Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100804
Name   oriT_pSKGH01-5 in_silico
Organism   Klebsiella pneumoniae strain SKGH01
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP015505 (12479..12953 [-], 475 nt)
oriT length   475 nt
IRs (inverted repeats)      IR1: 145..155, 161..171  (ATGTGTAATAC..GTATTACACAT)
  IR2: 208..218, 223..233  (GCATTTACGAT..ATCGTAATTGC)
  IR3: 335..344, 347..356  (CCTTTCATGC..GCATGAAAGG)
Location of nic site      242..243
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 475 nt

>oriT_pSKGH01-5
ACTCCGATACGTTGCCCTCCGAACGGTATTCAAGGTCGATTTTTTGCGCTTCGGTCACTCTTAAACTGATAGATGGCATAGGTTTCCTTTGTGTAATACCGATGTAATACATACGAATCTAGCATATATGCGGCTTAATTACACATGTGTAATACGTTGTGTATTACACATTAAAACACAAATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCGTTAAGGGATACCATACCACGCCTTTTTTAAGGGAGAAACCGGTGTTACGTGCAAGTGAATCGCTCAAAAAGCGTTCACATTCACACCTTTCATGCTTGCATGAAAGGAAACGGACGGGAATTAGACAAAAATAAGACACGAGGAGTAAGTTATTGAGACAAGAAAAGGACACAAATAAGACATTTTTTAGAAAAAAACATTGACTTGAGACTAGAAATGGACAATA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   876 GenBank   WP_000932317
Name   Relaxase_pSKGH01-5 insolico UniProt ID   _
Length   969 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108425.51 Da        Isoelectric Point: 9.7925

>WP_000932317.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINAYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(475-649)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)

TrwC relaxase (TrwC)

(14-287)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13215..31003

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A7B01_RS29985 (A7B01_29995) 8468..8755 + 288 WP_001098466 hypothetical protein -
A7B01_RS29990 (A7B01_30000) 8810..9052 + 243 WP_000526841 hypothetical protein -
A7B01_RS33785 9205..9360 + 156 WP_021536821 hypothetical protein -
A7B01_RS29995 (A7B01_30005) 9433..9690 + 258 WP_000334833 hypothetical protein -
A7B01_RS30000 (A7B01_30010) 9695..9883 + 189 WP_001001010 hypothetical protein -
A7B01_RS30005 (A7B01_30015) 9923..10693 - 771 WP_000586559 SprT-like domain-containing protein -
A7B01_RS30010 (A7B01_30020) 10907..11275 - 369 WP_000414914 plasmid stabilization protein StbC -
A7B01_RS30015 (A7B01_30025) 11277..11987 - 711 WP_000686338 StbB family protein -
A7B01_RS30020 (A7B01_30030) 12000..12443 - 444 WP_024249956 hypothetical protein -
A7B01_RS30025 (A7B01_30035) 12875..13222 + 348 WP_001139329 hypothetical protein -
A7B01_RS30030 (A7B01_30040) 13215..14792 + 1578 WP_001001035 type IV secretion system DNA-binding domain-containing protein virb4
A7B01_RS30035 (A7B01_30045) 14795..17704 + 2910 WP_000932317 MobF family relaxase -
A7B01_RS30040 (A7B01_30050) 17981..18175 - 195 WP_000529710 hypothetical protein -
A7B01_RS30045 (A7B01_30055) 18187..18669 - 483 WP_036896345 GNAT family protein -
A7B01_RS30050 (A7B01_30060) 18682..19236 - 555 WP_000616063 phospholipase D family protein -
A7B01_RS30055 (A7B01_30065) 19199..20230 - 1032 WP_000138004 P-type DNA transfer ATPase VirB11 virB11
A7B01_RS30060 (A7B01_30070) 20223..21377 - 1155 WP_001224296 type IV secretion system protein VirB10 virB10
A7B01_RS30065 (A7B01_30075) 21374..22261 - 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
A7B01_RS30070 (A7B01_30080) 22264..22980 - 717 WP_000914645 type IV secretion system protein virB8
A7B01_RS33790 22983..23153 - 171 WP_021536809 hypothetical protein -
A7B01_RS30075 (A7B01_30085) 23248..24291 - 1044 WP_000885742 type IV secretion system protein virB6
A7B01_RS30080 (A7B01_30090) 24310..24546 - 237 WP_000733633 EexN family lipoprotein -
A7B01_RS30085 (A7B01_30095) 24550..25257 - 708 WP_036896352 type IV secretion system protein virB5
A7B01_RS30090 (A7B01_30100) 25267..27897 - 2631 WP_000257330 VirB4 family type IV secretion/conjugal transfer ATPase virb4
A7B01_RS30095 (A7B01_30105) 27897..28211 - 315 WP_001053888 VirB3 family type IV secretion system protein virB3
A7B01_RS30100 (A7B01_30110) 28261..28551 - 291 WP_001090269 TrbC/VirB2 family protein virB2
A7B01_RS30105 (A7B01_30115) 28535..28852 - 318 WP_001267114 hypothetical protein -
A7B01_RS30110 (A7B01_30120) 28875..29615 - 741 WP_000815895 lytic transglycosylase domain-containing protein virB1
A7B01_RS32425 29678..29914 + 237 WP_000089855 H-NS histone family protein -
A7B01_RS30120 (A7B01_30130) 29926..30363 + 438 WP_000034608 hypothetical protein -
A7B01_RS30125 (A7B01_30135) 30369..30686 + 318 WP_001226231 TrbM/KikA/MpfK family conjugal transfer protein -
A7B01_RS30130 (A7B01_30140) 30689..31003 + 315 WP_000851068 hypothetical protein tfc15
A7B01_RS30135 (A7B01_30145) 30979..31704 + 726 WP_223307254 restriction endonuclease -
A7B01_RS34420 31705..32106 + 402 WP_023187076 Hha/YmoA family nucleoid-associated regulatory protein -
A7B01_RS30150 (A7B01_30160) 32166..32480 - 315 WP_001280992 hypothetical protein -
A7B01_RS32050 32506..32832 - 327 WP_000817647 endoribonuclease MazF -
A7B01_RS30155 (A7B01_30165) 32822..33118 - 297 WP_223307255 hypothetical protein -
A7B01_RS30160 (A7B01_30170) 33088..33630 - 543 WP_000711249 hypothetical protein -
A7B01_RS30165 (A7B01_30175) 33630..33875 - 246 WP_000195442 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -

Host bacterium

ID   1264 GenBank   NZ_CP015505
Plasmid name   pSKGH01-5 Incompatibility group   _
Plasmid size   34611 bp Coordinate of oriT [Strand]   12479..12953 [-]
Host baterium   Klebsiella pneumoniae strain SKGH01

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -