Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122134
Name   oriT_IncFII(pMET) in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain 4661:NRCR8
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAGYXN010000032 (15347..17053 [-], 1707 nt)
oriT length   1707 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 1707 nt

>oriT_IncFII(pMET)
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCGCCGCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGACCCATTAAACACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTCAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGTAGAGTGAAAGGATAACTGACATATCCATTTTTATATGAGATGTTCGGAATGATAAATGAAAATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGTTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAGGTTGACGCAAACAAATTAATACGCTATGCCGAAAGCAAAGGCACAAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCCGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACAATACACAGACTAACAGGCTACGGGATTTTAAGGCTTCATTATTTTTGGCTTCAATTTCAAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   16364 GenBank   WP_094309419
Name   t4cp2_KHP34_RS24685_IncFII(pMET) 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   16365 GenBank   WP_012457110
Name   t4cp2_KHP34_RS24740_IncFII(pMET) 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: 13394..26943

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KHP34_RS24650 (KHP34_24645) 8769..9119 + 351 WP_012457127 type II toxin-antitoxin system RelE/ParE family toxin -
KHP34_RS24655 (KHP34_24650) 9122..9421 + 300 WP_012457126 helix-turn-helix domain-containing protein -
KHP34_RS24660 (KHP34_24655) 9483..9632 - 150 WP_162262154 hypothetical protein -
KHP34_RS24665 (KHP34_24660) 9795..10460 - 666 WP_094309421 hypothetical protein -
KHP34_RS24670 (KHP34_24665) 10845..11813 + 969 WP_012457123 ArdC family protein -
KHP34_RS24675 (KHP34_24670) 11997..12527 - 531 WP_012457122 phospholipase D family protein -
KHP34_RS24680 (KHP34_24675) 12630..13385 - 756 WP_023316386 MobC family replication-relaxation protein -
KHP34_RS24685 (KHP34_24680) 13394..15130 - 1737 WP_094309419 type IV secretory system conjugative DNA transfer family protein virb4
KHP34_RS24690 (KHP34_24685) 15911..16216 - 306 WP_094309429 dpoa decarboxylase -
KHP34_RS24695 (KHP34_24690) 16250..16555 - 306 WP_012457118 hypothetical protein -
KHP34_RS24700 (KHP34_24695) 16591..16989 - 399 WP_012457117 cag pathogenicity island Cag12 family protein -
KHP34_RS24705 (KHP34_24700) 16986..18011 - 1026 WP_012457116 P-type DNA transfer ATPase VirB11 virB11
KHP34_RS24710 (KHP34_24705) 18001..19269 - 1269 WP_139968916 VirB10/TraB/TrbI family type IV secretion system protein virB10
KHP34_RS24715 (KHP34_24710) 19316..20224 - 909 WP_012457114 P-type conjugative transfer protein VirB9 virB9
KHP34_RS24720 (KHP34_24715) 20221..20904 - 684 WP_094309417 type IV secretion system protein virB8
KHP34_RS24725 (KHP34_24720) 21126..22202 - 1077 WP_012457112 type IV secretion system protein virB6
KHP34_RS24730 (KHP34_24725) 22214..22441 - 228 WP_004178109 EexN family lipoprotein -
KHP34_RS24735 (KHP34_24730) 22451..23161 - 711 WP_012457111 type IV secretion system protein -
KHP34_RS24740 (KHP34_24735) 23180..25918 - 2739 WP_012457110 VirB3 family type IV secretion system protein virb4
KHP34_RS24745 (KHP34_24740) 25931..26236 - 306 WP_012457109 TrbC/VirB2 family protein virB2
KHP34_RS24750 (KHP34_24745) 26233..26943 - 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
KHP34_RS24755 (KHP34_24750) 27061..27279 - 219 WP_032722781 hypothetical protein -
KHP34_RS24760 (KHP34_24755) 27284..27499 - 216 WP_004178170 hypothetical protein -
KHP34_RS24765 (KHP34_24760) 27571..28026 - 456 WP_009309974 transcription termination/antitermination NusG family protein -
KHP34_RS24770 (KHP34_24765) 28280..28639 + 360 WP_012457108 helix-turn-helix transcriptional regulator -
KHP34_RS24775 (KHP34_24770) 29103..29804 + 702 WP_258549312 RepA family replication protein -
KHP34_RS24780 (KHP34_24775) 30669..30806 + 138 Protein_33 type II toxin-antitoxin system RelE/ParE family toxin -

Host bacterium

ID   22561 GenBank   NZ_JAGYXN010000032
Plasmid name   IncFII(pMET) Incompatibility group   IncFII
Plasmid size   30807 bp Coordinate of oriT [Strand]   15347..17053 [-]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain 4661:NRCR8

Cargo genes

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