Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104064
Name   oriT_pEA8_1 in_silico
Organism   Escherichia albertii strain BIA_8
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117559 (52242..52593 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (ACCGCTAG..CTAGCGGT)
 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_pEA8_1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3009 GenBank   WP_273765768
Name   traI_PS052_RS23650_pEA8_1 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   1268 GenBank   WP_001151524
Name   WP_001151524_pEA8_1 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   1269 GenBank   WP_001369361
Name   WP_001369361_pEA8_1 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   2882 GenBank   WP_273765765
Name   traC_PS052_RS23555_pEA8_1 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: 99131.79 Da        Isoelectric Point: 5.8486

>WP_273765765.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   2883 GenBank   WP_236497378
Name   traD_PS052_RS23645_pEA8_1 insolico UniProt ID   _
Length   750 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 750 a.a.        Molecular weight: 85260.03 Da        Isoelectric Point: 5.2346

>WP_236497378.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGIS
ESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINVHRERGEDVEPGDDF

  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: 51671..78739

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS052_RS23450 (PS052_23450) 47501..47935 + 435 WP_000845942 conjugation system SOS inhibitor PsiB -
PS052_RS23455 (PS052_23455) 47932..48651 + 720 WP_053264187 plasmid SOS inhibition protein A -
PS052_RS23460 (PS052_23460) 48648..48962 + 315 WP_000872077 hypothetical protein -
PS052_RS23465 (PS052_23465) 49112..49264 + 153 Protein_56 DUF5431 family protein -
PS052_RS23470 (PS052_23470) 49209..49331 + 123 WP_273765788 Hok/Gef family protein -
PS052_RS23475 (PS052_23475) 49632..49928 - 297 Protein_58 hypothetical protein -
PS052_RS24680 49998..50120 + 123 Protein_59 single-stranded DNA-binding protein -
PS052_RS23480 (PS052_23480) 50151..50447 + 297 WP_001272240 hypothetical protein -
PS052_RS23485 (PS052_23485) 50553..51374 + 822 WP_001234469 DUF932 domain-containing protein -
PS052_RS23490 (PS052_23490) 51671..52273 - 603 WP_077885993 transglycosylase SLT domain-containing protein -
PS052_RS23495 (PS052_23495) 52594..52977 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
PS052_RS23500 (PS052_23500) 53164..53853 + 690 WP_000283384 conjugal transfer transcriptional regulator TraJ -
PS052_RS23505 (PS052_23505) 53952..54347 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
PS052_RS23510 (PS052_23510) 54380..54745 + 366 WP_000994782 type IV conjugative transfer system pilin TraA -
PS052_RS23515 (PS052_23515) 54760..55071 + 312 WP_000012126 type IV conjugative transfer system protein TraL traL
PS052_RS23520 (PS052_23520) 55093..55659 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
PS052_RS23525 (PS052_23525) 55646..56374 + 729 WP_074458658 type-F conjugative transfer system secretin TraK traK
PS052_RS23530 (PS052_23530) 56374..57801 + 1428 WP_062898195 F-type conjugal transfer pilus assembly protein TraB traB
PS052_RS23535 (PS052_23535) 57791..58378 + 588 WP_062898196 conjugal transfer pilus-stabilizing protein TraP -
PS052_RS23540 (PS052_23540) 58365..58682 + 318 WP_024189706 conjugal transfer protein TrbD -
PS052_RS23545 (PS052_23545) 58682..59197 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
PS052_RS23550 (PS052_23550) 59332..59553 + 222 WP_001278689 conjugal transfer protein TraR -
PS052_RS23555 (PS052_23555) 59713..62340 + 2628 WP_273765765 type IV secretion system protein TraC virb4
PS052_RS23560 (PS052_23560) 62337..62723 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
PS052_RS23565 (PS052_23565) 62720..63352 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
PS052_RS23570 (PS052_23570) 63349..64341 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
PS052_RS23575 (PS052_23575) 64350..64988 + 639 WP_024233422 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS052_RS23580 (PS052_23580) 64985..65365 + 381 WP_000174466 hypothetical protein -
PS052_RS23585 (PS052_23585) 65601..67463 + 1863 WP_273765766 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS052_RS23590 (PS052_23590) 67490..67747 + 258 WP_122989295 conjugal transfer protein TrbE -
PS052_RS23595 (PS052_23595) 67740..68483 + 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
PS052_RS23600 (PS052_23600) 68644..68880 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
PS052_RS23605 (PS052_23605) 68867..69412 + 546 WP_054191927 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS052_RS23610 (PS052_23610) 69342..69683 + 342 WP_071849770 P-type conjugative transfer protein TrbJ -
PS052_RS23615 (PS052_23615) 69670..70062 + 393 WP_000662237 F-type conjugal transfer protein TrbF -
PS052_RS23620 (PS052_23620) 70049..71422 + 1374 WP_054191925 conjugal transfer pilus assembly protein TraH traH
PS052_RS23625 (PS052_23625) 71419..74241 + 2823 WP_054191924 conjugal transfer mating-pair stabilization protein TraG traG
PS052_RS23630 (PS052_23630) 74257..74742 + 486 WP_273765767 surface exclusion protein -
PS052_RS23635 (PS052_23635) 74791..75522 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
PS052_RS23640 (PS052_23640) 75726..76205 + 480 WP_001382783 hypothetical protein -
PS052_RS23645 (PS052_23645) 76487..78739 + 2253 WP_236497378 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4503 GenBank   NZ_CP117559
Plasmid name   pEA8_1 Incompatibility group   IncFIB
Plasmid size   108071 bp Coordinate of oriT [Strand]   52242..52593 [+]
Host baterium   Escherichia albertii strain BIA_8

Cargo genes

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