Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102759
Name   oriT_SL151|unnamed1 in_silico
Organism   Citrobacter freundii strain SL151
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP017058 (184862..185012 [-], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_SL151|unnamed1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2033 GenBank   WP_001337757
Name   TraI_2_BFQ28_RS25215_SL151|unnamed1 insolico UniProt ID   A0A709FRI2
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>WP_001337757.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A709FRI2


T4CP

ID   1683 GenBank   WP_069219800
Name   t4cp2_BFQ28_RS24615_SL151|unnamed1 insolico UniProt ID   _
Length   667 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 667 a.a.        Molecular weight: 73019.11 Da        Isoelectric Point: 6.4191

>WP_069219800.1 MULTISPECIES: conjugal transfer protein TraG [Gammaproteobacteria]
MQGQGVLFGQIAAVLGIVIAGVWGATQWTAAALGYQLRLGSPWFDFFGTPVYHPWRLFEWWFFFDAYAPQ
VFDIGGSIAGGSGLLAVVVAIAMSVWRSRQAKLVTTYGSARWAEADDIRKAGLTQPAGVFLGKYRNEYLR
HEGPEHVLTFAPTRSGKGVGLVVPTLLSWPASAVIHDIKGENWQITAGWRSRFSHCLLFNPTDAKSAAYN
PLLEVRRGAHEVRDVQNIADILVDPEGALEKRNHWEKTSHALLVGAILHVLYAGEDKTLRGVANFLSDPA
SPFELTLHRMMTTKHLGGAPHPVVASAAREVLNKSDNERSGVLSTAMSFLGLYRDPTVAEVTSRCDWRIA
DLIASEHPVSLYLVVPPSDISRTKPLIRLILNQIGRRLTESLDGSDGIERRHKLLLMLDEFPALGRLDFF
ETALAFMAGYGIRSFLIAQSLNQIDKAYGQNHSILDNCHVRVTFATNDERTAKRISETLGTATELRAQRN
YAGHRLAPWLGHLMVSRQETARPLLTPGEVMQLPTDEAVVMVSSVAPIKANKLRYYADANFKSRVLPPPA
LAAGQYADAPPARPDDWSGLAIPAVPTAPATGLSSDDAGTADDCGPRRQPELSEVAEYSPEPQPAGTDLA
LLDDDDDLPLPLPRQFDPAMQRTARLASLDPNDGIDL

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(112-559)

  Protein structure



No available structure.



ID   1684 GenBank   WP_000637386
Name   traC_BFQ28_RS25135_SL151|unnamed1 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92590.87 Da        Isoelectric Point: 5.9222

>WP_000637386.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTERIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRQQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.



ID   1685 GenBank   WP_000178856
Name   traD_BFQ28_RS25210_SL151|unnamed1 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: 69197.66 Da        Isoelectric Point: 6.9403

>WP_000178856.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

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

(471-598)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-297)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 81261..90874

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BFQ28_RS24610 (BFQ28_24610) 77361..78281 + 921 Protein_94 LysR family transcriptional regulator -
BFQ28_RS28985 78301..78564 + 264 WP_023106770 hypothetical protein -
BFQ28_RS24615 (BFQ28_24615) 78800..80803 + 2004 WP_069219800 conjugal transfer protein TraG -
BFQ28_RS24620 (BFQ28_24620) 80800..81264 + 465 WP_006472392 ribbon-helix-helix protein, CopG family -
BFQ28_RS24625 (BFQ28_24625) 81261..82328 + 1068 WP_006472391 P-type conjugative transfer ATPase TrbB virB11
BFQ28_RS24630 (BFQ28_24630) 82325..82708 + 384 WP_069219801 TrbC/VirB2 family protein virB2
BFQ28_RS24635 (BFQ28_24635) 82705..82977 + 273 WP_006472389 VirB3 family type IV secretion system protein virB3
BFQ28_RS24640 (BFQ28_24640) 82990..85440 + 2451 WP_069219802 conjugal transfer protein TrbE virb4
BFQ28_RS24645 (BFQ28_24645) 85437..86174 + 738 WP_006472387 P-type conjugative transfer protein TrbJ virB5
BFQ28_RS24650 (BFQ28_24650) 86186..86512 + 327 WP_023106769 hypothetical protein -
BFQ28_RS24655 (BFQ28_24655) 86509..87885 + 1377 WP_023106768 P-type conjugative transfer protein TrbL virB6
BFQ28_RS24660 (BFQ28_24660) 87898..88602 + 705 WP_006472385 conjugal transfer protein TrbF virB8
BFQ28_RS24665 (BFQ28_24665) 88599..89591 + 993 WP_006472384 P-type conjugative transfer protein TrbG virB9
BFQ28_RS24670 (BFQ28_24670) 89594..90874 + 1281 WP_006472383 TrbI/VirB10 family protein virB10
BFQ28_RS24675 (BFQ28_24675) 90871..91113 + 243 WP_006472382 DUF2274 domain-containing protein -
BFQ28_RS24680 (BFQ28_24680) 91335..92240 - 906 WP_069219803 hypothetical protein -
BFQ28_RS24685 (BFQ28_24685) 92227..92457 - 231 WP_000972663 hypothetical protein -
BFQ28_RS24690 (BFQ28_24690) 92457..92975 - 519 WP_000210756 nitrite reductase -
BFQ28_RS24695 (BFQ28_24695) 92972..93418 - 447 WP_000919345 Fe3+-siderophore ABC transporter permease -
BFQ28_RS24700 (BFQ28_24700) 93418..93777 - 360 WP_000422768 hypothetical protein -
BFQ28_RS24705 (BFQ28_24705) 93834..94262 - 429 WP_000591074 hypothetical protein -
BFQ28_RS24710 (BFQ28_24710) 94296..95156 - 861 WP_000139698 DsbA family protein -

Region 2: 161053..186928

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BFQ28_RS25075 (BFQ28_25075) 156180..157088 - 909 WP_000739139 hypothetical protein -
BFQ28_RS25080 (BFQ28_25080) 157099..158067 - 969 WP_000085162 AAA family ATPase -
BFQ28_RS25085 (BFQ28_25085) 158287..158472 - 186 WP_001186917 hypothetical protein -
BFQ28_RS25090 (BFQ28_25090) 158776..159096 - 321 WP_000547566 hypothetical protein -
BFQ28_RS25095 (BFQ28_25095) 159390..160031 + 642 WP_000796664 hypothetical protein -
BFQ28_RS25100 (BFQ28_25100) 160154..161014 + 861 WP_000709517 hypothetical protein -
BFQ28_RS25105 (BFQ28_25105) 161053..163851 - 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
BFQ28_RS25110 (BFQ28_25110) 163967..164971 - 1005 WP_043940352 TraU family protein traU
BFQ28_RS25115 (BFQ28_25115) 164971..165642 - 672 WP_001337754 EAL domain-containing protein -
BFQ28_RS25120 (BFQ28_25120) 165639..166904 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
BFQ28_RS25125 (BFQ28_25125) 166867..167397 - 531 WP_001010738 S26 family signal peptidase -
BFQ28_RS25130 (BFQ28_25130) 167394..167711 - 318 WP_000351984 hypothetical protein -
BFQ28_RS25135 (BFQ28_25135) 167726..170173 - 2448 WP_000637386 type IV secretion system protein TraC virb4
BFQ28_RS25140 (BFQ28_25140) 170170..170877 - 708 WP_001259347 DsbC family protein -
BFQ28_RS25145 (BFQ28_25145) 171026..176557 - 5532 WP_000606833 Ig-like domain-containing protein -
BFQ28_RS25150 (BFQ28_25150) 176758..177150 - 393 WP_000479535 TraA family conjugative transfer protein -
BFQ28_RS25155 (BFQ28_25155) 177154..177732 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
BFQ28_RS25160 (BFQ28_25160) 177729..179042 - 1314 WP_024131605 TraB/VirB10 family protein traB
BFQ28_RS25165 (BFQ28_25165) 179042..179959 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
BFQ28_RS25170 (BFQ28_25170) 179943..180569 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
BFQ28_RS25175 (BFQ28_25175) 180566..180847 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
BFQ28_RS25180 (BFQ28_25180) 181676..182041 - 366 WP_001052531 hypothetical protein -
BFQ28_RS28750 182053..182196 - 144 WP_001275801 hypothetical protein -
BFQ28_RS25185 (BFQ28_25185) 182377..183039 - 663 WP_001231463 hypothetical protein -
BFQ28_RS25190 (BFQ28_25190) 183039..183416 - 378 WP_000869261 hypothetical protein -
BFQ28_RS25195 (BFQ28_25195) 183426..183872 - 447 WP_000122506 hypothetical protein -
BFQ28_RS25200 (BFQ28_25200) 183882..184511 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
BFQ28_RS25205 (BFQ28_25205) 184468..185013 - 546 WP_000228720 hypothetical protein -
BFQ28_RS25210 (BFQ28_25210) 185063..186928 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
BFQ28_RS25215 (BFQ28_25215) 186925..189903 - 2979 WP_001337757 MobH family relaxase -
BFQ28_RS25220 (BFQ28_25220) 190071..190688 + 618 WP_001249396 hypothetical protein -
BFQ28_RS25225 (BFQ28_25225) 190670..190903 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   3202 GenBank   NZ_CP017058
Plasmid name   SL151|unnamed1 Incompatibility group   IncA/C2
Plasmid size   229406 bp Coordinate of oriT [Strand]   184862..185012 [-]
Host baterium   Citrobacter freundii strain SL151

Cargo genes

Drug resistance gene   catA1, aac(3)-IIa, blaTEM-1B, blaCTX-M-15, qnrS1, sul2, aph(6)-Id, aph(3'')-Ib
Virulence gene   -
Metal resistance gene   merR2, merB, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -