Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113496
Name   oriT_17YN198|p1 in_silico
Organism   Leclercia adecarboxylata strain 17YN198
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP106960 (48189..48272 [+], 84 nt)
oriT length   84 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 84 nt

>oriT_17YN198|p1
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGCATTTGTAATATCGTGCGTGCGCGGTATTACAAATGCACATCCTGTCCCGTTTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8646 GenBank   WP_276517572
Name   Relaxase_OCT50_RS22355_17YN198|p1 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: 102671.62 Da        Isoelectric Point: 8.4473

>WP_276517572.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MIPVIPKKRKDGKSSFGDLVSYVSVRDEPQDDDLMEAVRASGTKADMPHSSRFSRLVDYATKLRDESFIS
LVDVMPDGGEWVNFYGVTCFHNCTSIESAAEEMEFAARKAKFAHNKSDPVFHYILSWQSHESPRPEQIYD
SVRHSLSRLGLSDHQFVSAVHTDTDNLHVHVAVNRVHPQTGYLNRLPYSQEKLSKACRELELKHGFSPDN
GCYVIAPDNRIVRRTSVERDRQSAWQHGRKPSLKEYIADTAVAGLREAPVTDWPSLHQRFAQAGLFIASD
NGELKVKDGWDRERPGVTLSAFGHSWNTEKLIRKLGEFTPPAQDIFTQVPDVGRYDPDTVTMPSRPERMS
EKETLNEYAVSRLRAPLIALDQNPAQRTMQAVHALLAHSGLYLKEQHDRLVICDGYDQTRTPVRAERVWP
ALTKAVMNSYEGGWQPVPHDIFRQVPPAERFAGGGLEARPVSDREWAKLRTGSGPQGALKREIFSDKESL
WGYAVSHCRQDLEALISSGEFTWERGHELLARQGLLLMREQQGLMVMDAYNHDQTPVKASHVHPDLTLAR
AEPHAGAFVRVPSDIFERVAPVSRYNPELAVSDRDIPGMKRDPELRRQRREARAAARDDLKARYSAWRAN
WQRPDLRNRERWQAIHDECRLRKARIRAQQRDPLVRKLHYHIAELQRMQALIALKESVKAERLELIGQGK
WYPPSYRQWVEVEALKGDKAAISQLRGWDYRDRRSNAVKATTDNRCVVICEPGGTPVYSGVPGLRASLKK
NGRVQFRDPETGRHICTDYGDRVIFQNNGDYDVLKHDMVKVAPVLFSRSPTVAMEPEGNNDQFNAAFAKM
VAWHNVNHRDEGEYQISRPDVDQLRVESERRFDEMVNQGIHTLDNNVAYQNTWKPPSPR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(51-317)


  Protein structure



No available structure.




Auxiliary protein

ID   5031 GenBank   WP_231070074
Name   WP_231070074_17YN198|p1 insolico UniProt ID   _
Length   111 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 111 a.a.        Molecular weight: 12726.54 Da        Isoelectric Point: 10.3917

>WP_231070074.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSDRASRRGSEKRQKTVIKTLRFTPEEIEQIEREAEQAGQSVSAFIRNAAMNRKVIPAIDDSFLTELLRL
GRLQKHHFVEGKRVGDKEYSTVLVAITELANTLRKQLMNND

  Protein domains


Predicted by InterproScan.

Ribbon-helix-helix protein, copG family (RHH_1)

(25-53)


  Protein structure



No available structure.




T4CP

ID   9993 GenBank   WP_241281505
Name   trbC_OCT50_RS22345_17YN198|p1 insolico UniProt ID   _
Length   765 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 765 a.a.        Molecular weight: 87123.29 Da        Isoelectric Point: 6.3935

>WP_241281505.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MNNTPVNQAMMKRSAWQSPLLEMLRDHLLYAGIMAGSLVAGFIWPLAIPLLLFLAIIASVSFSTHRWRMP
MRMPVHLDRVDPSEDRKTRRSLFSAFPTLVQYEAIQERKGRGIFYLGYQRMRDTGRELWLTIDDLTRHVM
FFASTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTCYYLARRFGREDDVEYINFMNSGMSRSEM
IQNGDKSRPQSHQWNPFCYSTEAFVAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKFYCVRENKNMSL
QLLREFMPLEKLAGLYCRAVDDQWPEEAVAPLYNYLVDVPGFDMSMVRQPSAWTEEPRKQHSYLTGQFLE
TFNTFTETFGNIFAEDAGDIDIRDSIHSDRILLVLIPAMNTSQHTTSALGRMFVTQQSMILARDLGHKLE
GLDSEALEITKYKGAFPYMNYLDEVGAYYTERIAVQATQVRSLDFSIIMMSQDQERIESQTSATNVATLM
QNAGTKVAGKIVSDDKTAKTISNAAGQEARANMVSLQRQDGLIGTSWIDGNQINIQMENKINVQDLITLQ
PGENYTVFQGDPVPGASFYIEPEDKTCGEPLIINRYITINPPGLKQLRKLVPRTAQRRLPTPENVSKIIG
VLTAKPSRRKKKSGGEPWKVIDTFQQRLANRQEAHNLMTEYDMDHSGREKSLWEEALEVIRSTTMAERTI
RYITLNRPEPEPSEPGDEENSQPQEVILKNLTLPAPVIRPARTGNEPPQQISPHIPLRPEMEWPE

  Protein domains


Predicted by InterproScan.

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

(440-530)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 8261..40724

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OCT50_RS22170 (OCT50_22165) 3626..4372 + 747 WP_289897194 TcpQ domain-containing protein -
OCT50_RS22175 (OCT50_22170) 4384..4809 + 426 WP_231070154 type IV pilus biogenesis protein PilM -
OCT50_RS22180 (OCT50_22175) 4822..6498 + 1677 WP_172693695 PilN family type IVB pilus formation outer membrane protein -
OCT50_RS22185 (OCT50_22180) 6500..7783 + 1284 WP_289897195 type 4b pilus protein PilO2 -
OCT50_RS22190 (OCT50_22185) 7767..8258 + 492 WP_289897196 type IV pilus biogenesis protein PilP -
OCT50_RS22195 (OCT50_22190) 8261..9820 + 1560 WP_289897197 GspE/PulE family protein virB11
OCT50_RS22200 (OCT50_22195) 9813..10907 + 1095 WP_289897198 type II secretion system F family protein -
OCT50_RS22205 (OCT50_22200) 10922..11536 + 615 WP_084833199 type 4 pilus major pilin -
OCT50_RS22210 (OCT50_22205) 11546..12103 + 558 WP_151587085 lytic transglycosylase domain-containing protein virB1
OCT50_RS22215 (OCT50_22210) 12088..12762 + 675 WP_289897199 prepilin peptidase -
OCT50_RS22220 (OCT50_22215) 12759..14066 + 1308 WP_289897200 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
OCT50_RS22225 (OCT50_22220) 14173..14658 + 486 WP_289897201 hypothetical protein -
OCT50_RS22230 (OCT50_22225) 14789..15625 + 837 WP_289897202 hypothetical protein traE
OCT50_RS22235 (OCT50_22230) 15727..16932 + 1206 WP_289897203 conjugal transfer protein TraF -
OCT50_RS22240 (OCT50_22235) 17097..17555 + 459 WP_172693685 DotD/TraH family lipoprotein -
OCT50_RS22245 (OCT50_22240) 17552..18358 + 807 WP_289897204 type IV secretory system conjugative DNA transfer family protein traI
OCT50_RS22250 (OCT50_22245) 18373..19533 + 1161 WP_289897205 plasmid transfer ATPase TraJ virB11
OCT50_RS22255 (OCT50_22250) 19530..19817 + 288 WP_039031267 IcmT/TraK family protein traK
OCT50_RS22260 (OCT50_22255) 19898..23509 + 3612 WP_289897206 LPD7 domain-containing protein -
OCT50_RS22265 (OCT50_22260) 23569..23877 + 309 WP_289897215 conjugal transfer protein traL
OCT50_RS22270 (OCT50_22265) 23883..24584 + 702 WP_172693681 DotI/IcmL/TraM family protein traM
OCT50_RS22275 (OCT50_22270) 24593..25582 + 990 WP_172693680 DotH/IcmK family type IV secretion protein traN
OCT50_RS22280 (OCT50_22275) 25582..26883 + 1302 WP_289897207 conjugal transfer protein TraO traO
OCT50_RS22285 (OCT50_22280) 26886..27671 + 786 WP_289897208 conjugal transfer protein TraP traP
OCT50_RS22290 (OCT50_22285) 27671..28195 + 525 WP_289897209 conjugal transfer protein TraQ traQ
OCT50_RS22295 (OCT50_22290) 28228..28632 + 405 WP_289897210 DUF6750 family protein traR
OCT50_RS22300 (OCT50_22295) 28676..29533 + 858 WP_289897211 conjugal transfer protein TraT traT
OCT50_RS22305 (OCT50_22300) 29604..32657 + 3054 WP_289897212 ATP-binding protein traU
OCT50_RS22310 (OCT50_22305) 32654..33226 + 573 WP_241281501 conjugal transfer protein TraV traV
OCT50_RS22315 (OCT50_22310) 33242..34441 + 1200 WP_289897216 conjugal transfer protein TraW traW
OCT50_RS22320 (OCT50_22315) 34438..34983 + 546 WP_208690799 conjugal transfer protein TraX -
OCT50_RS22325 (OCT50_22320) 35047..37206 + 2160 WP_241281503 DotA/TraY family protein traY
OCT50_RS22330 (OCT50_22325) 37266..37898 + 633 WP_172693670 plasmid IncI1-type surface exclusion protein ExcA -
OCT50_RS22335 (OCT50_22330) 38223..39434 + 1212 WP_231070079 conjugal transfer protein TrbA trbA
OCT50_RS22340 (OCT50_22335) 39486..40724 + 1239 WP_241281504 hypothetical protein trbB
OCT50_RS22345 (OCT50_22340) 40728..43025 + 2298 WP_241281505 F-type conjugative transfer protein TrbC -
OCT50_RS22350 (OCT50_22345) 43142..45031 - 1890 WP_231070075 DUF262 domain-containing protein -

Host bacterium

ID   13931 GenBank   NZ_CP106960
Plasmid name   17YN198|p1 Incompatibility group   -
Plasmid size   115001 bp Coordinate of oriT [Strand]   48189..48272 [+]
Host baterium   Leclercia adecarboxylata strain 17YN198

Cargo genes

Drug resistance gene   tet(A), aph(3')-Ia, qnrB19, sul1, qacE, ant(3'')-Ia, dfrA1
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -