Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100740
Name   oriT_pSF-173-1 in_silico
Organism   Escherichia coli strain SF-173
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP012632 (17384..17662 [+], 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    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 279 nt

>oriT_pSF-173-1
CGCTAGCAGCGCCCCTGACGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGCTGTAGCTGCGTTAACGACGCTGCTTTAAATAAATCAGATTTAAACAATATAAATCCACAAATACAACTCAATGATATTAAAGATAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   812 GenBank   WP_053811582
Name   TraI_pSF-173-1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191806.45 Da        Isoelectric Point: 5.8505

>WP_053811582.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQDGMTFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQILITDSGQRTGTGSALMSMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(968-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 379..18230

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AN205_RS27475 30..365 - 336 WP_071882627 conjugal transfer protein TrbA -
AN205_RS25075 (AN205_25165) 379..1122 - 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
AN205_RS25080 (AN205_25170) 1115..1372 - 258 WP_000864329 conjugal transfer protein TrbE -
AN205_RS25085 (AN205_25175) 1399..3249 - 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AN205_RS25090 (AN205_25180) 3246..3884 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
AN205_RS25095 (AN205_25185) 3893..4198 - 306 WP_000224418 hypothetical protein -
AN205_RS25100 (AN205_25190) 4228..5220 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
AN205_RS25105 (AN205_25195) 5217..5849 - 633 WP_024220641 type-F conjugative transfer system protein TraW traW
AN205_RS25110 (AN205_25200) 5846..6232 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
AN205_RS25115 (AN205_25205) 6229..8859 - 2631 WP_015075088 type IV secretion system protein TraC virb4
AN205_RS28765 (AN205_25210) 8985..9332 - 348 WP_000836682 hypothetical protein -
AN205_RS25125 (AN205_25215) 9360..9578 - 219 WP_000556751 hypothetical protein -
AN205_RS25130 (AN205_25220) 9659..10132 - 474 WP_016249716 hypothetical protein -
AN205_RS25135 (AN205_25225) 10125..10538 - 414 WP_000549589 hypothetical protein -
AN205_RS27480 (AN205_25230) 10531..10752 - 222 WP_001278695 conjugal transfer protein TraR -
AN205_RS25140 (AN205_25235) 10887..11402 - 516 WP_053811575 type IV conjugative transfer system lipoprotein TraV traV
AN205_RS25145 (AN205_25240) 11402..11719 - 318 WP_001057297 conjugal transfer protein TrbD -
AN205_RS25150 (AN205_25245) 11706..12272 - 567 WP_000896598 conjugal transfer pilus-stabilizing protein TraP -
AN205_RS25155 (AN205_25250) 12262..13713 - 1452 WP_000146683 F-type conjugal transfer pilus assembly protein TraB traB
AN205_RS25160 (AN205_25255) 13713..14441 - 729 WP_001230769 type-F conjugative transfer system secretin TraK traK
AN205_RS25165 (AN205_25260) 14428..14994 - 567 WP_000399775 type IV conjugative transfer system protein TraE traE
AN205_RS25170 (AN205_25265) 15016..15327 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
AN205_RS25175 (AN205_25270) 15342..15704 - 363 WP_001098993 type IV conjugative transfer system pilin TraA -
AN205_RS25180 (AN205_25275) 15738..15965 - 228 WP_000589556 conjugal transfer relaxosome protein TraY -
AN205_RS25185 (AN205_25280) 16085..16732 - 648 WP_053811576 transcriptional regulator TraJ family protein -
AN205_RS25190 (AN205_25285) 16924..17307 - 384 WP_001151529 conjugal transfer relaxosome DNA-binding protein TraM -
AN205_RS25195 (AN205_25290) 17583..18230 + 648 WP_000601040 transglycosylase SLT domain-containing protein virB1
AN205_RS25200 (AN205_25295) 18526..19347 - 822 WP_001234469 DUF932 domain-containing protein -
AN205_RS25205 (AN205_25300) 19467..19754 - 288 WP_000107535 hypothetical protein -
AN205_RS28770 (AN205_25305) 19756..19953 + 198 Protein_29 hypothetical protein -
AN205_RS29425 19951..20181 - 231 WP_071593758 hypothetical protein -
AN205_RS25215 (AN205_25310) 20401..20526 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
AN205_RS29430 20468..20617 - 150 Protein_32 plasmid maintenance protein Mok -
AN205_RS28870 (AN205_25315) 20639..20827 + 189 WP_001336239 hypothetical protein -
AN205_RS25225 (AN205_25320) 20796..21558 - 763 Protein_34 plasmid SOS inhibition protein A -
AN205_RS25230 (AN205_25325) 21555..21989 - 435 WP_000845923 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1200 GenBank   NZ_CP012632
Plasmid name   pSF-173-1 Incompatibility group   IncFII
Plasmid size   93074 bp Coordinate of oriT [Strand]   17384..17662 [+]
Host baterium   Escherichia coli strain SF-173

Cargo genes

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