Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113114
Name   oriT_KS-P079|pla1 in_silico
Organism   Escherichia sp. KS167_9B strain KS-P079
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP025755 (120585..120708 [-], 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_KS-P079|pla1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTCTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8418 GenBank   WP_000986971
Name   traI_QUE34_RS27135_KS-P079|pla1 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   4826 GenBank   WP_001254381
Name   WP_001254381_KS-P079|pla1 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   4827 GenBank   WP_001151555
Name   WP_001151555_KS-P079|pla1 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   9698 GenBank   WP_000009375
Name   traD_QUE34_RS27150_KS-P079|pla1 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   9699 GenBank   WP_286338981
Name   traC_QUE34_RS27265_KS-P079|pla1 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: 99416.18 Da        Isoelectric Point: 5.9665

>WP_286338981.1 type IV secretion system protein TraC [Escherichia sp. KS167_9B]
MNNPLEAVTQAVNSLVTALKLPDESSKANEILGEMSFPQFSRLLPYRDYNQESGLFINDTTMGFMLEAIP
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: 92255..121280

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QUE34_RS27140 (EsCd1KSP079_05393) 91621..91848 + 228 WP_000450526 toxin-antitoxin system antitoxin VapB -
QUE34_RS27145 (EsCd1KSP079_05394) 91848..92246 + 399 WP_000911316 type II toxin-antitoxin system VapC family toxin -
QUE34_RS27150 (EsCd1KSP079_05395) 92255..94399 - 2145 WP_000009375 type IV conjugative transfer system coupling protein TraD virb4
QUE34_RS27155 (EsCd1KSP079_05396) 94455..95185 - 731 Protein_112 hypothetical protein -
QUE34_RS27160 (EsCd1KSP079_05397) 95420..95899 - 480 WP_001355324 hypothetical protein -
QUE34_RS27165 (EsCd1KSP079_05398) 96103..96834 - 732 WP_001364068 conjugal transfer complement resistance protein TraT -
QUE34_RS27170 (EsCd1KSP079_05399) 96866..97369 - 504 WP_000605506 hypothetical protein -
QUE34_RS27175 (EsCd1KSP079_05400) 97385..100228 - 2844 WP_001006995 conjugal transfer mating-pair stabilization protein TraG traG
QUE34_RS27180 (EsCd1KSP079_05401) 100225..101598 - 1374 WP_001137366 conjugal transfer pilus assembly protein TraH traH
QUE34_RS27185 (EsCd1KSP079_05402) 101585..101977 - 393 WP_000138366 F-type conjugal transfer protein TrbF -
QUE34_RS27190 101931..102245 - 315 WP_001244895 P-type conjugative transfer protein TrbJ -
QUE34_RS27195 102246..102770 - 525 Protein_120 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB -
QUE34_RS27200 102757..103041 - 285 WP_000624195 type-F conjugative transfer system pilin chaperone TraQ -
QUE34_RS27205 103122..103457 + 336 WP_000415768 hypothetical protein -
QUE34_RS27210 103438..103743 - 306 WP_236922840 conjugal transfer protein TrbA -
QUE34_RS27215 (EsCd1KSP079_05405) 103788..104531 - 744 WP_001030399 type-F conjugative transfer system pilin assembly protein TraF traF
QUE34_RS27220 (EsCd1KSP079_05406) 104524..104781 - 258 WP_000864356 conjugal transfer protein TrbE -
QUE34_RS27225 104795..106699 - 1905 WP_000662057 type-F conjugative transfer system mating-pair stabilization protein TraN traN
QUE34_RS27230 106727..106945 + 219 WP_001364024 hypothetical protein -
