Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122119
Name   oriT_IncFII(pMET) in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain PEER 379
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAUDFB010000037 (696..2402 [+], 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   16354 GenBank   WP_094309419
Name   t4cp2_QU698_RS22725_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   16355 GenBank   WP_012457110
Name   t4cp2_QU698_RS22835_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: 21486..30428

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QU698_RS22790 (QU698_22785) 17169..17450 - 282 WP_000780222 helix-turn-helix transcriptional regulator -
QU698_RS22795 (QU698_22790) 17431..17760 - 330 WP_000493286 type II toxin-antitoxin system RelE/ParE family toxin -
QU698_RS22800 (QU698_22795) 18625..19326 - 702 WP_258549312 RepA family replication protein -
QU698_RS22805 (QU698_22800) 19790..20149 - 360 WP_012457108 helix-turn-helix transcriptional regulator -
QU698_RS22810 (QU698_22805) 20403..20858 + 456 WP_009309974 transcription termination/antitermination NusG family protein -
QU698_RS22815 (QU698_22810) 20930..21145 + 216 WP_004178170 hypothetical protein -
QU698_RS22820 (QU698_22815) 21150..21368 + 219 WP_032722781 hypothetical protein -
QU698_RS22825 (QU698_22820) 21486..22196 + 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
QU698_RS22830 (QU698_22825) 22193..22498 + 306 WP_012457109 TrbC/VirB2 family protein virB2
QU698_RS22835 (QU698_22830) 22511..25249 + 2739 WP_012457110 VirB3 family type IV secretion system protein virb4
QU698_RS22840 (QU698_22835) 25268..25978 + 711 WP_012457111 type IV secretion system protein -
QU698_RS22845 (QU698_22840) 25988..26215 + 228 WP_004178109 EexN family lipoprotein -
QU698_RS22850 (QU698_22845) 26227..27303 + 1077 WP_012457112 type IV secretion system protein virB6
QU698_RS22855 (QU698_22850) 27525..28208 + 684 WP_094309417 type IV secretion system protein virB8
QU698_RS22860 (QU698_22855) 28205..29113 + 909 WP_012457114 P-type conjugative transfer protein VirB9 virB9
QU698_RS22865 (QU698_22860) 29160..30428 + 1269 WP_139968916 VirB10/TraB/TrbI family type IV secretion system protein virB10

Host bacterium

ID   22546 GenBank   NZ_JAUDFB010000037
Plasmid name   IncFII(pMET) Incompatibility group   IncFII
Plasmid size   30757 bp Coordinate of oriT [Strand]   696..2402 [+]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain PEER 379

Cargo genes

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