Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100809
Name   oriT_pSLy2 in_silico
Organism   Escherichia coli strain 210205630 isolate 210205630
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP015914 (42515..42804 [+], 290 nt)
oriT length   290 nt
IRs (inverted repeats)      225..232, 235..242 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      251..252
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 290 nt

>oriT_pSLy2
CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAAGAGAAACTAATTTTTCATAACTCTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   881 GenBank   WP_054377139
Name   TraI_pSLy2 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191884.75 Da        Isoelectric Point: 6.1058

>WP_054377139.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHTVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNSYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVTSVSEDAMTVVVPGRAEPASLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGEILLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESGRPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSGRQQTRVIRPAQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGSRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETVRRADEIVRKMAENKPDLP
DSKTEQAVREIAGQERDRSAISEREAALPESVLRESQREREAVREIARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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: 18125..43366

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A9C00_RS25330 (A9C00_25330) 18125..20287 - 2163 WP_065304458 type IV conjugative transfer system coupling protein TraD virb4
A9C00_RS25335 (A9C00_25335) 20540..21271 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
A9C00_RS25340 (A9C00_25340) 21303..21806 - 504 WP_000605510 hypothetical protein -
A9C00_RS25345 (A9C00_25345) 21821..24643 - 2823 WP_001007048 conjugal transfer mating-pair stabilization protein TraG traG
A9C00_RS25350 (A9C00_25350) 24640..26013 - 1374 WP_170926237 conjugal transfer pilus assembly protein TraH traH
A9C00_RS25355 (A9C00_25355) 26013..26375 - 363 WP_001443292 P-type conjugative transfer protein TrbJ -
A9C00_RS25360 (A9C00_25360) 26305..26850 - 546 WP_000052613 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A9C00_RS25365 (A9C00_25365) 26837..27073 - 237 WP_054377141 type-F conjugative transfer system pilin chaperone TraQ -
A9C00_RS25370 (A9C00_25370) 27234..27977 - 744 WP_039002205 type-F conjugative transfer system pilin assembly protein TraF traF
A9C00_RS25375 (A9C00_25375) 27970..28230 - 261 WP_000864348 conjugal transfer protein TrbE -
A9C00_RS25380 (A9C00_25380) 28257..30065 - 1809 WP_000821844 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A9C00_RS25385 (A9C00_25385) 30062..30700 - 639 WP_000777691 type-F conjugative transfer system pilin assembly protein TrbC trbC
A9C00_RS25390 (A9C00_25390) 30709..31701 - 993 WP_023148235 conjugal transfer pilus assembly protein TraU traU
A9C00_RS25395 (A9C00_25395) 31698..32330 - 633 WP_001749440 type-F conjugative transfer system protein TraW traW
A9C00_RS25400 (A9C00_25400) 32327..32713 - 387 WP_039002198 type-F conjugative transfer system protein TrbI -
A9C00_RS25405 (A9C00_25405) 32710..35337 - 2628 WP_001064265 type IV secretion system protein TraC virb4
A9C00_RS28955 35497..35718 - 222 WP_001278692 conjugal transfer protein TraR -
A9C00_RS25410 (A9C00_25410) 35853..36368 - 516 WP_000724019 type IV conjugative transfer system lipoprotein TraV traV
A9C00_RS25415 (A9C00_25415) 36365..36685 - 321 WP_001057285 conjugal transfer protein TrbD -
A9C00_RS25420 (A9C00_25420) 36672..37259 - 588 WP_000002772 conjugal transfer pilus-stabilizing protein TraP -
A9C00_RS25425 (A9C00_25425) 37249..38676 - 1428 WP_000146690 F-type conjugal transfer pilus assembly protein TraB traB
A9C00_RS25430 (A9C00_25430) 38676..39404 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
A9C00_RS25435 (A9C00_25435) 39391..39957 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
A9C00_RS25440 (A9C00_25440) 39979..40290 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
A9C00_RS25445 (A9C00_25445) 40295..40657 - 363 WP_000994784 type IV conjugative transfer system pilin TraA -
A9C00_RS25450 (A9C00_25450) 40690..41085 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
A9C00_RS25455 (A9C00_25455) 41184..41873 - 690 WP_039002187 conjugal transfer transcriptional regulator TraJ -
A9C00_RS25460 (A9C00_25460) 42060..42443 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
A9C00_RS25465 (A9C00_25465) 42776..43366 + 591 WP_001376243 transglycosylase SLT domain-containing protein virB1
A9C00_RS25470 (A9C00_25470) 43663..44484 - 822 WP_001234469 DUF932 domain-containing protein -
A9C00_RS31415 44606..44788 - 183 WP_170979925 hypothetical protein -
A9C00_RS25480 (A9C00_25480) 44894..47860 - 2967 WP_000008826 Tn3 family transposase -

Host bacterium

ID   1269 GenBank   NZ_CP015914
Plasmid name   pSLy2 Incompatibility group   IncFIC
Plasmid size   129035 bp Coordinate of oriT [Strand]   42515..42804 [+]
Host baterium   Escherichia coli strain 210205630 isolate 210205630

Cargo genes

Drug resistance gene   oqxB, oqxA, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -