Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114263
Name   oriT_p2011C-4180-3 in_silico
Organism   Escherichia albertii strain 2011C-4180
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP126915 (93060..93409 [+], 350 nt)
oriT length   350 nt
IRs (inverted repeats)      253..260, 269..276  (ACCGCTAG..CTAGCGGT)
 190..196, 204..210  (TATAAAA..TTTTATA)
 38..45, 48..55  (GCAAAAAC..GTTTTTGC)
 2..9, 14..21  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 350 nt

>oriT_p2011C-4180-3
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9155 GenBank   WP_273765768
Name   traI_MJ90_RS25445_p2011C-4180-3 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: 191979.60 Da        Isoelectric Point: 6.0280

>WP_273765768.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRSGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DSKTEQAVREIAGQERDRSAISEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

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

(575-626)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   5347 GenBank   WP_001151524
Name   WP_001151524_p2011C-4180-3 insolico UniProt ID   A0A5W2DT22
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14517.48 Da        Isoelectric Point: 5.0516

>WP_001151524.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W2DT22

ID   5348 GenBank   WP_001369361
Name   WP_001369361_p2011C-4180-3 insolico UniProt ID   B7LI64
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15409.70 Da        Isoelectric Point: 9.9240

>WP_001369361.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure


Source ID Structure
AlphaFold DB B7LI64


T4CP

ID   10603 GenBank   WP_001064260
Name   traC_MJ90_RS25350_p2011C-4180-3 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: 99179.80 Da        Isoelectric Point: 5.8486

>WP_001064260.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
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)

(467-771)

  Protein structure



No available structure.



ID   10604 GenBank   WP_024236211
Name   traD_MJ90_RS25440_p2011C-4180-3 insolico UniProt ID   _
Length   726 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 726 a.a.        Molecular weight: 82433.01 Da        Isoelectric Point: 5.2346

>WP_024236211.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQ
HMQRREEVNINVHRERGEDVEPGDDF

  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: 95576..119483

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MJ90_RS25270 (MJ90_25265) 90738..90944 + 207 WP_024167391 hypothetical protein -
MJ90_RS25275 (MJ90_25270) 90967..91263 + 297 WP_001272240 hypothetical protein -
MJ90_RS25280 (MJ90_25275) 91369..92190 + 822 WP_001234469 DUF932 domain-containing protein -
MJ90_RS25285 (MJ90_25280) 92487..93056 - 570 Protein_103 transglycosylase SLT domain-containing protein -
MJ90_RS25290 (MJ90_25285) 93410..93793 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
MJ90_RS25295 (MJ90_25290) 93980..94669 + 690 WP_000283384 conjugal transfer transcriptional regulator TraJ -
MJ90_RS25300 (MJ90_25295) 94768..95163 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
MJ90_RS25305 (MJ90_25300) 95196..95561 + 366 WP_000994782 type IV conjugative transfer system pilin TraA -
MJ90_RS25310 (MJ90_25305) 95576..95887 + 312 WP_000012126 type IV conjugative transfer system protein TraL traL
MJ90_RS25315 (MJ90_25310) 95909..96475 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
MJ90_RS25320 (MJ90_25315) 96462..97190 + 729 WP_001230783 type-F conjugative transfer system secretin TraK traK
MJ90_RS25325 (MJ90_25320) 97190..98617 + 1428 WP_062898195 F-type conjugal transfer pilus assembly protein TraB traB
MJ90_RS25330 (MJ90_25325) 98607..99194 + 588 WP_062898196 conjugal transfer pilus-stabilizing protein TraP -
MJ90_RS25335 (MJ90_25330) 99181..99498 + 318 WP_024189706 conjugal transfer protein TrbD -
MJ90_RS25340 (MJ90_25335) 99498..100013 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
MJ90_RS25345 (MJ90_25340) 100148..100369 + 222 WP_001278689 conjugal transfer protein TraR -
MJ90_RS25350 (MJ90_25345) 100529..103156 + 2628 WP_001064260 type IV secretion system protein TraC virb4
MJ90_RS25355 (MJ90_25350) 103153..103539 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
MJ90_RS25360 (MJ90_25355) 103536..104168 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
MJ90_RS25365 (MJ90_25360) 104165..105157 + 993 WP_064577589 conjugal transfer pilus assembly protein TraU traU
MJ90_RS25370 (MJ90_25365) 105166..105804 + 639 WP_024233422 type-F conjugative transfer system pilin assembly protein TrbC trbC
MJ90_RS25375 (MJ90_25370) 105801..106181 + 381 WP_303072829 hypothetical protein -
MJ90_RS25380 (MJ90_25375) 106417..108279 + 1863 WP_273765766 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MJ90_RS25385 (MJ90_25380) 108306..108563 + 258 WP_122989295 conjugal transfer protein TrbE -
MJ90_RS25390 (MJ90_25385) 108556..109299 + 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
MJ90_RS25395 (MJ90_25390) 109460..109696 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
MJ90_RS25400 (MJ90_25395) 109683..110228 + 546 WP_054191927 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MJ90_RS25405 (MJ90_25400) 110158..110499 + 342 WP_071849770 P-type conjugative transfer protein TrbJ -
MJ90_RS25410 (MJ90_25405) 110486..110878 + 393 WP_000662237 F-type conjugal transfer protein TrbF -
MJ90_RS25415 (MJ90_25410) 110865..112238 + 1374 WP_054191925 conjugal transfer pilus assembly protein TraH traH
MJ90_RS25420 (MJ90_25415) 112235..115057 + 2823 WP_054191924 conjugal transfer mating-pair stabilization protein TraG traG
MJ90_RS25425 (MJ90_25420) 115073..115558 + 486 WP_273765767 surface exclusion protein -
MJ90_RS25430 (MJ90_25425) 115607..116338 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
MJ90_RS25435 (MJ90_25430) 116542..117021 + 480 WP_001382783 hypothetical protein -
MJ90_RS25440 (MJ90_25435) 117303..119483 + 2181 WP_024236211 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   14698 GenBank   NZ_CP126915
Plasmid name   p2011C-4180-3 Incompatibility group   IncFIB
Plasmid size   151845 bp Coordinate of oriT [Strand]   93060..93409 [+]
Host baterium   Escherichia albertii strain 2011C-4180

Cargo genes

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