Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102275
Name   oriT_pEA1_2 in_silico
Organism   Escherichia albertii strain MBT-EA1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PTLP01000008 (4167..4518 [+], 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_pEA1_2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACAGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1748 GenBank   WP_000986939
Name   traI_C4623_RS23725_pEA1_2 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: 191752.33 Da        Isoelectric Point: 5.7445

>WP_000986939.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Escherichia]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQYNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKISGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQSPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSRSQEAKLAEA
QREAMQKGVAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIHPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQSEEAIRRETERRADEIVRKMAEEKPDQP
DGKTEQAVRAIAGQEQDRASSSERETALPESVLREPQRVLDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

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   687 GenBank   WP_001151524
Name   WP_001151524_pEA1_2 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   688 GenBank   WP_001369361
Name   WP_001369361_pEA1_2 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   1336 GenBank   WP_001064260
Name   traC_C4623_RS23635_pEA1_2 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   1337 GenBank   WP_074467133
Name   traD_C4623_RS23720_pEA1_2 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: 83514.16 Da        Isoelectric Point: 5.1657

>WP_074467133.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQ
QENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 3596..29926

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C4623_RS25095 (C4623_23505) 144..317 - 174 Protein_0 hypothetical protein -
C4623_RS25100 387..593 + 207 WP_000547968 hypothetical protein -
C4623_RS23555 (C4623_23515) 618..905 + 288 WP_000107535 hypothetical protein -
C4623_RS23560 (C4623_23520) 989..2185 - 1197 WP_001358663 IS110-like element ISEc20 family transposase -
C4623_RS23565 (C4623_23525) 2478..3299 + 822 WP_143189711 DUF932 domain-containing protein -
C4623_RS23570 (C4623_23530) 3596..4198 - 603 WP_000243703 transglycosylase SLT domain-containing protein -
C4623_RS23575 (C4623_23535) 4519..4902 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
C4623_RS23580 (C4623_23540) 5089..5778 + 690 WP_000283384 conjugal transfer transcriptional regulator TraJ -
C4623_RS23585 (C4623_23545) 5877..6272 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
C4623_RS23590 (C4623_23550) 6305..6670 + 366 WP_000994782 type IV conjugative transfer system pilin TraA -
C4623_RS23595 (C4623_23555) 6685..6996 + 312 WP_000012126 type IV conjugative transfer system protein TraL traL
C4623_RS23600 (C4623_23560) 7018..7584 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
C4623_RS23605 (C4623_23565) 7571..8299 + 729 WP_001230783 type-F conjugative transfer system secretin TraK traK
C4623_RS23610 (C4623_23570) 8299..9726 + 1428 WP_000146635 F-type conjugal transfer pilus assembly protein TraB traB
C4623_RS23615 (C4623_23575) 9716..10303 + 588 WP_000002771 conjugal transfer pilus-stabilizing protein TraP -
C4623_RS23620 (C4623_23580) 10290..10610 + 321 WP_001057280 conjugal transfer protein TrbD -
C4623_RS23625 (C4623_23585) 10607..11122 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
C4623_RS23630 (C4623_23590) 11257..11478 + 222 WP_001278689 conjugal transfer protein TraR -
C4623_RS23635 (C4623_23595) 11638..14265 + 2628 WP_001064260 type IV secretion system protein TraC virb4
C4623_RS23640 (C4623_23600) 14262..14648 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
C4623_RS23645 (C4623_23605) 14645..15277 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
C4623_RS23650 (C4623_23610) 15274..16266 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
C4623_RS23655 (C4623_23615) 16275..16913 + 639 WP_024233422 type-F conjugative transfer system pilin assembly protein TrbC trbC
C4623_RS23660 (C4623_23620) 16910..17290 + 381 WP_000174466 hypothetical protein -
C4623_RS23665 (C4623_23625) 17526..19388 + 1863 WP_237710346 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C4623_RS23670 (C4623_23630) 19415..19672 + 258 WP_000864330 conjugal transfer protein TrbE -
C4623_RS23675 (C4623_23635) 19665..20408 + 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
C4623_RS23680 (C4623_23640) 20424..20771 + 348 WP_001287677 conjugal transfer protein TrbA -
C4623_RS23685 (C4623_23645) 20890..21174 + 285 WP_024127867 type-F conjugative transfer system pilin chaperone TraQ -
C4623_RS23690 (C4623_23650) 21161..21706 + 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C4623_RS23695 (C4623_23655) 21636..21998 + 363 WP_071608404 P-type conjugative transfer protein TrbJ -
C4623_RS23700 (C4623_23660) 21998..23371 + 1374 WP_172449589 conjugal transfer pilus assembly protein TraH traH
C4623_RS23705 (C4623_23665) 23368..26190 + 2823 WP_089615093 conjugal transfer mating-pair stabilization protein TraG traG
C4623_RS23710 (C4623_23670) 26206..26703 + 498 WP_000605867 hypothetical protein -
C4623_RS23715 (C4623_23675) 26735..27466 + 732 WP_024257478 conjugal transfer complement resistance protein TraT -
C4623_RS23720 (C4623_23680) 27719..29926 + 2208 WP_074467133 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2719 GenBank   NZ_PTLP01000008
Plasmid name   pEA1_2 Incompatibility group   -
Plasmid size   89048 bp Coordinate of oriT [Strand]   4167..4518 [+]
Host baterium   Escherichia albertii strain MBT-EA1

Cargo genes

Drug resistance gene   -
Virulence gene   faeC, faeD, faeE, faeF, faeH, faeI, faeJ
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -