Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103691
Name   oriT1_pKPC2_020130 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain WCHKP020130
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP046963 (43082..43205 [+], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 90..95, 107..112  (AAATAA..TTATTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
 3..10, 15..22  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT1_pKPC2_020130
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2738 GenBank   WP_071177725
Name   traI_CLQ86_RS27430_pKPC2_020130 insolico UniProt ID   A0A7G3L5Q3
Length   1711 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1711 a.a.        Molecular weight: 186716.81 Da        Isoelectric Point: 6.1728

>WP_071177725.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAENRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQVRERAAITERETALLQS

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(575-626)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   1161 GenBank   WP_000124981
Name   WP_000124981_pKPC2_020130 insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9

ID   1162 GenBank   WP_001254386
Name   WP_001254386_pKPC2_020130 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   2571 GenBank   WP_015059012
Name   traC_CLQ86_RS27320_pKPC2_020130 insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99393.22 Da        Isoelectric Point: 6.3465

>WP_015059012.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   2572 GenBank   WP_000009363
Name   traD_CLQ86_RS27425_pKPC2_020130 insolico UniProt ID   _
Length   741 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 741 a.a.        Molecular weight: 84259.95 Da        Isoelectric Point: 5.0504

>WP_000009363.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMA
AYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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)

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 42510..70698

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CLQ86_RS27215 (CLQ86_26760) 38482..38916 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
CLQ86_RS27220 (CLQ86_26765) 38913..39632 + 720 WP_001276217 plasmid SOS inhibition protein A -
CLQ86_RS27225 39854..40003 + 150 Protein_51 plasmid maintenance protein Mok -
CLQ86_RS27230 (CLQ86_26770) 39945..40070 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
CLQ86_RS27235 40389..40685 - 297 Protein_53 hypothetical protein -
CLQ86_RS27240 (CLQ86_26780) 40985..41281 + 297 WP_001272251 hypothetical protein -
CLQ86_RS27245 (CLQ86_26785) 41392..42213 + 822 WP_001234445 DUF932 domain-containing protein -
CLQ86_RS27250 (CLQ86_26790) 42510..43157 - 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
CLQ86_RS27255 (CLQ86_26795) 43434..43817 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
CLQ86_RS27260 (CLQ86_26800) 44008..44694 + 687 WP_015059009 PAS domain-containing protein -
CLQ86_RS27265 (CLQ86_26805) 44788..45015 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
CLQ86_RS27270 (CLQ86_26810) 45049..45414 + 366 WP_021519752 type IV conjugative transfer system pilin TraA -
CLQ86_RS27275 (CLQ86_26815) 45429..45740 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
CLQ86_RS27280 (CLQ86_26820) 45762..46328 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
CLQ86_RS27285 (CLQ86_26825) 46315..47043 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
CLQ86_RS27290 (CLQ86_26830) 47043..48470 + 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
CLQ86_RS27295 (CLQ86_26835) 48460..49050 + 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
CLQ86_RS27300 (CLQ86_26840) 49037..49234 + 198 WP_001324648 conjugal transfer protein TrbD -
CLQ86_RS27305 (CLQ86_26845) 49246..49497 + 252 WP_001038341 conjugal transfer protein TrbG -
CLQ86_RS27310 (CLQ86_26850) 49494..50009 + 516 WP_062955122 type IV conjugative transfer system lipoprotein TraV traV
CLQ86_RS27315 (CLQ86_26855) 50144..50365 + 222 WP_001278692 conjugal transfer protein TraR -
CLQ86_RS27320 (CLQ86_26860) 50525..53152 + 2628 WP_015059012 type IV secretion system protein TraC virb4
CLQ86_RS27325 (CLQ86_26865) 53149..53535 + 387 WP_015059013 type-F conjugative transfer system protein TrbI -
CLQ86_RS27330 (CLQ86_26870) 53532..54164 + 633 WP_001203735 type-F conjugative transfer system protein TraW traW
CLQ86_RS27335 (CLQ86_26875) 54161..55153 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
CLQ86_RS27340 (CLQ86_26880) 55180..55488 + 309 WP_000412447 hypothetical protein -
CLQ86_RS27345 (CLQ86_26885) 55551..56072 + 522 WP_015059014 hypothetical protein -
CLQ86_RS27350 (CLQ86_26890) 56099..56737 + 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
CLQ86_RS27355 (CLQ86_26895) 56734..57105 + 372 WP_000056336 hypothetical protein -
CLQ86_RS27360 (CLQ86_26900) 57131..57553 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
CLQ86_RS27365 (CLQ86_26905) 57550..59400 + 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CLQ86_RS27370 (CLQ86_26910) 59427..59684 + 258 WP_053913405 conjugal transfer protein TrbE -
CLQ86_RS27375 (CLQ86_26915) 59671..60420 + 750 WP_072354014 type-F conjugative transfer system pilin assembly protein TraF traF
CLQ86_RS27380 (CLQ86_26920) 60581..60817 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
CLQ86_RS27385 (CLQ86_26925) 60804..61349 + 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CLQ86_RS27390 (CLQ86_26930) 61339..61653 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
CLQ86_RS27395 (CLQ86_26935) 61607..61999 + 393 WP_000126338 F-type conjugal transfer protein TrbF -
CLQ86_RS27400 (CLQ86_26940) 61986..63359 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
CLQ86_RS27405 (CLQ86_26945) 63356..66172 + 2817 WP_015059018 conjugal transfer mating-pair stabilization protein TraG traG
CLQ86_RS27410 (CLQ86_26950) 66205..66726 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
CLQ86_RS27415 (CLQ86_26955) 66751..67482 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
CLQ86_RS27420 (CLQ86_26960) 67685..68422 + 738 WP_015059020 hypothetical protein -
CLQ86_RS27425 (CLQ86_26965) 68473..70698 + 2226 WP_000009363 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4134 GenBank   NZ_CP046963
Plasmid name   pKPC2_020130 Incompatibility group   IncR
Plasmid size   152833 bp Coordinate of oriT [Strand]   43082..43205 [+]; 101186..101235 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain WCHKP020130

Cargo genes

Drug resistance gene   blaKPC-2, blaCTX-M-65, blaTEM-1B, rmtB
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9