Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100352
Name   oriT_pKF3-70 in_silico
Organism   Klebsiella pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_013542 (52120..52398 [+], 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    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 279 nt

>oriT_pKF3-70
CGCTAGCAGCGCCCCTGACGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGCTGTAGCTGCGTTAACGACGCTGCTTTAAAAAAATCAGATTTAAACAATATAAATCCACAAATACAACTCAATGATATTAAAGATAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   423 GenBank   YP_003329195
Name   TraI_pKF3-70 insolico UniProt ID   D2D9B5
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191754.34 Da        Isoelectric Point: 5.8498

>YP_003329195.1 TraI (plasmid) [Klebsiella pneumoniae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPRTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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: 24687..52966

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS583_RS00140 (pKF370p25) 24687..26858 - 2172 WP_012881121 type IV conjugative transfer system coupling protein TraD virb4
HS583_RS00145 (pKF370p26) 26909..27646 - 738 WP_012881122 hypothetical protein -
HS583_RS00150 (pKF370p27) 27849..28580 - 732 WP_012881123 conjugal transfer complement resistance protein TraT -
HS583_RS00155 (pKF370p28) 28594..29103 - 510 WP_000628111 conjugal transfer entry exclusion protein TraS -
HS583_RS00160 (pKF370p29) 29100..31925 - 2826 WP_012881124 conjugal transfer mating-pair stabilization protein TraG traG
HS583_RS00165 (pKF370p30) 31922..33295 - 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HS583_RS00170 (pKF370p31) 33282..33674 - 393 WP_000659962 F-type conjugal transfer protein TrbF -
HS583_RS00175 (pKF370p32) 33655..34002 - 348 WP_011666494 P-type conjugative transfer protein TrbJ -
HS583_RS00180 (pKF370p33) 33932..34477 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS583_RS00185 (pKF370p34) 34464..34748 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
HS583_RS00190 (pKF370p35) 34829..35164 + 336 WP_000736414 hypothetical protein -
HS583_RS00195 (pKF370p36) 35145..35486 - 342 WP_000556795 conjugal transfer protein TrbA -
HS583_RS00200 (pKF370p37) 35500..36249 - 750 WP_001336806 type-F conjugative transfer system pilin assembly protein TraF traF
HS583_RS00205 (pKF370p38) 36236..36493 - 258 WP_000864353 conjugal transfer protein TrbE -
HS583_RS00210 (pKF370p39) 36520..38370 - 1851 WP_012881125 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS583_RS00215 (pKF370p40) 38367..39005 - 639 WP_012881126 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS583_RS00220 (pKF370p41) 39014..39319 - 306 WP_000224418 hypothetical protein -
HS583_RS00225 (pKF370p42) 39349..40341 - 993 WP_000830849 conjugal transfer pilus assembly protein TraU traU
HS583_RS00230 (pKF370p43) 40338..40970 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HS583_RS00235 (pKF370p44) 40967..41353 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HS583_RS00240 (pKF370p45) 41350..43980 - 2631 WP_000069772 type IV secretion system protein TraC virb4
HS583_RS00245 (pKF370p46) 44106..44453 - 348 WP_000836682 hypothetical protein -
HS583_RS00250 (pKF370p47) 44481..44699 - 219 WP_000556745 hypothetical protein -
HS583_RS00255 (pKF370p48) 44798..45274 - 477 WP_012881127 hypothetical protein -
HS583_RS00260 (pKF370p49) 45267..45488 - 222 WP_001278683 conjugal transfer protein TraR -
HS583_RS00265 (pKF370p50) 45623..46138 - 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HS583_RS00270 (pKF370p51) 46135..46455 - 321 WP_012881128 conjugal transfer protein TrbD -
HS583_RS00275 (pKF370p52) 46442..47032 - 591 WP_012881129 conjugal transfer pilus-stabilizing protein TraP -
HS583_RS00280 (pKF370p53) 47022..48449 - 1428 WP_012881130 F-type conjugal transfer pilus assembly protein TraB traB
HS583_RS00285 (pKF370p54) 48449..49177 - 729 WP_001230769 type-F conjugative transfer system secretin TraK traK
HS583_RS00290 (pKF370p55) 49164..49730 - 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HS583_RS00295 (pKF370p56) 49752..50063 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
HS583_RS00300 (pKF370p57) 50078..50440 - 363 WP_012881131 type IV conjugative transfer system pilin TraA -
HS583_RS00305 (pKF370p58) 50474..50701 - 228 WP_000589556 conjugal transfer relaxosome protein TraY -
HS583_RS00310 (pKF370p59) 50821..51468 - 648 WP_000332523 transcriptional regulator TraJ family protein -
HS583_RS00315 (pKF370p60) 51660..52043 - 384 WP_001151529 conjugal transfer relaxosome DNA-binding protein TraM -
HS583_RS00320 (pKF370p61) 52364..52966 + 603 WP_000243715 transglycosylase SLT domain-containing protein -
HS583_RS00325 (pKF370p63) 53262..54083 - 822 WP_001234437 DUF932 domain-containing protein -
HS583_RS00330 (pKF370p64) 54193..54489 - 297 WP_001272251 hypothetical protein -
HS583_RS00440 54960..55226 - 267 WP_071828223 hypothetical protein -
HS583_RS00335 (pKF370p68) 55492..55734 - 243 WP_000540588 hypothetical protein -
HS583_RS00340 (pKF370p69) 55793..56116 - 324 WP_000533253 hypothetical protein -
HS583_RS00345 56412..56661 + 250 Protein_70 hypothetical protein -
HS583_RS00350 (pKF370p72) 56962..57084 - 123 WP_223412041 Hok/Gef family protein -
HS583_RS00445 57029..57181 - 153 Protein_72 DUF5431 family protein -
HS583_RS00355 (pKF370p73) 57332..57646 - 315 WP_000872086 hypothetical protein -

Host bacterium

ID   813 GenBank   NC_013542
Plasmid name   pKF3-70 Incompatibility group   IncFII
Plasmid size   70057 bp Coordinate of oriT [Strand]   52120..52398 [+]
Host baterium   Klebsiella pneumoniae

Cargo genes

Drug resistance gene   blaCTX-M-14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -