Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104101
Name   oriT_pEA13_1 in_silico
Organism   Escherichia albertii strain BIA_13
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117660 (35695..35818 [+], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 90..95, 107..112  (AAATAA..TTATTT)
 88..93, 105..110  (ATAAAT..ATTTAT)
 41..48, 61..68  (AAAAACAA..TTGTTTTT)
 41..46, 49..54  (AAAAAC..GTTTTT)
 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_pEA13_1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTTCTGATTTGTTTTTTGAATCATTGGTTTATGTTATAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3024 GenBank   WP_273823142
Name   traI_PS034_RS23890_pEA13_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: 192017.96 Da        Isoelectric Point: 5.7525

>WP_273823142.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEDFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQM
LKETGFDIRAYRDAADQRADLRTLTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAVGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGELRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFIDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRSVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALMDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDIIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRAIRPGQEQAEQHIDLAYAI
TTHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSTARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSIQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)

AAA domain (AAA_30)

(969-1156)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   1293 GenBank   WP_000124981
Name   WP_000124981_pEA13_1 insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9

ID   1294 GenBank   WP_001254386
Name   WP_001254386_pEA13_1 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   2907 GenBank   WP_273823165
Name   traC_PS034_RS23780_pEA13_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: 99303.98 Da        Isoelectric Point: 5.8483

>WP_273823165.1 type IV secretion system protein TraC [Escherichia albertii]
MNNPLEAVTQAVNSLVTVLKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESCLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
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   2908 GenBank   WP_273823173
Name   traD_PS034_RS23885_pEA13_1 insolico UniProt ID   _
Length   723 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 723 a.a.        Molecular weight: 82166.75 Da        Isoelectric Point: 5.1048

>WP_273823173.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKNSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMVSLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQ
RREEVNINVHRERGEDVEPGDDF

  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: 39679..64748

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS034_RS23700 (PS034_23700) 35123..35770 - 648 WP_273810601 transglycosylase SLT domain-containing protein -
PS034_RS23705 (PS034_23705) 36047..36430 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
PS034_RS23710 (PS034_23710) 36621..37307 + 687 WP_000332484 PAS domain-containing protein -
PS034_RS23715 (PS034_23715) 37401..37628 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
PS034_RS23720 (PS034_23720) 37662..38027 + 366 WP_273810600 type IV conjugative transfer system pilin TraA -
PS034_RS23725 (PS034_23725) 38042..38263 + 222 Protein_52 type IV conjugative transfer system protein TraL -
PS034_RS23730 (PS034_23730) 38275..39465 - 1191 WP_273783690 IS4-like element ISEc60 family transposase -
PS034_RS23735 (PS034_23735) 39547..39657 + 111 Protein_54 type IV conjugative transfer system protein TraL -
PS034_RS23740 (PS034_23740) 39679..40245 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
PS034_RS23745 (PS034_23745) 40232..40960 + 729 WP_001230809 type-F conjugative transfer system secretin TraK traK
PS034_RS23750 (PS034_23750) 40960..42411 + 1452 WP_273810599 F-type conjugal transfer pilus assembly protein TraB traB
PS034_RS23755 (PS034_23755) 42401..42964 + 564 WP_059320943 conjugal transfer pilus-stabilizing protein TraP -
PS034_RS23760 (PS034_23760) 42951..43271 + 321 WP_273810598 conjugal transfer protein TrbD virb4
PS034_RS23765 (PS034_23765) 43264..43515 + 252 WP_273810597 conjugal transfer protein TrbG -
PS034_RS23770 (PS034_23770) 43512..44027 + 516 WP_273810596 type IV conjugative transfer system lipoprotein TraV traV
PS034_RS23775 (PS034_23775) 44162..44383 + 222 WP_001278689 conjugal transfer protein TraR -
PS034_RS23780 (PS034_23780) 44543..47170 + 2628 WP_273823165 type IV secretion system protein TraC virb4
PS034_RS23785 (PS034_23785) 47167..47553 + 387 WP_000099690 type-F conjugative transfer system protein TrbI -
PS034_RS23790 (PS034_23790) 47550..48182 + 633 WP_040100303 type-F conjugative transfer system protein TraW traW
PS034_RS23795 (PS034_23795) 48179..49171 + 993 WP_273823167 conjugal transfer pilus assembly protein TraU traU
PS034_RS23800 (PS034_23800) 49197..49661 + 465 WP_000277847 hypothetical protein -
PS034_RS23805 (PS034_23805) 49980..50432 + 453 WP_000069432 hypothetical protein -
PS034_RS23810 (PS034_23810) 50460..51098 + 639 WP_273810610 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS034_RS23815 (PS034_23815) 51095..51475 + 381 WP_273810611 hypothetical protein -
PS034_RS23820 (PS034_23820) 51711..53573 + 1863 WP_273810612 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS034_RS23825 (PS034_23825) 53600..53857 + 258 WP_000864328 conjugal transfer protein TrbE -
PS034_RS23830 (PS034_23830) 53850..54593 + 744 WP_273810613 type-F conjugative transfer system pilin assembly protein TraF traF
PS034_RS23835 (PS034_23835) 54609..54956 + 348 WP_001287677 conjugal transfer protein TrbA -
PS034_RS23840 (PS034_23840) 54958..55272 - 315 WP_000415566 protein ArtA -
PS034_RS23845 (PS034_23845) 55353..55637 + 285 WP_273810614 type-F conjugative transfer system pilin chaperone TraQ -
PS034_RS23850 (PS034_23850) 55624..56169 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS034_RS23855 (PS034_23855) 56099..56440 + 342 WP_273810615 P-type conjugative transfer protein TrbJ -
PS034_RS23860 (PS034_23860) 56427..56819 + 393 WP_000138368 F-type conjugal transfer protein TrbF -
PS034_RS23865 (PS034_23865) 56806..58179 + 1374 WP_273810616 conjugal transfer pilus assembly protein TraH traH
PS034_RS23870 (PS034_23870) 58176..61013 + 2838 WP_273823169 conjugal transfer mating-pair stabilization protein TraG traG
PS034_RS23875 (PS034_23875) 61046..61567 + 522 WP_273823172 conjugal transfer entry exclusion protein TraS -
PS034_RS23880 (PS034_23880) 61592..62323 + 732 WP_273823180 conjugal transfer complement resistance protein TraT -
PS034_RS23885 (PS034_23885) 62577..64748 + 2172 WP_273823173 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4540 GenBank   NZ_CP117660
Plasmid name   pEA13_1 Incompatibility group   IncI1
Plasmid size   128726 bp Coordinate of oriT [Strand]   35695..35818 [+]
Host baterium   Escherichia albertii strain BIA_13

Cargo genes

Drug resistance gene   -
Virulence gene   gspG, gspH, vat, bfpL, bfpK, bfpJ, bfpI, bfpH, bfpP, bfpF, bfpE, bfpD, bfpU, bfpC, bfpB, bfpG, bfpA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -