Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121204
Name   oriT_p34399-106.698kb in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain 34399
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP010385 (80344..80430 [-], 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_p34399-106.698kb
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTGATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTCTTTCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13388 GenBank   WP_022650008
Name   Relaxase_LI66_RS23340_p34399-106.698kb 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   15688 GenBank   WP_022650006
Name   trbC_LI66_RS23350_p34399-106.698kb 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: 608..14299

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LI66_RS22875 (LI66_22875) 608..895 - 288 WP_022649988 hypothetical protein traK
LI66_RS22880 (LI66_22880) 892..2052 - 1161 WP_022649987 plasmid transfer ATPase TraJ virB11
LI66_RS22885 (LI66_22885) 2065..2871 - 807 WP_022649986 type IV secretory system conjugative DNA transfer family protein traI
LI66_RS22890 (LI66_22890) 2868..3341 - 474 WP_022649985 DotD/TraH family lipoprotein -
LI66_RS25905 3412..3828 - 417 WP_123839394 hypothetical protein -
LI66_RS22895 (LI66_22895) 3937..5142 - 1206 WP_022649984 conjugal transfer protein TraF -
LI66_RS24485 5248..6084 - 837 WP_022649983 hypothetical protein traE
LI66_RS25910 6231..6707 - 477 WP_022649982 hypothetical protein -
LI66_RS22905 (LI66_22905) 6727..7887 - 1161 WP_022649981 site-specific integrase -
LI66_RS22910 (LI66_22910) 8465..9802 - 1338 WP_040110252 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
LI66_RS22915 (LI66_22915) 9799..10473 - 675 WP_022649979 prepilin peptidase -
LI66_RS22920 (LI66_22920) 10458..10940 - 483 WP_045261878 lytic transglycosylase domain-containing protein virB1
LI66_RS22925 (LI66_22925) 11025..11639 - 615 WP_022649977 type 4 pilus major pilin -
LI66_RS22930 (LI66_22930) 11653..12747 - 1095 WP_032623575 type II secretion system F family protein -
LI66_RS22935 (LI66_22935) 12740..14299 - 1560 WP_022649975 GspE/PulE family protein virB11
LI66_RS22940 (LI66_22940) 14302..14817 - 516 WP_022649974 type IV pilus biogenesis protein PilP -
LI66_RS22945 (LI66_22945) 14801..16105 - 1305 WP_022649973 type 4b pilus protein PilO2 -
LI66_RS22950 (LI66_22950) 16107..17783 - 1677 WP_022649972 PilN family type IVB pilus formation outer membrane protein -
LI66_RS22955 (LI66_22955) 17798..18235 - 438 WP_022649971 type IV pilus biogenesis protein PilM -

Region 2: 86553..103674

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LI66_RS25930 83569..83772 - 204 WP_123839396 hypothetical protein -
LI66_RS23345 (LI66_23345) 83906..84175 - 270 WP_022650007 hypothetical protein -
LI66_RS23350 (LI66_23350) 84249..86549 - 2301 WP_022650006 F-type conjugative transfer protein TrbC -
LI66_RS24500 86553..87809 - 1257 WP_126530067 hypothetical protein trbB
LI66_RS23360 (LI66_23360) 87790..88998 - 1209 WP_022650004 hypothetical protein trbA
LI66_RS23365 (LI66_23365) 89319..89951 - 633 WP_022650003 plasmid IncI1-type surface exclusion protein ExcA -
LI66_RS23370 (LI66_23370) 90013..92172 - 2160 WP_022650002 DotA/TraY family protein traY
LI66_RS23375 (LI66_23375) 92230..92772 - 543 WP_022650001 conjugal transfer protein TraX -
LI66_RS23380 (LI66_23380) 92769..93971 - 1203 WP_022650000 conjugal transfer protein TraW traW
LI66_RS26005 (LI66_23385) 93984..94553 - 570 WP_022649999 hypothetical protein traV
LI66_RS23390 (LI66_23390) 94553..97606 - 3054 WP_022649998 hypothetical protein traU
LI66_RS23395 (LI66_23395) 97693..98418 - 726 WP_063864836 hypothetical protein traT
LI66_RS23400 (LI66_23400) 98602..99006 - 405 WP_022649996 DUF6750 family protein traR
LI66_RS23405 (LI66_23405) 99041..99565 - 525 WP_022649995 conjugal transfer protein TraQ traQ
LI66_RS25935 (LI66_23410) 99565..100338 - 774 WP_123839398 conjugal transfer protein TraP traP
LI66_RS23415 (LI66_23415) 100319..101626 - 1308 WP_022649993 conjugal transfer protein TraO traO
LI66_RS23420 (LI66_23420) 101626..102606 - 981 WP_022649992 DotH/IcmK family type IV secretion protein traN
LI66_RS23425 (LI66_23425) 102617..103234 - 618 WP_179297403 DotI/IcmL family type IV secretion protein traM
LI66_RS23430 (LI66_23430) 103324..103674 - 351 WP_022649990 hypothetical protein traL

Host bacterium

ID   21632 GenBank   NZ_CP010385
Plasmid name   p34399-106.698kb Incompatibility group   -
Plasmid size   106698 bp Coordinate of oriT [Strand]   80344..80430 [-]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain 34399

Cargo genes

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