Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121004
Name   oriT_pKAM339_1 in_silico
Organism   Aeromonas caviae strain KAM339
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP024941 (45107..45236 [+], 130 nt)
oriT length   130 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 130 nt

>oriT_pKAM339_1
GTTAACCCGTTTGATCGCGTGATGAATGCGCTAAAAAGTCGAGGCCGTAAGAACGCCCACATTCTGAGCATCTTGCAGCTGGATTGGCCTGCGTCTGAATCGATCATCCATCGCCTGAGCGACTACATCA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13253 GenBank   WP_223936724
Name   mobH_LDN97_RS22295_pKAM339_1 insolico UniProt ID   _
Length   984 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 984 a.a.        Molecular weight: 107289.59 Da        Isoelectric Point: 4.7871

>WP_223936724.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MDEEDIPRYPPFAKGLPVAPIDKILATQAELIEKVRNSLGFTIEDFNRLVLPVIHRYAAFVHLLPASEAH
HHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPKQRRDNEPRWRLASCFSGLLHDVGKPLADVSITDKN
GVVTWNPYFESLHDWAGRNHVDRYFIRWREKRHKRHEQFSLLAVDRIIPVATREYLSESGPLIIEAMLEA
ISGTSVNQPVTKLMLRADQESVSRDLKQNRLNVDEFSYGVPVERYVFDAIRRLVKTGKWKVNEPGAKVWH
LQQGVFIAWRNLGDLYDLISHDKIPGIPRDPDTLADILIERGFAVPNTVQEKGDRAYYRYWEVLPEMIQE
AAGSIKILMLRLESNELVFTTEPPAAVAGEVVGDVADAVIELIDPDEASDADDESASGMSESLLSAEQEA
MNALAGLGFGDAMEILGGTASDDNATQPAPVVDTTPPAKPAKGAGGRGGKNQAKKTAPAAPEQQQPEPSP
QEIAKSTPPLAVENPLQAIMDVGGGLGGLDFPFDAFVAGTSMSDEPSQALAPEPKQDVANPDNPDTPNLG
LMNQVFPNFMNDESTGDVGGMDLPPAWAIEEIPSFHAYEGEVGQPGNQFVSEELAGADAPDAKGELLTLM
ATFGEAGPILERAILPVLEGKATLGEVLCLMKGQAVILYPEGARALGAPSEILTALFHAQAIVPDPVMSG
RKVQDFNGVKAIVLTEQLSSAFIAAIKQAESLLGGYQDAFELVASPEIKKTQSKKNRGQRKTSRSESSGE
DSHAASPERAQVEEKRVIADAQLIDVSVEPPSPPVDTTPPPDKVVPRKESRGKEKVDKPIQPAPTTKPAE
GTQNLARLPPREQPKPESQQKQARVIDVGNIALPGPDLPEELSPRSIVKEETVDEALYLPPKMTPEKAIQ
MLKEMIKNRSGRWLVSAVLEEEGFLTTSDKAFEVIAGEYTGISKHVLGGTLRRAQRRPLLKQRQGKLYLE
VDKS

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(22-328)


  Protein structure



No available structure.




T4CP

ID   15531 GenBank   WP_011899407
Name   traD_LDN97_RS22300_pKAM339_1 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 68931.34 Da        Isoelectric Point: 6.8339

>WP_011899407.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTYDPLAYEMPWRPNYEMSAVFGWVAASVGALAVQQITDMPPEPFYWMTGICGVMTMARLPKAIKLHLLQ
KHLKGRDLEFISIKELQKKVQASPEDMWLGYGFAWENRHAQRVFEILKRDWTSIVGTESTTSKIVRTIRG
KKKKEVPIGQPWIHGVEPKEEHLMQPLKHTEGHSLIVGTTGSGKTRMFDTLISQAILRGEAVIIIDPKGD
KEMRDNARRACEAMGQAERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEGGGDPFKSFGWQA
LNNIAQGLILAYDRPNLIKLRRFLEGGADGLVIKAVQAYAERVMPDWEAAAAPYLEKAANGSRSKLAVAH
MAFYNNVIQPEHPSSELEGLLNMFKHDATHFSKMVSNLLPIMNMLTSGELGPLLSPDATDLSDERQITDS
AKIINNAQVAYLGLDSLTDNMVGSALGSIFLSDLTAVAGDRYNYGVNNLPVNIFVDEAAEVINDPFIQLL
NKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNVFALRIVDAETQEYIAENLPKTRLKYVMRTQ
GQNTDGSEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGKIVKGRLPILTEK

  Protein domains


Predicted by InterproScan.

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

(470-597)

AAA-like domain (AAA_10)

(168-257)

  Protein structure



No available structure.



ID   15532 GenBank   WP_081374866
Name   traC_LDN97_RS22385_pKAM339_1 insolico UniProt ID   _
Length   814 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 814 a.a.        Molecular weight: 91684.72 Da        Isoelectric Point: 5.7286

>WP_081374866.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLDGALIQEHMRASGVIPVLAYSEDEQVFLMDDQSAGFGFICEPMCGADEKVQERMNGFLNQE
FPSKTTLQFLLFRSPDINQEMYQMLGLRDGFRHGLLSPVIQERINYLQHHTTERIMARTNKGIYDNGLIQ
DLKLFVTCKVPIKSNTPTETELVELDQLKTKIESSLQTVGLRPRTMTAVNYVRIMSTLLNWGPDASWRHD
ASRWETDKPICEQLFDYGTDLEVSKNGIRLGGYHAKVLSAKKLPDIAYFGDAVAYTGDLTGGNSSIKENY
MVVTNVFFPEVESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTVYESLKEGAKPVKISYSLVIF
APTKERVESAATAARSIWRESRFELMEDRFVALPIFLNSLPFCTDRDAVRDLFRYKTMTSEQAAVLLPVF
GEWKGTGTFHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELICSYLSEGAQVWVIDAGKS
YQKMSEMLRGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASSKGLLVEWQISALKQVMSSIWE
EKGTTMKVDDIAERCLEGEDLRLKDVGQQLYAFTSEGSYGKYFSNKNNVSFQNQFTVLELDELQGRKHLR
QVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLYE
NAVGRAIAENSASMYLLGQTEETVESVKRAGRLALSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRLI
VGDFQKLLYSTDPVDVNAIDQFVNQGLSVPDAIKAVMQARRQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-808)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43186..69699

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LDN97_RS22290 (KAM339_043030) 39365..39979 - 615 WP_011899409 hypothetical protein -
LDN97_RS22295 (KAM339_043040) 40229..43183 + 2955 WP_223936724 MobH family relaxase -
LDN97_RS22300 (KAM339_043050) 43186..45051 + 1866 WP_011899407 conjugative transfer system coupling protein TraD virb4
LDN97_RS22305 (KAM339_043060) 45062..45646 + 585 WP_011899406 hypothetical protein -
LDN97_RS22310 (KAM339_043070) 45603..46232 + 630 WP_011899405 DUF4400 domain-containing protein tfc7
LDN97_RS22315 (KAM339_043080) 46378..46770 + 393 WP_043774535 hypothetical protein -
LDN97_RS22320 46948..47475 + 528 WP_139027008 hypothetical protein -
LDN97_RS22325 (KAM339_043090) 47913..48341 + 429 WP_011899394 hypothetical protein -
LDN97_RS22330 (KAM339_043100) 48353..48580 + 228 WP_011899395 hypothetical protein -
LDN97_RS22335 (KAM339_043110) 48596..49210 + 615 WP_011899396 hypothetical protein -
LDN97_RS22340 (KAM339_043120) 49259..49504 + 246 WP_011899397 hypothetical protein -
LDN97_RS22345 (KAM339_043130) 50046..50327 + 282 WP_011899398 type IV conjugative transfer system protein TraL traL
LDN97_RS22350 (KAM339_043140) 50324..50959 + 636 WP_011899399 TraE/TraK family type IV conjugative transfer system protein traE
LDN97_RS22355 (KAM339_043150) 50943..51848 + 906 WP_059119365 type-F conjugative transfer system secretin TraK traK
LDN97_RS22360 (KAM339_043160) 51851..53170 + 1320 WP_139027009 TraB/VirB10 family protein traB
LDN97_RS22365 (KAM339_043170) 53167..53733 + 567 WP_011899401 type IV conjugative transfer system lipoprotein TraV traV
LDN97_RS22370 (KAM339_043180) 53824..54150 + 327 WP_050804919 TraA family conjugative transfer protein -
LDN97_RS22375 (KAM339_043190) 54332..59818 + 5487 WP_223936723 Ig-like domain-containing protein -
LDN97_RS22380 (KAM339_043200) 59974..60699 + 726 WP_223936722 DsbC family protein trbB
LDN97_RS22385 (KAM339_043210) 60696..63140 + 2445 WP_081374866 type IV secretion system protein TraC virb4
LDN97_RS22390 (KAM339_043220) 63171..63488 + 318 WP_151884429 hypothetical protein -
LDN97_RS22395 (KAM339_043230) 63485..64015 + 531 WP_073545150 S26 family signal peptidase -
LDN97_RS22400 (KAM339_043240) 63978..65243 + 1266 WP_073545151 TrbC family F-type conjugative pilus assembly protein traW
LDN97_RS22405 (KAM339_043250) 65240..65911 + 672 WP_223936720 EAL domain-containing protein -
LDN97_RS22410 65908..66915 + 1008 WP_073545153 TraU family protein traU
LDN97_RS22415 (KAM339_043270) 66925..69699 + 2775 WP_223936719 conjugal transfer mating pair stabilization protein TraN traN
LDN97_RS22420 (KAM339_043280) 70874..72148 - 1275 WP_011191341 IS4-like element ISApu2 family transposase -
LDN97_RS22425 (KAM339_043290) 72305..72676 + 372 WP_004099020 hypothetical protein -
LDN97_RS22430 (KAM339_043300) 72900..74174 + 1275 WP_011191341 IS4-like element ISApu2 family transposase -

Host bacterium

ID   21433 GenBank   NZ_AP024941
Plasmid name   pKAM339_1 Incompatibility group   -
Plasmid size   216538 bp Coordinate of oriT [Strand]   45107..45236 [+]
Host baterium   Aeromonas caviae strain KAM339

Cargo genes

Drug resistance gene   -
Virulence gene   hcp, vgrG1
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -