Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105704
Name   oriT_pEcl3-2 in_silico
Organism   Enterobacter hormaechei strain Eho-3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047751 (55910..55996 [-], 87 nt)
oriT length   87 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 87 nt

>oriT_pEcl3-2
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTGATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTCTTTCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3862 GenBank   WP_022650008
Name   Relaxase_GVI64_RS25745_pEcl3-2 insolico UniProt ID   A0A4Q2QTK9
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 102314.37 Da        Isoelectric Point: 8.2756

>WP_022650008.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacterales]
MIPVIPPKRQDGKSSFGDLVSYVSVRDEPRDDDLMEAVRASGTKPEMPHSSRFSRLVDYATKLRDESFIS
LVDVMPDGGEWVNFYGVTCFHNCTSIESAAEEMEFSARKTKFAHNKSDPVFHYILSWQSHESPRPEQIYD
SVSHTLSRLGLAGHQFVAAVHTDTDNLHVHIAVNRVHPETGYLNRLAYSQEKLSKACRELELKHGFSPDN
GCYVIAPDNRIVRRTSVERDRQSAWKRGRNQSLREYIADTAIAGLRESPVTDWSSLHQRFAKEGLFLTKE
SGELKVKDGWDSERPGVTLSAFGHAFDTDKLIRKLGEFVPPVQDIFSQVPAVGRYEPDKIIMPSRPERMT
EKESLSDYAIARLRAPLIALDQDPTQRTIQSVHTLLAQSGLYLKEQHDRLVICDGYDSTRTPVRAERVWP
ALTKAILDSYKGGWQPVPKDIFQQVPPAEQFTGGSLEATPVSDREWRKLRTGSGPQGALKREIFSDKESL
WGYAVSHCRQDIESLIGSGEFTWERCHELLARQGLLLMREQQGLVVMDAYNHEQTPVKASHVHPDLTLAR
AEPHAGSFVSVPADIFERVKPASRYNPELAVSDRDIPGMKRDPELRRQRREARAAAREDLKARYAAWRAN
WQRPDLHGRERYQAIHDECRIRKARIRIEHRDPLVRKLHYHIAELQRMQALIALKETMKAERAELIGQGK
WYPPSYRQWVEAEAVKGDKAAISQLRGWDYRDRRGNAVKSTTDNRCVVICEPGGTPMYSGVPGLRASLKK
NGRVQFRDPETGRHICTDYGDRVIFRNSGDYDALKRDMVKVAPVLFSRSPSVAMAPEGNNEQFNTAFAKM
VAWHNVNHRDEGEYQISRPEVDQVRVESEMRFAEMTNQGSNTEAVRNESGPNWKPPSPL

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(51-317)


  Protein structure


Source ID Structure
AlphaFold DB A0A4Q2QTK9


T4CP

ID   3875 GenBank   WP_022650006
Name   trbC_GVI64_RS25760_pEcl3-2 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: 87660.94 Da        Isoelectric Point: 6.8660

>WP_022650006.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MNYTPVNQALMKRNAWNSPVLELLRDHLLYAGIMAGSVVAGFIWPLAIPLLLLLAIVASISFGTHRWRMP
MRMPVHLNKVDPSEDRKVRRSLFRRFPSLFQYETTQESKGKGIFYLGYRRMNDIGRELWLTIDDLTRHVM
FFASTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTCYYLARRFGREDDVEYINFMNSGMSRSEM
IHNGDKSRPQSHQWNPFCYSTEAFVAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKFYCVRENKTMSL
QLLREFMPLEKLAELYCRAIDDQWPEEAVSPLYNYLVDVPGFDMATVRQPSAWTEEPRKQHSYLTGQFLE
TFNTFTETFGNIFAEDAGDIDIRDSIHSDRILLVLIPAMNTSQHTTSALGRMFVTQQSMILARDLGHRLE
GLDSEALEITKYKGPFPYMNYLDEVGAYYTERIAVQATQVRSLDFSIVMMSQDQERIESQTSATNVATLM
QNAGTKVAGKIVSDDKTAKTITNAAGQEARANMVSLQRRDGIIGTSWIDGDHINIQMENKINVQDLIKLQ
PGENYTVFQGDPVPGASFYIEPQDKTCNAPVIINRYITINPPNLKQLRKLVPRTAQRRLPAPENVSKIIG
VLTEKPSRRRKAAKAEPWKIIDTFQQRLANRQEAHNLMTEYDTDHRGREENLWEEALEVIRTTTMAERTI
RYITLNKPESEPTQVSAEEIQLAPDAILRTLTLPQPAYIPPSRYRNEPFISPKLPDSPHPDMEWPE

  Protein domains


Predicted by InterproScan.

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

(440-528)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 62119..99025

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GVI64_RS25750 (GVI64_25695) 59135..59338 - 204 WP_123839396 hypothetical protein -
GVI64_RS25755 (GVI64_25700) 59472..59741 - 270 WP_022650007 hypothetical protein -
GVI64_RS25760 (GVI64_25705) 59815..62115 - 2301 WP_022650006 F-type conjugative transfer protein TrbC -
GVI64_RS25765 (GVI64_25710) 62119..63375 - 1257 WP_126530067 hypothetical protein trbB
GVI64_RS25770 (GVI64_25715) 63356..64564 - 1209 WP_022650004 hypothetical protein trbA
GVI64_RS25775 (GVI64_25720) 64885..65517 - 633 WP_022650003 plasmid IncI1-type surface exclusion protein ExcA -
GVI64_RS25780 (GVI64_25725) 65579..67738 - 2160 WP_022650002 DotA/TraY family protein traY
GVI64_RS25785 (GVI64_25730) 67796..68338 - 543 WP_022650001 conjugal transfer protein TraX -
GVI64_RS25790 (GVI64_25735) 68335..69537 - 1203 WP_022650000 conjugal transfer protein TraW traW
GVI64_RS25795 (GVI64_25740) 69550..70122 - 573 WP_154590113 conjugal transfer protein TraV traV
GVI64_RS25800 (GVI64_25745) 70119..73172 - 3054 WP_022649998 hypothetical protein traU
GVI64_RS25805 (GVI64_25750) 73259..73984 - 726 WP_063864836 hypothetical protein traT
GVI64_RS25810 (GVI64_25755) 74168..74572 - 405 WP_022649996 DUF6750 family protein traR
GVI64_RS25815 (GVI64_25760) 74607..75131 - 525 WP_022649995 conjugal transfer protein TraQ traQ
GVI64_RS25820 (GVI64_25765) 75131..75904 - 774 WP_123839398 conjugal transfer protein TraP traP
GVI64_RS25825 (GVI64_25770) 75885..77192 - 1308 WP_022649993 conjugal transfer protein TraO traO
GVI64_RS25830 (GVI64_25775) 77192..78172 - 981 WP_022649992 DotH/IcmK family type IV secretion protein traN
GVI64_RS25835 (GVI64_25780) 78183..78800 - 618 WP_179297403 DotI/IcmL family type IV secretion protein traM
GVI64_RS25840 (GVI64_25785) 78890..79240 - 351 WP_022649990 hypothetical protein traL
GVI64_RS25845 (GVI64_25790) 79258..82800 - 3543 WP_032635082 LPD7 domain-containing protein -
GVI64_RS25850 (GVI64_25795) 82872..83159 - 288 WP_022649988 hypothetical protein traK
GVI64_RS25855 (GVI64_25800) 83156..84316 - 1161 WP_022649987 plasmid transfer ATPase TraJ virB11
GVI64_RS25860 (GVI64_25805) 84329..85135 - 807 WP_022649986 type IV secretory system conjugative DNA transfer family protein traI
GVI64_RS25865 (GVI64_25810) 85132..85605 - 474 WP_022649985 DotD/TraH family lipoprotein -
GVI64_RS25870 (GVI64_25815) 85676..86092 - 417 WP_123839394 hypothetical protein -
GVI64_RS25875 (GVI64_25820) 86201..87406 - 1206 WP_022649984 conjugal transfer protein TraF -
GVI64_RS25880 (GVI64_25825) 87512..88348 - 837 WP_022649983 hypothetical protein traE
GVI64_RS25885 (GVI64_25830) 88495..88971 - 477 WP_022649982 hypothetical protein -
GVI64_RS25890 (GVI64_25835) 88991..90151 - 1161 WP_022649981 site-specific integrase -
GVI64_RS25895 (GVI64_25840) 90191..91729 - 1539 WP_197377751 IS66-like element ISKpn24 family transposase -
GVI64_RS25900 (GVI64_25845) 91778..92125 - 348 WP_000612626 IS66 family insertion sequence element accessory protein TnpB -
GVI64_RS25905 (GVI64_25850) 92122..92526 - 405 WP_003031976 transposase -
GVI64_RS25910 (GVI64_25855) 93194..94528 - 1335 WP_045346679 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
GVI64_RS25915 (GVI64_25860) 94525..95199 - 675 WP_022649979 prepilin peptidase -
GVI64_RS25920 (GVI64_25865) 95184..95666 - 483 WP_045261878 lytic transglycosylase domain-containing protein virB1
GVI64_RS25925 (GVI64_25870) 95751..96365 - 615 WP_022649977 type 4 pilus major pilin -
GVI64_RS25930 (GVI64_25875) 96379..97473 - 1095 WP_032623575 type II secretion system F family protein -
GVI64_RS25935 (GVI64_25880) 97466..99025 - 1560 WP_022649975 ATPase, T2SS/T4P/T4SS family virB11
GVI64_RS25940 (GVI64_25885) 99028..99543 - 516 WP_022649974 type IV pilus biogenesis protein PilP -
GVI64_RS25945 (GVI64_25890) 99527..100831 - 1305 WP_022649973 type 4b pilus protein PilO2 -
GVI64_RS25950 (GVI64_25895) 100833..102509 - 1677 WP_022649972 PilN family type IVB pilus formation outer membrane protein -
GVI64_RS25955 (GVI64_25900) 102524..102961 - 438 WP_022649971 type IV pilus biogenesis protein PilM -

Host bacterium

ID   6141 GenBank   NZ_CP047751
Plasmid name   pEcl3-2 Incompatibility group   -
Plasmid size   109160 bp Coordinate of oriT [Strand]   55910..55996 [-]
Host baterium   Enterobacter hormaechei strain Eho-3

Cargo genes

Drug resistance gene   blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIC1, AcrIIA7