Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101495
Name   oriT_p5225 in_silico
Organism   Escherichia coli strain GN05225
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JALJQM010000003 (69039..69162 [+], 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_p5225
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTACTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1334 GenBank   WP_001617867
Name   traI_MWG50_RS24425_p5225 insolico UniProt ID   A0A2Z5WSA2
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191679.38 Da        Isoelectric Point: 5.8498

>WP_001617867.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFPPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTEAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEPRTAEKLARHPSFTVVSDQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGTSETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRTASSERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   470 GenBank   WP_001151566
Name   WP_001151566_p5225 insolico UniProt ID   A0A142CMX1
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14476.46 Da        Isoelectric Point: 4.8498

>WP_001151566.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacterales]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVYETQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPENDEG

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A142CMX1

ID   471 GenBank   WP_001254388
Name   WP_001254388_p5225 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


T4CP

ID   956 GenBank   WP_001064258
Name   traC_MWG50_RS24315_p5225 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: 99195.72 Da        Isoelectric Point: 5.8689

>WP_001064258.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLKSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNYKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFQPLQRDMIGKFGAARDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  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)

(467-763)

  Protein structure



No available structure.



ID   957 GenBank   WP_021547900
Name   traD_MWG50_RS24420_p5225 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83494.17 Da        Isoelectric Point: 5.1657

>WP_021547900.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQ
QENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 68467..97301

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MWG50_RS24210 (MWG50_24190) 64383..65752 + 1370 WP_085947770 IS3-like element IS150 family transposase -
MWG50_RS24215 (MWG50_24195) 65805..65954 + 150 Protein_74 plasmid maintenance protein Mok -
MWG50_RS24220 (MWG50_24200) 65896..66021 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
MWG50_RS24225 (MWG50_24205) 66241..66471 + 231 WP_001426396 hypothetical protein -
MWG50_RS24230 (MWG50_24210) 66469..66642 - 174 Protein_77 hypothetical protein -
MWG50_RS24235 (MWG50_24215) 66712..66918 + 207 WP_000275859 hypothetical protein -
MWG50_RS24240 (MWG50_24220) 66943..67230 + 288 WP_000107535 hypothetical protein -
MWG50_RS24245 (MWG50_24225) 67349..68170 + 822 WP_001234469 DUF932 domain-containing protein -
MWG50_RS24250 (MWG50_24230) 68467..69057 - 591 WP_001376243 transglycosylase SLT domain-containing protein virB1
MWG50_RS24255 (MWG50_24235) 69400..69783 + 384 WP_001151566 conjugal transfer relaxosome DNA-binding protein TraM -
MWG50_RS24260 (MWG50_24240) 69917..70594 + 678 WP_001348626 PAS domain-containing protein -
MWG50_RS24265 (MWG50_24245) 70682..70909 + 228 WP_001254388 conjugal transfer relaxosome protein TraY -
MWG50_RS24270 (MWG50_24250) 70943..71304 + 362 Protein_85 type IV conjugative transfer system pilin TraA -
MWG50_RS24275 (MWG50_24255) 71309..71620 + 312 WP_000012107 type IV conjugative transfer system protein TraL traL
MWG50_RS24280 (MWG50_24260) 71642..72208 + 567 WP_000399791 type IV conjugative transfer system protein TraE traE
MWG50_RS24285 (MWG50_24265) 72195..72923 + 729 WP_001230808 type-F conjugative transfer system secretin TraK traK
MWG50_RS24290 (MWG50_24270) 72923..74374 + 1452 WP_000146687 F-type conjugal transfer pilus assembly protein TraB traB
MWG50_RS24295 (MWG50_24275) 74364..74930 + 567 WP_001617877 conjugal transfer pilus-stabilizing protein TraP -
MWG50_RS24300 (MWG50_24280) 74917..75228 + 312 WP_001057272 conjugal transfer protein TrbD -
MWG50_RS24305 (MWG50_24285) 75228..75743 + 516 WP_000809886 type IV conjugative transfer system lipoprotein TraV traV
MWG50_RS24310 (MWG50_24290) 75878..76099 + 222 WP_001278694 conjugal transfer protein TraR -
MWG50_RS24315 (MWG50_24295) 76259..78886 + 2628 WP_001064258 type IV secretion system protein TraC virb4
MWG50_RS24320 (MWG50_24300) 78883..79269 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
MWG50_RS24325 (MWG50_24305) 79266..79898 + 633 WP_001203727 type-F conjugative transfer system protein TraW traW
MWG50_RS24330 (MWG50_24310) 79895..80887 + 993 WP_000830190 conjugal transfer pilus assembly protein TraU traU
MWG50_RS24335 (MWG50_24315) 80917..81222 + 306 WP_000224413 hypothetical protein -
MWG50_RS24340 (MWG50_24320) 81231..81869 + 639 WP_001080259 type-F conjugative transfer system pilin assembly protein TrbC trbC
MWG50_RS24345 (MWG50_24325) 81866..83716 + 1851 WP_064770994 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MWG50_RS24350 (MWG50_24330) 83743..84000 + 258 WP_000864309 conjugal transfer protein TrbE -
MWG50_RS24355 (MWG50_24335) 83993..84736 + 744 WP_064770995 type-F conjugative transfer system pilin assembly protein TraF traF
MWG50_RS24360 (MWG50_24340) 84866..85846 + 981 WP_000019450 IS5-like element ISKpn26 family transposase -
MWG50_RS24365 (MWG50_24345) 86001..86698 + 698 WP_223216367 IS1 family transposase -
MWG50_RS24370 (MWG50_24350) 86746..87066 + 321 WP_001348757 conjugal transfer protein TrbA -
MWG50_RS24375 (MWG50_24355) 87194..87478 + 285 WP_001617873 type-F conjugative transfer system pilin chaperone TraQ -
MWG50_RS24380 (MWG50_24360) 87465..88010 + 546 WP_000059829 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MWG50_RS24385 (MWG50_24365) 87940..88287 + 348 WP_071571857 P-type conjugative transfer protein TrbJ -
MWG50_RS24390 (MWG50_24370) 88268..88660 + 393 WP_000659962 F-type conjugal transfer protein TrbF -
MWG50_RS24395 (MWG50_24375) 88647..90020 + 1374 WP_000944328 conjugal transfer pilus assembly protein TraH traH
MWG50_RS24400 (MWG50_24380) 90017..92836 + 2820 WP_001007062 conjugal transfer mating-pair stabilization protein TraG traG
MWG50_RS24405 (MWG50_24385) 92855..93352 + 498 WP_000605862 entry exclusion protein -
MWG50_RS24410 (MWG50_24390) 93384..94115 + 732 WP_000850429 conjugal transfer complement resistance protein TraT -
MWG50_RS24415 (MWG50_24395) 94318..95097 + 780 WP_000199914 hypothetical protein -
MWG50_RS24420 (MWG50_24400) 95094..97301 + 2208 WP_021547900 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1939 GenBank   NZ_JALJQM010000003
Plasmid name   p5225 Incompatibility group   IncFIB
Plasmid size   112903 bp Coordinate of oriT [Strand]   69039..69162 [+]
Host baterium   Escherichia coli strain GN05225

Cargo genes

Drug resistance gene   blaTEM-30
Virulence gene   senB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -