Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107644
Name   oriT_FDAARGOS 1424|unnamed2 in_silico
Organism   Citrobacter pasteurii strain FDAARGOS 1424
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP077263 (41471..41559 [+], 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_FDAARGOS 1424|unnamed2
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTTTTTTCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5137 GenBank   WP_040231218
Name   Relaxase_I6L54_RS23850_FDAARGOS 1424|unnamed2 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: 102401.61 Da        Isoelectric Point: 8.8033

>WP_040231218.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Citrobacter]
MIPVIPPKRQDGKSSFGDLVSYVSVRDEPRDDDLMEAVKASGTKPEMPHSSRFSRLVDYSTKLRDESFIS
LVDVMPDGSEWVNFYGVTCFHNCTSIESAAEEMEFSARKAKFAHNKSDPVFHYILSWQSHESPRPEQIYD
SVSHTLSRLGLAGHQFVSAVHTDTDNLHVHIAVNRVHPETGYLNRLAYSQEKLSKACRELELKHGFSPDN
GCYVIAPDNRIVRRTSIERDRQSAWKRGRIQSLREYIADTAIAGLREAPVTDWSSLHQRFAKEGLFLSAD
NGELKVKDGWNSERPGVTLSAFGHAFDTEKLIRKLGEFTPPAQDIFSQVQAVGRYEPEKITVPSRPERMR
EKDTLTDYATARLRAPLIALDQDPSKRTIQSVHTLLAKSGLYLKEQHDRLVICDGYDPTRTPVRAERVWP
ALTKAVLDSYKGGWKPVPKDIFQQVPPAEQFTGGGLEATPVSDREWRKLRTGSGPQGALKREIFSDKESL
WGYAVSHCRQEIETLISSKHFSWERCHEQFAKQGLLLVRELQGLVVMDAYNREQTPVKASHVHPDLTLAR
AEPHAGSFVPVPADIFERVKPVSRYNPELAVSDRDIPGMKRDPELRRQRREARAAAREDLKARYTAWRAN
WQRPDLHGRERYQAIHDECRMRKARIRIEHRDPLVRKLYYHIAELQRMQALITLKEAMKAERAELIGQGK
WYPPSYRHWVEAEAVKGDKAAISQLRGWDYRDRRGNAVKATTDSRCVVICEPGGTPIYSGVPGLQASLKK
NGRVQFRDPETGRHICTDYGDRVIFRNTGDYDALKRDMIKVAPVLFSRSPTVAMAPEGNDEQFNTAFAKM
VAWHNVNHRDEGEYQISRPDVDQVRVESEIRFSETMSQVSNSEPARNEPGSSWKPPSPL

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(66-317)


  Protein structure



No available structure.




T4CP

ID   5372 GenBank   WP_040231212
Name   trbC_I6L54_RS23830_FDAARGOS 1424|unnamed2 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: 87152.18 Da        Isoelectric Point: 6.5154

>WP_040231212.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Citrobacter]
MNNTPVNQALMTRSAWNSPVLELMRDHLLYAGIMAGSVVAGFIWPLAIPLLLLLAIVASISFGTHRWRMP
MRMPVHLNKTDPSEDRKARRSLFSVFPSLFQYETTQESKGKGIFYIGYKRMNDIGRELWLTLDDLTRHVM
FFASTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTCYYLARRFGREDDVEYINFMNSGMSRSEM
IQNGDKSRPQSHQWNPFCYSTEAFVAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKFYCVRENKTMSL
QLLREFMPLEKLAGLYCRAVDDQWPEEAVSPLYNYLVDVPGFDMATVRQPSAWTEEPRKQHSYLTGQFLE
TFNTFTETFGNIFAEDAGDIDIRDSIHSDRILLVLIPAMNTSQHTTSALGRMFVTQQSMILARDLGHRLE
GLDSDALEITKYKGKFPYMNYLDEVGAYYTERIAVQATQVRSLDFALVMMSQDQERIENQTSAANVATLM
QNAGTKVAGKIVSDDKTARTISNAAGQEARANMVSLQRQDGLIGTSWIDGDHINIQMENKINVQDLIKLQ
PGENYTVFQGDPVPGASFYIEPQDKTCNAPVIINRYITINPPTLKHLRRLVPRTAQRRLPAPENVSRIIG
VLTEKPSRRRKAARTEPWKIIDTFQQRLANRQEAHNLMTEYDMDHRGREENLWAEALEIISTTTMAERTI
RYITLNKPESESAEVNAEDIQLAPDAILRNLTLPQPASVPPARHRNEPLIPPKQTDSPQPDMEWPE

  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: 786..34829

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6L54_RS23670 (I6L54_23675) 87..701 + 615 WP_052463753 type 4 pilus major pilin -
I6L54_RS23675 (I6L54_23680) 786..1268 + 483 WP_052463755 lytic transglycosylase domain-containing protein virB1
I6L54_RS23680 (I6L54_23685) 1253..1927 + 675 WP_040231341 prepilin peptidase -
I6L54_RS23685 (I6L54_23690) 1924..3189 + 1266 WP_199954794 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
I6L54_RS23690 (I6L54_23695) 3248..3511 - 264 WP_217124645 hypothetical protein -
I6L54_RS23695 (I6L54_23700) 3965..5125 + 1161 WP_040231242 site-specific integrase -
I6L54_RS23700 (I6L54_23705) 5145..5621 + 477 WP_123924625 hypothetical protein -
I6L54_RS23705 (I6L54_23710) 5766..6602 + 837 WP_040231179 hypothetical protein traE
I6L54_RS23710 (I6L54_23715) 6705..7913 + 1209 WP_040231181 conjugal transfer protein TraF -
I6L54_RS23715 (I6L54_23720) 8046..8519 + 474 WP_040231184 DotD/TraH family lipoprotein -
I6L54_RS23720 (I6L54_23725) 8516..9322 + 807 WP_040231187 type IV secretory system conjugative DNA transfer family protein traI
I6L54_RS23725 (I6L54_23730) 9334..10494 + 1161 WP_052463734 plasmid transfer ATPase TraJ virB11
I6L54_RS23730 (I6L54_23735) 10491..10778 + 288 WP_040231189 hypothetical protein traK
I6L54_RS23735 (I6L54_23740) 10819..11358 + 540 WP_040231190 hypothetical protein -
I6L54_RS24520 (I6L54_23745) 11720..14887 + 3168 Protein_15 DUF5710 domain-containing protein -
I6L54_RS23745 (I6L54_23750) 16225..16575 + 351 WP_040231192 hypothetical protein traL
I6L54_RS23750 (I6L54_23755) 16581..17282 + 702 WP_040231195 DotI/IcmL/TraM family protein traM
I6L54_RS23755 (I6L54_23760) 17293..18276 + 984 WP_040231197 DotH/IcmK family type IV secretion protein traN
I6L54_RS23760 (I6L54_23765) 18276..19592 + 1317 WP_040231198 conjugal transfer protein TraO traO
I6L54_RS23765 (I6L54_23770) 19573..20346 + 774 WP_153754036 conjugal transfer protein TraP traP
I6L54_RS23770 (I6L54_23775) 20346..20870 + 525 WP_040231200 conjugal transfer protein TraQ traQ
I6L54_RS23775 (I6L54_23780) 20904..21308 + 405 WP_040231201 DUF6750 family protein traR
I6L54_RS23780 (I6L54_23785) 21492..22172 + 681 WP_245163431 conjugal transfer protein TraT traT
I6L54_RS23785 (I6L54_23790) 22471..23703 - 1233 WP_052463737 hypothetical protein -
I6L54_RS23790 (I6L54_23795) 23783..26836 + 3054 WP_040231206 conjugal transfer protein traU
I6L54_RS23795 (I6L54_23800) 26836..27405 + 570 WP_052463738 hypothetical protein traV
I6L54_RS23800 (I6L54_23805) 27418..28620 + 1203 WP_040231208 conjugal transfer protein TraW traW
I6L54_RS23805 (I6L54_23810) 28617..29159 + 543 WP_072041438 conjugal transfer protein TraX -
I6L54_RS23810 (I6L54_23815) 29217..31376 + 2160 WP_040231209 DotA/TraY family protein traY
I6L54_RS23815 (I6L54_23820) 31438..32070 + 633 WP_052463740 plasmid IncI1-type surface exclusion protein ExcA -
I6L54_RS23820 (I6L54_23825) 32381..33589 + 1209 WP_040231210 hypothetical protein trbA
I6L54_RS23825 (I6L54_23830) 33642..34829 + 1188 WP_052463741 hypothetical protein trbB
I6L54_RS23830 (I6L54_23835) 34833..37133 + 2301 WP_040231212 F-type conjugative transfer protein TrbC -
I6L54_RS23835 (I6L54_23840) 37206..37475 + 270 WP_040231214 hypothetical protein -
I6L54_RS23840 (I6L54_23845) 37537..38052 - 516 WP_167335593 type II toxin-antitoxin system YafO family toxin -
I6L54_RS23845 (I6L54_23850) 38073..38306 - 234 WP_040231217 hypothetical protein -

Host bacterium

ID   8079 GenBank   NZ_CP077263
Plasmid name   FDAARGOS 1424|unnamed2 Incompatibility group   -
Plasmid size   95620 bp Coordinate of oriT [Strand]   41471..41559 [+]
Host baterium   Citrobacter pasteurii strain FDAARGOS 1424

Cargo genes

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