Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103079
Name   oriT_pE80 in_silico
Organism   Escherichia coli strain E80
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU321583 (102012..102135 [+], 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)
 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_pE80
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2304 GenBank   WP_072648275
Name   traI_HTH12_RS00805_pE80 insolico UniProt ID   A0A647AQ34
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192066.85 Da        Isoelectric Point: 6.0285

>WP_072648275.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLACSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQVRERAAITERETALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   963 GenBank   WP_000124981
Name   WP_000124981_pE80 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

ID   964 GenBank   WP_001254386
Name   WP_001254386_pE80 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   2021 GenBank   WP_015059012
Name   traC_HTH12_RS00695_pE80 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: 99393.22 Da        Isoelectric Point: 6.3465

>WP_015059012.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   2022 GenBank   WP_059274178
Name   traD_HTH12_RS00800_pE80 insolico UniProt ID   _
Length   738 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 738 a.a.        Molecular weight: 83906.57 Da        Isoelectric Point: 5.0504

>WP_059274178.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYE
AWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 101440..129618

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH12_RS00595 (SA133) 96815..97045 + 231 WP_000218642 hypothetical protein -
HTH12_RS00600 (SA134) 97097..98458 + 1362 WP_000170695 DUF3560 domain-containing protein -
HTH12_RS00605 (SA135) 98505..99068 + 564 WP_015059007 class I SAM-dependent methyltransferase -
HTH12_RS00610 (SA136) 99154..99615 - 462 Protein_122 hypothetical protein -
HTH12_RS00615 (SA138) 99915..100211 + 297 WP_001272251 hypothetical protein -
HTH12_RS00620 (SA139) 100322..101143 + 822 WP_001234445 DUF932 domain-containing protein -
HTH12_RS00625 (SA141) 101440..102087 - 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
HTH12_RS00630 102364..102747 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
HTH12_RS00635 102938..103624 + 687 WP_015059009 PAS domain-containing protein -
HTH12_RS00640 103718..103945 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
HTH12_RS00645 103979..104344 + 366 WP_021519752 type IV conjugative transfer system pilin TraA -
HTH12_RS00650 104359..104670 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HTH12_RS00655 104692..105258 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
HTH12_RS00660 105245..105973 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HTH12_RS00665 105973..107400 + 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
HTH12_RS00670 107390..107980 + 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
HTH12_RS00675 107967..108164 + 198 WP_001324648 conjugal transfer protein TrbD -
HTH12_RS00680 108176..108427 + 252 WP_001038341 conjugal transfer protein TrbG -
HTH12_RS00685 108424..108939 + 516 WP_000809902 type IV conjugative transfer system lipoprotein TraV traV
HTH12_RS00690 109074..109295 + 222 WP_001278692 conjugal transfer protein TraR -
HTH12_RS00695 109455..112082 + 2628 WP_015059012 type IV secretion system protein TraC virb4
HTH12_RS00700 112079..112465 + 387 WP_015059013 type-F conjugative transfer system protein TrbI -
HTH12_RS00705 112462..113094 + 633 WP_001203735 type-F conjugative transfer system protein TraW traW
HTH12_RS00710 113091..114083 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTH12_RS00715 (SA160) 114212..114418 + 207 WP_204902719 hypothetical protein -
HTH12_RS00720 (SA161) 114481..115002 + 522 WP_015059014 hypothetical protein -
HTH12_RS00725 115029..115667 + 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTH12_RS00730 (SA162) 115664..116035 + 372 WP_000056336 hypothetical protein -
HTH12_RS00735 (SA163) 116061..116482 + 422 Protein_147 HNH endonuclease signature motif containing protein -
HTH12_RS00740 116479..118329 + 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTH12_RS00745 118356..118613 + 258 WP_053913405 conjugal transfer protein TrbE -
HTH12_RS00750 118606..119349 + 744 WP_015059017 type-F conjugative transfer system pilin assembly protein TraF traF
HTH12_RS00755 119510..119746 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
HTH12_RS00760 119733..120278 + 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTH12_RS00765 120268..120582 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
HTH12_RS00770 120536..120928 + 393 WP_000126338 F-type conjugal transfer protein TrbF -
HTH12_RS00775 120915..122288 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
HTH12_RS00780 122285..125101 + 2817 WP_015059018 conjugal transfer mating-pair stabilization protein TraG traG
HTH12_RS00785 125134..125655 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
HTH12_RS00790 125680..126411 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
HTH12_RS00795 (SA175) 126614..127351 + 738 WP_015059020 hypothetical protein -
HTH12_RS00800 127402..129618 + 2217 WP_059274178 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3522 GenBank   NZ_KU321583
Plasmid name   pE80 Incompatibility group   IncFII
Plasmid size   138718 bp Coordinate of oriT [Strand]   102012..102135 [+]
Host baterium   Escherichia coli strain E80

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, oqxA, oqxB, aph(3')-IIa, fosA3, blaTEM-1B, blaCTX-M-55
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -