Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103314
Name   oriT_pCERC14 in_silico
Organism   Escherichia coli strain 2.3-R4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN053930 (100565..100916 [-], 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_pCERC14
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2475 GenBank   WP_000987000
Name   traI_HTX49_RS00345_pCERC14 insolico UniProt ID   B1P7Q9
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192143.94 Da        Isoelectric Point: 6.0143

>WP_000987000.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRSSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQILITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSYDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KTRAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFTDLGGEINA
QIKRGDLLYVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QMQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIGLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPRTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   1062 GenBank   WP_001369361
Name   WP_001369361_pCERC14 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

ID   1063 GenBank   WP_001151524
Name   WP_001151524_pCERC14 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


T4CP

ID   2258 GenBank   WP_000009325
Name   traD_HTX49_RS00350_pCERC14 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81517.16 Da        Isoelectric Point: 5.2479

>WP_000009325.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIKKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGREMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVSAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGENVEPGDDF

  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   2259 GenBank   WP_000069766
Name   traC_HTX49_RS00435_pCERC14 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: 99370.06 Da        Isoelectric Point: 6.0801

>WP_000069766.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAA
ATQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(468-772)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 73855..101487

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTX49_RS00350 73855..76008 - 2154 WP_000009325 type IV conjugative transfer system coupling protein TraD virb4
HTX49_RS00355 76261..76992 - 732 WP_000850422 conjugal transfer complement resistance protein TraT -
HTX49_RS00360 77006..77515 - 510 WP_000628107 conjugal transfer entry exclusion protein TraS -
HTX49_RS00365 77512..80337 - 2826 WP_001007037 conjugal transfer mating-pair stabilization protein TraG traG
HTX49_RS00370 80334..81707 - 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
HTX49_RS00870 81694..82086 - 393 Protein_74 F-type conjugal transfer protein TrbF -
HTX49_RS00375 82073..82414 - 342 WP_001442101 P-type conjugative transfer protein TrbJ -
HTX49_RS00380 82344..82889 - 546 WP_000052614 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTX49_RS00385 82876..83112 - 237 WP_001346259 type-F conjugative transfer system pilin chaperone TraQ -
HTX49_RS00390 83273..84016 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
HTX49_RS00395 84009..84266 - 258 WP_000864341 conjugal transfer protein TrbE -
HTX49_RS00400 84293..86143 - 1851 WP_000827530 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTX49_RS00405 86140..86778 - 639 WP_001104087 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTX49_RS00410 86806..87258 - 453 WP_000069429 hypothetical protein -
HTX49_RS00415 87288..87749 - 462 WP_000277843 hypothetical protein -
HTX49_RS00420 87775..88767 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
HTX49_RS00425 88764..89396 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HTX49_RS00430 89393..89779 - 387 WP_000099690 type-F conjugative transfer system protein TrbI -
HTX49_RS00435 89776..92406 - 2631 WP_000069766 type IV secretion system protein TraC virb4
HTX49_RS00440 92533..92880 - 348 WP_000802783 hypothetical protein -
HTX49_RS00445 92908..93126 - 219 WP_000556754 hypothetical protein -
HTX49_RS00450 93206..93679 - 474 WP_000549598 hypothetical protein -
HTX49_RS00455 93672..93845 - 174 WP_024262213 conjugal transfer protein TraR -
HTX49_RS00460 93964..94479 - 516 WP_000724021 type IV conjugative transfer system lipoprotein TraV traV
HTX49_RS00465 94476..94796 - 321 WP_001057280 conjugal transfer protein TrbD -
HTX49_RS00470 94783..95373 - 591 WP_000002785 conjugal transfer pilus-stabilizing protein TraP -
HTX49_RS00475 95363..96790 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
HTX49_RS00480 96790..97518 - 729 WP_001230786 type-F conjugative transfer system secretin TraK traK
HTX49_RS00485 97505..98071 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
HTX49_RS00490 98093..98404 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HTX49_RS00495 98419..98778 - 360 WP_000994785 type IV conjugative transfer system pilin TraA -
HTX49_RS00500 98811..99206 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
HTX49_RS00505 99305..99994 - 690 WP_000283372 conjugal transfer transcriptional regulator TraJ -
HTX49_RS00510 100181..100564 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
HTX49_RS00515 100885..101487 + 603 WP_000243703 transglycosylase SLT domain-containing protein -
HTX49_RS00520 101784..102605 - 822 WP_001234469 DUF932 domain-containing protein -
HTX49_RS00525 102725..102922 - 198 WP_052318758 hypothetical protein -
HTX49_RS00875 102900..103154 - 255 WP_000547972 hypothetical protein -
HTX49_RS00880 103224..103397 + 174 Protein_107 hypothetical protein -
HTX49_RS00885 103395..103625 - 231 WP_071587244 hypothetical protein -
HTX49_RS00535 103845..103970 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HTX49_RS00890 103912..104061 - 150 Protein_110 plasmid maintenance protein Mok -
HTX49_RS00540 104083..104271 + 189 WP_001299721 hypothetical protein -
HTX49_RS00545 104240..105002 - 763 Protein_112 plasmid SOS inhibition protein A -
HTX49_RS00550 104999..105433 - 435 WP_000845953 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   3757 GenBank   NZ_MN053930
Plasmid name   pCERC14 Incompatibility group   IncFIC
Plasmid size   162926 bp Coordinate of oriT [Strand]   100565..100916 [-]
Host baterium   Escherichia coli strain 2.3-R4

Cargo genes

Drug resistance gene   sul1, qacE, dfrA5, tet(C), sitABCD
Virulence gene   iroB, iroC, iroD, iroE, iroN, vat, iutA, iucC, iucB, iucA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -