Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103429
Name   oriT_pIB2020_L in_silico
Organism   Enterobacter kobei strain IB2020
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP059484 (132113..132197 [-], 85 nt)
oriT length   85 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 85 nt

>oriT_pIB2020_L
GGGTGTCGGGGCGGAGCCCTGACCAGGTGGTGTTTGTAATATCGTGCGTGCGCGGTATTACAAACACACATCCTGTCCCGTCTTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2556 GenBank   WP_048242245
Name   Relaxase_H1R18_RS26380_pIB2020_L insolico UniProt ID   A0AA36ETS3
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103346.66 Da        Isoelectric Point: 8.3785

>WP_048242245.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MIAVIPPKRKDGKSSFVDLVSYVSVRDEERDDDLMEAVKASGMKPEMPHRSRFSRLVDYATKLRDESFVS
LVDVMPDGGEWVNFYGVTCFHNCTSIETAAEEMEFIAQKARYAHDNSDPVFHYLLSWQSHESPRPEQVYD
SVRHSLKRLGMSDHQFVAAIHTDTDNLHVHVAVNRVHPETGYLNWLSYSQEKLHKACRELELKHGFSPDN
GCYVIAPDNRIIRRTSVERDRQSAWTRGRNQSLKEYIADTTIAGLRESPVTDWSSLHQRFAKEGLFLSAD
NGELKVKDGWNSERPGVTLSTFGHAFDTDKLIRKMGEFIPPAQDIFAQVPAVGRYEPDKVIVPSRPERMT
EKESLSDYAIARLRAPLIALDQDPSQRTIQSVHTLLAQSGLYLKEQHDRLVICDGYDPTRTPVRAERVWP
ALTKAILDSYKGGWQPVPKDIFRQVTPTEQFTGGGLEATPVSDREWRKLRTGSGPQGALKREIFSDKESL
WGYAISHCRQEIETLIGTGQFTWERCHEQFARQGLLLMREHQGLVVMDAYNHEQTPVKASHVHPDLTLAR
AEPHAGAFRPVPADIFKRVPPESRYNPELAVSDRDIPGMKRDPELRRQRREARAAAREDLKARYAAWRAN
WRKPDLRGRERYQDIHEMCRRRKAYIRAQYRDPLIRKLHYHIAEVQRMQALIKLKETMKDERLQLIGEGK
WYPPSYRQWVEVEALKGDKAAISQLRGWDYRDRRGDAVKVTTDKRCVVICEPGGTPVYAGVPGLKAALQK
NGRVQFRDEETGEHICTDYGDRVIFGNSRDYDTLKRNMVKVSPILFSRSPDVAMSPQGDNEQFNQAFAKM
VAWHNVNRQDGDEYRISRADIDRLRVESEQQFMGMSGQGNDSRYDRDEPKQTWKPPSPL

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-317)


  Protein structure



No available structure.




T4CP

ID   2346 GenBank   WP_048242233
Name   trbC_H1R18_RS26425_pIB2020_L insolico UniProt ID   _
Length   762 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 762 a.a.        Molecular weight: 86870.32 Da        Isoelectric Point: 6.8284

>WP_048242233.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MQNTPVNQAMINRNAWGSPLIELLRDHLLYAVIMAGSMVAGFIWPLSIPLCLLLAIVASISFSTHRWRMP
MRIPLYLHRVDPSEDRKVRRSLFKAFPSLFQYETLQESTGRGIFYLGYQRLRDTGRELWLSLDDLTRHVM
FFAGTGGGKTETIYAWMLNSFCWGRGFTFVDGKAQNDTARTVWYLALRFGREDDVEFINFMTGGMSRSEI
IHKGDKSRPQSNTFNPFGLSTEAFIAETMQSMLPTNVQGGEWQSRAIAMNKALVFGTKYWCVRENKTMSL
QLLREFMPLEKLAELYCRAVDDQWPEEAVSPLHNYLVDVPGFDMALVRTPSAWTEEPRKQHSYLTGQFLE
TFSTFTETFGDIFAEDAGDIDIRDSIHSDRILLTLIPAMNTSQHTTSALGRMFVTQQSMILARDLGYRLE
GLDTEALEITKYKGQFPYMNYLDEVGAFYTERIAVQATQVRSLEFALVMMAQDQERIETQTSAANVATLM
QNAGTKIAGKIVSEDKTAQTISNAAGKEARASMLNLQRRDGVIGTSWIDGDHINIQMENKINVQDLMKLQ
PGEHYTVFQGDPVPGASFYISPEEKSCNIPLVINRYITVNPPKLERLRRLVPRTAQRRLPTPENVSRIIG
VLTEKTSRRRKKTDTMPWKVIDTFQQRLANRQEAHNLLTDFDMDFAGREKNLWEEALDTIRTTTMAERTI
RYVMLNRPESSAPSREDDAPAPNALLKNLTLPPVTHVPVVRKRNDEPPVQAPPPLNQMEWPE

  Protein domains


Predicted by InterproScan.

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

(439-522)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3584..35434

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H1R18_RS25620 (H1R18_25605) 421..1242 - 822 Protein_1 DotA/TraY family protein -
H1R18_RS25625 (H1R18_25610) 1350..1511 - 162 Protein_2 transposase -
H1R18_RS25630 (H1R18_25615) 1527..2417 - 891 WP_048242223 Rpn family recombination-promoting nuclease/putative transposase -
H1R18_RS25635 (H1R18_25620) 2485..2964 - 480 WP_048242221 ATP-binding protein -
H1R18_RS25640 (H1R18_25625) 3048..3587 - 540 WP_048242219 conjugal transfer protein TraX -
H1R18_RS25645 (H1R18_25630) 3584..4786 - 1203 WP_048242217 conjugal transfer protein TraW traW
H1R18_RS25650 (H1R18_25635) 4801..5373 - 573 WP_053071110 hypothetical protein traV
H1R18_RS25655 (H1R18_25640) 5370..8423 - 3054 WP_048242215 conjugal transfer protein traU
H1R18_RS25660 (H1R18_25645) 8592..9410 - 819 WP_048242213 hypothetical protein traT
H1R18_RS25665 (H1R18_25650) 9397..9591 - 195 WP_048242212 hypothetical protein -
H1R18_RS25670 (H1R18_25655) 9640..10044 - 405 WP_048242210 DUF6750 family protein traR
H1R18_RS25675 (H1R18_25660) 10078..10605 - 528 WP_048242208 conjugal transfer protein TraQ traQ
H1R18_RS25680 (H1R18_25665) 10605..11369 - 765 WP_048242206 conjugal transfer protein TraP traP
H1R18_RS25685 (H1R18_25670) 11366..12673 - 1308 WP_048242204 conjugal transfer protein TraO traO
H1R18_RS25690 (H1R18_25675) 12676..13677 - 1002 WP_048242202 DotH/IcmK family type IV secretion protein traN
H1R18_RS25695 (H1R18_25680) 13688..14386 - 699 WP_182115633 DotI/IcmL family type IV secretion protein traM
H1R18_RS25700 (H1R18_25685) 14392..14745 - 354 WP_048242199 hypothetical protein traL
H1R18_RS26905 (H1R18_25690) 14763..19328 - 4566 WP_313860150 LPD7 domain-containing protein -
H1R18_RS25710 (H1R18_25695) 19513..20038 - 526 Protein_19 macro domain-containing protein -
H1R18_RS25715 (H1R18_25700) 20042..20488 - 447 WP_048242192 hypothetical protein -
H1R18_RS25720 (H1R18_25705) 20523..20810 - 288 WP_048242190 IcmT/TraK family protein traK
H1R18_RS25725 (H1R18_25710) 20807..21958 - 1152 WP_152400182 plasmid transfer ATPase TraJ virB11
H1R18_RS25730 (H1R18_25715) 21942..22787 - 846 WP_152400116 type IV secretory system conjugative DNA transfer family protein traI
H1R18_RS25735 (H1R18_25720) 22784..23251 - 468 WP_152400118 DotD/TraH family lipoprotein -
H1R18_RS25740 (H1R18_25725) 23456..23713 - 258 WP_152400120 hypothetical protein -
H1R18_RS25745 (H1R18_25730) 23710..24357 - 648 WP_152400123 hypothetical protein -
H1R18_RS25750 (H1R18_25735) 24412..25602 - 1191 WP_152400125 conjugal transfer protein TraF -
H1R18_RS25755 (H1R18_25740) 25701..26549 - 849 WP_152400127 hypothetical protein traE
H1R18_RS25760 (H1R18_25745) 26630..27178 - 549 WP_152400129 hypothetical protein -
H1R18_RS25765 (H1R18_25750) 27204..28364 - 1161 WP_152400131 site-specific integrase -
H1R18_RS25770 (H1R18_25755) 29538..30911 - 1374 WP_182115634 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
H1R18_RS25775 (H1R18_25760) 30908..31573 - 666 WP_152400133 prepilin peptidase -
H1R18_RS25780 (H1R18_25765) 31577..32107 - 531 WP_110820829 lytic transglycosylase domain-containing protein virB1
H1R18_RS25785 (H1R18_25770) 32117..32719 - 603 WP_152400135 type 4 pilus major pilin -
H1R18_RS25790 (H1R18_25775) 32741..33838 - 1098 WP_152400137 type II secretion system F family protein -
H1R18_RS25795 (H1R18_25780) 33869..35434 - 1566 WP_152400139 ATPase, T2SS/T4P/T4SS family virB11
H1R18_RS25800 (H1R18_25785) 35442..35936 - 495 WP_152400141 type IV pilus biogenesis protein PilP -
H1R18_RS25805 (H1R18_25790) 35920..37221 - 1302 WP_152400143 type 4b pilus protein PilO2 -
H1R18_RS25810 (H1R18_25795) 37233..38918 - 1686 WP_152400145 PilN family type IVB pilus formation outer membrane protein -
H1R18_RS25815 (H1R18_25800) 38932..39369 - 438 WP_152400147 type IV pilus biogenesis protein PilM -

Host bacterium

ID   3872 GenBank   NZ_CP059484
Plasmid name   pIB2020_L Incompatibility group   -
Plasmid size   150133 bp Coordinate of oriT [Strand]   132113..132197 [-]
Host baterium   Enterobacter kobei strain IB2020

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF6