Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101364
Name   oriT_pUMNturkey9_IncAC in_silico
Organism   Klebsiella pneumoniae strain UMNturkey9
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JRRF01000027 (30200..30350 [+], 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_pUMNturkey9_IncAC
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1257 GenBank   WP_001326173
Name   mobH_LS45_RS28930_pUMNturkey9_IncAC 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   866 GenBank   WP_000178857
Name   traD_LS45_RS25350_pUMNturkey9_IncAC 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 28284..37374

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LS45_RS25335 (LS45_25350) 24315..24548 - 234 WP_001191890 hypothetical protein -
LS45_RS25340 (LS45_25355) 24530..25147 - 618 WP_001249395 hypothetical protein -
LS45_RS28930 (LS45_25360) 25315..28287 + 2973 WP_001326173 MobH family relaxase -
LS45_RS25350 (LS45_25365) 28284..30149 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
LS45_RS25355 (LS45_25370) 30199..30744 + 546 WP_000228720 hypothetical protein -
LS45_RS25360 (LS45_25375) 30701..31330 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
LS45_RS25365 (LS45_25380) 31340..31786 + 447 WP_000122507 hypothetical protein -
LS45_RS25370 (LS45_25385) 31796..32173 + 378 WP_000869297 hypothetical protein -
LS45_RS25375 (LS45_25390) 32173..32835 + 663 WP_001231464 hypothetical protein -
LS45_RS32135 33016..33159 + 144 WP_001275801 hypothetical protein -
LS45_RS25380 (LS45_25395) 33171..33536 + 366 WP_001052530 hypothetical protein -
LS45_RS25385 (LS45_25400) 33681..33962 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
LS45_RS25390 (LS45_25405) 33959..34585 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
LS45_RS25395 (LS45_25410) 34569..35486 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
LS45_RS25400 (LS45_25415) 35486..36799 + 1314 WP_024131605 TraB/VirB10 family protein traB
LS45_RS25405 (LS45_25420) 36796..37374 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
LS45_RS25410 (LS45_25425) 37378..37770 + 393 WP_000479535 TraA family conjugative transfer protein -

Host bacterium

ID   1808 GenBank   NZ_JRRF01000027
Plasmid name   pUMNturkey9_IncAC Incompatibility group   -
Plasmid size   37931 bp Coordinate of oriT [Strand]   30200..30350 [+]
Host baterium   Klebsiella pneumoniae strain UMNturkey9

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -