Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102508
Name   oriT1_BMH-17-0036|unnamed2 in_silico
Organism   Escherichia coli strain BMH-17-0036
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHMAA010000006 (21518..21597 [+], 80 nt)
oriT length   80 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 80 nt

>oriT1_BMH-17-0036|unnamed2
GGGTGTCGGGGCAAAGCCCTGACCAGGTGGTAATCGTATAGCCGTGCGTGCGCGGTTATACGATTACACATCCTGTCCCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1862 GenBank   WP_042968735
Name   traI_KQ660_RS28305_BMH-17-0036|unnamed2 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: 191689.42 Da        Isoelectric Point: 5.6858

>WP_042968735.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMLT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQVVTQAIAGLSERKVQFTYTDVLVRTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYLW
QGGEQRPATIISEPDRNVRYARLAGDFAVSVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKIPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVKMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDVREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVMAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAISKAVQKGTAHDVL
EPGADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAISRETERRADEIVRKMAEEKPDQP
DGKTEQAVRAIAGQEQDRASSSERETALPESVLRESQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-282)

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

(575-626)

AAA domain (AAA_30)

(968-1156)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   771 GenBank   WP_032142519
Name   WP_032142519_BMH-17-0036|unnamed2 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: 9106.17 Da        Isoelectric Point: 10.3319

>WP_032142519.1 conjugal transfer relaxosome protein TraY [Escherichia coli]
MRRRNARGGTSRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVTEERES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure



No available structure.



ID   772 GenBank   WP_042968749
Name   WP_042968749_BMH-17-0036|unnamed2 insolico UniProt ID   _
Length   128 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 128 a.a.        Molecular weight: 14643.71 Da        Isoelectric Point: 4.7197

>WP_042968749.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MAKVQAYVSDEIVYKINEIVERRRAEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESSFNQTEFNKVL
LECVVKTQSSVAKILGIESLSPHIAGNPKFEYANMVEDIREKVSIEMDRFFPKIDNEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-123)


  Protein structure



No available structure.




T4CP

ID   1460 GenBank   WP_062872717
Name   traD_KQ660_RS28310_BMH-17-0036|unnamed2 insolico UniProt ID   _
Length   720 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 720 a.a.        Molecular weight: 81893.41 Da        Isoelectric Point: 5.1711

>WP_062872717.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVSTGKSEVIRRLANYAR
KRGDMVVIYDRSCEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHSGESFTIRDWMRGVREDKQNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARAKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPVS
PAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMTAYEAWQQENHPDIQQQMQRRE
EVNINVHRERGEDVEPGDDF

  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   1461 GenBank   WP_042968744
Name   traC_KQ660_RS28425_BMH-17-0036|unnamed2 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: 99292.95 Da        Isoelectric Point: 5.6251

>WP_042968744.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDSTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAE
TLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRQEGL
SIHEAVWQLAWKKSGPEMASLESWLEEHEKYRSVA

  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)

(467-770)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40773..70143

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KQ660_RS28310 (KQ660_28200) 40773..42935 - 2163 WP_062872717 type IV conjugative transfer system coupling protein TraD virb4
KQ660_RS28315 (KQ660_28205) 42991..43722 - 732 WP_000199899 hypothetical protein -
KQ660_RS28320 (KQ660_28210) 43890..44150 - 261 WP_001077900 hypothetical protein -
KQ660_RS28325 (KQ660_28215) 44210..44941 - 732 WP_000782449 conjugal transfer complement resistance protein TraT -
KQ660_RS28330 (KQ660_28220) 44990..45469 - 480 WP_021573915 surface exclusion inner membrane protein -
KQ660_RS28335 (KQ660_28225) 45491..48334 - 2844 WP_001007003 conjugal transfer mating-pair stabilization protein TraG traG
KQ660_RS28340 (KQ660_28230) 48331..49704 - 1374 WP_000944326 conjugal transfer pilus assembly protein TraH traH
KQ660_RS28345 (KQ660_28235) 49691..50083 - 393 WP_000662210 F-type conjugal transfer protein TrbF -
KQ660_RS28350 (KQ660_28240) 50037..50351 - 315 WP_001244902 P-type conjugative transfer protein TrbJ -
KQ660_RS28355 (KQ660_28245) 50341..50895 - 555 WP_000059845 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KQ660_RS28360 (KQ660_28250) 50882..51163 - 282 WP_000049684 type-F conjugative transfer system pilin chaperone TraQ -
KQ660_RS28365 (KQ660_28255) 51229..51630 - 402 WP_225394595 hypothetical protein -
KQ660_RS28370 (KQ660_28260) 51761..52126 - 366 WP_001009441 hypothetical protein -
KQ660_RS28375 (KQ660_28265) 52140..52883 - 744 WP_001030408 type-F conjugative transfer system pilin assembly protein TraF traF
KQ660_RS28380 (KQ660_28270) 52876..53133 - 258 WP_000864350 conjugal transfer protein TrbE -
KQ660_RS28385 (KQ660_28275) 53147..54997 - 1851 WP_216691226 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KQ660_RS28390 (KQ660_28280) 54994..55416 - 423 WP_001229311 hypothetical protein -
KQ660_RS28395 (KQ660_28285) 55442..55813 - 372 WP_000056336 hypothetical protein -
KQ660_RS28400 (KQ660_28290) 55810..56448 - 639 WP_000087538 type-F conjugative transfer system pilin assembly protein TrbC trbC
KQ660_RS28405 (KQ660_28295) 56475..56996 - 522 WP_000505570 hypothetical protein -
KQ660_RS28410 (KQ660_28300) 57401..58393 - 993 WP_032210964 conjugal transfer pilus assembly protein TraU traU
KQ660_RS28415 (KQ660_28305) 58390..59022 - 633 WP_000877292 type-F conjugative transfer system protein TraW traW
KQ660_RS28420 (KQ660_28310) 59019..59405 - 387 WP_000214100 type-F conjugative transfer system protein TrbI -
KQ660_RS28425 (KQ660_28315) 59402..62029 - 2628 WP_042968744 type IV secretion system protein TraC virb4
KQ660_RS28430 (KQ660_28320) 62189..62410 - 222 WP_001278978 conjugal transfer protein TraR -
KQ660_RS28435 (KQ660_28325) 62545..63060 - 516 WP_042968745 type IV conjugative transfer system lipoprotein TraV traV
KQ660_RS28440 (KQ660_28330) 63057..63308 - 252 WP_001038336 conjugal transfer protein TrbG -
KQ660_RS28445 (KQ660_28335) 63301..63621 - 321 WP_001057265 conjugal transfer protein TrbD virb4
KQ660_RS28450 (KQ660_28340) 63608..64195 - 588 WP_000002896 conjugal transfer pilus-stabilizing protein TraP -
KQ660_RS28455 (KQ660_28345) 64185..65615 - 1431 WP_000146622 F-type conjugal transfer pilus assembly protein TraB traB
KQ660_RS28460 (KQ660_28350) 65615..66343 - 729 WP_021573902 type-F conjugative transfer system secretin TraK traK
KQ660_RS28465 (KQ660_28355) 66330..66896 - 567 WP_000399759 type IV conjugative transfer system protein TraE traE
KQ660_RS28470 (KQ660_28360) 66918..67229 - 312 WP_000012108 type IV conjugative transfer system protein TraL traL
KQ660_RS28475 (KQ660_28365) 67244..67597 - 354 WP_001098217 type IV conjugative transfer system pilin TraA -
KQ660_RS28480 (KQ660_28370) 67632..67859 - 228 WP_032142519 conjugal transfer relaxosome protein TraY -
KQ660_RS28485 (KQ660_28375) 67947..68636 - 690 WP_042968747 PAS domain-containing protein -
KQ660_RS28490 (KQ660_28380) 68825..69211 - 387 WP_042968749 conjugal transfer relaxosome DNA-binding protein TraM -
KQ660_RS28495 (KQ660_28385) 69496..70143 + 648 WP_077239113 transglycosylase SLT domain-containing protein virB1
KQ660_RS28500 (KQ660_28390) 70439..71260 - 822 WP_001234499 DUF932 domain-containing protein -
KQ660_RS28505 (KQ660_28395) 71379..71666 - 288 WP_000107543 hypothetical protein -
KQ660_RS28510 (KQ660_28400) 71822..72124 - 303 WP_001272235 hypothetical protein -
KQ660_RS28515 72424..72597 + 174 Protein_79 hypothetical protein -
KQ660_RS28520 (KQ660_28405) 73051..73173 - 123 WP_223200913 Hok/Gef family protein -
KQ660_RS28525 73118..73270 - 153 Protein_81 DUF5431 family protein -
KQ660_RS28530 (KQ660_28410) 73420..73734 - 315 WP_000872086 hypothetical protein -
KQ660_RS28535 (KQ660_28415) 73731..74450 - 720 WP_032210982 plasmid SOS inhibition protein A -
KQ660_RS28540 (KQ660_28420) 74447..74881 - 435 WP_000845875 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   2952 GenBank   NZ_JAHMAA010000006
Plasmid name   BMH-17-0036|unnamed2 Incompatibility group   IncFIB
Plasmid size   113498 bp Coordinate of oriT [Strand]   21518..21597 [+]; 69448..69571 [-]
Host baterium   Escherichia coli strain BMH-17-0036

Cargo genes

Drug resistance gene   -
Virulence gene   hlyD, hlyB, hlyA, hlyC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -