Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108835
Name   oriT_p26019-4 in_silico
Organism   Citrobacter freundii strain 26019
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP119052 (31712..31800 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_p26019-4
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTTTTTTCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5922 GenBank   WP_053389753
Name   Relaxase_PXV98_RS27745_p26019-4 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 102477.53 Da        Isoelectric Point: 8.4939

>WP_053389753.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MIAVIPPKRQDGKSSFGDLVSYVSVRDEPRDDDLMEAVKASGTKPEMPHSSRFSRLVDYATKLRDESFIS
LVDVMPDGSEWVNFYGVTCFHNCTSIESAAEEMEFSARKAKFAHNKSDPVFHYILSWQSHESPRPEQIYD
SVSHTLSRLGLAGHQFVSAVHTDTDNLHVHIAVNRVHPETGYLNRLAYSQEKLSKACRELELKHGFSPDN
GCYVIAPDNRIVRRTSIERDRQSAWKRGRIQSLREYIADTAIAGLREAPVTDWSSLHQRFAKEGLFLSAD
NGELKVKDGWDSERPGVTLSAFGHAFDTEKLIRKLGEFTPPAQDIFSQVQAVGRYEPEKITVPSRPERMT
EKDTLTDYATARLRAPLIALDQDPSQRTIQSVHTLLAKSGLYLKEQHDRLVICDGYDPTRTPVRAERVWP
ALTKAVLDSYKGGWKPVPKDIFQQVPPAEQFTGGGLEATPVSDREWRKLRTGSGPQGALKREIFSDKESL
WGYAVSHCRQEIETLISSKHFSWERCHEQFAKQGLLLVREKQGLVVMDAYNREQTPVKASHVHPDLTLAR
AEPHAGSFVPVPADIFERVKPVSRYNPELAVSDRDIPGMKRDPELRRQRREARAAAREDLKARYAAWRAN
WQRPDLRGRERYQAIHDECRMRKARIRIEHRDPLVRKLYYHIVELQRMQALITLKEAMKAERAELIGQGT
WYPPSYRQWVEAEAVKGDKAAISQLRGWDYKDRRGNAVKSTTDSRCVVICEPGGTPMYSGVPGLQASLKK
NGRVQFRDPETGRHICTDYGDRVIFRNTGDYDSLKRDMVKVAPVLFSRSPTVAMAPEGNDEQFNTAFAKM
VAWHNVNHRDEAEYHIARPDVDQLRVEHEQQFTNVLNQSSYAPDAQASHQNTWEPPTPR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(53-317)


  Protein structure



No available structure.




T4CP

ID   6372 GenBank   WP_053389033
Name   trbC_PXV98_RS27765_p26019-4 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 87413.54 Da        Isoelectric Point: 6.8253

>WP_053389033.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MNNTPVNQALMKRNAWNSPVLELMRDHLLYAGIMAGSVVAGFIWPLAIPLFLLLTIVASISFGTHRWRMP
MRMPVHLNKVDPSEDRKVRRSFFRAFPSLFQYETTQESKGKGIFYIGYKRMNDIGRELWLTLDDLTRHVM
FFASTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTCYYLARRFGREDDVEYINFMNSGMSRSEM
IQNGDKSRPQSHQWNPFCYSTEAFVAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKFYCVRENKTMSL
QLLREFMPLEKLAGLYCRAVDDQWPEEAVSPLYNYLVDVPGFDMATVRQPSAWTEEPRKQHSYLTGQFLE
TFNTFTETFGNIFAEDAGDIDIRDSIHSDRILLVLIPAMNTSQHTTSALGRMFVTQQSMILARDLGHKLE
GLDSEALEITKYKGKFPYMNYLDEVGAYYTERIAVQATQVRSLEFALVMMSQDQERIENQTSAANVATLM
QNAGTKVAGKIVSDDKTARTISNAAGQEARANMVSLQRQDGLIGTSWIDGDHINIQMENKINVQDLIKLQ
PGENYTVFQGDPVPGASFYIEPQDKTCNAPVIINRYITINPPNLKQLRKLVPRTAQRRLPAAENVSKIIG
VLTEKPSRRRKAARTEPWKIIDTFQQRLANRQEAHNLMTEYDMDHGGREENLWAEALEIIRTTTMAERTI
RYITLNKPESESTEVNAEEIQLAPDAILRNLTLPQPAYVPPARHRNEPFFSPKQTSSPQPDMEWPE

  Protein domains


Predicted by InterproScan.

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

(440-527)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40989..77447

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PXV98_RS27755 (PXV98_27750) 36245..37021 + 777 WP_094935554 hypothetical protein -
PXV98_RS27760 (PXV98_27755) 37052..37321 - 270 WP_048227650 hypothetical protein -
PXV98_RS27765 (PXV98_27760) 37394..39694 - 2301 WP_053389033 F-type conjugative transfer protein TrbC -
PXV98_RS27770 (PXV98_27765) 39803..40933 + 1131 WP_053389034 RNA-guided endonuclease TnpB family protein -
PXV98_RS27775 (PXV98_27770) 40989..42188 - 1200 WP_053389035 thioredoxin fold domain-containing protein trbB
PXV98_RS27780 (PXV98_27775) 42241..43449 - 1209 WP_053389036 hypothetical protein trbA
PXV98_RS27785 (PXV98_27780) 43752..44384 - 633 WP_227409143 plasmid IncI1-type surface exclusion protein ExcA -
PXV98_RS27790 (PXV98_27785) 44446..46605 - 2160 WP_099530113 DotA/TraY family protein traY
PXV98_RS27795 (PXV98_27790) 46662..47204 - 543 WP_145996427 conjugal transfer protein TraX -
PXV98_RS27800 (PXV98_27795) 47201..48403 - 1203 WP_099530111 conjugal transfer protein TraW traW
PXV98_RS27805 (PXV98_27800) 48416..48988 - 573 WP_161556285 conjugal transfer protein TraV traV
PXV98_RS27810 (PXV98_27805) 48985..52038 - 3054 WP_048227643 conjugal transfer protein traU
PXV98_RS27815 (PXV98_27810) 52110..52841 - 732 WP_069325142 hypothetical protein traT
PXV98_RS27820 (PXV98_27815) 53025..53429 - 405 WP_048227642 DUF6750 family protein traR
PXV98_RS27825 (PXV98_27820) 53464..53988 - 525 WP_048227641 conjugal transfer protein TraQ traQ
PXV98_RS27830 (PXV98_27825) 53988..54761 - 774 WP_129719564 conjugal transfer protein TraP traP
PXV98_RS27835 (PXV98_27830) 54742..56058 - 1317 WP_099530109 conjugal transfer protein TraO traO
PXV98_RS27840 (PXV98_27835) 56058..57041 - 984 WP_048227638 DotH/IcmK family type IV secretion protein traN
PXV98_RS27845 (PXV98_27840) 57052..57753 - 702 WP_048227637 DotI/IcmL/TraM family protein traM
PXV98_RS27850 (PXV98_27845) 57759..58109 - 351 WP_048227636 hypothetical protein traL
PXV98_RS27855 (PXV98_27850) 59411..62626 - 3216 Protein_63 LPD7 domain-containing protein -
PXV98_RS27860 (PXV98_27855) 62698..62985 - 288 WP_048227635 hypothetical protein traK
PXV98_RS27865 (PXV98_27860) 62982..64142 - 1161 WP_048227634 plasmid transfer ATPase TraJ virB11
PXV98_RS27870 (PXV98_27865) 64154..64960 - 807 WP_048227633 type IV secretory system conjugative DNA transfer family protein traI
PXV98_RS27875 (PXV98_27870) 64957..65430 - 474 WP_048227632 DotD/TraH family lipoprotein -
PXV98_RS27880 (PXV98_27875) 65563..66771 - 1209 WP_099530103 conjugal transfer protein TraF -
PXV98_RS27885 (PXV98_27880) 66874..67710 - 837 WP_048227630 hypothetical protein traE
PXV98_RS27890 (PXV98_27885) 67856..68332 - 477 WP_145996426 hypothetical protein -
PXV98_RS27895 (PXV98_27890) 68352..69512 - 1161 WP_048227629 site-specific integrase -
PXV98_RS27900 (PXV98_27895) 70014..70400 + 387 Protein_72 phage tail protein -
PXV98_RS27905 (PXV98_27900) 71103..71609 - 507 WP_077223963 sugar O-acetyltransferase -
PXV98_RS27910 (PXV98_27905) 71664..72950 - 1287 WP_058687259 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
PXV98_RS27915 (PXV98_27910) 72947..73621 - 675 WP_053389052 prepilin peptidase -
PXV98_RS27920 (PXV98_27915) 73606..74088 - 483 WP_069325157 lytic transglycosylase domain-containing protein virB1
PXV98_RS27925 (PXV98_27920) 74173..74787 - 615 WP_052463753 type 4 pilus major pilin -
PXV98_RS27930 (PXV98_27925) 74801..75895 - 1095 WP_040231337 type II secretion system F family protein -
PXV98_RS27935 (PXV98_27930) 75888..77447 - 1560 WP_048227627 ATPase, T2SS/T4P/T4SS family virB11
PXV98_RS27940 (PXV98_27935) 77450..77950 - 501 WP_053069306 type IV pilus biogenesis protein PilP -
PXV98_RS27945 (PXV98_27940) 77934..79238 - 1305 WP_048227626 type 4b pilus protein PilO2 -
PXV98_RS27950 (PXV98_27945) 79240..80916 - 1677 WP_048227625 PilN family type IVB pilus formation outer membrane protein -
PXV98_RS27955 (PXV98_27950) 80931..81371 - 441 WP_234113460 type IV pilus biogenesis protein PilM -

Host bacterium

ID   9270 GenBank   NZ_CP119052
Plasmid name   p26019-4 Incompatibility group   -
Plasmid size   86384 bp Coordinate of oriT [Strand]   31712..31800 [-]
Host baterium   Citrobacter freundii strain 26019

Cargo genes

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