Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104809
Name   oriT_p18-43_01 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain ST2017:950142398
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023554 (127123..127225 [-], 103 nt)
oriT length   103 nt
IRs (inverted repeats)      89..94, 96..101  (AAATAA..TTATTT)
 28..33, 40..45  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 103 nt

>oriT_p18-43_01
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3408 GenBank   WP_016479978
Name   traI_AN676_RS28395_p18-43_01 insolico UniProt ID   A0A0G3B767
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189285.41 Da        Isoelectric Point: 6.0099

>WP_016479978.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQPHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(631-710)

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

(573-625)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)

AAA domain (AAA_30)

(967-1150)


  Protein structure



No available structure.




T4CP

ID   3345 GenBank   WP_016479979
Name   traD_AN676_RS28400_p18-43_01 insolico UniProt ID   _
Length   748 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 748 a.a.        Molecular weight: 83951.64 Da        Isoelectric Point: 5.1609

>WP_016479979.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISES
GEVVDMAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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.



ID   3346 GenBank   WP_008324134
Name   traC_AN676_RS28475_p18-43_01 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 98841.51 Da        Isoelectric Point: 5.7676

>WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(470-765)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 102602..127773

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AN676_RS28400 (AN676_0328150) 102602..104848 - 2247 WP_016479979 type IV conjugative transfer system coupling protein TraD virb4
AN676_RS31995 104982..105311 - 330 WP_223856629 hypothetical protein -
AN676_RS32000 105319..105657 - 339 WP_032072912 tetratricopeptide repeat protein -
AN676_RS28410 (AN676_0328160) 105732..106163 - 432 WP_008324118 entry exclusion protein -
AN676_RS28415 (AN676_0328165) 106185..109007 - 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
AN676_RS28420 (AN676_0328170) 109007..110377 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
AN676_RS28425 (AN676_0328175) 110364..110792 - 429 WP_008324122 hypothetical protein -
AN676_RS28430 (AN676_0328180) 110785..111339 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AN676_RS28435 (AN676_0328185) 111329..111577 - 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
AN676_RS28440 (AN676_0328190) 111594..112343 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
AN676_RS28445 (AN676_0328195) 112374..112562 - 189 WP_008324128 conjugal transfer protein TrbE -
AN676_RS28450 (AN676_0328200) 112594..114447 - 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AN676_RS28455 (AN676_0328205) 114444..115073 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
AN676_RS28460 (AN676_0328210) 115090..116076 - 987 WP_042934586 conjugal transfer pilus assembly protein TraU traU
AN676_RS28465 (AN676_0328215) 116079..116726 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
AN676_RS28470 (AN676_0328220) 116726..117073 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
AN676_RS28475 (AN676_0328225) 117070..119700 - 2631 WP_008324134 type IV secretion system protein TraC virb4
AN676_RS28480 (AN676_0328230) 119693..120259 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
AN676_RS28485 (AN676_0328235) 120249..120650 - 402 WP_016479985 hypothetical protein -
AN676_RS28490 (AN676_0328240) 120634..120819 - 186 WP_008324139 hypothetical protein -
AN676_RS28495 (AN676_0328245) 120823..121047 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
AN676_RS28500 (AN676_0328250) 121167..121706 - 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
AN676_RS28505 (AN676_0328255) 121728..123122 - 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
AN676_RS28510 (AN676_0328260) 123109..123852 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
AN676_RS28515 (AN676_0328265) 123839..124405 - 567 WP_016247535 type IV conjugative transfer system protein TraE traE
AN676_RS28520 (AN676_0328270) 124420..124725 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
AN676_RS28525 (AN676_0328275) 124876..125226 - 351 WP_016247536 type IV conjugative transfer system pilin TraA -
AN676_RS28530 (AN676_0328280) 125284..125508 - 225 WP_008324165 TraY domain-containing protein -
AN676_RS28535 (AN676_0328285) 125595..126284 - 690 WP_008324166 hypothetical protein -
AN676_RS28540 (AN676_0328290) 126473..126865 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
AN676_RS28545 (AN676_0328295) 127297..127773 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
AN676_RS28550 (AN676_0328300) 127820..128350 - 531 WP_008324170 antirestriction protein -
AN676_RS28555 (AN676_0328305) 128977..129807 - 831 WP_008324171 N-6 DNA methylase -
AN676_RS28560 (AN676_0328310) 129850..130113 - 264 WP_008324174 hypothetical protein -
AN676_RS28565 (AN676_0328315) 130199..130543 - 345 WP_008324177 hypothetical protein -
AN676_RS28570 (AN676_0328320) 130590..130877 - 288 WP_008324178 hypothetical protein -
AN676_RS28575 (AN676_0328325) 130931..131305 - 375 WP_008324180 hypothetical protein -
AN676_RS28580 (AN676_0328330) 131932..132291 - 360 WP_015493069 hypothetical protein -
AN676_RS28585 (AN676_0328335) 132353..132676 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   5247 GenBank   NZ_CP023554
Plasmid name   p18-43_01 Incompatibility group   IncFIB
Plasmid size   212326 bp Coordinate of oriT [Strand]   127123..127225 [-]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain ST2017:950142398

Cargo genes

Drug resistance gene   blaNDM-1, rmtC, sul1, catA2, tet(D), dfrA14
Virulence gene   htpB
Metal resistance gene   arsR, arsD, arsA, arsB, arsC, arsH, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE, merR, merT, merP, merC, merA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -