Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104120
Name   oriT_2022CK-00781|unnamed3 in_silico
Organism   Klebsiella grimontii strain 2022CK-00781
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117733 (76900..76948 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_2022CK-00781|unnamed3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3032 GenBank   WP_064359958
Name   traI_PTC90_RS31255_2022CK-00781|unnamed3 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   1300 GenBank   WP_020805752
Name   WP_020805752_2022CK-00781|unnamed3 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   2922 GenBank   WP_080848157
Name   traD_PTC90_RS31250_2022CK-00781|unnamed3 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: 76333..104315

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PTC90_RS31050 (PTC90_31045) 71443..71790 + 348 WP_064182675 hypothetical protein -
PTC90_RS31055 (PTC90_31050) 71879..72109 + 231 WP_060415465 hypothetical protein -
PTC90_RS31060 (PTC90_31055) 72156..72989 + 834 WP_060415466 N-6 DNA methylase -
PTC90_RS31065 (PTC90_31060) 73229..74224 + 996 WP_077254794 IS5 family transposase -
PTC90_RS31070 (PTC90_31065) 74226..75194 + 969 WP_074185243 IS5 family transposase -
PTC90_RS31075 (PTC90_31070) 75405..75773 - 369 WP_080848162 hypothetical protein -
PTC90_RS31080 (PTC90_31075) 75768..76310 + 543 WP_060415467 antirestriction protein -
PTC90_RS31085 (PTC90_31080) 76333..76755 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
PTC90_RS31090 (PTC90_31085) 77259..77651 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
PTC90_RS31095 (PTC90_31090) 77889..78590 + 702 WP_223174962 hypothetical protein -
PTC90_RS31100 (PTC90_31095) 78676..78876 + 201 WP_048289787 TraY domain-containing protein -
PTC90_RS31105 (PTC90_31100) 78945..79313 + 369 WP_064343525 type IV conjugative transfer system pilin TraA -
PTC90_RS31110 (PTC90_31105) 79327..79632 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
PTC90_RS31115 (PTC90_31110) 79648..80214 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
PTC90_RS31120 (PTC90_31115) 80201..80935 + 735 WP_099743468 type-F conjugative transfer system secretin TraK traK
PTC90_RS31125 (PTC90_31120) 80935..82356 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
PTC90_RS31130 (PTC90_31125) 82349..82783 + 435 WP_020322358 conjugal transfer protein TraP -
PTC90_RS31135 (PTC90_31130) 82817..83401 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
PTC90_RS31140 (PTC90_31135) 84014..84202 + 189 WP_053390286 hypothetical protein -
PTC90_RS31145 (PTC90_31140) 84286..84687 + 402 WP_064343532 hypothetical protein -
PTC90_RS31150 (PTC90_31145) 84684..84983 + 300 WP_053390308 hypothetical protein -
PTC90_RS31155 (PTC90_31150) 85071..85454 + 384 WP_042946290 hypothetical protein -
PTC90_RS31160 (PTC90_31155) 85547..88186 + 2640 WP_064343533 type IV secretion system protein TraC virb4
PTC90_RS31165 (PTC90_31160) 88186..88578 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
PTC90_RS31170 (PTC90_31165) 88575..89201 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
PTC90_RS31175 (PTC90_31170) 89245..90204 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
PTC90_RS31180 (PTC90_31175) 90217..90864 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
PTC90_RS31185 (PTC90_31180) 90861..91244 + 384 WP_053390297 hypothetical protein -
PTC90_RS31190 (PTC90_31185) 91241..93196 + 1956 WP_080848160 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PTC90_RS31195 (PTC90_31190) 93228..93488 + 261 WP_053390216 hypothetical protein -
PTC90_RS31200 (PTC90_31195) 93481..94092 + 612 WP_053390217 hypothetical protein -
PTC90_RS31205 (PTC90_31200) 94082..94324 + 243 WP_053390218 conjugal transfer protein TrbE -
PTC90_RS31210 (PTC90_31205) 94370..94696 + 327 WP_053390219 hypothetical protein -
PTC90_RS31215 (PTC90_31210) 94717..95469 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
PTC90_RS31220 (PTC90_31215) 95480..95716 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
PTC90_RS31225 (PTC90_31220) 95691..96251 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PTC90_RS31230 (PTC90_31225) 96238..97608 + 1371 WP_080848158 conjugal transfer pilus assembly protein TraH traH
PTC90_RS31235 (PTC90_31230) 97608..100451 + 2844 WP_049078361 conjugal transfer mating-pair stabilization protein TraG traG
PTC90_RS31240 (PTC90_31235) 100457..100972 + 516 WP_049078360 conjugal transfer protein TraS -
PTC90_RS31245 (PTC90_31240) 101035..101781 + 747 WP_049078359 hypothetical protein -
PTC90_RS31250 (PTC90_31245) 102021..104315 + 2295 WP_080848157 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4559 GenBank   NZ_CP117733
Plasmid name   2022CK-00781|unnamed3 Incompatibility group   IncFII
Plasmid size   119611 bp Coordinate of oriT [Strand]   76900..76948 [-]
Host baterium   Klebsiella grimontii strain 2022CK-00781

Cargo genes

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