Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100447
Name   oriT_pHK09 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019071 (32587..33136 [-], 550 nt)
oriT length   550 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: 550 nt

>oriT_pHK09
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGTAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   518 GenBank   YP_006953355
Name   TraI_pHK09 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191683.22 Da        Isoelectric Point: 5.6912

>YP_006953355.1 conjugal transfer DNA-nicking and unwinding protein TraI (plasmid) [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQIERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)

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: 32199..56212

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS845_RS00180 (D616_p62044) 27525..27839 + 315 WP_000872086 hypothetical protein -
HS845_RS00460 28029..28142 + 114 Protein_39 DUF5431 family protein -
HS845_RS00185 28087..28209 + 123 WP_223412041 Hok/Gef family protein -
HS845_RS00190 28510..28759 - 250 Protein_41 hypothetical protein -
HS845_RS00195 (D616_p62049) 29055..29378 + 324 WP_000533253 hypothetical protein -
HS845_RS00200 (D616_p62050) 29437..29679 + 243 WP_000540588 hypothetical protein -
HS845_RS00465 29945..30205 + 261 WP_071600428 hypothetical protein -
HS845_RS00205 (D616_p62053) 30676..30972 + 297 WP_001272251 hypothetical protein -
HS845_RS00210 (D616_p62054) 31082..31903 + 822 WP_001234437 DUF932 domain-containing protein -
HS845_RS00215 (D616_p62056) 32199..32801 - 603 WP_000243715 transglycosylase SLT domain-containing protein virB1
HS845_RS00220 (D616_p62057) 33124..33507 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HS845_RS00225 (D616_p62058) 33701..34372 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HS845_RS00230 (D616_p62059) 34509..34736 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HS845_RS00235 (D616_p62060) 34769..35128 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HS845_RS00240 (D616_p62061) 35143..35454 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HS845_RS00245 (D616_p62062) 35476..36042 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS845_RS00250 (D616_p62063) 36029..36757 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HS845_RS00255 (D616_p62064) 36757..38208 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HS845_RS00260 (D616_p62065) 38198..38764 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HS845_RS00265 (D616_p62066) 38751..39071 + 321 WP_001057307 conjugal transfer protein TrbD -
HS845_RS00270 (D616_p62067) 39068..39583 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS845_RS00275 (D616_p62068) 39718..39939 + 222 WP_001278683 conjugal transfer protein TraR -
HS845_RS00280 (D616_p62069) 39932..40345 + 414 WP_000549589 hypothetical protein -
HS845_RS00285 (D616_p62070) 40338..40811 + 474 WP_000549568 hypothetical protein -
HS845_RS00290 (D616_p62071) 40891..41109 + 219 WP_000556745 hypothetical protein -
HS845_RS00295 (D616_p62072) 41137..41484 + 348 WP_000836682 hypothetical protein -
HS845_RS00300 (D616_p62073) 41610..44240 + 2631 WP_000069772 type IV secretion system protein TraC virb4
HS845_RS00305 (D616_p62074) 44237..44623 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HS845_RS00310 (D616_p62075) 44620..45252 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HS845_RS00315 (D616_p62076) 45249..46241 + 993 WP_000830849 conjugal transfer pilus assembly protein TraU traU
HS845_RS00320 (D616_p62077) 46271..46576 + 306 WP_000224418 hypothetical protein -
HS845_RS00325 (D616_p62078) 46585..47223 + 639 WP_015058995 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS845_RS00330 (D616_p62079) 47220..49070 + 1851 WP_015058996 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS845_RS00335 (D616_p62080) 49097..49354 + 258 WP_000864353 conjugal transfer protein TrbE -
HS845_RS00340 (D616_p62081) 49347..50090 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS845_RS00345 (D616_p62082) 50104..50448 + 345 WP_000556796 conjugal transfer protein TrbA -
HS845_RS00350 (D616_p62083) 50567..50851 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HS845_RS00355 (D616_p62084) 50838..51383 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS845_RS00360 (D616_p62085) 51313..51660 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HS845_RS00365 (D616_p62086) 51641..52033 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HS845_RS00370 (D616_p62087) 52020..53393 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS845_RS00375 (D616_p62088) 53390..56212 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HS845_RS00380 (D616_p62089) 56228..56713 + 486 WP_000605870 hypothetical protein -
HS845_RS00385 (D616_p62090) 56762..57493 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HS845_RS00390 (D616_p62091) 57696..58433 + 738 WP_000199905 hypothetical protein -
HS845_RS00395 58484..60831 + 2348 Protein_83 type IV secretion system DNA-binding domain-containing protein -

Host bacterium

ID   908 GenBank   NC_019071
Plasmid name   pHK09 Incompatibility group   IncFII
Plasmid size   70382 bp Coordinate of oriT [Strand]   32587..33136 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   blaCTX-M-14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7