAREAEGRQMASLFEPEVVSGEDVTQAEQPQQPVSSVINDK
KSDAGVSVPAGGIAQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQQMQRREEVNINV
HRERGEDVEPGDDF

  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   1649 GenBank   WP_001064271
Name   traC_CO57_RS00865_pCFSAN004181P 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: 99434.22 Da        Isoelectric Point: 5.9665

>WP_001064271.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESSKANEILGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANETIVEALDHMLRTKLPRGIPLCIHLMSSQLVGERIKYGLREFSWSGEQAERFNAITRAYYMKAAE
TLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLVKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRQEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(468-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 148284..177310

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CO57_RS00755 (CO57_p00890) 147650..147877 + 228 WP_000450526 toxin-antitoxin system antitoxin VapB -
CO57_RS00760 (CO57_p00895) 147877..148275 + 399 WP_000911316 type II toxin-antitoxin system VapC family toxin -
CO57_RS00765 (CO57_p00900) 148284..150428 - 2145 WP_000009375 type IV conjugative transfer system coupling protein TraD virb4
CO57_RS29820 (CO57_p00905) 150484..151214 - 731 Protein_154 hypothetical protein -
CO57_RS00775 (CO57_p00910) 151449..151928 - 480 WP_001355324 hypothetical protein -
CO57_RS00780 (CO57_p00915) 152132..152863 - 732 WP_001364068 conjugal transfer complement resistance protein TraT -
CO57_RS00785 (CO57_p00920) 152895..153398 - 504 WP_000605506 hypothetical protein -
CO57_RS00790 (CO57_p00925) 153414..156257 - 2844 WP_001006995 conjugal transfer mating-pair stabilization protein TraG traG
CO57_RS00795 (CO57_p00930) 156254..157627 - 1374 WP_065275642 conjugal transfer pilus assembly protein TraH traH
CO57_RS00800 (CO57_p00935) 157614..158006 - 393 WP_000138366 F-type conjugal transfer protein TrbF -
CO57_RS00805 (CO57_p00940) 157960..158274 - 315 WP_001244895 P-type conjugative transfer protein TrbJ -
CO57_RS00810 (CO57_p00945) 158264..158800 - 537 WP_000059854 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CO57_RS00815 (CO57_p00950) 158787..159071 - 285 WP_000624195 type-F conjugative transfer system pilin chaperone TraQ -
CO57_RS00820 (CO57_p00955) 159152..159487 + 336 WP_000415768 hypothetical protein -
CO57_RS28045 (CO57_p00960) 159468..159773 - 306 WP_236922840 conjugal transfer protein TrbA -
CO57_RS00825 (CO57_p00965) 159818..160561 - 744 WP_001030399 type-F conjugative transfer system pilin assembly protein TraF traF
CO57_RS00830 (CO57_p00970) 160554..160811 - 258 WP_000864356 conjugal transfer protein TrbE -
CO57_RS00835 (CO57_p00975) 160825..162729 - 1905 WP_000662057 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CO57_RS30625 (CO57_p00980) 162757..162975 + 219 WP_001364024 hypothetical protein -
CO57_RS28050 (CO57_p00985) 162964..163344 - 381 WP_000009645 hypothetical protein -
CO57_RS00840 (CO57_p00990) 163341..163979 - 639 WP_000087541 type-F conjugative transfer system pilin assembly protein TrbC trbC
CO57_RS32205 (CO57_p00995) 164006..164525 - 520 Protein_172 hypothetical protein -
CO57_RS00850 (CO57_p01005) 164801..165793 - 993 WP_001355328 conjugal transfer pilus assembly protein TraU traU
CO57_RS00855 (CO57_p01010) 165790..166422 - 633 WP_000650119 type-F conjugative transfer system protein TraW traW
CO57_RS00860 (CO57_p01015) 166419..166805 - 387 WP_000214089 type-F conjugative transfer system protein TrbI -
CO57_RS00865 (CO57_p01020) 166802..169429 - 2628 WP_001064271 type IV secretion system protein TraC virb4
CO57_RS28055 (CO57_p01030) 169589..169810 - 222 WP_001278688 conjugal transfer protein TraR -
CO57_RS00870 (CO57_p01035) 169945..170460 - 516 WP_000802746 type IV conjugative transfer system lipoprotein TraV traV
CO57_RS00875 (CO57_p01040) 170457..170777 - 321 WP_001057269 DUF2689 domain-containing protein -
CO57_RS00880 (CO57_p01045) 170764..171351 - 588 WP_000002892 conjugal transfer pilus-stabilizing protein TraP -
CO57_RS00885 (CO57_p01050) 171341..172771 - 1431 WP_000146619 F-type conjugal transfer pilus assembly protein TraB traB
CO57_RS00890 (CO57_p01055) 172771..173499 - 729 WP_001355329 type-F conjugative transfer system secretin TraK traK
CO57_RS00895 (CO57_p01060) 173486..174052 - 567 WP_000399757 type IV conjugative transfer system protein TraE traE
CO57_RS00900 (CO57_p01065) 174074..174385 - 312 WP_000012121 type IV conjugative transfer system protein TraL traL
CO57_RS00905 (CO57_p01070) 174400..174759 - 360 WP_000340277 type IV conjugative transfer system pilin TraA -
CO57_RS00910 (CO57_p01075) 174793..175020 - 228 WP_001254381 conjugal transfer relaxosome protein TraY -
CO57_RS00915 (CO57_p01080) 175114..175800 - 687 WP_000332479 PAS domain-containing protein -
CO57_RS00920 (CO57_p01085) 175994..176377 - 384 WP_001151555 conjugal transfer relaxosome DNA-binding protein TraM -
CO57_RS00925 (CO57_p01090) 176663..177310 + 648 WP_000614283 transglycosylase SLT domain-containing protein virB1
CO57_RS00930 (CO57_p01095) 177607..178428 - 822 Protein_190 DUF932 domain-containing protein -
CO57_RS00935 (CO57_p01100) 178547..178834 - 288 WP_000107535 hypothetical protein -
CO57_RS00940 (CO57_p01105) 179085..180089 + 1005 WP_024166184 IS110 family transposase -
CO57_RS31690 (CO57_p01110) 180183..180443 - 261 WP_000547943 hypothetical protein -
CO57_RS31695 180513..180685 + 173 Protein_194 hypothetical protein -

Host bacterium

ID   3166 GenBank   NZ_CP012499
Plasmid name   pCFSAN004181P Incompatibility group   IncFIB
Plasmid size   223952 bp Coordinate of oriT [Strand]   176615..176738 [-]
Host baterium   Escherichia coli strain GB089

Cargo genes

Drug resistance gene   -
Virulence gene   estIa, faeJ, faeI, faeH, faeF, faeE, faeD, faeC, hlyD, hlyB, hlyA, hlyC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF11