Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102063
Name   oriT_ARPG-315|unnamed14 in_silico
Organism   Klebsiella pneumoniae strain ARPG-315
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NBOI01000039 (50625..50674 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_ARPG-315|unnamed14
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1646 GenBank   WP_004153029
Name   traI_B7D65_RS26180_ARPG-315|unnamed14 insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1275 GenBank   WP_004152630
Name   traD_B7D65_RS26185_ARPG-315|unnamed14 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 22814..51232

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B7D65_RS26185 (B7D65_26095) 22814..25123 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
B7D65_RS26190 (B7D65_26100) 25483..26214 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
B7D65_RS26195 (B7D65_26105) 26404..26931 - 528 WP_004153030 hypothetical protein -
B7D65_RS26200 (B7D65_26110) 26937..29786 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
B7D65_RS26205 (B7D65_26115) 29786..31156 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
B7D65_RS26210 (B7D65_26120) 31143..31571 - 429 WP_004152689 hypothetical protein -
B7D65_RS26215 (B7D65_26125) 31564..32136 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
B7D65_RS26220 (B7D65_26130) 32108..32347 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
B7D65_RS26225 (B7D65_26135) 32358..33110 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
B7D65_RS26230 (B7D65_26140) 33131..33457 - 327 WP_004152685 hypothetical protein -
B7D65_RS28275 (B7D65_26145) 33503..33688 - 186 WP_004152684 hypothetical protein -
B7D65_RS26240 (B7D65_26150) 33685..33921 - 237 WP_004152683 conjugal transfer protein TrbE -
B7D65_RS26245 (B7D65_26155) 33953..35908 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
B7D65_RS26250 (B7D65_26160) 35956..36594 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
B7D65_RS26255 (B7D65_26165) 36607..37566 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
B7D65_RS26260 (B7D65_26170) 37610..38236 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
B7D65_RS26265 (B7D65_26175) 38236..38625 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
B7D65_RS26270 (B7D65_26180) 38625..41264 - 2640 WP_004152592 type IV secretion system protein TraC virb4
B7D65_RS26275 (B7D65_26185) 41336..41734 - 399 WP_004153071 hypothetical protein -
B7D65_RS26285 (B7D65_26195) 42030..42434 - 405 WP_004152594 hypothetical protein -
B7D65_RS26290 (B7D65_26200) 42501..42818 - 318 WP_004152595 hypothetical protein -
B7D65_RS26295 (B7D65_26205) 42819..43037 - 219 WP_004171484 hypothetical protein -
B7D65_RS26300 (B7D65_26210) 43061..43351 - 291 WP_004152596 hypothetical protein -
B7D65_RS26305 (B7D65_26215) 43356..43766 - 411 WP_004152597 lipase chaperone -
B7D65_RS26310 (B7D65_26220) 43898..44467 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
B7D65_RS26315 (B7D65_26225) 44490..45086 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
B7D65_RS26320 (B7D65_26230) 45079..46503 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
B7D65_RS26325 (B7D65_26235) 46503..47243 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
B7D65_RS26330 (B7D65_26240) 47230..47796 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
B7D65_RS26335 (B7D65_26245) 47816..48121 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
B7D65_RS26340 (B7D65_26250) 48135..48503 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
B7D65_RS26345 (B7D65_26255) 48557..48928 - 372 WP_004208838 TraY domain-containing protein -
B7D65_RS26350 (B7D65_26260) 49012..49707 - 696 WP_004178061 transcriptional regulator TraJ family protein -
B7D65_RS26355 (B7D65_26265) 49921..50313 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
B7D65_RS26360 (B7D65_26270) 50747..51232 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
B7D65_RS26365 (B7D65_26275) 51265..51594 - 330 WP_011977736 DUF5983 family protein -
B7D65_RS26370 (B7D65_26280) 51627..52448 - 822 WP_004178064 DUF932 domain-containing protein -
B7D65_RS26390 (B7D65_26300) 53282..53695 - 414 WP_004152722 helix-turn-helix domain-containing protein -
B7D65_RS26395 (B7D65_26305) 53696..53974 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
B7D65_RS26400 (B7D65_26310) 53964..54284 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
B7D65_RS26405 (B7D65_26315) 54365..54589 - 225 WP_004152719 hypothetical protein -
B7D65_RS26410 (B7D65_26320) 54600..54812 - 213 WP_004152718 hypothetical protein -
B7D65_RS26415 (B7D65_26325) 54873..55229 - 357 WP_004152717 hypothetical protein -
B7D65_RS26435 (B7D65_26345) 55865..56215 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2507 GenBank   NZ_NBOI01000039
Plasmid name   ARPG-315|unnamed14 Incompatibility group   IncFII
Plasmid size   70039 bp Coordinate of oriT [Strand]   50625..50674 [+]
Host baterium   Klebsiella pneumoniae strain ARPG-315

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9