Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105306
Name   oriT_pRHBSTW-00409_2 in_silico
Organism   Klebsiella michiganensis strain RHBSTW-00409
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055326 (45453..45603 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      12..17, 24..29  (AACCCG..CGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_pRHBSTW-00409_2
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3626 GenBank   WP_000909947
Name   mobH_HV187_RS28895_pRHBSTW-00409_2 insolico UniProt ID   _
Length   987 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109404.96 Da        Isoelectric Point: 4.8922

>WP_000909947.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLEIPDITEPEKQEEQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVAPKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   3593 GenBank   WP_000178858
Name   traD_HV187_RS28900_pRHBSTW-00409_2 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: 69248.76 Da        Isoelectric Point: 7.1093

>WP_000178858.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWMAASCAALAVEQVSTMPSEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPEDMWLGSGFLWENRHAQRVFEILKRDWTSIVGKESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVLTHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVKPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNTDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  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.



ID   3594 GenBank   WP_000587426
Name   traC_HV187_RS28985_pRHBSTW-00409_2 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: 92489.76 Da        Isoelectric Point: 5.9204

>WP_000587426.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDQSVGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTSLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRILAKTSKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQHLAQIRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYDDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRKQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

TraC protein (TraC_F_IV)

(21-255)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

  Protein structure



No available structure.



ID   3595 GenBank   WP_064386203
Name   traD_HV187_RS29760_pRHBSTW-00409_2 insolico UniProt ID   _
Length   772 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 772 a.a.        Molecular weight: 86585.38 Da        Isoelectric Point: 5.0283

>WP_064386203.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDVQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRNLDTRVDARLNALLEAREAEGSLARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTSATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVPATPAGG
TEQALETQPAEQGQDMLPPGVNEYGEIDDMHAWDEWQSGEQTQRDMQRREEVNINHSHRRDEQDDIEIGG
NF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43537..69953

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV187_RS28885 (HV187_28895) 39577..39810 - 234 WP_001191893 hypothetical protein -
HV187_RS28890 (HV187_28900) 39792..40409 - 618 WP_079778879 hypothetical protein -
HV187_RS28895 (HV187_28905) 40577..43540 + 2964 WP_000909947 MobH family relaxase -
HV187_RS28900 (HV187_28910) 43537..45402 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
HV187_RS28905 (HV187_28915) 45452..45997 + 546 WP_023356350 hypothetical protein -
HV187_RS28910 (HV187_28920) 45954..46583 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
HV187_RS28915 (HV187_28925) 46594..47040 + 447 WP_000122583 hypothetical protein -
HV187_RS28920 (HV187_28930) 47050..47427 + 378 WP_000869260 hypothetical protein -
HV187_RS28925 (HV187_28935) 47427..48089 + 663 WP_000045163 hypothetical protein -
HV187_RS28930 (HV187_28940) 48268..48411 + 144 WP_023356351 hypothetical protein -
HV187_RS28935 (HV187_28945) 48424..48771 + 348 WP_001102160 hypothetical protein -
HV187_RS28940 (HV187_28950) 48914..49195 + 282 WP_099360026 type IV conjugative transfer system protein TraL traL
HV187_RS28945 (HV187_28955) 49192..49818 + 627 WP_001049718 TraE/TraK family type IV conjugative transfer system protein traE
HV187_RS28950 (HV187_28960) 49802..50719 + 918 WP_000839951 type-F conjugative transfer system secretin TraK traK
HV187_RS28955 (HV187_28965) 50716..52032 + 1317 WP_000595204 TraB/VirB10 family protein traB
HV187_RS28960 (HV187_28970) 52029..52607 + 579 WP_000794193 type IV conjugative transfer system lipoprotein TraV traV
HV187_RS28965 (HV187_28975) 52611..53003 + 393 WP_012766327 TraA family conjugative transfer protein -
HV187_RS28970 (HV187_28980) 53067..54269 - 1203 WP_081843999 ISL3-like element ISAeme19 family transposase -
HV187_RS28975 (HV187_28985) 54516..60002 + 5487 WP_079778880 Ig-like domain-containing protein -
HV187_RS28980 (HV187_28990) 60151..60858 + 708 WP_001259344 DsbC family protein -
HV187_RS28985 (HV187_28995) 60855..63302 + 2448 WP_000587426 type IV secretion system protein TraC virb4
HV187_RS28990 (HV187_29000) 63317..63634 + 318 WP_000364398 hypothetical protein -
HV187_RS28995 (HV187_29005) 63631..64161 + 531 WP_000672456 S26 family signal peptidase -
HV187_RS29000 (HV187_29010) 64124..65392 + 1269 WP_001553264 TrbC family F-type conjugative pilus assembly protein traW
HV187_RS29005 (HV187_29015) 65389..66066 + 678 WP_000577801 EAL domain-containing protein -
HV187_RS29010 (HV187_29020) 66060..67064 + 1005 WP_000911304 TraU family protein traU
HV187_RS29015 (HV187_29025) 67215..69953 + 2739 WP_001256493 conjugal transfer mating pair stabilization protein TraN traN
HV187_RS29020 (HV187_29030) 69992..70852 - 861 WP_000679674 hypothetical protein -
HV187_RS29025 (HV187_29035) 70964..71614 - 651 WP_181248424 hypothetical protein -
HV187_RS29030 (HV187_29040) 71905..72225 + 321 WP_000547567 hypothetical protein -
HV187_RS29035 (HV187_29045) 72657..73061 + 405 WP_009309932 transposase -
HV187_RS29040 (HV187_29050) 73058..73408 + 351 WP_009309933 IS66 family insertion sequence element accessory protein TnpB -

Host bacterium

ID   5744 GenBank   NZ_CP055326
Plasmid name   pRHBSTW-00409_2 Incompatibility group   IncA/C
Plasmid size   272299 bp Coordinate of oriT [Strand]   45453..45603 [+]
Host baterium   Klebsiella michiganensis strain RHBSTW-00409

Cargo genes

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