QUE34_RS27235 106934..107314 - 381 WP_000009645 hypothetical protein -
QUE34_RS27240 (EsCd1KSP079_05408) 107311..107949 - 639 WP_000087541 type-F conjugative transfer system pilin assembly protein TrbC trbC
QUE34_RS28500 107976..108495 - 520 Protein_130 hypothetical protein -
QUE34_RS27250 (EsCd1KSP079_05410) 108771..109763 - 993 WP_001355328 conjugal transfer pilus assembly protein TraU traU
QUE34_RS27255 (EsCd1KSP079_05411) 109760..110392 - 633 WP_000650119 type-F conjugative transfer system protein TraW traW
QUE34_RS27260 (EsCd1KSP079_05412) 110389..110775 - 387 WP_000214089 type-F conjugative transfer system protein TrbI -
QUE34_RS27265 (EsCd1KSP079_05413) 110772..113399 - 2628 WP_286338981 type IV secretion system protein TraC virb4
QUE34_RS27270 (EsCd1KSP079_05414) 113559..113780 - 222 WP_001278688 conjugal transfer protein TraR -
QUE34_RS27275 (EsCd1KSP079_05415) 113915..114430 - 516 WP_000802746 type IV conjugative transfer system lipoprotein TraV traV
QUE34_RS27280 (EsCd1KSP079_05416) 114427..114747 - 321 WP_001057269 DUF2689 domain-containing protein -
QUE34_RS27285 (EsCd1KSP079_05417) 114734..115321 - 588 WP_000002892 conjugal transfer pilus-stabilizing protein TraP -
QUE34_RS27290 (EsCd1KSP079_05418) 115311..116741 - 1431 WP_000146619 F-type conjugal transfer pilus assembly protein TraB traB
QUE34_RS27295 (EsCd1KSP079_05419) 116741..117469 - 729 WP_001355329 type-F conjugative transfer system secretin TraK traK
QUE34_RS27300 (EsCd1KSP079_05420) 117456..118022 - 567 WP_000399757 type IV conjugative transfer system protein TraE traE
QUE34_RS27305 (EsCd1KSP079_05421) 118044..118355 - 312 WP_000012121 type IV conjugative transfer system protein TraL traL
QUE34_RS27310 (EsCd1KSP079_05422) 118370..118729 - 360 WP_000340277 type IV conjugative transfer system pilin TraA -
QUE34_RS27315 (EsCd1KSP079_05423) 118763..118990 - 228 WP_001254381 conjugal transfer relaxosome protein TraY -
QUE34_RS27320 (EsCd1KSP079_05424) 119084..119770 - 687 WP_000332479 PAS domain-containing protein -
QUE34_RS27325 (EsCd1KSP079_05425) 119964..120347 - 384 WP_001151555 conjugal transfer relaxosome DNA-binding protein TraM -
QUE34_RS27330 (EsCd1KSP079_05426) 120633..121280 + 648 WP_000614283 transglycosylase SLT domain-containing protein virB1
QUE34_RS27335 (EsCd1KSP079_05427) 121577..122398 - 822 Protein_148 DUF932 domain-containing protein -
QUE34_RS27340 (EsCd1KSP079_05428) 122517..122804 - 288 WP_000107535 hypothetical protein -
QUE34_RS27345 (EsCd1KSP079_05429) 123055..124059 + 1005 WP_024166184 IS110 family transposase -
QUE34_RS27350 124153..124413 - 261 WP_000547943 hypothetical protein -
QUE34_RS27355 124483..124655 + 173 Protein_152 hypothetical protein -
QUE34_RS27360 (EsCd1KSP079_05430) 125080..125205 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
QUE34_RS27365 125147..125296 - 150 Protein_154 plasmid maintenance protein Mok -
QUE34_RS27370 (EsCd1KSP079_05431) 125318..125506 + 189 WP_001355331 hypothetical protein -
QUE34_RS27375 (EsCd1KSP079_05432) 125451..126237 - 787 Protein_156 plasmid SOS inhibition protein A -

Host bacterium

ID   13549 GenBank   NZ_AP025755
Plasmid name   KS-P079|pla1 Incompatibility group   IncFIB
Plasmid size   215429 bp Coordinate of oriT [Strand]   120585..120708 [-]
Host baterium   Escherichia sp. KS167_9B strain KS-P079

Cargo genes

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