Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100703
Name   oriT_pCI5 in_silico
Organism   Escherichia coli strain CI5
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP011019 (136703..137244 [+], 542 nt)
oriT length   542 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    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 542 nt

>oriT_pCI5
TTACTCTGGCCACAAGATAAAACCTTTCATCATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAATAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGTGCCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGGGTCGCTATAGGGTCGTAACAGGATCGCTAACGACTCTTTATTTAATAATTCAGAATTATTAAATATAAATAGCATTTGTTAATTGCATGATTTAAAACACAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCAGGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   775 GenBank   WP_046201752
Name   TraI_pCI5 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192186.85 Da        Isoelectric Point: 5.9898

>WP_046201752.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTNKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVGFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQT
LKETGFDIRAYRDAADQRADLRTLTPGPASPDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAVSVKAGEESVAQVSGVREQAILTQTIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVSSVSEEAMTVVVPGRAEPATLPVSDSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KTRAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFTELGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREVVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSYGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DSRTEQSVREIAGQERERAVITEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

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

(633-712)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 103233..137640

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VK74_RS24845 (VK74_24835) 103233..105440 - 2208 WP_046201753 type IV conjugative transfer system coupling protein TraD virb4
VK74_RS24850 (VK74_24840) 105692..106423 - 732 WP_046201754 conjugal transfer complement resistance protein TraT -
VK74_RS24855 (VK74_24845) 106437..106946 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
VK74_RS24860 (VK74_24850) 106943..109789 - 2847 WP_046201755 conjugal transfer mating-pair stabilization protein TraG traG
VK74_RS24865 (VK74_24855) 109786..111159 - 1374 WP_046201756 conjugal transfer pilus assembly protein TraH traH
VK74_RS24870 (VK74_24860) 111146..111538 - 393 WP_046201757 F-type conjugal transfer protein TrbF -
VK74_RS27560 111492..111806 - 315 WP_244468205 P-type conjugative transfer protein TrbJ -
VK74_RS24875 (VK74_24865) 111796..112341 - 546 WP_046201758 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
VK74_RS24880 (VK74_24870) 112328..112609 - 282 WP_046201759 type-F conjugative transfer system pilin chaperone TraQ -
VK74_RS24885 (VK74_24875) 112675..113076 - 402 WP_244468206 hypothetical protein -
VK74_RS24890 (VK74_24880) 113207..113572 - 366 WP_021572669 hypothetical protein -
VK74_RS24895 (VK74_24885) 113586..114329 - 744 WP_046201761 type-F conjugative transfer system pilin assembly protein TraF traF
VK74_RS24900 (VK74_24890) 114322..114579 - 258 WP_046201762 conjugal transfer protein TrbE -
VK74_RS24905 (VK74_24895) 114606..116435 - 1830 WP_046201763 type-F conjugative transfer system mating-pair stabilization protein TraN traN
VK74_RS24910 (VK74_24900) 116432..116854 - 423 WP_046201764 HNH endonuclease signature motif containing protein -
VK74_RS27565 116880..117251 - 372 WP_071886277 hypothetical protein -
VK74_RS24915 (VK74_24905) 117248..117886 - 639 WP_046201765 type-F conjugative transfer system pilin assembly protein TrbC trbC
VK74_RS24920 (VK74_24910) 118079..118318 + 240 WP_001066128 hypothetical protein -
VK74_RS28700 118315..118494 - 180 WP_058153243 hypothetical protein -
VK74_RS24925 (VK74_24915) 118515..119507 - 993 WP_046201766 conjugal transfer pilus assembly protein TraU traU
VK74_RS24930 (VK74_24920) 119504..120136 - 633 WP_046201767 type-F conjugative transfer system protein TraW traW
VK74_RS24935 (VK74_24925) 120133..120519 - 387 WP_046201768 type-F conjugative transfer system protein TrbI -
VK74_RS24940 (VK74_24930) 120516..121916 - 1401 Protein_113 type IV secretion system protein TraC -
VK74_RS24945 (VK74_24935) 122538..123548 + 1011 Protein_114 group II intron reverse transcriptase/maturase -
VK74_RS24950 (VK74_24940) 123587..125125 - 1539 WP_000099202 IS66-like element ISEc22 family transposase -
VK74_RS24955 (VK74_24945) 125174..125521 - 348 WP_000612626 IS66 family insertion sequence element accessory protein TnpB -
VK74_RS24960 (VK74_24950) 125518..125922 - 405 WP_000839179 transposase -
VK74_RS24965 (VK74_24955) 125921..126700 + 780 WP_244468207 group II intron maturase-specific domain-containing protein -
VK74_RS24970 (VK74_24960) 126785..128011 - 1227 Protein_119 TraC family protein -
VK74_RS28705 (VK74_24965) 128144..128491 - 348 WP_046201769 hypothetical protein -
VK74_RS24980 (VK74_24970) 128519..128737 - 219 WP_046201770 hypothetical protein -
VK74_RS24985 (VK74_24975) 128817..129290 - 474 WP_046201771 hypothetical protein -
VK74_RS24990 (VK74_24980) 129283..129696 - 414 WP_046201772 hypothetical protein -
VK74_RS27575 (VK74_24985) 129689..129910 - 222 WP_046201773 conjugal transfer protein TraR -
VK74_RS25000 (VK74_24990) 130045..130560 - 516 WP_046201774 type IV conjugative transfer system lipoprotein TraV traV
VK74_RS25005 (VK74_24995) 130557..130808 - 252 WP_046201775 conjugal transfer protein TrbG -
VK74_RS25785 (VK74_25000) 130801..131122 - 322 Protein_127 conjugal transfer protein TrbD -
VK74_RS25015 (VK74_25005) 131109..131669 - 561 WP_046201776 conjugal transfer pilus-stabilizing protein TraP -
VK74_RS25020 (VK74_25010) 131659..133107 - 1449 WP_046201777 F-type conjugal transfer pilus assembly protein TraB traB
VK74_RS25025 (VK74_25015) 133107..133835 - 729 WP_046201778 type-F conjugative transfer system secretin TraK traK
VK74_RS25030 (VK74_25020) 133822..134388 - 567 WP_046201779 type IV conjugative transfer system protein TraE traE
VK74_RS25035 (VK74_25025) 134410..134721 - 312 WP_046201780 type IV conjugative transfer system protein TraL traL
VK74_RS25040 (VK74_25030) 134736..135101 - 366 WP_046201781 type IV conjugative transfer system pilin TraA -
VK74_RS27580 135134..135361 - 228 WP_071886279 conjugal transfer relaxosome protein TraY -
VK74_RS25045 (VK74_25035) 135486..136139 - 654 WP_046201782 conjugal transfer protein TraJ -
VK74_RS25050 (VK74_25040) 136332..136715 - 384 WP_046201845 conjugal transfer relaxosome DNA-binding protein TraM -
VK74_RS25055 (VK74_25045) 137038..137640 + 603 WP_077787755 transglycosylase SLT domain-containing protein virB1
VK74_RS25060 (VK74_25050) 137936..138757 - 822 WP_046201784 DUF932 domain-containing protein -
VK74_RS25065 (VK74_25055) 138876..139163 - 288 WP_046201785 hypothetical protein -
VK74_RS25070 (VK74_25060) 139319..139621 - 303 WP_046201786 hypothetical protein -
VK74_RS29010 (VK74_25065) 139645..139851 - 207 WP_046201787 hypothetical protein -
VK74_RS29385 (VK74_25070) 139921..140218 + 298 Protein_142 hypothetical protein -
VK74_RS25085 (VK74_25075) 140527..140649 - 123 WP_223200913 Hok/Gef family protein -
VK74_RS29390 140594..140746 - 153 Protein_144 DUF5431 family protein -
VK74_RS25095 (VK74_25085) 140895..141209 - 315 WP_000872077 hypothetical protein -
VK74_RS25100 (VK74_25090) 141206..141925 - 720 WP_046201788 plasmid SOS inhibition protein A -
VK74_RS25105 (VK74_25095) 141922..142356 - 435 WP_046201789 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1163 GenBank   NZ_CP011019
Plasmid name   pCI5 Incompatibility group   IncFIB
Plasmid size   207265 bp Coordinate of oriT [Strand]   136703..137244 [+]
Host baterium   Escherichia coli strain CI5

Cargo genes

Drug resistance gene   -
Virulence gene   pic
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -