Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100966
Name   oriT_tig00000856 in_silico
Organism   Klebsiella pneumoniae strain AR_0143
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP021711 (68759..69308 [-], 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_tig00000856
TTACTCTGGCCATAAGATAAAACCTTTCATTATTAAGCAATGAACTTTTCACTATAAATATGCATATAGTGTTTACAAGTAAGAAAGACACTCCTAGCAGCGCCTCTAGGATCATCCTATAAAAAAATGCGATCCGGCGCTAGGGGCGTCCCTAATATATATCAATGTTTTTCATGAAAATTGTCAGTACTGATCCTAATAAGAGTCGCTATAGGGTCGTAACAGGATCGCCAACGACTCTCTATTTAATAATTCAGAATTATTAAATATAAATAGCGTTTGTTAATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCAATCTGCCTGATGTTTATAAATGGGATCTGCGAAGCCGCCGATTGCTTTGATCTTGCAGGTCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1036 GenBank   WP_000948354
Name   TraI_tig00000856 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: 1751..17804

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM390_RS29400 (AM390_29250) 1368..1754 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
AM390_RS29405 (AM390_29255) 1751..2383 + 633 WP_001203728 type-F conjugative transfer system protein TraW traW
AM390_RS29410 (AM390_29260) 2380..3372 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
AM390_RS29415 (AM390_29265) 3402..3707 + 306 WP_000224416 hypothetical protein -
AM390_RS29420 (AM390_29270) 3716..4354 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
AM390_RS29425 (AM390_29275) 4351..6201 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AM390_RS29430 (AM390_29280) 6228..6485 + 258 WP_000864353 conjugal transfer protein TrbE -
AM390_RS29435 (AM390_29285) 6472..7221 + 750 WP_001336806 type-F conjugative transfer system pilin assembly protein TraF traF
AM390_RS29440 (AM390_29290) 7235..7579 + 345 WP_000556796 conjugal transfer protein TrbA -
AM390_RS29445 (AM390_29295) 7698..7982 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
AM390_RS29450 (AM390_29300) 7969..8514 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AM390_RS29455 (AM390_29305) 8444..8791 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
AM390_RS29460 (AM390_29310) 8772..9164 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
AM390_RS29465 (AM390_29315) 9142..10524 + 1383 WP_001309243 conjugal transfer pilus assembly protein TraH traH
AM390_RS29470 (AM390_29320) 10521..13343 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
AM390_RS29475 (AM390_29325) 13359..13844 + 486 WP_000605870 hypothetical protein -
AM390_RS29480 (AM390_29330) 13893..14624 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
AM390_RS29485 (AM390_29335) 14827..15564 + 738 WP_000199905 hypothetical protein -
AM390_RS29490 (AM390_29340) 15615..17804 + 2190 WP_017901267 type IV conjugative transfer system coupling protein TraD virb4

Region 2: 68371..75755

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM390_RS29805 (AM390_29650) 63749..64174 + 426 WP_000422741 transposase -
AM390_RS29810 (AM390_29655) 64171..64521 + 351 WP_000624722 IS66 family insertion sequence element accessory protein TnpB -
AM390_RS29815 (AM390_29660) 64552..66165 + 1614 WP_000080200 IS66-like element ISEc23 family transposase -
AM390_RS30730 66250..66546 - 297 Protein_75 hypothetical protein -
AM390_RS29835 (AM390_29680) 66846..67142 + 297 WP_001272251 hypothetical protein -
AM390_RS29840 (AM390_29685) 67253..68074 + 822 WP_001234445 DUF932 domain-containing protein -
AM390_RS29845 (AM390_29690) 68371..68961 - 591 WP_000252683 transglycosylase SLT domain-containing protein virB1
AM390_RS29850 (AM390_29695) 69296..69679 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
AM390_RS29855 (AM390_29700) 69873..70544 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
AM390_RS29860 (AM390_29705) 70681..70908 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
AM390_RS29865 (AM390_29710) 70941..71300 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
AM390_RS29870 (AM390_29715) 71315..71626 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
AM390_RS29875 (AM390_29720) 71648..72214 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
AM390_RS29880 (AM390_29725) 72201..72929 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
AM390_RS29885 (AM390_29730) 72929..74380 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
AM390_RS29890 (AM390_29735) 74370..74936 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
AM390_RS29895 (AM390_29740) 74923..75243 + 321 WP_001057307 conjugal transfer protein TrbD -
AM390_RS29900 (AM390_29745) 75240..75755 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
AM390_RS29905 (AM390_29750) 75890..76111 + 222 WP_001278683 conjugal transfer protein TraR -
AM390_RS29910 (AM390_29755) 76104..76580 + 477 WP_000549587 hypothetical protein -
AM390_RS29915 (AM390_29760) 76660..76878 + 219 WP_000556745 hypothetical protein -
AM390_RS29920 (AM390_29765) 76906..77253 + 348 WP_000836682 hypothetical protein -

Host bacterium

ID   1424 GenBank   NZ_CP021711
Plasmid name   tig00000856 Incompatibility group   IncFII
Plasmid size   78638 bp Coordinate of oriT [Strand]   68759..69308 [-]
Host baterium   Klebsiella pneumoniae strain AR_0143

Cargo genes

Drug resistance gene   blaCTX-M-15, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -