Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104118
Name   oriT_2022CK-00781|unnamed1 in_silico
Organism   Klebsiella grimontii strain 2022CK-00781
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117731 (177972..178021 [+], 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_2022CK-00781|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3030 GenBank   WP_273863300
Name   traI_PTC90_RS29260_2022CK-00781|unnamed1 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190795.80 Da        Isoelectric Point: 6.1732

>WP_273863300.1 conjugative transfer relaxase/helicase TraI [Klebsiella grimontii]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

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)


  Protein structure



No available structure.




T4CP

ID   2919 GenBank   WP_135715266
Name   traD_PTC90_RS29265_2022CK-00781|unnamed1 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85926.01 Da        Isoelectric Point: 5.0596

>WP_135715266.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 149968..178579

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PTC90_RS29265 (PTC90_29260) 149968..152280 - 2313 WP_135715266 type IV conjugative transfer system coupling protein TraD virb4
PTC90_RS29270 (PTC90_29265) 152336..152449 - 114 Protein_151 hypothetical protein -
PTC90_RS29275 (PTC90_29270) 152640..153371 - 732 WP_032415736 conjugal transfer complement resistance protein TraT -
PTC90_RS29280 (PTC90_29275) 153623..154225 - 603 WP_023280878 hypothetical protein -
PTC90_RS29285 (PTC90_29280) 154249..157071 - 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
PTC90_RS29290 (PTC90_29285) 157071..158450 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
PTC90_RS29295 (PTC90_29290) 158428..158871 - 444 WP_032436741 F-type conjugal transfer protein TrbF -
PTC90_RS29300 (PTC90_29295) 158916..159473 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PTC90_RS29305 (PTC90_29300) 159445..159684 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
PTC90_RS29310 (PTC90_29305) 159695..160447 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
PTC90_RS29315 (PTC90_29310) 160468..160794 - 327 WP_032436744 hypothetical protein -
PTC90_RS32890 160840..161025 - 186 WP_032436745 hypothetical protein -
PTC90_RS29320 (PTC90_29315) 161022..161258 - 237 WP_032436746 conjugal transfer protein TrbE -
PTC90_RS29325 (PTC90_29320) 161290..163245 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PTC90_RS29330 (PTC90_29325) 163304..163942 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
PTC90_RS29335 (PTC90_29330) 163955..164914 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
PTC90_RS29340 (PTC90_29335) 164958..165584 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
PTC90_RS29345 (PTC90_29340) 165584..165973 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
PTC90_RS29350 (PTC90_29345) 165973..168612 - 2640 WP_016528865 type IV secretion system protein TraC virb4
PTC90_RS29355 (PTC90_29350) 168684..169082 - 399 WP_072158599 hypothetical protein -
PTC90_RS29360 (PTC90_29355) 169090..169380 - 291 WP_023307542 hypothetical protein -
PTC90_RS29365 (PTC90_29360) 169377..169781 - 405 WP_023307543 hypothetical protein -
PTC90_RS29370 (PTC90_29365) 169848..170165 - 318 WP_023307544 hypothetical protein -
PTC90_RS29375 (PTC90_29370) 170166..170384 - 219 WP_004171484 hypothetical protein -
PTC90_RS29380 (PTC90_29375) 170408..170698 - 291 WP_004152596 hypothetical protein -
PTC90_RS29385 (PTC90_29380) 170703..171113 - 411 WP_004152597 lipase chaperone -
PTC90_RS29390 (PTC90_29385) 171245..171814 - 570 WP_273863303 type IV conjugative transfer system lipoprotein TraV traV
PTC90_RS29395 (PTC90_29390) 171837..172433 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
PTC90_RS29400 (PTC90_29395) 172426..173850 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
PTC90_RS29405 (PTC90_29400) 173850..174590 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
PTC90_RS29410 (PTC90_29405) 174577..175143 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
PTC90_RS29415 (PTC90_29410) 175163..175468 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
PTC90_RS29420 (PTC90_29415) 175482..175850 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
PTC90_RS29425 (PTC90_29420) 175904..176275 - 372 WP_004208838 TraY domain-containing protein -
PTC90_RS29430 (PTC90_29425) 176359..177054 - 696 WP_004178061 transcriptional regulator TraJ family protein -
PTC90_RS29435 (PTC90_29430) 177268..177660 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
PTC90_RS29440 (PTC90_29435) 178094..178579 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
PTC90_RS29445 (PTC90_29440) 178612..178941 - 330 WP_011977736 DUF5983 family protein -
PTC90_RS29450 (PTC90_29445) 178974..179795 - 822 WP_004178064 DUF932 domain-containing protein -
PTC90_RS29455 (PTC90_29450) 180625..181038 - 414 WP_004152722 helix-turn-helix domain-containing protein -
PTC90_RS29460 (PTC90_29455) 181039..181317 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
PTC90_RS29465 (PTC90_29460) 181307..181627 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
PTC90_RS29470 (PTC90_29465) 181708..181932 - 225 WP_004152719 hypothetical protein -
PTC90_RS29475 (PTC90_29470) 181943..182155 - 213 WP_004152718 hypothetical protein -
PTC90_RS29480 (PTC90_29475) 182216..182572 - 357 WP_004152717 hypothetical protein -
PTC90_RS29485 (PTC90_29480) 183208..183558 - 351 WP_004182068 hypothetical protein -

Host bacterium

ID   4557 GenBank   NZ_CP117731
Plasmid name   2022CK-00781|unnamed1 Incompatibility group   IncFIB
Plasmid size   204852 bp Coordinate of oriT [Strand]   177972..178021 [+]
Host baterium   Klebsiella grimontii strain 2022CK-00781

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF20.2, AcrIE9