Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100395
Name   oriT_pR55 in_silico
Organism   Klebsiella pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_016976 (58499..59049 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      IR1: 62..70, 71..79  (AACCCTTTC..GACAGGGTT)
  IR2: 143..150, 154..161  (TGGCCTGC..GGAGGCCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pR55
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   466 GenBank   YP_005351946
Name   TraI_pR55 insolico UniProt ID   H6VZL3
Length   992 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>YP_005351946.1 type IV conjugative transfer system protein TraI (plasmid) [Klebsiella pneumoniae]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB H6VZL3


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 56633..81824

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS904_RS00400 (R55_188) 52658..52891 - 234 WP_001191892 hypothetical protein -
HS904_RS00405 (R55_67) 52873..53490 - 618 WP_001249396 hypothetical protein -
HS904_RS00410 (R55_68) 53658..56636 + 2979 WP_001337757 MobH family relaxase -
HS904_RS00415 (R55_69) 56633..58498 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HS904_RS00420 (R55_70) 58509..59093 + 585 WP_000332866 hypothetical protein -
HS904_RS00425 (R55_71) 59050..59679 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HS904_RS00430 (R55_72) 59689..60135 + 447 WP_000122506 hypothetical protein -
HS904_RS00435 (R55_73) 60145..60522 + 378 WP_000869261 hypothetical protein -
HS904_RS00440 (R55_74) 60522..61184 + 663 WP_001231463 hypothetical protein -
HS904_RS00445 61365..61508 + 144 WP_001275801 hypothetical protein -
HS904_RS00450 (R55_75) 61520..61885 + 366 WP_001052531 hypothetical protein -
HS904_RS00455 (R55_76) 62030..62311 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HS904_RS00460 (R55_77) 62308..62934 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HS904_RS00465 (R55_78) 62918..63835 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HS904_RS00470 (R55_79) 63835..65148 + 1314 WP_024131605 TraB/VirB10 family protein traB
HS904_RS00475 (R55_80) 65145..65723 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HS904_RS00480 (R55_81) 65727..66119 + 393 WP_000479535 TraA family conjugative transfer protein -
HS904_RS00485 (R55_82) 66320..71851 + 5532 WP_000606833 Ig-like domain-containing protein -
HS904_RS00490 (R55_83) 72000..72707 + 708 WP_001259347 DsbC family protein -
HS904_RS00495 (R55_84) 72704..75151 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HS904_RS00500 (R55_85) 75166..75483 + 318 WP_000351984 hypothetical protein -
HS904_RS00505 (R55_86) 75480..76010 + 531 WP_001010738 S26 family signal peptidase -
HS904_RS00510 (R55_87) 75973..77238 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HS904_RS00515 (R55_88) 77235..77906 + 672 WP_001337754 EAL domain-containing protein -
HS904_RS00520 (R55_89) 77906..78910 + 1005 WP_043940352 TraU family protein traU
HS904_RS00525 (R55_90) 79026..81824 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
HS904_RS00530 (R55_91) 81863..82723 - 861 WP_000709517 hypothetical protein -
HS904_RS00535 (R55_92) 82845..83486 - 642 WP_000796664 hypothetical protein -
HS904_RS00540 (R55_93) 83780..84100 + 321 WP_000547566 hypothetical protein -
HS904_RS00545 (R55_94) 84404..84589 + 186 WP_001186917 hypothetical protein -
HS904_RS00550 (R55_95) 84809..85777 + 969 WP_000085162 AAA family ATPase -
HS904_RS00555 (R55_96) 85788..86696 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   856 GenBank   NC_016976
Plasmid name   pR55 Incompatibility group   IncA/C2
Plasmid size   170810 bp Coordinate of oriT [Strand]   58499..59049 [+]
Host baterium   Klebsiella pneumoniae

Cargo genes

Drug resistance gene   floR, sul2, catA1, ant(2'')-Ia, blaOXA-21, qacE, sul1
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -