Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100993
Name   oriT_Plasmid_E_Kpneumoniae_MS6671 in_silico
Organism   Klebsiella pneumoniae strain MS6671
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_LN824138 (59925..60474 [+], 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_Plasmid_E_Kpneumoniae_MS6671
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1063 GenBank   WP_000948354
Name   TraIofPlasmid_E_Kpneumoniae_MS6671 insolico UniProt ID   _
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

>WP_000948354.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
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: 32719..60862

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MS6671_RS29215 (MS6671_pE0300) 32719..34980 - 2262 WP_046072940 type IV conjugative transfer system coupling protein TraD virb4
MS6671_RS29220 (MS6671_pE0310) 35031..35768 - 738 WP_000199905 hypothetical protein -
MS6671_RS29225 (MS6671_pE0320) 35971..36702 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
MS6671_RS31500 (MS6671_pE0330) 36751..37236 - 486 WP_000605870 hypothetical protein -
MS6671_RS29230 (MS6671_pE0340) 37252..40074 - 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
MS6671_RS29235 (MS6671_pE0350) 40071..41453 - 1383 WP_001309243 conjugal transfer pilus assembly protein TraH traH
MS6671_RS29240 (MS6671_pE0360) 41431..41823 - 393 WP_000660699 F-type conjugal transfer protein TrbF -
MS6671_RS31505 41804..42151 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
MS6671_RS29245 (MS6671_pE0370) 42081..42626 - 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MS6671_RS29250 (MS6671_pE0380) 42613..42897 - 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
MS6671_RS31510 (MS6671_pE0390) 43016..43360 - 345 WP_000556796 conjugal transfer protein TrbA -
MS6671_RS29255 (MS6671_pE0400) 43374..44123 - 750 WP_001336806 type-F conjugative transfer system pilin assembly protein TraF traF
MS6671_RS29260 (MS6671_pE0410) 44110..44367 - 258 WP_000864353 conjugal transfer protein TrbE -
MS6671_RS29265 (MS6671_pE0420) 44394..46244 - 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MS6671_RS29270 (MS6671_pE0430) 46241..46879 - 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
MS6671_RS29275 (MS6671_pE0440) 46888..47193 - 306 WP_000224416 hypothetical protein -
MS6671_RS29280 (MS6671_pE0450) 47223..48215 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
MS6671_RS29285 (MS6671_pE0460) 48212..48844 - 633 WP_001203728 type-F conjugative transfer system protein TraW traW
MS6671_RS29290 (MS6671_pE0470) 48841..49227 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
MS6671_RS29295 (MS6671_pE0480) 49224..51854 - 2631 WP_000069777 type IV secretion system protein TraC virb4
MS6671_RS29300 (MS6671_pE0490) 51980..52327 - 348 WP_000836682 hypothetical protein -
MS6671_RS29305 (MS6671_pE0500) 52355..52573 - 219 WP_000556745 hypothetical protein -
MS6671_RS29310 (MS6671_pE0510) 52653..53129 - 477 WP_000549587 hypothetical protein -
MS6671_RS31515 53122..53343 - 222 WP_001278683 conjugal transfer protein TraR -
MS6671_RS29315 (MS6671_pE0520) 53478..53993 - 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
MS6671_RS31520 (MS6671_pE0530) 53990..54310 - 321 WP_001057307 conjugal transfer protein TrbD -
MS6671_RS29320 (MS6671_pE0540) 54297..54863 - 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
MS6671_RS29325 (MS6671_pE0550) 54853..56304 - 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
MS6671_RS29330 (MS6671_pE0560) 56304..57032 - 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
MS6671_RS29335 (MS6671_pE0570) 57019..57585 - 567 WP_000399780 type IV conjugative transfer system protein TraE traE
MS6671_RS29340 (MS6671_pE0580) 57607..57918 - 312 WP_000012113 type IV conjugative transfer system protein TraL traL
MS6671_RS29345 (MS6671_pE0590) 57933..58292 - 360 WP_001098992 type IV conjugative transfer system pilin TraA -
MS6671_RS29350 58325..58552 - 228 WP_000089263 conjugal transfer relaxosome protein TraY -
MS6671_RS31525 (MS6671_pE0600) 58689..59360 - 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
MS6671_RS29355 (MS6671_pE0610) 59554..59937 - 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
MS6671_RS29360 (MS6671_pE0620) 60272..60862 + 591 WP_000252683 transglycosylase SLT domain-containing protein virB1
MS6671_RS29365 (MS6671_pE0630) 61159..61980 - 822 WP_001234445 DUF932 domain-containing protein -
MS6671_RS29370 (MS6671_pE0640) 62091..62387 - 297 WP_001272251 hypothetical protein -
MS6671_RS32895 62687..62983 + 297 Protein_76 hypothetical protein -
MS6671_RS31545 (MS6671_pE0650) 63302..63427 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
MS6671_RS33285 (MS6671_pE0650) 63369..63518 - 150 Protein_78 plasmid maintenance protein Mok -
MS6671_RS29380 (MS6671_pE0660) 63740..64459 - 720 WP_001276217 plasmid SOS inhibition protein A -
MS6671_RS29385 (MS6671_pE0670) 64456..64890 - 435 WP_000845953 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1451 GenBank   NZ_LN824138
Plasmid name   Plasmid_E_Kpneumoniae_MS6671 Incompatibility group   IncFII
Plasmid size   84940 bp Coordinate of oriT [Strand]   59925..60474 [+]
Host baterium   Klebsiella pneumoniae strain MS6671

Cargo genes

Drug resistance gene   dfrA12, aadA2, rmtF
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF11