Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100603
Name   oriT_pH1519-76 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_025177 (1156..1697 [-], 542 nt)
oriT length   542 nt
IRs (inverted repeats)      243..255, 257..269  (TATTTAATAATTC..GAATTATTAAATA)
 311..318, 321..328  (GCAAAAAC..GTTTTTGC)
Location of nic site      337..338
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 542 nt

>oriT_pH1519-76
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   675 GenBank   YP_009071011
Name   TraI_pH1519-76 insolico UniProt ID   A0A075MG13
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191766.43 Da        Isoelectric Point: 6.0132

>YP_009071011.1 IncF plasmid conjugative transfer DNA-nicking and unwinding protein TraI (plasmid) [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEGASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDTGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHRQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWEKNPDALALVDSVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARGNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(968-1156)

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)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 760..33542

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTC53_RS00010 (D616_p151003) 760..1362 - 603 WP_023908348 transglycosylase SLT domain-containing protein virB1
HTC53_RS00015 (D616_p151004) 1685..2068 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HTC53_RS00020 (D616_p151005) 2262..2933 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HTC53_RS00025 (D616_p151006) 3070..3297 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HTC53_RS00030 (D616_p151007) 3330..3689 + 360 WP_016239104 type IV conjugative transfer system pilin TraA -
HTC53_RS00035 (D616_p151008) 3704..4015 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HTC53_RS00040 (D616_p151009) 4037..4603 + 567 WP_016239103 type IV conjugative transfer system protein TraE traE
HTC53_RS00045 (D616_p151010) 4590..5318 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HTC53_RS00050 (D616_p151011) 5318..6769 + 1452 WP_001673169 F-type conjugal transfer pilus assembly protein TraB traB
HTC53_RS00055 (D616_p151012) 6759..7325 + 567 WP_001526038 conjugal transfer pilus-stabilizing protein TraP -
HTC53_RS00060 (D616_p151013) 7312..7635 + 324 WP_023908346 conjugal transfer protein TrbD -
HTC53_RS00065 (D616_p151014) 7604..8137 + 534 WP_250696576 hypothetical protein -
HTC53_RS00070 (D616_p151015) 8130..8642 + 513 WP_001526035 type IV conjugative transfer system lipoprotein TraV traV
HTC53_RS00075 (D616_p151016) 8777..8998 + 222 WP_001278689 conjugal transfer protein TraR -
HTC53_RS00080 (D616_p151017) 8991..9404 + 414 WP_000549589 hypothetical protein -
HTC53_RS00495 9397..9594 + 198 Protein_16 hypothetical protein -
HTC53_RS00085 (D616_p151020) 9647..10860 + 1214 WP_172685630 IS3 family transposase -
HTC53_RS00090 (D616_p151021) 10917..11183 + 267 Protein_18 hypothetical protein -
HTC53_RS00095 (D616_p151022) 11264..11482 + 219 WP_000556751 hypothetical protein -
HTC53_RS00100 (D616_p151023) 11510..11857 + 348 WP_000836682 hypothetical protein -
HTC53_RS00105 (D616_p151024) 11983..14613 + 2631 WP_001526033 type IV secretion system protein TraC virb4
HTC53_RS00110 (D616_p151025) 14610..14996 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HTC53_RS00115 (D616_p151026) 14993..15625 + 633 WP_001526032 type-F conjugative transfer system protein TraW traW
HTC53_RS00120 (D616_p151027) 15622..16614 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTC53_RS00125 (D616_p151028) 16641..16949 + 309 WP_000412447 hypothetical protein -
HTC53_RS00130 (D616_p151029) 17012..17530 + 519 WP_000009087 hypothetical protein -
HTC53_RS00490 17557..17646 + 90 Protein_27 type-F conjugative transfer system pilin assembly protein TrbC -
HTC53_RS00135 (D616_p151031) 17738..17917 + 180 WP_001750891 hypothetical protein -
HTC53_RS00500 17914..18234 - 321 WP_023908343 hypothetical protein -
HTC53_RS00145 (D616_p151033) 18346..18984 + 639 WP_001035183 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTC53_RS00150 (D616_p151034) 18981..19352 + 372 WP_000056340 hypothetical protein -
HTC53_RS00155 (D616_p151035) 19377..19799 + 423 WP_001229306 HNH endonuclease signature motif containing protein -
HTC53_RS00160 (D616_p151036) 19796..21646 + 1851 WP_023908342 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTC53_RS00165 (D616_p151037) 21673..21930 + 258 WP_000864309 conjugal transfer protein TrbE -
HTC53_RS00170 (D616_p151038) 21923..22666 + 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
HTC53_RS00175 (D616_p151039) 22680..23021 + 342 WP_000556795 conjugal transfer protein TrbA -
HTC53_RS00180 (D616_p151040) 23002..23337 - 336 WP_000736414 hypothetical protein -
HTC53_RS00185 (D616_p151041) 23418..23702 + 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
HTC53_RS00190 (D616_p151042) 23689..24234 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTC53_RS00195 (D616_p151043) 24164..24511 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HTC53_RS00200 (D616_p151044) 24492..24884 + 393 WP_000660700 F-type conjugal transfer protein TrbF -
HTC53_RS00205 (D616_p151045) 24871..26244 + 1374 WP_001526028 conjugal transfer pilus assembly protein TraH traH
HTC53_RS00210 (D616_p151046) 26241..29066 + 2826 WP_023908339 conjugal transfer mating-pair stabilization protein TraG traG
HTC53_RS00215 (D616_p151047) 29063..29572 + 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
HTC53_RS00220 (D616_p151048) 29586..30317 + 732 WP_000850422 conjugal transfer complement resistance protein TraT -
HTC53_RS00225 (D616_p151049) 30520..31257 + 738 WP_001673178 hypothetical protein -
HTC53_RS00230 (D616_p151050) 31308..33542 + 2235 WP_032072830 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1063 GenBank   NC_025177
Plasmid name   pH1519-76 Incompatibility group   IncFII
Plasmid size   76197 bp Coordinate of oriT [Strand]   1156..1697 [-]
Host baterium   Escherichia coli

Cargo genes

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