Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104844
Name   oriT_pEcl4-2 in_silico
Organism   Enterobacter hormaechei strain Eho-4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047742 (83086..83209 [-], 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_pEcl4-2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3432 GenBank   WP_000948349
Name   traI_GVI65_RS25510_pEcl4-2 insolico UniProt ID   C8CGS7
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191729.35 Da        Isoelectric Point: 5.7956

>WP_000948349.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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)

(968-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   1523 GenBank   WP_001254388
Name   WP_001254388_pEcl4-2 insolico UniProt ID   W9A0Z2
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9072.20 Da        Isoelectric Point: 10.2071

>WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB W9A0Z2

ID   1524 GenBank   WP_001151562
Name   WP_001151562_pEcl4-2 insolico UniProt ID   A0A7I0KNG1
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14420.36 Da        Isoelectric Point: 4.8624

>WP_001151562.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A7I0KNG1


T4CP

ID   3373 GenBank   WP_000009347
Name   traD_GVI65_RS25515_pEcl4-2 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: 81087.57 Da        Isoelectric Point: 5.1644

>WP_000009347.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPVSSVINDK
KSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINV
HRERGEDVEPGDDF

  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   3374 GenBank   WP_000069778
Name   traC_GVI65_RS25615_pEcl4-2 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99300.06 Da        Isoelectric Point: 6.3461

>WP_000069778.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 55391..83781

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GVI65_RS25515 (GVI65_25495) 55391..57535 - 2145 WP_000009347 type IV conjugative transfer system coupling protein TraD virb4
GVI65_RS25520 (GVI65_25500) 57586..58323 - 738 WP_000199901 hypothetical protein -
GVI65_RS25525 (GVI65_25505) 58526..59257 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
GVI65_RS25530 (GVI65_25510) 59306..59791 - 486 WP_000605869 hypothetical protein -
GVI65_RS25535 (GVI65_25515) 59807..62629 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
GVI65_RS25540 (GVI65_25520) 62626..63999 - 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
GVI65_RS25545 (GVI65_25525) 63986..64378 - 393 WP_000660700 F-type conjugal transfer protein TrbF -
GVI65_RS25550 (GVI65_25530) 64359..64706 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
GVI65_RS25555 (GVI65_25535) 64636..65181 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
GVI65_RS25560 (GVI65_25540) 65168..65452 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
GVI65_RS25565 (GVI65_25545) 65533..65868 + 336 WP_000736414 hypothetical protein -
GVI65_RS25570 (GVI65_25550) 65849..66190 - 342 WP_001298557 conjugal transfer protein TrbA -
GVI65_RS25575 (GVI65_25555) 66204..66947 - 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
GVI65_RS25580 (GVI65_25560) 66940..67197 - 258 WP_000864314 conjugal transfer protein TrbE -
GVI65_RS25585 (GVI65_25565) 67224..69074 - 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
GVI65_RS25590 (GVI65_25570) 69071..69709 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
GVI65_RS25595 (GVI65_25575) 69718..70023 - 306 WP_000224418 hypothetical protein -
GVI65_RS25600 (GVI65_25580) 70053..71045 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
GVI65_RS25605 (GVI65_25585) 71042..71674 - 633 WP_001203736 type-F conjugative transfer system protein TraW traW
GVI65_RS25610 (GVI65_25590) 71671..72057 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
GVI65_RS25615 (GVI65_25595) 72054..74684 - 2631 WP_000069778 type IV secretion system protein TraC virb4
GVI65_RS27340 74810..75023 - 214 Protein_81 hypothetical protein -
GVI65_RS25620 (GVI65_25600) 75051..75269 - 219 WP_000556746 hypothetical protein -
GVI65_RS25625 (GVI65_25605) 75349..75822 - 474 WP_000549566 hypothetical protein -
GVI65_RS25630 (GVI65_25610) 75815..76036 - 222 WP_001278694 conjugal transfer protein TraR -
GVI65_RS25635 (GVI65_25615) 76171..76686 - 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
GVI65_RS25640 (GVI65_25620) 76683..76935 - 253 Protein_86 conjugal transfer protein TrbG -
GVI65_RS25645 (GVI65_25625) 76928..77248 - 321 WP_001057274 conjugal transfer protein TrbD -
GVI65_RS25650 (GVI65_25630) 77235..77825 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
GVI65_RS25655 (GVI65_25635) 77815..79242 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
GVI65_RS25660 (GVI65_25640) 79242..79970 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
GVI65_RS25665 (GVI65_25645) 79957..80523 - 567 WP_000399776 type IV conjugative transfer system protein TraE traE
GVI65_RS25670 (GVI65_25650) 80545..80856 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
GVI65_RS25675 (GVI65_25655) 80871..81230 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
GVI65_RS25680 (GVI65_25660) 81264..81491 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
GVI65_RS25685 (GVI65_25665) 81585..82271 - 687 WP_000332487 PAS domain-containing protein -
GVI65_RS25690 (GVI65_25670) 82465..82848 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
GVI65_RS25695 (GVI65_25675) 83191..83781 + 591 WP_000252681 transglycosylase SLT domain-containing protein -
GVI65_RS25700 (GVI65_25680) 84077..84898 - 822 WP_001234489 DUF932 domain-containing protein -
GVI65_RS25705 (GVI65_25685) 85017..85304 - 288 WP_000107526 hypothetical protein -
GVI65_RS27195 85605..85902 + 298 Protein_100 hypothetical protein -
GVI65_RS25710 (GVI65_25695) 86220..86345 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
GVI65_RS27200 86287..86436 - 150 Protein_102 DUF5431 family protein -
GVI65_RS25715 (GVI65_25700) 86610..87373 - 764 Protein_103 plasmid SOS inhibition protein A -
GVI65_RS25720 (GVI65_25705) 87370..87804 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   5282 GenBank   NZ_CP047742
Plasmid name   pEcl4-2 Incompatibility group   IncFIB
Plasmid size   114230 bp Coordinate of oriT [Strand]   83086..83209 [-]
Host baterium   Enterobacter hormaechei strain Eho-4

Cargo genes

Drug resistance gene   -
Virulence gene   senB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -