Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101103
Name   oriT_p1_21222 in_silico
Organism   Escherichia coli strain 21222
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAKLTC010000002 (35280..35631 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 352 nt

>oriT_p1_21222
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1124 GenBank   WP_000986969
Name   traI_L6501_RS23480_p1_21222 insolico UniProt ID   A0A731Y7R8
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191917.73 Da        Isoelectric Point: 5.9718

>WP_000986969.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
APVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVQIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   403 GenBank   WP_001151528
Name   WP_001151528_p1_21222 insolico UniProt ID   A0A731UEV6
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14577.51 Da        Isoelectric Point: 5.0517

>WP_001151528.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LEYVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A731UEV6

ID   404 GenBank   WP_223195105
Name   WP_223195105_p1_21222 insolico UniProt ID   _
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15423.73 Da        Isoelectric Point: 9.9240

>WP_223195105.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Enterobacteriaceae]
MLLKRFGTRSATGKMVKLKLPLDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure



No available structure.




T4CP

ID   681 GenBank   WP_001064265
Name   traC_L6501_RS23375_p1_21222 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: 99296.07 Da        Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.



ID   682 GenBank   WP_000009324
Name   traD_L6501_RS23465_p1_21222 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: 81528.14 Da        Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

  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: 34709..61167

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L6501_RS23275 (L6501_23265) 29796..29921 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
L6501_RS23280 (L6501_23270) 30315..31982 - 1668 WP_001762494 group II intron reverse transcriptase/maturase -
L6501_RS23285 (L6501_23275) 32711..32884 - 174 Protein_41 hypothetical protein -
L6501_RS23290 (L6501_23280) 32954..33160 + 207 WP_015059635 hypothetical protein -
L6501_RS23295 (L6501_23285) 33185..33471 + 287 Protein_43 hypothetical protein -
L6501_RS23300 (L6501_23290) 33591..34412 + 822 WP_001234423 DUF932 domain-containing protein -
L6501_RS23305 (L6501_23295) 34709..35299 - 591 WP_023565181 transglycosylase SLT domain-containing protein -
L6501_RS23310 (L6501_23300) 35632..36015 + 384 WP_001151528 conjugal transfer relaxosome DNA-binding protein TraM -
L6501_RS23315 (L6501_23305) 36202..36891 + 690 WP_000283383 conjugal transfer transcriptional regulator TraJ -
L6501_RS23320 (L6501_23310) 36990..37385 + 396 WP_001366159 conjugal transfer relaxosome DNA-bindin protein TraY -
L6501_RS23325 (L6501_23315) 37418..37780 + 363 WP_000994784 type IV conjugative transfer system pilin TraA -
L6501_RS23330 (L6501_23320) 37785..38096 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
L6501_RS23335 (L6501_23325) 38118..38684 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
L6501_RS23340 (L6501_23330) 38671..39399 + 729 WP_001230805 type-F conjugative transfer system secretin TraK traK
L6501_RS23345 (L6501_23335) 39399..40850 + 1452 WP_000146659 F-type conjugal transfer pilus assembly protein TraB traB
L6501_RS23350 (L6501_23340) 40840..41400 + 561 WP_000896605 conjugal transfer pilus-stabilizing protein TraP -
L6501_RS23355 (L6501_23345) 41387..41707 + 321 WP_001057304 conjugal transfer protein TrbD virb4
L6501_RS23360 (L6501_23350) 41700..41951 + 252 WP_001038331 conjugal transfer protein TrbG -
L6501_RS23365 (L6501_23355) 41948..42463 + 516 WP_000809885 type IV conjugative transfer system lipoprotein TraV traV
L6501_RS23370 (L6501_23360) 42598..42819 + 222 WP_001278686 conjugal transfer protein TraR -
L6501_RS23375 (L6501_23365) 42979..45606 + 2628 WP_001064265 type IV secretion system protein TraC virb4
L6501_RS23380 (L6501_23370) 45603..45989 + 387 WP_000099693 type-F conjugative transfer system protein TrbI -
L6501_RS23385 (L6501_23375) 45986..46618 + 633 WP_001203750 type-F conjugative transfer system protein TraW traW
L6501_RS23390 (L6501_23380) 46615..47607 + 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
L6501_RS23395 (L6501_23385) 47616..48254 + 639 WP_000777690 type-F conjugative transfer system pilin assembly protein TrbC trbC
L6501_RS23400 (L6501_23390) 48251..50059 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
L6501_RS23405 (L6501_23395) 50086..50343 + 258 WP_000864318 conjugal transfer protein TrbE -
L6501_RS23410 (L6501_23400) 50336..51079 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
L6501_RS23415 (L6501_23405) 51095..51442 + 348 WP_001287910 conjugal transfer protein TrbA -
L6501_RS23420 (L6501_23410) 51444..51758 - 315 WP_000415566 protein ArtA -
L6501_RS23425 (L6501_23415) 51839..52123 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
L6501_RS23430 (L6501_23420) 52110..52655 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
L6501_RS23435 (L6501_23425) 52585..52926 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
L6501_RS23440 (L6501_23430) 52913..53293 + 381 WP_001366201 F-type conjugal transfer protein TrbF -
L6501_RS23445 (L6501_23435) 53293..54666 + 1374 WP_001517790 conjugal transfer pilus assembly protein TraH traH
L6501_RS23450 (L6501_23440) 54663..57485 + 2823 WP_001007016 conjugal transfer mating-pair stabilization protein TraG traG
L6501_RS23455 (L6501_23445) 57501..57998 + 498 WP_000605859 entry exclusion protein -
L6501_RS23460 (L6501_23450) 58030..58761 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -
L6501_RS23465 (L6501_23455) 59014..61167 + 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
L6501_RS23470 (L6501_23460) 61176..61574 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
L6501_RS23475 (L6501_23465) 61574..61801 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1547 GenBank   NZ_JAKLTC010000002
Plasmid name   p1_21222 Incompatibility group   IncFIA
Plasmid size   130977 bp Coordinate of oriT [Strand]   35280..35631 [+]
Host baterium   Escherichia coli strain 21222

Cargo genes

Drug resistance gene   sul2, aph(3')-Ia, aph(6)-Id, aph(3'')-Ib, tet(B), blaTEM-1B, sitABCD
Virulence gene   iutA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -