Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100454
Name   oriT_pHK23a in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019090 (36310..36859 [-], 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_pHK23a
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   525 GenBank   YP_006953980
Name   TraI_pHK23a insolico UniProt ID   I1YB51
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191713.24 Da        Isoelectric Point: 5.6912

>YP_006953980.1 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
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVTLSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQIERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

AAA domain (AAA_30)

(968-1156)

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

(575-626)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 35922..64056

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS909_RS00210 (D616_p77022) 31894..32328 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
HS909_RS00215 (D616_p77019) 32325..33087 + 763 Protein_44 plasmid SOS inhibition protein A -
HS909_RS00480 33266..33415 + 150 Protein_45 plasmid maintenance protein Mok -
HS909_RS00220 (D616_p77020) 33357..33482 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HS909_RS00225 33801..34097 - 297 Protein_47 hypothetical protein -
HS909_RS00230 (D616_p77023) 34397..34693 + 297 WP_001272251 hypothetical protein -
HS909_RS00235 (D616_p77099) 34804..35625 + 822 WP_001234445 DUF932 domain-containing protein -
HS909_RS00240 (D616_p77100) 35922..36524 - 603 WP_000243713 transglycosylase SLT domain-containing protein virB1
HS909_RS00245 (D616_p77063) 36847..37230 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HS909_RS00250 (D616_p77062) 37424..38095 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HS909_RS00255 (D616_p77061) 38232..38459 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HS909_RS00260 (D616_p77060) 38492..38851 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HS909_RS00265 (D616_p77059) 38866..39177 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HS909_RS00270 (D616_p77058) 39199..39765 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS909_RS00275 (D616_p77057) 39752..40480 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HS909_RS00280 (D616_p77056) 40480..41931 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HS909_RS00285 (D616_p77055) 41921..42487 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HS909_RS00290 (D616_p77054) 42474..42794 + 321 WP_001057307 conjugal transfer protein TrbD -
HS909_RS00295 (D616_p77053) 42791..43306 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS909_RS00300 (D616_p77052) 43441..43662 + 222 WP_001278683 conjugal transfer protein TraR -
HS909_RS00305 (D616_p77051) 43655..44131 + 477 WP_000549587 hypothetical protein -
HS909_RS00310 (D616_p77050) 44211..44429 + 219 WP_000556745 hypothetical protein -
HS909_RS00315 (D616_p77049) 44457..44804 + 348 WP_000836682 hypothetical protein -
HS909_RS00320 (D616_p77048) 44930..47560 + 2631 WP_000069777 type IV secretion system protein TraC virb4
HS909_RS00325 (D616_p77047) 47557..47943 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HS909_RS00330 (D616_p77046) 47940..48572 + 633 WP_001203728 type-F conjugative transfer system protein TraW traW
HS909_RS00335 (D616_p77045) 48569..49561 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HS909_RS00340 (D616_p77044) 49591..49896 + 306 WP_000224416 hypothetical protein -
HS909_RS00345 (D616_p77043) 49905..50543 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS909_RS00350 (D616_p77042) 50540..52390 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS909_RS00355 (D616_p77041) 52417..52674 + 258 WP_000864353 conjugal transfer protein TrbE -
HS909_RS00360 (D616_p77040) 52667..53410 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS909_RS00365 (D616_p77039) 53424..53768 + 345 WP_000556796 conjugal transfer protein TrbA -
HS909_RS00370 (D616_p77038) 53887..54171 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HS909_RS00375 (D616_p77037) 54158..54703 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS909_RS00380 (D616_p77036) 54633..54980 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HS909_RS00385 (D616_p77035) 54961..55353 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HS909_RS00390 (D616_p77034) 55340..56713 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS909_RS00395 (D616_p77033) 56710..59532 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HS909_RS00400 (D616_p77032) 59548..60033 + 486 WP_000605870 hypothetical protein -
HS909_RS00405 (D616_p77031) 60082..60813 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HS909_RS00410 (D616_p77030) 61016..61753 + 738 WP_000199905 hypothetical protein -
HS909_RS00415 (D616_p77029) 61804..64056 + 2253 WP_015059147 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   915 GenBank   NC_019090
Plasmid name   pHK23a Incompatibility group   IncFII
Plasmid size   73607 bp Coordinate of oriT [Strand]   36310..36859 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   fosA3, blaTEM-1B, blaCTX-M-3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -