Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100456
Name   oriT_pXZ in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019095 (39972..40521 [-], 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_pXZ
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   527 GenBank   YP_006954298
Name   TraI_pXZ 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_006954298.1 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: 39584..66848

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS800_RS00235 (D616_p78007) 35556..35990 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
HS800_RS00240 (D616_p78008) 35987..36749 + 763 Protein_48 plasmid SOS inhibition protein A -
HS800_RS00490 36928..37077 + 150 Protein_49 plasmid maintenance protein Mok -
HS800_RS00245 (D616_p78005) 37019..37144 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HS800_RS00250 (D616_p78004) 37463..37759 - 297 Protein_51 hypothetical protein -
HS800_RS00255 (D616_p78003) 38059..38355 + 297 WP_001272251 hypothetical protein -
HS800_RS00260 (D616_p78002) 38466..39287 + 822 WP_001234445 DUF932 domain-containing protein -
HS800_RS00265 (D616_p78045) 39584..40186 - 603 WP_000243713 transglycosylase SLT domain-containing protein virB1
HS800_RS00270 (D616_p78046) 40509..40892 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HS800_RS00275 (D616_p78047) 41086..41757 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HS800_RS00280 (D616_p78048) 41894..42121 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HS800_RS00285 (D616_p78049) 42154..42513 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HS800_RS00290 (D616_p78050) 42528..42839 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HS800_RS00295 (D616_p78051) 42861..43427 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS800_RS00300 (D616_p78052) 43414..44142 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HS800_RS00305 (D616_p78053) 44142..45593 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HS800_RS00310 (D616_p78054) 45583..46149 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HS800_RS00315 (D616_p78055) 46136..46456 + 321 WP_001057307 conjugal transfer protein TrbD -
HS800_RS00320 (D616_p78056) 46453..46968 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS800_RS00325 (D616_p78057) 47103..47324 + 222 WP_001278683 conjugal transfer protein TraR -
HS800_RS00330 (D616_p78058) 47317..47793 + 477 WP_000549587 hypothetical protein -
HS800_RS00335 (D616_p78059) 47873..48091 + 219 WP_000556745 hypothetical protein -
HS800_RS00340 (D616_p78060) 48119..48466 + 348 WP_000836682 hypothetical protein -
HS800_RS00345 (D616_p78061) 48592..50913 + 2322 Protein_70 type IV secretion system protein TraC -
HS800_RS00350 50912..51319 + 408 Protein_71 conjugal transfer pilus assembly protein TraW -
HS800_RS00355 (D616_p78062) 51316..52308 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HS800_RS00360 (D616_p78063) 52338..52643 + 306 WP_000224416 hypothetical protein -
HS800_RS00365 (D616_p78064) 52652..53290 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS800_RS00370 (D616_p78065) 53287..55137 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS800_RS00375 (D616_p78066) 55164..55421 + 258 WP_000864353 conjugal transfer protein TrbE -
HS800_RS00380 (D616_p78067) 55414..56157 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS800_RS00385 (D616_p78068) 56171..56515 + 345 WP_000556796 conjugal transfer protein TrbA -
HS800_RS00390 (D616_p78069) 56634..56918 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HS800_RS00395 (D616_p78070) 56905..57450 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS800_RS00400 (D616_p78071) 57380..57727 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HS800_RS00405 (D616_p78072) 57708..58100 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HS800_RS00410 (D616_p78073) 58087..59460 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS800_RS00415 (D616_p78074) 59457..62279 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HS800_RS00420 (D616_p78075) 62295..62780 + 486 WP_000605870 hypothetical protein -
HS800_RS00425 (D616_p78076) 62829..63560 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HS800_RS00430 (D616_p78077) 63763..64500 + 738 WP_000199905 hypothetical protein -
HS800_RS00435 64551..66848 + 2298 WP_078081148 type IV conjugative transfer system coupling protein TraD prgC

Host bacterium

ID   917 GenBank   NC_019095
Plasmid name   pXZ Incompatibility group   IncFII
Plasmid size   76635 bp Coordinate of oriT [Strand]   39972..40521 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   blaCTX-M-65, fosA3, blaTEM-1B, rmtB
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -