Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102076
Name   oriT_ARPG-340|unnamed13 in_silico
Organism   Klebsiella pneumoniae strain ARPG-340
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NBOK01000059 (25963..26113 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_ARPG-340|unnamed13
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1653 GenBank   WP_001326173
Name   mobH_B7D67_RS26415_ARPG-340|unnamed13 insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP

ID   1281 GenBank   WP_000178857
Name   traD_B7D67_RS26420_ARPG-340|unnamed13 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.



ID   1282 GenBank   WP_000637384
Name   traC_B7D67_RS26495_ARPG-340|unnamed13 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92604.86 Da        Isoelectric Point: 5.9216

>WP_000637384.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 24047..49190

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B7D67_RS26405 (B7D67_26300) 20078..20311 - 234 WP_001191890 hypothetical protein -
B7D67_RS26410 (B7D67_26305) 20293..20910 - 618 WP_001249395 hypothetical protein -
B7D67_RS26415 (B7D67_26310) 21078..24050 + 2973 WP_001326173 MobH family relaxase -
B7D67_RS26420 (B7D67_26315) 24047..25912 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
B7D67_RS26425 (B7D67_26320) 25962..26507 + 546 WP_000228720 hypothetical protein -
B7D67_RS26430 (B7D67_26325) 26464..27093 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
B7D67_RS26435 (B7D67_26330) 27103..27549 + 447 WP_000122507 hypothetical protein -
B7D67_RS26440 (B7D67_26335) 27559..27936 + 378 WP_000869297 hypothetical protein -
B7D67_RS26445 (B7D67_26340) 27936..28598 + 663 WP_001231464 hypothetical protein -
B7D67_RS30110 28779..28922 + 144 WP_001275801 hypothetical protein -
B7D67_RS26450 (B7D67_26345) 28934..29299 + 366 WP_001052530 hypothetical protein -
B7D67_RS26455 (B7D67_26350) 29444..29725 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
B7D67_RS26460 (B7D67_26355) 29722..30348 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
B7D67_RS26465 (B7D67_26360) 30332..31249 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
B7D67_RS26470 (B7D67_26365) 31249..32562 + 1314 WP_024131605 TraB/VirB10 family protein traB
B7D67_RS26475 (B7D67_26370) 32559..33137 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
B7D67_RS26480 (B7D67_26375) 33141..33533 + 393 WP_000479535 TraA family conjugative transfer protein -
B7D67_RS26485 (B7D67_26380) 33734..39220 + 5487 WP_000606835 Ig-like domain-containing protein -
B7D67_RS26490 (B7D67_26385) 39369..40076 + 708 WP_001259346 DsbC family protein -
B7D67_RS26495 (B7D67_26390) 40073..42520 + 2448 WP_000637384 type IV secretion system protein TraC virb4
B7D67_RS26500 (B7D67_26395) 42535..42852 + 318 WP_000351984 hypothetical protein -
B7D67_RS26505 (B7D67_26400) 42849..43379 + 531 WP_001010740 S26 family signal peptidase -
B7D67_RS26510 (B7D67_26405) 43342..44607 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
B7D67_RS26515 (B7D67_26410) 44604..45275 + 672 WP_000575345 EAL domain-containing protein -
B7D67_RS26520 (B7D67_26415) 45275..46279 + 1005 WP_005507569 TraU family protein traU
B7D67_RS26525 (B7D67_26420) 46395..49190 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
B7D67_RS26530 (B7D67_26425) 49229..50089 - 861 WP_000709517 hypothetical protein -
B7D67_RS26535 (B7D67_26430) 50212..50853 - 642 WP_000796664 hypothetical protein -
B7D67_RS26540 (B7D67_26435) 51148..51468 + 321 WP_000547566 hypothetical protein -
B7D67_RS26545 (B7D67_26440) 51772..51957 + 186 WP_001186917 hypothetical protein -
B7D67_RS26550 (B7D67_26445) 52177..53145 + 969 WP_000085160 AAA family ATPase -
B7D67_RS26555 (B7D67_26450) 53156..54064 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   2520 GenBank   NZ_NBOK01000059
Plasmid name   ARPG-340|unnamed13 Incompatibility group   -
Plasmid size   78425 bp Coordinate of oriT [Strand]   25963..26113 [+]
Host baterium   Klebsiella pneumoniae strain ARPG-340

Cargo genes

Drug resistance gene   floR, erm(42)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -