Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101601
Name   oriT_2020CK-00188|unnamed3 in_silico
Organism   Escherichia coli strain 2020CK-00188
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_ABACVG020000004 (7405..9110 [-], 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_2020CK-00188|unnamed3
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCACCTCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGCCCCATTAAATACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAACATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCAGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCCAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTAATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACCGAGGTTGTGGGCTGTATTACGAAATATATGAAAGTTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTAAGACGCTATGCCGAGAGTAAAGGTACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACAATACACAGACTAACAGGCGACGGGGTTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCCTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   1075 GenBank   WP_032152570
Name   t4cp2_IUB69_RS23845_2020CK-00188|unnamed3 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.



ID   1076 GenBank   WP_032152565
Name   t4cp2_IUB69_RS23905_2020CK-00188|unnamed3 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: 103042.92 Da        Isoelectric Point: 7.2988

>WP_032152565.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacterales]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGNPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

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

(269-470)

TraG P-loop domain (P-loop_TraG)

(535-813)

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

(3-79)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5452..18963

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IUB69_RS23810 (IUB69_023750) 807..1430 + 624 WP_023316390 hypothetical protein -
IUB69_RS23815 (IUB69_023755) 1933..2613 + 681 WP_023316389 hypothetical protein -
IUB69_RS23820 (IUB69_023760) 2817..3464 + 648 WP_004178130 ParA family protein -
IUB69_RS23825 (IUB69_023765) 3505..3738 + 234 WP_004178129 hypothetical protein -
IUB69_RS23830 (IUB69_023770) 3776..4072 - 297 WP_086814137 hypothetical protein -
IUB69_RS23835 (IUB69_023775) 4178..4651 - 474 WP_023316387 thermonuclease family protein -
IUB69_RS23840 (IUB69_023780) 4688..5443 - 756 WP_023316386 MobC family replication-relaxation protein -
IUB69_RS23845 (IUB69_023785) 5452..7188 - 1737 WP_032152570 type IV secretion system DNA-binding domain-containing protein virb4
IUB69_RS23850 (IUB69_023790) 7968..8273 - 306 WP_032152569 hypothetical protein -
IUB69_RS23855 (IUB69_023795) 8307..8612 - 306 WP_012457118 hypothetical protein -
IUB69_RS23860 (IUB69_023800) 8639..9046 - 408 WP_032152568 cag pathogenicity island Cag12 family protein -
IUB69_RS23865 (IUB69_023805) 9043..10068 - 1026 WP_000125558 P-type DNA transfer ATPase VirB11 virB11
IUB69_RS23870 (IUB69_023810) 10058..11308 - 1251 WP_032152567 VirB10/TraB/TrbI family type IV secretion system protein virB10
IUB69_RS23875 (IUB69_023815) 11352..12260 - 909 WP_077763931 P-type conjugative transfer protein VirB9 virB9
IUB69_RS23880 (IUB69_023820) 12257..12940 - 684 WP_023316381 type IV secretion system protein virB8
IUB69_RS23885 (IUB69_023825) 12933..13070 - 138 WP_000825479 hypothetical protein -
IUB69_RS23890 (IUB69_023830) 13162..14232 - 1071 WP_023316380 type IV secretion system protein virB6
IUB69_RS23895 (IUB69_023835) 14245..14469 - 225 WP_032152566 EexN family lipoprotein -
IUB69_RS23900 (IUB69_023840) 14481..15182 - 702 WP_023316379 type IV secretion system protein -
IUB69_RS23905 (IUB69_023845) 15200..17938 - 2739 WP_032152565 VirB3 family type IV secretion system protein virb4
IUB69_RS23910 (IUB69_023850) 17951..18256 - 306 WP_012457109 TrbC/VirB2 family protein virB2
IUB69_RS23915 (IUB69_023855) 18253..18963 - 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
IUB69_RS23920 (IUB69_023860) 19081..19299 - 219 WP_004178172 hypothetical protein -
IUB69_RS23925 (IUB69_023865) 19304..19519 - 216 WP_004178170 hypothetical protein -
IUB69_RS23930 (IUB69_023870) 19591..20046 - 456 WP_009309974 transcription termination/antitermination NusG family protein -
IUB69_RS23935 (IUB69_023875) 20298..20657 + 360 WP_032152563 helix-turn-helix transcriptional regulator -
IUB69_RS23940 (IUB69_023880) 21159..21818 + 660 WP_023316392 RepA family replication protein -
IUB69_RS23945 (IUB69_023885) 22682..23011 + 330 WP_000493286 type II toxin-antitoxin system RelE/ParE family toxin -
IUB69_RS23950 (IUB69_023890) 22992..23273 + 282 WP_000780222 helix-turn-helix transcriptional regulator -

Host bacterium

ID   2045 GenBank   NZ_ABACVG020000004
Plasmid name   2020CK-00188|unnamed3 Incompatibility group   IncFII
Plasmid size   23971 bp Coordinate of oriT [Strand]   7405..9110 [-]
Host baterium   Escherichia coli strain 2020CK-00188

Cargo genes

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