Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   121609
Name   oriT_2014C-4356|unnamed4 in_silico
Organism   Escherichia albertii strain 2014C-4356
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP024286 (78545..78894 [-], 350 nt)
oriT length   350 nt
IRs (inverted repeats)      254..260, 269..275  (CCGCTAG..CTAGCGG)
 190..196, 204..210  (TATAAAA..TTTTATA)
 195..200, 202..207  (AAAACA..TGTTTT)
 127..132, 146..151  (CGGTGC..GCACCG)
 104..109, 111..116  (TAAATC..GATTTA)
 38..45, 48..55  (GCAAAAAC..GTTTTTGC)
 2..9, 14..21  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site  
 
 _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 350 nt

>oriT_2014C-4356|unnamed4
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGATTTTAATATCATATGCTTATATTCATGAATTTATATTGTTTAAATCAGATTTATTTGAAACAGCGGTGCAGGCGCGGCTATGGCACCGTGTCTGCACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTGTTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGCGCGTTCCTGTTTCCATTGTGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTTAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   13629 GenBank   WP_099588238
Name   traI_CCF14_RS26705_2014C-4356|unnamed4 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: 191871.81 Da        Isoelectric Point: 6.1000

>WP_099588238.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MLSISVIKSAGSAGNYYTDKDNYYVLGSMEERWAGKGAEQLGLRGSVDKDVFTRLLEGKLPDGSDLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGERKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEGASLKSRDVAALDTRKSKQHVDPEIKMTEWMQT
LKETGFDIQAYRDAAEQRAETRTQAPGPASPDGPDVQQAVTHAIAGLSERKVQFTYTDVLARTVGILPPE
EGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGLGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNAYRW
QGGEQRPATIISEPDRHVRYARLAGDFAASVKAGKESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ESGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFVDLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVMEFSHSQEAKLAEA
QQKAMQNGGAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNCMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHWIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRECGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPARERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGSRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERERAVTSEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

(969-1156)

(1434-1557)

(10-283)

(633-712)

(575-626)


  Protein structure



No available structure.




Auxiliary protein


ID   7514 GenBank   WP_019842734
Name   WP_019842734_2014C-4356|unnamed4 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: 14613.65 Da        Isoelectric Point: 4.8742

>WP_019842734.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MAKVNLYISNDAYEKINTIIEKRRQEGAREKDVSFSATASMLLELGLRVYEVQMERKESAFNQIEFNKVL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

(1-126)


  Protein structure



No available structure.




T4CP


ID   15931 GenBank   WP_099588239
Name   traD_CCF14_RS26710_2014C-4356|unnamed4 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: 81429.91 Da        Isoelectric Point: 5.1674

>WP_099588239.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIRIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQKLKMKSEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDTQQQMQRREEVN
INVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

(32-128)

(173-560)

  Protein structure



No available structure.



ID   15932 GenBank   WP_099588248
Name   traC_CCF14_RS26790_2014C-4356|unnamed4 insolico UniProt ID   _
Length   857 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 857 a.a.        Molecular weight: 97436.02 Da        Isoelectric Point: 6.4106

>WP_099588248.1 type IV secretion system protein TraC [Escherichia albertii]
MKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIPINGANESIVEALDHMLRT
KLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAATQFPLPEGMNLPLTLRHY
RVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVGEMINHNPDSLYPKRRQLD
PYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFLWNMADNYSNLLNPELSIS
CPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGELRQRLGSGQSSVVSYFLN
ITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKGLFKQLKEAGVVQRAESFN
VANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGAGKTGLIQPLIRSVLDSGG
FAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSVMASPNGNLDEVHEGLLLQ
AVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYTAGGTYGRYFNSDEPSLRD
DAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWRLLDFKNHKVGEFIEKGYR
TARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYNQLYPDQFLPLQRDMIGKF
GAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGLSIHEAVWQLAWKKSGPEM
ASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

(271-428)

(449-753)

(20-258)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 50512..76565

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CCF14_RS26710 50512..52665 - 2154 WP_099588239 type IV conjugative transfer system coupling protein TraD virb4
CCF14_RS26715 53084..53677 - 594 WP_232529617 hypothetical protein -
CCF14_RS26720 53887..54198 + 312 WP_019842747 heavy metal-binding domain-containing protein -
CCF14_RS26725 54201..57020 - 2820 WP_099588241 conjugal transfer mating-pair stabilization protein TraG traG
CCF14_RS26730 57017..58342 - 1326 WP_019842713 conjugal transfer pilus assembly protein TraH traH
CCF14_RS26735 58823..59353 - 531 WP_089633479 hypothetical protein -
CCF14_RS26740 59368..59910 - 543 WP_099588242 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CCF14_RS26745 59897..60181 - 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
CCF14_RS26750 60299..60646 - 348 WP_019842709 conjugal transfer protein TrbA -
CCF14_RS26755 60662..61405 - 744 WP_157760421 type-F conjugative transfer system pilin assembly protein TraF traF
CCF14_RS26760 61398..61655 - 258 WP_000864325 conjugal transfer protein TrbE -
CCF14_RS26765 61682..63490 - 1809 WP_099588244 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CCF14_RS26770 63487..64125 - 639 WP_099588245 type-F conjugative transfer system pilin assembly protein TrbC trbC
CCF14_RS26775 64134..65126 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
CCF14_RS26780 65123..65755 - 633 WP_099588246 type-F conjugative transfer system protein TraW traW
CCF14_RS26785 65752..66138 - 387 WP_099588247 type-F conjugative transfer system protein TrbI -
CCF14_RS26790 66135..68708 - 2574 WP_099588248 type IV secretion system protein TraC virb4
CCF14_RS26795 68761..70332 - 1572 WP_000381395 IS66-like element ISCro1 family transposase -
CCF14_RS26800 70352..70699 - 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
CCF14_RS26805 70699..71376 - 678 WP_001682408 IS66-like element accessory protein TnpA -
CCF14_RS26810 71629..71850 - 222 WP_001278690 conjugal transfer protein TraR -
CCF14_RS26815 71985..72500 - 516 WP_000809905 type IV conjugative transfer system lipoprotein TraV traV
CCF14_RS26820 72497..72748 - 252 WP_077543400 conjugal transfer protein TrbG -
CCF14_RS26825 72760..72957 - 198 WP_019842703 conjugal transfer protein TrbD -
CCF14_RS26830 72944..73534 - 591 WP_099588249 conjugal transfer pilus-stabilizing protein TraP -
CCF14_RS26835 73524..74951 - 1428 WP_099588250 F-type conjugal transfer pilus assembly protein TraB traB
CCF14_RS26840 74951..75679 - 729 WP_019842729 type-F conjugative transfer system secretin TraK traK
CCF14_RS26845 75666..76232 - 567 WP_099588205 type IV conjugative transfer system protein TraE traE
CCF14_RS26850 76254..76565 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
CCF14_RS26855 76580..76939 - 360 WP_019842731 type IV conjugative transfer system pilin TraA -
CCF14_RS26860 76973..77200 - 228 WP_019842732 conjugal transfer relaxosome protein TraY -
CCF14_RS26865 77319..77966 - 648 WP_099588251 transcriptional regulator TraJ family protein -
CCF14_RS26870 78161..78544 - 384 WP_019842734 conjugal transfer relaxosome DNA-binding protein TraM -
CCF14_RS26875 78820..79467 + 648 WP_157760422 transglycosylase SLT domain-containing protein -
CCF14_RS26880 79762..80583 - 822 WP_157760423 DUF932 domain-containing protein -
CCF14_RS28920 80702..80987 - 286 Protein_78 hypothetical protein -
CCF14_RS28925 81005..81298 + 294 Protein_79 hypothetical protein -


Host bacterium


ID   22036 GenBank   NZ_CP024286
Plasmid name   2014C-4356|unnamed4 Incompatibility group   IncFIB
Plasmid size   113727 bp Coordinate of oriT [Strand]   78545..78894 [-]
Host baterium   Escherichia albertii strain 2014C-4356

Cargo genes


Drug resistance gene   -
Virulence gene   faeJ, faeH, faeF, faeE, faeD, faeC, vat, papD, papC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -