Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118239
Name   oriT_BJQ0007|unnamed3 in_silico
Organism   Pantoea dispersa strain BJQ0007
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP045219 (15346..17051 [-], 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_BJQ0007|unnamed3
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGAAAATTAAAGTCATTATGTTGGCAGCAATAGTTACAGGATGTTCATCGCCACCGCCTCCCGTTCCTGTAGAGTGGGATAAAGCCGCTGACCCATTAAACACCAGTTTACCGCAATGGAGTCACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGCTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTCAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTTATATGAGAGGTTCGGAATGATAAATGAAAATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAACCCTGGTATATGACACATTATCAAAAGAAGCCCACAGAGGTTGTGGTCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAGTAAATTAATGAAATATGCAGAAAGCAAAGGTGATAAAATTGATGATGCGTCCTACAGCGAAGCACTGGAAGCTGAAAGGAAGTGCAGAGCTGAAATATACCGCGAGCAGATGTAATCACAAAAAGCAAAAGTGTATTGTACAATACACAGACTAACAGGCGGCGGGATTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCCTTTGACTTTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   13566 GenBank   WP_053271840
Name   t4cp2_GAY20_RS21320_BJQ0007|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: 65647.88 Da        Isoelectric Point: 7.4792

>WP_053271840.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacterales]
MGSHLMQRLNAFADAFSLFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKLVACVSIFFFISG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIIFTAAGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDSIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDAPAFFGELEEIALVNSINAKNGFSL
KEIFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QTTPEKNESQEHKPSINL

  Protein domains


Predicted by InterproScan.

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

(399-490)

Helicase HerA, central domain (DUF87)

(174-315)

  Protein structure



No available structure.



ID   13567 GenBank   WP_039109367
Name   t4cp2_GAY20_RS21385_BJQ0007|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: 103110.06 Da        Isoelectric Point: 7.2990

>WP_039109367.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacterales]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGAWPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYWRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(535-813)

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

(269-470)

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

(3-79)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13393..26921

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GAY20_RS21290 (GAY20_21290) 9354..10277 + 924 WP_054623986 NotI family restriction endonuclease -
GAY20_RS21295 (GAY20_21295) 10716..11363 + 648 WP_053271836 ParA family protein -
GAY20_RS21300 (GAY20_21300) 11404..11637 + 234 WP_004178129 hypothetical protein -
GAY20_RS21305 (GAY20_21305) 11716..12039 + 324 WP_053271837 hypothetical protein -
GAY20_RS21310 (GAY20_21310) 12107..12592 - 486 WP_053271838 thermonuclease family protein -
GAY20_RS21315 (GAY20_21315) 12629..13384 - 756 WP_152391614 MobC family replication-relaxation protein -
GAY20_RS21320 (GAY20_21320) 13393..15129 - 1737 WP_053271840 type IV secretory system conjugative DNA transfer family protein virb4
GAY20_RS21335 (GAY20_21335) 15909..16214 - 306 WP_114507483 dpoa decarboxylase -
GAY20_RS21340 (GAY20_21340) 16248..16553 - 306 WP_012457118 hypothetical protein -
GAY20_RS21345 (GAY20_21345) 16589..16987 - 399 WP_071844020 cag pathogenicity island Cag12 family protein -
GAY20_RS21350 (GAY20_21350) 16984..18009 - 1026 WP_000125558 P-type DNA transfer ATPase VirB11 virB11
GAY20_RS21355 (GAY20_21355) 17999..19249 - 1251 WP_150099290 VirB10/TraB/TrbI family type IV secretion system protein virB10
GAY20_RS21360 (GAY20_21360) 19296..20204 - 909 WP_087849401 P-type conjugative transfer protein VirB9 virB9
GAY20_RS21365 (GAY20_21365) 20201..20884 - 684 WP_039109357 type IV secretion system protein virB8
GAY20_RS21640 20877..21014 - 138 WP_039109361 hypothetical protein -
GAY20_RS21370 (GAY20_21370) 21106..22179 - 1074 WP_039109363 type IV secretion system protein virB6
GAY20_RS21375 (GAY20_21375) 22183..22425 - 243 WP_047502596 EexN family lipoprotein -
GAY20_RS21380 (GAY20_21380) 22433..23140 - 708 WP_039109365 type IV secretion system protein -
GAY20_RS21385 (GAY20_21385) 23158..25896 - 2739 WP_039109367 VirB3 family type IV secretion system protein virb4
GAY20_RS21390 (GAY20_21390) 25909..26214 - 306 WP_012457109 TrbC/VirB2 family protein virB2
GAY20_RS21395 (GAY20_21395) 26211..26921 - 711 WP_004178175 lytic transglycosylase domain-containing protein virB1
GAY20_RS21810 26920..27042 + 123 WP_255093128 hypothetical protein -
GAY20_RS21400 (GAY20_21400) 27039..27257 - 219 WP_032722781 hypothetical protein -
GAY20_RS21405 (GAY20_21405) 27262..27477 - 216 WP_114506769 hypothetical protein -
GAY20_RS21410 (GAY20_21410) 27549..28004 - 456 WP_114506770 transcription termination/antitermination NusG family protein -
GAY20_RS21415 (GAY20_21415) 28295..28633 + 339 WP_306460784 helix-turn-helix domain-containing protein -
GAY20_RS21425 (GAY20_21425) 29118..29819 + 702 WP_255093122 RepA family replication protein -

Host bacterium

ID   18672 GenBank   NZ_CP045219
Plasmid name   BJQ0007|unnamed3 Incompatibility group   IncFII
Plasmid size   30054 bp Coordinate of oriT [Strand]   15346..17051 [-]
Host baterium   Pantoea dispersa strain BJQ0007

Cargo genes

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