Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104596
Name   oriT_STLIN_3|unnamed4 in_silico
Organism   Klebsiella pneumoniae strain STLIN_3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP058762 (27891..29596 [+], 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_STLIN_3|unnamed4
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCGCCGCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGACCCATTAAACACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGCTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTCAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTTATATGAGAGGTTCGGAATGATAAATGAAAATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAACCCTGGTATATGACACATTATCAAAAGAAGCCCACAGAGGTTGTGGTCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAGTAAATTAATGAAATATGCAGAAAGCAAAGGTGATAAAATTGATGATGCGTCCTACAGCGAAGCACTGGAAGCTGAAAGGAAGTGCAGAGCTGAAATATACCGCGAGCAGATGTAATCACAAAAAGCAAAAGTGTATTGTACAATACACAGACTAACAGGCGGCGGGATTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCCTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   3247 GenBank   WP_094309419
Name   t4cp2_HZT06_RS26935_STLIN_3|unnamed4 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: 65670.93 Da        Isoelectric Point: 7.4566

>WP_094309419.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIIFTAAGLIFHIAVRRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDSIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINATKGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL

  Protein domains


Predicted by InterproScan.

Helicase HerA, central domain (DUF87)

(174-280)

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

(399-490)

  Protein structure



No available structure.



ID   3248 GenBank   WP_012457110
Name   t4cp2_HZT06_RS27045_STLIN_3|unnamed4 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: 103056.99 Da        Isoelectric Point: 7.4625

>WP_012457110.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacterales]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 18001..27958

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HZT06_RS27000 (HZT06_26945) 13684..13965 - 282 WP_000780222 helix-turn-helix transcriptional regulator -
HZT06_RS27005 (HZT06_26950) 13946..14275 - 330 WP_000493286 type II toxin-antitoxin system RelE/ParE family toxin -
HZT06_RS27010 (HZT06_26955) 15140..15841 - 702 WP_258549312 RepA family replication protein -
HZT06_RS27015 (HZT06_26960) 16305..16664 - 360 WP_012457108 helix-turn-helix transcriptional regulator -
HZT06_RS27020 (HZT06_26965) 16918..17373 + 456 WP_009309974 transcription termination/antitermination NusG family protein -
HZT06_RS27025 (HZT06_26970) 17445..17660 + 216 WP_004178170 hypothetical protein -
HZT06_RS27030 (HZT06_26975) 17665..17883 + 219 WP_032722781 hypothetical protein -
HZT06_RS27155 17880..18002 - 123 WP_255093128 hypothetical protein -
HZT06_RS27035 (HZT06_26980) 18001..18711 + 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
HZT06_RS27040 (HZT06_26985) 18708..19013 + 306 WP_012457109 TrbC/VirB2 family protein virB2
HZT06_RS27045 (HZT06_26990) 19026..21764 + 2739 WP_012457110 VirB3 family type IV secretion system protein virb4
HZT06_RS27050 (HZT06_26995) 21783..22493 + 711 WP_012457111 type IV secretion system protein -
HZT06_RS27055 (HZT06_27000) 22503..22730 + 228 WP_004178109 EexN family lipoprotein -
HZT06_RS27060 (HZT06_27005) 22742..23818 + 1077 WP_012457112 type IV secretion system protein virB6
HZT06_RS27065 (HZT06_27010) 24040..24723 + 684 WP_094309417 type IV secretion system protein virB8
HZT06_RS27070 (HZT06_27015) 24720..25628 + 909 WP_012457114 P-type conjugative transfer protein VirB9 virB9
HZT06_RS27075 (HZT06_27020) 25675..26943 + 1269 WP_139968916 VirB10/TraB/TrbI family type IV secretion system protein virB10
HZT06_RS27080 (HZT06_27025) 26933..27958 + 1026 WP_012457116 P-type DNA transfer ATPase VirB11 virB11
HZT06_RS27085 (HZT06_27030) 27955..28353 + 399 WP_012457117 cag pathogenicity island Cag12 family protein -
HZT06_RS27090 (HZT06_27035) 28389..28694 + 306 WP_012457118 hypothetical protein -
HZT06_RS27095 (HZT06_27040) 28728..29033 + 306 WP_114507483 dpoa decarboxylase -

Host bacterium

ID   5035 GenBank   NZ_CP058762
Plasmid name   STLIN_3|unnamed4 Incompatibility group   IncFII
Plasmid size   30500 bp Coordinate of oriT [Strand]   27891..29596 [+]
Host baterium   Klebsiella pneumoniae strain STLIN_3

Cargo genes

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