Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121161
Name   oriT_pKBSW16i-A in_silico
Organism   Escherichia albertii strain KBSW16i
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP110261 (109566..109689 [-], 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_pKBSW16i-A
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13358 GenBank   WP_262930264
Name   traI_N6N74_RS23475_pKBSW16i-A insolico UniProt ID   _
Length   1755 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1755 a.a.        Molecular weight: 191725.47 Da        Isoelectric Point: 6.0132

>WP_262930264.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQTL
KETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQTVTQAIAGLSERKVQFTYTDVLARTVGILPPEN
GVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYSD
AVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGRR
QLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRWQ
GGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVTM
TALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDSS
WSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKLE
NGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQIK
ARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINAQ
IKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMIL
ETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEAQ
QKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVMV
PVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVTL
YTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIHPGQERAEQHIDLAYAIT
AHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVLE
PKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGI
WLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEG
RPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLPD
GRTEQAVREIAGQERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKEK
TLGGD

  Protein domains


Predicted by InterproScan.

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

(574-625)

DNA helicase TraI (TraI_C)

(1433-1556)

TrwC relaxase (TrwC)

(10-282)

AAA domain (AAA_30)

(967-1155)

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

(632-711)


  Protein structure



No available structure.




Auxiliary protein

ID   7386 GenBank   WP_001442099
Name   WP_001442099_pKBSW16i-A insolico UniProt ID   A0A9X7EN69
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8991.08 Da        Isoelectric Point: 10.1422

>WP_001442099.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacteriaceae]
MRRRNARGGVSRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure



No available structure.



ID   7387 GenBank   WP_000124981
Name   WP_000124981_pKBSW16i-A 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


T4CP

ID   15649 GenBank   WP_001064245
Name   traC_N6N74_RS23600_pKBSW16i-A 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: 99159.81 Da        Isoelectric Point: 5.8486

>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 90600..107343

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N6N74_RS23515 (N6N74_23540) 86527..87258 - 732 WP_000850416 conjugal transfer complement resistance protein TraT -
N6N74_RS23520 (N6N74_23545) 87272..87781 - 510 WP_000628105 conjugal transfer entry exclusion protein TraS -
N6N74_RS23525 (N6N74_23550) 87778..90603 - 2826 Protein_94 conjugal transfer mating-pair stabilization protein TraG -
N6N74_RS23530 (N6N74_23555) 90600..91973 - 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
N6N74_RS23535 (N6N74_23560) 91960..92352 - 393 Protein_96 F-type conjugal transfer protein TrbF -
N6N74_RS23540 (N6N74_23565) 92339..92680 - 342 WP_001442101 P-type conjugative transfer protein TrbJ -
N6N74_RS23545 (N6N74_23570) 92610..93155 - 546 WP_000059833 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
N6N74_RS23550 (N6N74_23575) 93142..93426 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
N6N74_RS23555 (N6N74_23580) 93507..93782 + 276 WP_001513501 hypothetical protein -
N6N74_RS23560 (N6N74_23585) 93784..94131 - 348 WP_001287907 conjugal transfer protein TrbA -
N6N74_RS23565 (N6N74_23590) 94147..94890 - 744 WP_025670718 type-F conjugative transfer system pilin assembly protein TraF traF
N6N74_RS23570 (N6N74_23595) 94883..95140 - 258 WP_000864318 conjugal transfer protein TrbE -
N6N74_RS23575 (N6N74_23600) 95167..96975 - 1809 WP_025670719 type-F conjugative transfer system mating-pair stabilization protein TraN traN
N6N74_RS23580 (N6N74_23605) 96972..97610 - 639 WP_000777703 type-F conjugative transfer system pilin assembly protein TrbC trbC
N6N74_RS23585 (N6N74_23610) 97619..98611 - 993 WP_000830183 conjugal transfer pilus assembly protein TraU traU
N6N74_RS23590 (N6N74_23615) 98608..99240 - 633 WP_025670720 type-F conjugative transfer system protein TraW traW
N6N74_RS23595 (N6N74_23620) 99237..99623 - 387 WP_000099688 type-F conjugative transfer system protein TrbI -
N6N74_RS23600 (N6N74_23625) 99620..102247 - 2628 WP_001064245 type IV secretion system protein TraC virb4
N6N74_RS23605 (N6N74_23630) 102407..102628 - 222 WP_032330955 conjugal transfer protein TraR -
N6N74_RS23610 (N6N74_23635) 102763..103278 - 516 WP_000809834 type IV conjugative transfer system lipoprotein TraV traV
N6N74_RS23615 (N6N74_23640) 103275..103526 - 252 WP_001038351 conjugal transfer protein TrbG -
N6N74_RS23620 (N6N74_23645) 103538..103735 - 198 WP_001324648 conjugal transfer protein TrbD -
N6N74_RS23625 (N6N74_23650) 103722..104312 - 591 WP_262930242 conjugal transfer pilus-stabilizing protein TraP -
N6N74_RS23630 (N6N74_23655) 104302..105729 - 1428 WP_262930243 F-type conjugal transfer pilus assembly protein TraB traB
N6N74_RS23635 (N6N74_23660) 105729..106457 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
N6N74_RS23640 (N6N74_23665) 106444..107010 - 567 WP_001563715 type IV conjugative transfer system protein TraE traE
N6N74_RS23645 (N6N74_23670) 107032..107343 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
N6N74_RS23650 (N6N74_23675) 107358..107723 - 366 WP_000340276 type IV conjugative transfer system pilin TraA -
N6N74_RS23655 (N6N74_23680) 107757..107984 - 228 WP_001442099 conjugal transfer relaxosome protein TraY -
N6N74_RS23660 (N6N74_23685) 108078..108764 - 687 WP_000332490 PAS domain-containing protein -
N6N74_RS23665 (N6N74_23690) 108954..109337 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
N6N74_RS23670 (N6N74_23695) 109659..110261 + 603 Protein_123 transglycosylase SLT domain-containing protein -
N6N74_RS23675 (N6N74_23700) 110557..111378 - 822 WP_001234468 DUF932 domain-containing protein -
N6N74_RS23680 (N6N74_23705) 111497..111784 - 288 WP_000107520 hypothetical protein -

Host bacterium

ID   21589 GenBank   NZ_CP110261
Plasmid name   pKBSW16i-A Incompatibility group   IncFIB
Plasmid size   148447 bp Coordinate of oriT [Strand]   109566..109689 [-]
Host baterium   Escherichia albertii strain KBSW16i

Cargo genes

Drug resistance gene   aph(3'')-Ib, sitABCD
Virulence gene   vat, iutA, iucC, iucB, iucA
Metal resistance gene   yfeC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -