Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104089
Name   oriT_pEA50_1 in_silico
Organism   Escherichia albertii strain BIA_50
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117571 (89326..89677 [-], 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_pEA50_1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGTGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3021 GenBank   WP_273818023
Name   traI_PS035_RS23110_pEA50_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: 192046.85 Da        Isoelectric Point: 5.9728

>WP_273818023.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQDETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPRTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   1287 GenBank   WP_001369361
Name   WP_001369361_pEA50_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

ID   1288 GenBank   WP_001151524
Name   WP_001151524_pEA50_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


T4CP

ID   2902 GenBank   WP_273818024
Name   traD_PS035_RS23125_pEA50_1 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 83325.06 Da        Isoelectric Point: 5.1126

>WP_273818024.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQITSMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPVSPAINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQ
NPDIQQKMQRREEVNINVHRERGEDVEPGDDF

  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.



ID   2903 GenBank   WP_273818026
Name   traC_PS035_RS23215_pEA50_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: 99175.85 Da        Isoelectric Point: 5.8486

>WP_273818026.1 type IV secretion system protein TraC [Escherichia albertii]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESLTIRSRLDEMIVLLDQYT
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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 63825..90248

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS035_RS23115 (PS035_23115) 63191..63418 + 228 WP_000450520 toxin-antitoxin system antitoxin VapB -
PS035_RS23120 (PS035_23120) 63418..63816 + 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
PS035_RS23125 (PS035_23125) 63825..66023 - 2199 WP_273818024 type IV conjugative transfer system coupling protein TraD virb4
PS035_RS23130 (PS035_23130) 66276..67007 - 732 WP_023565183 conjugal transfer complement resistance protein TraT -
PS035_RS23135 (PS035_23135) 67039..67536 - 498 WP_000605857 entry exclusion protein -
PS035_RS23140 (PS035_23140) 67552..70374 - 2823 WP_271091379 conjugal transfer mating-pair stabilization protein TraG traG
PS035_RS23145 (PS035_23145) 70371..71744 - 1374 WP_001517790 conjugal transfer pilus assembly protein TraH traH
PS035_RS23150 (PS035_23150) 71744..72124 - 381 WP_001389370 F-type conjugal transfer protein TrbF -
PS035_RS23155 (PS035_23155) 72111..72452 - 342 WP_273818025 P-type conjugative transfer protein TrbJ -
PS035_RS23160 (PS035_23160) 72382..72927 - 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS035_RS23165 (PS035_23165) 72914..73198 - 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
PS035_RS23170 (PS035_23170) 73279..73593 + 315 WP_000415566 protein ArtA -
PS035_RS23175 (PS035_23175) 73595..73942 - 348 WP_001287910 conjugal transfer protein TrbA -
PS035_RS23180 (PS035_23180) 73958..74701 - 744 WP_001030377 type-F conjugative transfer system pilin assembly protein TraF traF
PS035_RS23185 (PS035_23185) 74694..74951 - 258 WP_000864318 conjugal transfer protein TrbE -
PS035_RS23190 (PS035_23190) 74978..76791 - 1814 Protein_81 type-F conjugative transfer system mating-pair stabilization protein TraN -
PS035_RS23195 (PS035_23195) 76788..77426 - 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS035_RS23200 (PS035_23200) 77435..78427 - 993 WP_000830180 conjugal transfer pilus assembly protein TraU traU
PS035_RS23205 (PS035_23205) 78424..79056 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
PS035_RS23210 (PS035_23210) 79053..79439 - 387 WP_000099686 type-F conjugative transfer system protein TrbI -
PS035_RS23215 (PS035_23215) 79436..82063 - 2628 WP_273818026 type IV secretion system protein TraC virb4
PS035_RS23220 (PS035_23220) 82223..82444 - 222 WP_001278689 conjugal transfer protein TraR -
PS035_RS23225 (PS035_23225) 82579..83094 - 516 WP_000809838 type IV conjugative transfer system lipoprotein TraV traV
PS035_RS23230 (PS035_23230) 83091..83342 - 252 WP_273817987 conjugal transfer protein TrbG -
PS035_RS23235 (PS035_23235) 83354..83551 - 198 WP_001324648 conjugal transfer protein TrbD -
PS035_RS23240 (PS035_23240) 83538..84128 - 591 WP_001376242 conjugal transfer pilus-stabilizing protein TraP -
PS035_RS23245 (PS035_23245) 84118..85545 - 1428 WP_273817988 F-type conjugal transfer pilus assembly protein TraB traB
PS035_RS23250 (PS035_23250) 85545..86273 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
PS035_RS23255 (PS035_23255) 86260..86826 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
PS035_RS23260 (PS035_23260) 86848..87159 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
PS035_RS23265 (PS035_23265) 87174..87539 - 366 WP_000994779 type IV conjugative transfer system pilin TraA -
PS035_RS23270 (PS035_23270) 87572..87967 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
PS035_RS23275 (PS035_23275) 88066..88755 - 690 WP_273817989 conjugal transfer transcriptional regulator TraJ -
PS035_RS23280 (PS035_23280) 88942..89325 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
PS035_RS23285 (PS035_23285) 89658..90248 + 591 WP_001376243 transglycosylase SLT domain-containing protein -
PS035_RS23290 (PS035_23290) 90545..91366 - 822 WP_001234426 DUF932 domain-containing protein -
PS035_RS23295 (PS035_23295) 91484..91771 - 288 WP_000107535 hypothetical protein -
PS035_RS23300 (PS035_23300) 92022..93002 + 981 WP_164512216 IS110 family transposase -
PS035_RS23305 (PS035_23305) 93119..93379 - 261 WP_241321641 single-stranded DNA-binding protein -
PS035_RS23310 (PS035_23310) 93449..93529 + 81 Protein_105 hypothetical protein -
PS035_RS23315 (PS035_23315) 93712..93881 - 170 Protein_106 hypothetical protein -

Host bacterium

ID   4528 GenBank   NZ_CP117571
Plasmid name   pEA50_1 Incompatibility group   IncFIB
Plasmid size   165614 bp Coordinate of oriT [Strand]   89326..89677 [-]
Host baterium   Escherichia albertii strain BIA_50

Cargo genes

Drug resistance gene   sitABCD
Virulence gene   vat, iutA, iucC, iucB, iucA, espK, espO1-1
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -