Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102446
Name   oriT_SMG018F1|unnamed1 in_silico
Organism   Escherichia coli strain SMG018F1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JALEBP010000019 (51990..52113 [-], 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_SMG018F1|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1830 GenBank   WP_000948349
Name   traI_MRT13_RS23570_SMG018F1|unnamed1 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   747 GenBank   WP_001254388
Name   WP_001254388_SMG018F1|unnamed1 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   748 GenBank   WP_001151562
Name   WP_001151562_SMG018F1|unnamed1 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   1418 GenBank   WP_000009347
Name   traD_MRT13_RS23575_SMG018F1|unnamed1 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   1419 GenBank   WP_000069778
Name   traC_MRT13_RS23675_SMG018F1|unnamed1 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: 24295..52685

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MRT13_RS23575 (MRT13_23610) 24295..26439 - 2145 WP_000009347 type IV conjugative transfer system coupling protein TraD virb4
MRT13_RS23580 (MRT13_23615) 26490..27227 - 738 WP_000199901 hypothetical protein -
MRT13_RS23585 (MRT13_23620) 27430..28161 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
MRT13_RS23590 (MRT13_23625) 28210..28695 - 486 WP_000605869 hypothetical protein -
MRT13_RS23595 (MRT13_23630) 28711..31533 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
MRT13_RS23600 (MRT13_23635) 31530..32903 - 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
MRT13_RS23605 (MRT13_23640) 32890..33282 - 393 WP_000660700 F-type conjugal transfer protein TrbF -
MRT13_RS23610 (MRT13_23645) 33263..33610 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
MRT13_RS23615 (MRT13_23650) 33540..34085 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MRT13_RS23620 (MRT13_23655) 34072..34356 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
MRT13_RS23625 (MRT13_23660) 34437..34772 + 336 WP_000736414 hypothetical protein -
MRT13_RS23630 (MRT13_23665) 34753..35094 - 342 WP_001298557 conjugal transfer protein TrbA -
MRT13_RS23635 (MRT13_23670) 35108..35851 - 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
MRT13_RS23640 (MRT13_23675) 35844..36101 - 258 WP_000864314 conjugal transfer protein TrbE -
MRT13_RS23645 (MRT13_23680) 36128..37978 - 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MRT13_RS23650 (MRT13_23685) 37975..38613 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
MRT13_RS23655 (MRT13_23690) 38622..38927 - 306 WP_000224418 hypothetical protein -
MRT13_RS23660 (MRT13_23695) 38957..39949 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
MRT13_RS23665 (MRT13_23700) 39946..40578 - 633 WP_001203736 type-F conjugative transfer system protein TraW traW
MRT13_RS23670 (MRT13_23705) 40575..40961 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
MRT13_RS23675 (MRT13_23710) 40958..43588 - 2631 WP_000069778 type IV secretion system protein TraC virb4
MRT13_RS25960 43714..43927 - 214 Protein_48 hypothetical protein -
MRT13_RS23680 (MRT13_23715) 43955..44173 - 219 WP_000556746 hypothetical protein -
MRT13_RS23685 (MRT13_23720) 44253..44726 - 474 WP_000549566 hypothetical protein -
MRT13_RS23690 (MRT13_23725) 44719..44940 - 222 WP_001278694 conjugal transfer protein TraR -
MRT13_RS23695 (MRT13_23730) 45075..45590 - 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
MRT13_RS23700 (MRT13_23735) 45587..45839 - 253 Protein_53 conjugal transfer protein TrbG -
MRT13_RS23705 (MRT13_23740) 45832..46152 - 321 WP_001057274 conjugal transfer protein TrbD -
MRT13_RS23710 (MRT13_23745) 46139..46729 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
MRT13_RS23715 (MRT13_23750) 46719..48146 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
MRT13_RS23720 (MRT13_23755) 48146..48874 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
MRT13_RS23725 (MRT13_23760) 48861..49427 - 567 WP_000399776 type IV conjugative transfer system protein TraE traE
MRT13_RS23730 (MRT13_23765) 49449..49760 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
MRT13_RS23735 (MRT13_23770) 49775..50134 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
MRT13_RS23740 (MRT13_23775) 50168..50395 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
MRT13_RS23745 (MRT13_23780) 50489..51175 - 687 WP_000332487 PAS domain-containing protein -
MRT13_RS23750 (MRT13_23785) 51369..51752 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
MRT13_RS23755 (MRT13_23790) 52083..52685 + 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
MRT13_RS23760 (MRT13_23795) 52981..53802 - 822 WP_001234489 DUF932 domain-containing protein -
MRT13_RS23765 (MRT13_23800) 53921..54208 - 288 WP_000107526 hypothetical protein -
MRT13_RS23770 (MRT13_23805) 54509..54806 + 298 Protein_67 hypothetical protein -
MRT13_RS23775 (MRT13_23810) 55124..55249 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
MRT13_RS23780 (MRT13_23815) 55191..55340 - 150 Protein_69 DUF5431 family protein -
MRT13_RS23785 (MRT13_23820) 55514..56277 - 764 Protein_70 plasmid SOS inhibition protein A -
MRT13_RS23790 (MRT13_23825) 56274..56708 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   2890 GenBank   NZ_JALEBP010000019
Plasmid name   SMG018F1|unnamed1 Incompatibility group   IncFII
Plasmid size   91988 bp Coordinate of oriT [Strand]   51990..52113 [-]
Host baterium   Escherichia coli strain SMG018F1

Cargo genes

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