Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104066
Name   oriT_pEA29_1 in_silico
Organism   Escherichia albertii strain BIA_29
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117607 (99519..99868 [-], 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_pEA29_1
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3011 GenBank   WP_273773808
Name   traI_PS031_RS23050_pEA29_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: 192247.27 Da        Isoelectric Point: 5.9054

>WP_273773808.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGPASPDWPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISHEQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLNS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
DNGWVETPGHSVSDSAKVFASVTQMAMDNATLNCLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNNMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGCGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMEWDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   1271 GenBank   WP_250188322
Name   WP_250188322_pEA29_1 insolico UniProt ID   _
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15436.73 Da        Isoelectric Point: 9.9240

>WP_250188322.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Escherichia]
MLLKRFGTRSATGKMVKLKLPVDVENLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(17-61)

TraY domain (TraY)

(72-119)


  Protein structure



No available structure.



ID   1272 GenBank   WP_001151524
Name   WP_001151524_pEA29_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   2885 GenBank   WP_262930967
Name   traD_PS031_RS23065_pEA29_1 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81456.93 Da        Isoelectric Point: 4.9993

>WP_262930967.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTYASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAASLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQELKMKPEEEIEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVHRERGEDVEPGDDF

  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: 73955..97352

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS031_RS23055 (PS031_23055) 73321..73548 + 228 WP_000450532 toxin-antitoxin system antitoxin VapB -
PS031_RS23060 (PS031_23060) 73548..73946 + 399 WP_000911317 type II toxin-antitoxin system VapC family toxin -
PS031_RS23065 (PS031_23065) 73955..76108 - 2154 WP_262930967 type IV conjugative transfer system coupling protein TraD virb4
PS031_RS23070 (PS031_23070) 76360..77091 - 732 WP_273773874 conjugal transfer complement resistance protein TraT -
PS031_RS23075 (PS031_23075) 77123..77620 - 498 WP_000605859 entry exclusion protein -
PS031_RS23080 (PS031_23080) 77636..80458 - 2823 WP_273773813 conjugal transfer mating-pair stabilization protein TraG traG
PS031_RS23085 (PS031_23085) 80455..81828 - 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
PS031_RS23090 (PS031_23090) 81815..82207 - 393 WP_262930966 F-type conjugal transfer protein TrbF -
PS031_RS23095 (PS031_23095) 82194..82547 - 354 WP_273773814 P-type conjugative transfer protein TrbJ -
PS031_RS23100 (PS031_23100) 82477..83022 - 546 WP_125317923 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS031_RS23105 (PS031_23105) 83009..83293 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
PS031_RS23110 (PS031_23110) 83374..83688 + 315 WP_000415566 protein ArtA -
PS031_RS23115 (PS031_23115) 83690..84037 - 348 WP_001287908 conjugal transfer protein TrbA -
PS031_RS23120 (PS031_23120) 84053..84796 - 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
PS031_RS23125 (PS031_23125) 84789..85046 - 258 WP_000864318 conjugal transfer protein TrbE -
PS031_RS23130 (PS031_23130) 85073..86881 - 1809 WP_262930964 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS031_RS23135 (PS031_23135) 86878..87516 - 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS031_RS23140 (PS031_23140) 87525..88517 - 993 WP_024226181 conjugal transfer pilus assembly protein TraU traU
PS031_RS23145 (PS031_23145) 88514..89146 - 633 WP_273773819 type-F conjugative transfer system protein TraW traW
PS031_RS23150 (PS031_23150) 89143..89529 - 387 WP_000099690 type-F conjugative transfer system protein TrbI -
PS031_RS23155 (PS031_23155) 89526..92153 - 2628 Protein_90 type IV secretion system protein TraC -
PS031_RS23160 (PS031_23160) 92313..92534 - 222 WP_001278689 conjugal transfer protein TraR -
PS031_RS23165 (PS031_23165) 92669..93184 - 516 WP_273773821 type IV conjugative transfer system lipoprotein TraV traV
PS031_RS23170 (PS031_23170) 93181..93431 - 251 Protein_93 conjugal transfer protein TrbG -
PS031_RS23175 (PS031_23175) 93424..93744 - 321 WP_001057287 conjugal transfer protein TrbD virb4
PS031_RS23180 (PS031_23180) 93731..94321 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
PS031_RS23185 (PS031_23185) 94311..95738 - 1428 WP_053879286 F-type conjugal transfer pilus assembly protein TraB traB
PS031_RS23190 (PS031_23190) 95738..96466 - 729 WP_086660520 type-F conjugative transfer system secretin TraK traK
PS031_RS23195 (PS031_23195) 96453..97019 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
PS031_RS23200 (PS031_23200) 97041..97352 - 312 WP_000012126 type IV conjugative transfer system protein TraL traL
PS031_RS23205 (PS031_23205) 97367..97732 - 366 WP_000994782 type IV conjugative transfer system pilin TraA -
PS031_RS23210 (PS031_23210) 97765..98160 - 396 WP_128995067 conjugal transfer relaxosome DNA-bindin protein TraY -
PS031_RS23215 (PS031_23215) 98259..98948 - 690 WP_273773836 conjugal transfer transcriptional regulator TraJ -
PS031_RS23220 (PS031_23220) 99135..99518 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
PS031_RS23225 (PS031_23225) 99839..100441 + 603 WP_262930963 transglycosylase SLT domain-containing protein -
PS031_RS23230 (PS031_23230) 100738..101559 - 822 WP_262931008 DUF932 domain-containing protein -
PS031_RS23235 (PS031_23235) 101678..101964 - 287 Protein_106 hypothetical protein -
PS031_RS23240 (PS031_23240) 101982..102275 + 294 Protein_107 hypothetical protein -

Host bacterium

ID   4505 GenBank   NZ_CP117607
Plasmid name   pEA29_1 Incompatibility group   IncFIB
Plasmid size   116006 bp Coordinate of oriT [Strand]   99519..99868 [-]
Host baterium   Escherichia albertii strain BIA_29

Cargo genes

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