Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105221
Name   oriT_RHBSTW-00165|unnamed in_silico
Organism   Klebsiella grimontii strain RHBSTW-00165
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055367 (1..28 [-], 28 nt)
oriT length   28 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 28 nt

>oriT_RHBSTW-00165|unnamed
AATCTGCAAAATTTTAATTTTGCGTAGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3592 GenBank   WP_064359958
Name   traI_HV104_RS29580_RHBSTW-00165|unnamed insolico UniProt ID   A0A7D6JMG2
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 189724.34 Da        Isoelectric Point: 5.9228

>WP_064359958.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella/Raoultella group]
MLSFSQVKSAGSAGNYYTEKDNYYVTGSMEERWQGKGAETLELEGKVDKQVFTALLQGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALEQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQEPQIHTHSVVINATQNGDKWQTLGSDTVGKTGFSENILANRIAFGKIYQSTLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKETIDPAEKMVEWMNT
LKETGFDIRGYREAADARAKELASAPAAPVKTDGPDIGDVVTNAIAGLSDRKVQFTYADLLARTVGQLEA
KPGVFERARGGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVTVTPDATVVRLAPF
SDAVSVLAQDRPAMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQNGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGRQTTADIISEPDKGARYNRLAQEFAVSVREGQESVAQISGTREQGVLNGIIRDTLKNEGALGTKEM
AITALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWSLFRADKLPVANGERLSVLGKIPETRLKGGESITVLNAEAGQLTVQRPGQKTTQALSVGSSPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDATRTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIATQKAGLHTPAEQVIHLSIPLLESEALTFTRPQLLATALETGGGKVPMTEIDATIQ
AQIKAGSLLNVPVAPGQGNDLLISRQTWDAEKSILTKVLEGKDAVPPLMDSVPGSLMADLTSGQRAATRM
ILETTDRFTVVQGYAGVGKTTQFRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQAPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQK
ALSEGEILPAGQPATLYEALVKDYADRTPEAQLQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAITA
HGAQGASEPYAIALEGVTGGRKQMASFESAYVGLSRMKLHVQVYTDSREGWVNAIQASPSKATAHDILAP
RNERAVKTADLLFGRAQPLNETAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKNAGIW
LSPLTDKDGRLEAIGGDGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMGRQTEQATREVSGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVVSESLQRDRLQQMERDMVRDLSREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   1607 GenBank   WP_020805752
Name   WP_020805752_RHBSTW-00165|unnamed insolico UniProt ID   A0A377TIM3
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14772.81 Da        Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP

ID   3552 GenBank   WP_080848157
Name   traD_HV104_RS29575_RHBSTW-00165|unnamed insolico UniProt ID   _
Length   764 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 764 a.a.        Molecular weight: 85403.54 Da        Isoelectric Point: 4.9713

>WP_080848157.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTVCVVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIQRRLDARVDGRLSALLEAREAEGSLARALFTPDEPVSESAEEKAGVQPEQTKPAEDS
VLPVPVKTSSKAAEGAGKTPDVPLSGAPVTRVKTVPLIRPEPAASVTGTAAAASTAAVIATAGGTAQELA
QQPVEADQNMLPAGMNEDGVIEDMQAYDEWLAGEQTQRDMQRREEVNINHSRSEQDDIEIGGNF

  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: 2408..27396

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV104_RS29415 (HV104_29425) 339..731 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
HV104_RS29420 (HV104_29430) 969..1403 + 435 WP_181481508 hypothetical protein -
HV104_RS29425 (HV104_29435) 1757..1957 + 201 WP_048289787 TraY domain-containing protein -
HV104_RS29430 (HV104_29440) 2026..2394 + 369 WP_064343525 type IV conjugative transfer system pilin TraA -
HV104_RS29435 (HV104_29445) 2408..2713 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
HV104_RS29440 (HV104_29450) 2729..3295 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
HV104_RS29445 (HV104_29455) 3282..4016 + 735 WP_064343528 type-F conjugative transfer system secretin TraK traK
HV104_RS29450 (HV104_29460) 4016..5437 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
HV104_RS29455 (HV104_29465) 5430..5864 + 435 WP_020322358 conjugal transfer protein TraP -
HV104_RS29460 (HV104_29470) 5898..6482 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
HV104_RS29465 (HV104_29475) 7095..7283 + 189 WP_053390286 hypothetical protein -
HV104_RS31295 7367..7768 + 402 WP_064343532 hypothetical protein -
HV104_RS29475 (HV104_29485) 7765..8064 + 300 WP_053390308 hypothetical protein -
HV104_RS29480 (HV104_29490) 8152..8535 + 384 WP_042946290 hypothetical protein -
HV104_RS29485 (HV104_29495) 8628..11267 + 2640 WP_064343533 type IV secretion system protein TraC virb4
HV104_RS29490 (HV104_29500) 11267..11659 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
HV104_RS29495 (HV104_29505) 11656..12282 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
HV104_RS29500 (HV104_29510) 12326..13285 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
HV104_RS29505 (HV104_29515) 13298..13945 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV104_RS29510 (HV104_29520) 13942..14325 + 384 WP_053390297 hypothetical protein -
HV104_RS29515 (HV104_29525) 14322..16277 + 1956 WP_082226156 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV104_RS29520 (HV104_29530) 16309..16569 + 261 WP_053390216 hypothetical protein -
HV104_RS29525 (HV104_29535) 16562..17173 + 612 WP_117977341 hypothetical protein -
HV104_RS29530 (HV104_29540) 17163..17405 + 243 WP_082226157 conjugal transfer protein TrbE -
HV104_RS29535 (HV104_29545) 17451..17777 + 327 WP_053390219 hypothetical protein -
HV104_RS29540 (HV104_29550) 17798..18550 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
HV104_RS29545 (HV104_29555) 18561..18797 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
HV104_RS29550 (HV104_29560) 18772..19332 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV104_RS29555 (HV104_29565) 19319..20689 + 1371 WP_049078362 conjugal transfer pilus assembly protein TraH traH
HV104_RS29560 (HV104_29570) 20689..23532 + 2844 WP_049078361 conjugal transfer mating-pair stabilization protein TraG traG
HV104_RS29565 (HV104_29575) 23538..24053 + 516 WP_049078360 conjugal transfer protein TraS -
HV104_RS29570 (HV104_29580) 24116..24862 + 747 WP_049078359 hypothetical protein -
HV104_RS29575 (HV104_29585) 25102..27396 + 2295 WP_080848157 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5659 GenBank   NZ_CP055367
Plasmid name   RHBSTW-00165|unnamed Incompatibility group   IncFII
Plasmid size   103996 bp Coordinate of oriT [Strand]   1..28 [-]
Host baterium   Klebsiella grimontii strain RHBSTW-00165

Cargo genes

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