Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111842
Name   oriT_pCF2206-4 in_silico
Organism   Citrobacter freundii strain CF2206
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP110906 (8964..10669 [-], 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_pCF2206-4
GCCGTATGAATGACATTTATTTCCGTCCAATCCATCGAAATCAATATTTTGAGGAAATGAAAGCATGATAAAGAAACTTAAAGTAATCATGTTGGCGGCAATAGTTACCGGATGTTCATCGCCACCGCCTCCCGTCCCTGTAGAGTGGGATAAAGCCGCCGTCCCATTAAATACCAGTTTACCTCAATGGAGTGATAATAACATTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAATATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCCGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTTTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCCACAGGTAATAGTGGTGGGGGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATCAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTGATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATGACACGTTATCAAAAGAAGCCCACAGAGGTTGTGGGCTGTATTACGAAATATACGAAAGCTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTACGACGCTATGCCGAAAGCAAAGGCACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACACTACACAGACTAACAGGCGACGGGACTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGTAAAATCATGAAGTGGCACGCGGAAAGAAAATTCAATTTCGAAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTTCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACAAGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   8773 GenBank   WP_117140887
Name   t4cp2_OQY67_RS27585_pCF2206-4 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: 65720.97 Da        Isoelectric Point: 7.4566

>WP_117140887.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWFMTIMFTASGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
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   8774 GenBank   WP_061586433
Name   t4cp2_OQY67_RS27645_pCF2206-4 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: 103112.03 Da        Isoelectric Point: 7.4626

>WP_061586433.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacteriaceae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFRRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
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: 7011..20538

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OQY67_RS27545 (OQY67_27540) 2444..2938 - 495 WP_223230020 DUF4326 domain-containing protein -
OQY67_RS27550 (OQY67_27545) 3007..3459 - 453 WP_151355700 DUF488 domain-containing protein -
OQY67_RS27555 (OQY67_27550) 3460..4107 - 648 WP_061586427 hypothetical protein -
OQY67_RS27560 (OQY67_27555) 4376..5023 + 648 WP_004178130 ParA family protein -
OQY67_RS27565 (OQY67_27560) 5064..5297 + 234 WP_004178129 hypothetical protein -
OQY67_RS27570 (OQY67_27565) 5335..5676 - 342 WP_011172022 hypothetical protein -
OQY67_RS27575 (OQY67_27570) 5737..6210 - 474 WP_061586426 thermonuclease family protein -
OQY67_RS27580 (OQY67_27575) 6247..7002 - 756 WP_023316386 MobC family replication-relaxation protein -
OQY67_RS27585 (OQY67_27580) 7011..8747 - 1737 WP_117140887 type IV secretion system DNA-binding domain-containing protein virb4
OQY67_RS27590 (OQY67_27585) 9527..9832 - 306 WP_032152569 hypothetical protein -
OQY67_RS27595 (OQY67_27590) 9866..10171 - 306 WP_061586437 conjugal transfer protein -
OQY67_RS27600 (OQY67_27595) 10207..10605 - 399 WP_073853226 cag pathogenicity island Cag12 family protein -
OQY67_RS27605 (OQY67_27600) 10602..11627 - 1026 WP_000125558 P-type DNA transfer ATPase VirB11 virB11
OQY67_RS27610 (OQY67_27605) 11617..12867 - 1251 WP_061586436 VirB10/TraB/TrbI family type IV secretion system protein virB10
OQY67_RS27615 (OQY67_27610) 12911..13819 - 909 WP_213858555 P-type conjugative transfer protein VirB9 virB9
OQY67_RS27620 (OQY67_27615) 13816..14499 - 684 WP_057517071 type IV secretion system protein virB8
OQY67_RS27625 (OQY67_27620) 14492..14629 - 138 WP_000825479 hypothetical protein -
OQY67_RS27630 (OQY67_27625) 14721..15794 - 1074 WP_061586435 type IV secretion system protein virB6
OQY67_RS27635 (OQY67_27630) 15805..16032 - 228 WP_073853223 EexN family lipoprotein -
OQY67_RS27640 (OQY67_27635) 16046..16756 - 711 WP_061586434 type IV secretion system protein -
OQY67_RS27645 (OQY67_27640) 16775..19513 - 2739 WP_061586433 VirB3 family type IV secretion system protein virb4
OQY67_RS27650 (OQY67_27645) 19526..19831 - 306 WP_012457109 TrbC/VirB2 family protein virB2
OQY67_RS27655 (OQY67_27650) 19828..20538 - 711 WP_061586432 lytic transglycosylase domain-containing protein virB1
OQY67_RS27660 (OQY67_27655) 20537..20659 + 123 WP_255093128 hypothetical protein -
OQY67_RS27665 (OQY67_27660) 20656..20874 - 219 WP_011172006 hypothetical protein -
OQY67_RS27670 (OQY67_27665) 20879..21094 - 216 WP_061586431 hypothetical protein -
OQY67_RS27675 (OQY67_27670) 21166..21621 - 456 WP_073853220 transcription termination/antitermination NusG family protein -
OQY67_RS27680 (OQY67_27675) 21872..22228 + 357 WP_032455359 helix-turn-helix transcriptional regulator -

Host bacterium

ID   12277 GenBank   NZ_CP110906
Plasmid name   pCF2206-4 Incompatibility group   IncFII
Plasmid size   22675 bp Coordinate of oriT [Strand]   8964..10669 [-]
Host baterium   Citrobacter freundii strain CF2206

Cargo genes

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