Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121566
Name   oriT_pKOX58_3 in_silico
Organism   Klebsiella michiganensis strain Kox58
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP089398 (15257..16962 [+], 1706 nt)
oriT length   1706 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 1706 nt

>oriT_pKOX58_3
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCACCTCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGCCCCATTAAATACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAACATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCAGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGTAGAGTGAAAGGATAACTGACATATCCATTTTTATATGAGATGTTCGGAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACCGAGGTTGTGGGCTGTATTACGAAATATATGAAAGTTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTAAGACGCTATGCCGAGAGTAAAGGTACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACAATACACAGACTAACAGGCGACGGGGTTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   15891 GenBank   WP_047502599
Name   t4cp2_LUW95_RS30120_pKOX58_3 insolico UniProt ID   _
Length   912 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 912 a.a.        Molecular weight: 103124.05 Da        Isoelectric Point: 7.6337

>WP_047502599.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacteriaceae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIRKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYWRVISGESTGWNPFSLPATKRNINFIKQLMKILC
SRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNQSDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEQEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

Type IV secretory pathway, VirB3-like protein (VirB3)

(3-79)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(269-470)

TraG P-loop domain (P-loop_TraG)

(535-813)

  Protein structure



No available structure.



ID   15892 GenBank   WP_032152570
Name   t4cp2_LUW95_RS30175_pKOX58_3 insolico UniProt ID   _
Length   578 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 578 a.a.        Molecular weight: 65607.79 Da        Isoelectric Point: 7.2144

>WP_032152570.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERNNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIVFTAAGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFALINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINAKNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL

  Protein domains


Predicted by InterproScan.

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

(336-537)

Helicase HerA, central domain (DUF87)

(174-315)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5404..18915

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LUW95_RS30080 (LUW95_30080) 1340..1804 + 465 Protein_1 Tn3 family transposase -
LUW95_RS30085 (LUW95_30085) 2506..3207 - 702 WP_269756048 RepA family replication protein -
LUW95_RS30090 (LUW95_30090) 3692..4030 - 339 WP_306460784 helix-turn-helix domain-containing protein -
LUW95_RS30095 (LUW95_30095) 4321..4776 + 456 WP_009309974 transcription termination/antitermination NusG family protein -
LUW95_RS30100 (LUW95_30100) 4848..5063 + 216 WP_004178170 hypothetical protein -
LUW95_RS30105 (LUW95_30105) 5068..5286 + 219 WP_004178172 hypothetical protein -
LUW95_RS30110 (LUW95_30110) 5404..6114 + 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
LUW95_RS30115 (LUW95_30115) 6111..6416 + 306 WP_012457109 TrbC/VirB2 family protein virB2
LUW95_RS30120 (LUW95_30120) 6429..9167 + 2739 WP_047502599 VirB3 family type IV secretion system protein virb4
LUW95_RS30125 (LUW95_30125) 9185..9886 + 702 WP_101863219 type IV secretion system protein -
LUW95_RS30130 (LUW95_30130) 9898..10122 + 225 WP_032152566 EexN family lipoprotein -
LUW95_RS30135 (LUW95_30135) 10135..11205 + 1071 WP_023316380 type IV secretion system protein virB6
LUW95_RS30140 (LUW95_30140) 11427..12110 + 684 WP_023316381 type IV secretion system protein virB8
LUW95_RS30145 (LUW95_30145) 12107..13015 + 909 WP_077763931 P-type conjugative transfer protein VirB9 virB9
LUW95_RS30150 (LUW95_30150) 13059..14309 + 1251 WP_032152567 VirB10/TraB/TrbI family type IV secretion system protein virB10
LUW95_RS30155 (LUW95_30155) 14299..15324 + 1026 WP_000125558 P-type DNA transfer ATPase VirB11 virB11
LUW95_RS30160 (LUW95_30160) 15321..15719 + 399 WP_071841197 cag pathogenicity island Cag12 family protein -
LUW95_RS30165 (LUW95_30165) 15755..16060 + 306 WP_012457118 hypothetical protein -
LUW95_RS30170 (LUW95_30170) 16094..16399 + 306 WP_032152569 hypothetical protein -
LUW95_RS30175 (LUW95_30175) 17179..18915 + 1737 WP_032152570 type IV secretory system conjugative DNA transfer family protein virb4
LUW95_RS30180 (LUW95_30180) 18924..19679 + 756 WP_023316386 MobC family replication-relaxation protein -
LUW95_RS30185 (LUW95_30185) 19716..20189 + 474 WP_023316387 thermonuclease family protein -
LUW95_RS30190 (LUW95_30190) 20295..20591 + 297 WP_086814137 hypothetical protein -
LUW95_RS30195 (LUW95_30195) 20629..20862 - 234 WP_004178129 hypothetical protein -
LUW95_RS30200 (LUW95_30200) 20903..21550 - 648 WP_004178130 ParA family protein -
LUW95_RS30205 (LUW95_30205) 21670..22419 - 750 Protein_26 SprT-like domain-containing protein -
LUW95_RS30210 (LUW95_30210) 22578..23162 + 585 WP_009309957 recombinase family protein -

Host bacterium

ID   21993 GenBank   NZ_CP089398
Plasmid name   pKOX58_3 Incompatibility group   IncFII
Plasmid size   40630 bp Coordinate of oriT [Strand]   15257..16962 [+]
Host baterium   Klebsiella michiganensis strain Kox58

Cargo genes

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