Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100441
Name   oriT_pHK01 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019057 (32589..33138 [-], 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_pHK01
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGTAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   512 GenBank   YP_006952271
Name   TraI_pHK01 insolico UniProt ID   Q6SIZ4
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_006952271.1 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: 32201..60711

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS716_RS00180 (pHK01_046) 27533..27847 + 315 WP_000872086 hypothetical protein -
HS716_RS00455 28037..28150 + 114 Protein_39 DUF5431 family protein -
HS716_RS00185 28095..28217 + 123 WP_223412041 Hok/Gef family protein -
HS716_RS00190 28518..28767 - 250 Protein_41 hypothetical protein -
HS716_RS00195 (pHK01_051) 29063..29386 + 324 WP_000533253 hypothetical protein -
HS716_RS00200 (pHK01_052) 29445..29687 + 243 WP_000540588 hypothetical protein -
HS716_RS00460 29953..30207 + 255 WP_072254791 hypothetical protein -
HS716_RS00205 (pHK01_055) 30678..30974 + 297 WP_001272251 hypothetical protein -
HS716_RS00210 (pHK01_056) 31084..31905 + 822 WP_001234437 DUF932 domain-containing protein -
HS716_RS00215 (pHK01_058) 32201..32803 - 603 WP_000243715 transglycosylase SLT domain-containing protein virB1
HS716_RS00220 (pHK01_059) 33126..33509 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HS716_RS00225 (pHK01_060) 33703..34374 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HS716_RS00230 (pHK01_061) 34511..34738 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HS716_RS00235 (pHK01_062) 34771..35130 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HS716_RS00240 (pHK01_063) 35145..35456 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HS716_RS00245 (pHK01_064) 35478..36044 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS716_RS00250 (pHK01_065) 36031..36759 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HS716_RS00255 (pHK01_066) 36759..38210 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HS716_RS00260 (pHK01_067) 38200..38766 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HS716_RS00265 (pHK01_068) 38753..39073 + 321 WP_001057307 conjugal transfer protein TrbD -
HS716_RS00270 (pHK01_069) 39070..39585 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS716_RS00275 (pHK01_070) 39720..39941 + 222 WP_001278683 conjugal transfer protein TraR -
HS716_RS00280 (pHK01_071) 39934..40347 + 414 WP_000549589 hypothetical protein -
HS716_RS00285 (pHK01_072) 40340..40813 + 474 WP_000549568 hypothetical protein -
HS716_RS00290 (pHK01_073) 40893..41111 + 219 WP_000556745 hypothetical protein -
HS716_RS00295 (pHK01_074) 41139..41486 + 348 WP_000836682 hypothetical protein -
HS716_RS00300 (pHK01_075) 41612..44242 + 2631 WP_012917677 type IV secretion system protein TraC virb4
HS716_RS00305 (pHK01_076) 44239..44625 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HS716_RS00310 (pHK01_077) 44622..45254 + 633 WP_001203728 type-F conjugative transfer system protein TraW traW
HS716_RS00315 (pHK01_078) 45251..46243 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HS716_RS00320 (pHK01_079) 46273..46578 + 306 WP_000224416 hypothetical protein -
HS716_RS00325 (pHK01_080) 46587..47225 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS716_RS00330 (pHK01_081) 47222..49072 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS716_RS00335 (pHK01_082) 49099..49356 + 258 WP_000864353 conjugal transfer protein TrbE -
HS716_RS00340 (pHK01_083) 49349..50092 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HS716_RS00345 (pHK01_084) 50106..50450 + 345 WP_000556796 conjugal transfer protein TrbA -
HS716_RS00350 (pHK01_085) 50569..50853 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HS716_RS00355 (pHK01_086) 50840..51385 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS716_RS00360 (pHK01_087) 51315..51662 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HS716_RS00365 (pHK01_088) 51643..52035 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HS716_RS00370 (pHK01_089) 52022..53395 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS716_RS00375 (pHK01_090) 53392..56214 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HS716_RS00380 (pHK01_091) 56230..56715 + 486 WP_000605870 hypothetical protein -
HS716_RS00385 (pHK01_092) 56764..57495 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HS716_RS00390 (pHK01_093) 57698..58435 + 738 WP_000199905 hypothetical protein -
HS716_RS00395 (pHK01_094) 58486..60711 + 2226 WP_011867779 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   902 GenBank   NC_019057
Plasmid name   pHK01 Incompatibility group   IncFII
Plasmid size   70262 bp Coordinate of oriT [Strand]   32589..33138 [-]
Host baterium   Escherichia coli

Cargo genes

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