Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100263
Name   oriT_pAPEC-O2-ColV in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_007675 (38586..39047 [+], 462 nt)
oriT length   462 nt
IRs (inverted repeats)      142..151, 154..163  (ATAGGGTCGT..ACGACCCTAT)
 231..238, 241..248  (GCAAAAAC..GTTTTTGC)
Location of nic site      257..258
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 462 nt

>oriT_pAPEC-O2-ColV
AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGGCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATGAAAATTGTCAGYACTGACCCTAACAAGGGTCGTCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATTTATAACATAAGCTAATGATTCAAAAAACAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCTTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   334 GenBank   YP_443956
Name   TraI_pAPEC-O2-ColV insolico UniProt ID   Q2TU09
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191802.65 Da        Isoelectric Point: 6.0673

>YP_443956.1 conjugal transfer nickase/helicase TraI (plasmid) [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLRLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGINVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQSERVPGLVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVTSVSEDAMTVVVPGRAEPASLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLSASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12602..39443

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS365_RS00070 (O2ColV111) 12602..14800 - 2199 WP_011402783 type IV conjugative transfer system coupling protein TraD virb4
HS365_RS00075 (O2ColV112) 15053..15784 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
HS365_RS00080 (O2ColV113) 15816..16319 - 504 WP_000605510 hypothetical protein -
HS365_RS00085 (O2ColV114) 16334..19156 - 2823 WP_011251382 conjugal transfer mating-pair stabilization protein TraG traG
HS365_RS00090 (O2ColV115) 19153..20526 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
HS365_RS00095 (O2ColV116) 20526..20888 - 363 WP_011251381 P-type conjugative transfer protein TrbJ -
HS365_RS00100 (O2ColV117) 20818..21361 - 544 Protein_19 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB -
HS365_RS00105 (O2ColV118) 21348..21632 - 285 WP_011402780 type-F conjugative transfer system pilin chaperone TraQ -
HS365_RS00110 (O2ColV119) 21751..22098 - 348 WP_011251380 conjugal transfer protein TrbA -
HS365_RS00115 (O2ColV120) 22114..22857 - 744 WP_001030390 type-F conjugative transfer system pilin assembly protein TraF traF
HS365_RS00120 (O2ColV121) 22850..23107 - 258 WP_172682147 conjugal transfer protein TrbE -
HS365_RS00125 (O2ColV122) 23134..24942 - 1809 WP_011402778 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS365_RS00130 (O2ColV123) 24939..25577 - 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS365_RS00135 (O2ColV124) 25586..26554 - 969 WP_011402777 conjugal transfer pilus assembly protein TraU traU
HS365_RS00140 (O2ColV125) 26554..27207 - 654 WP_011402776 type-F conjugative transfer system protein TraW traW
HS365_RS00145 (O2ColV126) 27204..27590 - 387 WP_011251376 type-F conjugative transfer system protein TrbI -
HS365_RS00150 (O2ColV127) 27587..30217 - 2631 WP_011402775 type IV secretion system protein TraC virb4
HS365_RS00155 (O2ColV128) 30343..30705 - 363 WP_172682148 hypothetical protein -
HS365_RS00160 30733..30948 - 216 WP_000556749 hypothetical protein -
HS365_RS00165 (O2ColV129) 31028..31501 - 474 WP_000549595 hypothetical protein -
HS365_RS00170 (O2ColV130) 31494..31715 - 222 WP_011402773 conjugal transfer protein TraR -
HS365_RS00175 (O2ColV131) 31850..32365 - 516 WP_011402772 type IV conjugative transfer system lipoprotein TraV traV
HS365_RS00180 32362..32614 - 253 Protein_35 conjugal transfer protein TrbG -
HS365_RS00185 (O2ColV132) 32611..32928 - 318 WP_001057292 conjugal transfer protein TrbD virb4
HS365_RS00190 (O2ColV133) 32925..33497 - 573 WP_011402771 conjugal transfer pilus-stabilizing protein TraP -
HS365_RS00195 (O2ColV134) 33487..34914 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
HS365_RS00200 34914..35586 - 673 Protein_39 type-F conjugative transfer system secretin TraK -
HS365_RS00205 (O2ColV135) 35630..36196 - 567 WP_011402770 type IV conjugative transfer system protein TraE traE
HS365_RS00210 (O2ColV136) 36218..36529 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HS365_RS00215 (O2ColV137) 36544..36903 - 360 WP_000340272 type IV conjugative transfer system pilin TraA -
HS365_RS00220 (O2ColV138) 36937..37164 - 228 WP_001254385 conjugal transfer relaxosome protein TraY -
HS365_RS00225 (O2ColV139) 37258..37945 - 688 Protein_44 PAS domain-containing protein -
HS365_RS00230 (O2ColV140) 38136..38519 - 384 WP_000124979 conjugal transfer relaxosome DNA-binding protein TraM -
HS365_RS00235 (O2ColV141) 38796..39443 + 648 WP_000615259 transglycosylase SLT domain-containing protein virB1
HS365_RS00240 (O2ColV142) 39740..40562 - 823 Protein_47 DUF932 domain-containing protein -
HS365_RS00245 (O2ColV143) 40683..40970 - 288 WP_011402766 hypothetical protein -
HS365_RS01040 40995..41181 - 187 Protein_49 single-stranded DNA-binding protein -
HS365_RS00965 41273..41398 + 126 Protein_50 hypothetical protein -
HS365_RS00255 41665..41829 - 165 Protein_51 type I toxin-antitoxin system Hok family toxin -
HS365_RS01045 41831..41887 - 57 Protein_52 hypothetical protein -
HS365_RS00260 41909..42097 + 189 WP_001299721 hypothetical protein -
HS365_RS00265 (O2ColV144) 42066..42828 - 763 Protein_54 plasmid SOS inhibition protein A -
HS365_RS00270 (O2ColV145) 42825..43259 - 435 WP_172682141 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   725 GenBank   NC_007675
Plasmid name   pAPEC-O2-ColV Incompatibility group   IncFII
Plasmid size   184501 bp Coordinate of oriT [Strand]   38586..39047 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   sitABCD
Virulence gene   iucA, iucB, iucC, iutA, iroB, iroC, iroD, iroE, iroN, vat
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -