Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102804
Name   oriT_pKp_Goe_629-2 in_silico
Organism   Klebsiella pneumoniae strain Kp_Goe_62629
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP018366 (11699..11801 [+], 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_pKp_Goe_629-2
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2077 GenBank   WP_016479978
Name   traI_BB790_RS30495_pKp_Goe_629-2 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   1735 GenBank   WP_008324134
Name   traC_BB790_RS30415_pKp_Goe_629-2 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.



ID   1736 GenBank   WP_073568742
Name   traD_BB790_RS30490_pKp_Goe_629-2 insolico UniProt ID   _
Length   757 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 757 a.a.        Molecular weight: 85011.77 Da        Isoelectric Point: 5.1609

>WP_073568742.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAE
QLPPGISESGEVVDMAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 11151..36349

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BB790_RS30310 (BB790_30060) 6554..6928 + 375 WP_008324180 hypothetical protein -
BB790_RS30315 (BB790_30065) 6982..7269 + 288 WP_008324178 hypothetical protein -
BB790_RS30320 (BB790_30070) 7316..7660 + 345 WP_008324177 hypothetical protein -
BB790_RS30325 (BB790_30075) 7746..8009 + 264 WP_008324174 hypothetical protein -
BB790_RS30330 (BB790_30080) 8052..8882 + 831 WP_008324171 N-6 DNA methylase -
BB790_RS30335 (BB790_30085) 9307..10275 + 969 WP_000654811 IS5 family transposase -
BB790_RS30340 (BB790_30090) 10574..11104 + 531 WP_008324170 antirestriction protein -
BB790_RS30345 (BB790_30095) 11151..11627 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
BB790_RS30350 (BB790_30100) 12059..12451 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
BB790_RS30355 (BB790_30105) 12640..13329 + 690 WP_008324166 hypothetical protein -
BB790_RS30360 (BB790_30110) 13416..13640 + 225 WP_008324165 TraY domain-containing protein -
BB790_RS30365 (BB790_30115) 13698..14048 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
BB790_RS30370 (BB790_30120) 14199..14504 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
BB790_RS30375 (BB790_30125) 14519..15085 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
BB790_RS30380 (BB790_30130) 15072..15815 + 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
BB790_RS30385 (BB790_30135) 15802..17196 + 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
BB790_RS30390 (BB790_30140) 17218..17757 + 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
BB790_RS30395 (BB790_30145) 17877..18101 + 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
BB790_RS30400 (BB790_30150) 18105..18290 + 186 WP_008324139 hypothetical protein -
BB790_RS32850 18508..18675 + 168 WP_223274120 Clp protease -
BB790_RS30410 (BB790_30160) 18665..19231 + 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
BB790_RS30415 (BB790_30165) 19224..21854 + 2631 WP_008324134 type IV secretion system protein TraC virb4
BB790_RS30420 (BB790_30170) 21851..22198 + 348 WP_008324133 type-F conjugative transfer system protein TrbI -
BB790_RS30425 (BB790_30175) 22198..22845 + 648 WP_008324132 type-F conjugative transfer system protein TraW traW
BB790_RS30430 (BB790_30180) 22848..23834 + 987 WP_042934586 conjugal transfer pilus assembly protein TraU traU
BB790_RS30435 (BB790_30185) 23851..24480 + 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
BB790_RS30440 (BB790_30190) 24477..26330 + 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BB790_RS30445 (BB790_30195) 26362..26550 + 189 WP_008324128 conjugal transfer protein TrbE -
BB790_RS30450 (BB790_30200) 26581..27330 + 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
BB790_RS30455 (BB790_30205) 27347..27595 + 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
BB790_RS30460 (BB790_30210) 27585..28139 + 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BB790_RS30465 (BB790_30215) 28132..28560 + 429 WP_008324122 hypothetical protein -
BB790_RS30470 (BB790_30220) 28547..29917 + 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
BB790_RS30475 (BB790_30225) 29917..32739 + 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
BB790_RS30480 (BB790_30230) 32761..33192 + 432 WP_008324118 entry exclusion protein -
BB790_RS32855 33267..33605 + 339 WP_032072912 tetratricopeptide repeat protein -
BB790_RS32860 33613..33942 + 330 WP_223856629 hypothetical protein -
BB790_RS30490 (BB790_30240) 34076..36349 + 2274 WP_073568742 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3247 GenBank   NZ_CP018366
Plasmid name   pKp_Goe_629-2 Incompatibility group   IncFII
Plasmid size   94434 bp Coordinate of oriT [Strand]   11699..11801 [+]
Host baterium   Klebsiella pneumoniae strain Kp_Goe_62629

Cargo genes

Drug resistance gene   sul1, rmtC, blaNDM-1
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -