Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100382
Name   oriT_pHK17a in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_016039 (32807..33085 [-], 279 nt)
oriT length   279 nt
IRs (inverted repeats)      220..227, 230..237  (GCAAAAAC..GTTTTTGC)
Location of nic site      246..247
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 279 nt

>oriT_pHK17a
CGCTAGCAGCGCCCCTGACGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGCTGTAGCTGCGTTAACGACGCTGCTTTAAAAAAATCAGATTTAAACAATATAAATCCACAAATACAACTCAATGATATTAAAGATAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   453 GenBank   YP_004870085
Name   TraI_pHK17a insolico UniProt ID   G3G3U1
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191868.57 Da        Isoelectric Point: 5.7970

>YP_004870085.1 protein TraI (plasmid) [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHRQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWEKNPDALALVDSVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPMTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
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)

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

(575-626)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 32239..60509

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS773_RS00185 (PHK17A_p044) 27556..27870 + 315 WP_000872086 hypothetical protein -
HS773_RS00460 28060..28173 + 114 Protein_40 DUF5431 family protein -
HS773_RS00190 28118..28240 + 123 WP_223412041 Hok/Gef family protein -
HS773_RS00195 28541..28790 - 250 Protein_42 hypothetical protein -
HS773_RS00200 (PHK17A_p049) 29086..29409 + 324 WP_000533253 hypothetical protein -
HS773_RS00205 (PHK17A_p050) 29468..29710 + 243 WP_000540588 hypothetical protein -
HS773_RS00465 29976..30236 + 261 WP_071600428 hypothetical protein -
HS773_RS00210 (PHK17A_p053) 30707..31003 + 297 WP_001272251 hypothetical protein -
HS773_RS00215 (PHK17A_p054) 31113..31934 + 822 WP_001234437 DUF932 domain-containing protein -
HS773_RS00220 (PHK17A_p056) 32239..32841 - 603 WP_000243715 transglycosylase SLT domain-containing protein virB1
HS773_RS00225 (PHK17A_p057) 33162..33545 + 384 WP_001151529 conjugal transfer relaxosome DNA-binding protein TraM -
HS773_RS00230 (PHK17A_p058) 33677..34384 + 708 WP_227626108 transcriptional regulator TraJ family protein -
HS773_RS00235 (PHK17A_p059) 34504..34731 + 228 WP_000589556 conjugal transfer relaxosome protein TraY -
HS773_RS00240 (PHK17A_p060) 34765..35127 + 363 WP_012881131 type IV conjugative transfer system pilin TraA -
HS773_RS00245 (PHK17A_p061) 35142..35453 + 312 WP_000012100 type IV conjugative transfer system protein TraL traL
HS773_RS00250 (PHK17A_p062) 35475..36041 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS773_RS00255 (PHK17A_p063) 36028..36756 + 729 WP_001230769 type-F conjugative transfer system secretin TraK traK
HS773_RS00260 (PHK17A_p064) 36756..38183 + 1428 WP_014106971 F-type conjugal transfer pilus assembly protein TraB traB
HS773_RS00265 (PHK17A_p065) 38173..38763 + 591 WP_000002784 conjugal transfer pilus-stabilizing protein TraP -
HS773_RS00270 (PHK17A_p066) 38750..39070 + 321 WP_012881128 conjugal transfer protein TrbD -
HS773_RS00275 (PHK17A_p067) 39067..39582 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS773_RS00280 (PHK17A_p068) 39717..39938 + 222 WP_001278683 conjugal transfer protein TraR -
HS773_RS00285 (PHK17A_p069) 39931..40407 + 477 WP_012881127 hypothetical protein -
HS773_RS00290 (PHK17A_p070) 40506..40724 + 219 WP_000556745 hypothetical protein -
HS773_RS00295 (PHK17A_p071) 40752..41099 + 348 WP_000836682 hypothetical protein -
HS773_RS00300 (PHK17A_p072) 41225..43855 + 2631 WP_000069772 type IV secretion system protein TraC virb4
HS773_RS00305 (PHK17A_p073) 43852..44238 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HS773_RS00310 (PHK17A_p074) 44235..44867 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HS773_RS00315 (PHK17A_p075) 44864..45856 + 993 WP_000830849 conjugal transfer pilus assembly protein TraU traU
HS773_RS00320 (PHK17A_p076) 45886..46191 + 306 WP_000224418 hypothetical protein -
HS773_RS00325 (PHK17A_p077) 46200..46838 + 639 WP_012881126 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS773_RS00330 (PHK17A_p078) 46835..48685 + 1851 WP_012881125 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS773_RS00335 (PHK17A_p079) 48712..48969 + 258 WP_000864353 conjugal transfer protein TrbE -
HS773_RS00340 (PHK17A_p080) 48962..49705 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS773_RS00345 (PHK17A_p081) 49719..50060 + 342 WP_000556795 conjugal transfer protein TrbA -
HS773_RS00350 (PHK17A_p082) 50041..50376 - 336 WP_000736414 hypothetical protein -
HS773_RS00355 (PHK17A_p083) 50457..50741 + 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
HS773_RS00360 (PHK17A_p084) 50728..51273 + 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS773_RS00365 (PHK17A_p085) 51203..51550 + 348 WP_071840683 P-type conjugative transfer protein TrbJ -
HS773_RS00370 (PHK17A_p086) 51531..51923 + 393 WP_014106973 F-type conjugal transfer protein TrbF -
HS773_RS00375 (PHK17A_p087) 51910..53283 + 1374 WP_014106974 conjugal transfer pilus assembly protein TraH traH
HS773_RS00380 (PHK17A_p088) 53280..56105 + 2826 WP_012881124 conjugal transfer mating-pair stabilization protein TraG traG
HS773_RS00385 (PHK17A_p089) 56102..56611 + 510 WP_000628111 conjugal transfer entry exclusion protein TraS -
HS773_RS00390 (PHK17A_p090) 56625..57356 + 732 WP_012881123 conjugal transfer complement resistance protein TraT -
HS773_RS00395 (PHK17A_p091) 57559..58296 + 738 WP_014106975 hypothetical protein -
HS773_RS00400 (PHK17A_p092) 58347..60509 + 2163 WP_014106976 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   843 GenBank   NC_016039
Plasmid name   pHK17a Incompatibility group   IncFII
Plasmid size   70060 bp Coordinate of oriT [Strand]   32807..33085 [-]
Host baterium   Escherichia coli

Cargo genes

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