Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101378
Name   oriT_pKP2000557_8 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain KP2000557
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAENHY010000002 (443010..444890 [+], 1881 nt)
oriT length   1881 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 1881 nt

>oriT_pKP2000557_8
GCCGTATGAATGACATTTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAACAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCACCGCCTCCCGTTCCTGTAGATTGGGATAAAGCCGCCGCCCCATTAAATACCAGTTTACCGCAATGGAGCGACAATAACGTTATGGTCCCTTCCCCGACAGTTAACAGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACAATACAATACAATATGGACTCCAGCCGTATTTTACGCAGTCGCCCACTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGGCAGAATGGAGCAAAAGGTGTTATTGAATACCAGCCTGTCTTTAATTGTCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCAATTTAAGCAACACAACCTAATAAGGACTCACCATGAATAAAACCGTTATCGCGGCGGCTGTATTATGTATGGCCGCAGGAACCCCAATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCAACGGGTAATAGTGGTGGAAGTGAATGCCGCTCAGCAGAAAAGGCTTTCTTTAATATAGTCAAAAAGAATAAACATGGTTTCTTACCTAACCATACGTTGAATGCGAGAAAAGCATTTCTTGGTGAATGTCCCAGCGCAGACCCGGAGGCAGTAAATAAAATACTATCTAAGTTCGGCAAGGTCAGAGGATAGTAATAATCCGCATAACACCCCCTGTTTACTGTAAAAGGTGCAACATGCAAAAAGAAGACTTATTTATCCGAAATATACATTCTCGTAATCAGGACAGGATATCGGTAGCCCTGATATATGACACGTTATCTAAAGAAGCCCACAGTGGTTGTGGGCTGTATTATGAGATATACGAAAGCAGGCTTATCGGTCTTTTGCGCGATCATCTTTTAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAACAGATGTAATCACACAGAACAAAAATGTATTGTGCAACACACAGGCTGACAGGCGGCGGGTTTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGAACGTGGACAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGATCCACGTCCACCCGCGAACATTCGCCCCAGCGAATTGAAGCGGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAATAAGGCACGCCCACGTGCCGGTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGCTATATTTCCCGCCCCGGCGGGGAATATGCCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCCGTTGACCCCGGGGGTTTTGACGCGACGTTCAGCCGCGACATTACCCCCATGCGACAGGCAATAAGGGCGTCCAGCCCGCATGTACTGGCGCACGCCGTGTCGTGCAGGAAAGCATGCTTTCCTGCACATGGCCGCACAGCGGCCACCTTCTTTACCCCATACGCTCGCCCCGCCTTTTCGCCCGACACCGTGGGGCGAATTGATGGGGCGATGTTATGGGGTGAATAGCTGACGAGGGAGGTATCATGATTTTAAATAAGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1264 GenBank   WP_000909124
Name   mobC_JDY82_RS26700_pKP2000557_8 insolico UniProt ID   A0A4S6HDI2
Length   248 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 248 a.a.        Molecular weight: 29203.78 Da        Isoelectric Point: 10.3502

>WP_000909124.1 MULTISPECIES: MobC family replication-relaxation protein [Enterobacterales]
MLISSYHERQTRNSEKIRQLLNFLKEETYSDFKTLMQLFSFRDHKSLYSLLAKMERMGLIQKHMLESRTI
KISLWGITSDGLAAVLTPNDKIFPARFEPSKITGWTLEHHLDNQAARLILEKKGASGWINGDRASFLSQY
QVKHRPDGLLTLPDGNVIAIETERRLKTRARYQSIIASHLLARTNKYWIYIFYVVPDPQKKRALELLFDS
IRHVIINHQHIPLEERHRRVFRIYTFDELKHLSLGSYT

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A4S6HDI2


T4CP

ID   874 GenBank   WP_047669465
Name   t4cp2_JDY82_RS26695_pKP2000557_8 insolico UniProt ID   _
Length   619 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 619 a.a.        Molecular weight: 69428.59 Da        Isoelectric Point: 6.2155

>WP_047669465.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MILNKLAASLSPIVNGMLALLAFVQQQQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGPFQWLYKIRPSSDNTVLAWSVRIAFTVTGVIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLIKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSIIAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSATLRDIYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAERRDRVTDVPRPIAVYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAGWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKIFSVS
PDIAAAAAPVKIMLDFGEDDKPAMPDVMTTHPALFFDESEVKPAKSQSDDEEHFSPLDF

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 435801..443077

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JDY82_RS26600 (JDY82_26600) 432335..433261 + 927 WP_000039790 hypothetical protein -
JDY82_RS26605 (JDY82_26605) 433401..433586 + 186 WP_000205185 AlpA family transcriptional regulator -
JDY82_RS26610 (JDY82_26610) 433608..433790 + 183 WP_001309570 hypothetical protein -
JDY82_RS26615 (JDY82_26615) 433775..434356 + 582 WP_000937857 DUF2857 domain-containing protein -
JDY82_RS26620 (JDY82_26620) 434346..434555 + 210 WP_001112403 TraR/DksA family transcriptional regulator -
JDY82_RS26625 (JDY82_26625) 434777..434926 + 150 WP_223174624 Hha/YmoA family nucleoid-associated regulatory protein -
JDY82_RS26630 (JDY82_26630) 435495..435728 + 234 WP_001231171 hypothetical protein -
JDY82_RS26635 (JDY82_26635) 435801..436511 + 711 WP_001446637 lytic transglycosylase domain-containing protein virB1
JDY82_RS26640 (JDY82_26640) 436511..436804 + 294 WP_000600171 TrbC/VirB2 family protein virB2
JDY82_RS26645 (JDY82_26645) 436817..438193 + 1377 Protein_416 VirB3 family type IV secretion system protein -
JDY82_RS26650 (JDY82_26650) 438186..438950 + 765 Protein_417 type IV secretion system protein -
JDY82_RS26655 (JDY82_26655) 439038..439175 + 138 WP_000825478 hypothetical protein -
JDY82_RS26660 (JDY82_26660) 439168..439851 + 684 WP_001005327 type IV secretion system protein virB8
JDY82_RS26665 (JDY82_26665) 439848..440756 + 909 WP_000976329 P-type conjugative transfer protein VirB9 virB9
JDY82_RS26670 (JDY82_26670) 440800..442062 + 1263 WP_000997456 VirB10/TraB/TrbI family type IV secretion system protein virB10
JDY82_RS26675 (JDY82_26675) 442052..443077 + 1026 WP_000125557 P-type DNA transfer ATPase VirB11 virB11
JDY82_RS26680 (JDY82_26680) 443074..443477 + 404 Protein_423 cag pathogenicity island Cag12 family protein -
JDY82_RS26685 (JDY82_26685) 443513..443815 + 303 WP_001044654 TrbM/KikA/MpfK family conjugal transfer protein -
JDY82_RS26690 (JDY82_26690) 443860..444165 + 306 WP_001168332 hypothetical protein -
JDY82_RS26695 (JDY82_26695) 444875..446734 + 1860 WP_047669465 type IV secretion system DNA-binding domain-containing protein -
JDY82_RS26700 (JDY82_26700) 446744..447490 + 747 WP_000909124 MobC family replication-relaxation protein -

Host bacterium

ID   1822 GenBank   NZ_JAENHY010000002
Plasmid name   pKP2000557_8 Incompatibility group   -
Plasmid size   506359 bp Coordinate of oriT [Strand]   443010..444890 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain KP2000557

Cargo genes

Drug resistance gene   -
Virulence gene   galU, kdsA, rcsA, ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, irp1, ybtU, ybtT, ybtE, fyuA, wbbO, wbbN, glf, wbbM
Metal resistance gene   dsbB, znuA/yebL, znuC/yebM, znuB/yebI, ruvB, cutC, kpnO
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -