Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119472
Name   oriT_pKP18-31-2 in_silico
Organism   Klebsiella quasipneumoniae strain KP18-31
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN661403 (80769..80817 [-], 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_pKP18-31-2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12299 GenBank   WP_064359958
Name   traI_H5G40_RS00630_pKP18-31-2 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   7005 GenBank   WP_020805752
Name   WP_020805752_pKP18-31-2 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   14434 GenBank   WP_064343540
Name   traD_H5G40_RS00625_pKP18-31-2 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: 85378.44 Da        Isoelectric Point: 4.9296

>WP_064343540.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTVCVVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIQRRLDARVDGRLSALLEAREAEGSLARALFTPDEPVSESAEEKAGVQPEQTKPAEDS
VLPVPVKTSSKAAEGAGKTPDVPLSGAPVTRVKTVPLIRPEPAASVTGTAAAASTAAVSATAGGTEQELA
QQPVEADQDMLPAGMNEDGVIEDMQAYDAWLAGEQTQRDMQRREEVNINHSRSEQDDIEIGGNF

  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: 80202..108183

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H5G40_RS00430 75394..76269 + 876 WP_060415463 DUF4942 domain-containing protein -
H5G40_RS00695 76651..76759 - 109 Protein_88 hypothetical protein -
H5G40_RS00435 77047..77385 + 339 WP_020804855 hypothetical protein -
H5G40_RS00440 77442..77789 + 348 WP_064182675 hypothetical protein -
H5G40_RS00445 77878..78108 + 231 WP_060415465 hypothetical protein -
H5G40_RS00450 78155..78988 + 834 WP_060415466 N-6 DNA methylase -
H5G40_RS00455 79274..79642 - 369 WP_080848162 hypothetical protein -
H5G40_RS00460 79637..80179 + 543 WP_060415467 antirestriction protein -
H5G40_RS00465 80202..80624 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
H5G40_RS00470 81128..81520 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
H5G40_RS00700 81767..82459 + 693 WP_228723673 hypothetical protein -
H5G40_RS00480 82545..82745 + 201 WP_048289787 TraY domain-containing protein -
H5G40_RS00485 82814..83182 + 369 WP_064343525 type IV conjugative transfer system pilin TraA -
H5G40_RS00490 83196..83501 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
H5G40_RS00495 83517..84083 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
H5G40_RS00500 84070..84804 + 735 WP_064343528 type-F conjugative transfer system secretin TraK traK
H5G40_RS00505 84804..86225 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
H5G40_RS00510 86218..86652 + 435 WP_020322358 conjugal transfer protein TraP -
H5G40_RS00515 86686..87270 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
H5G40_RS00520 87883..88071 + 189 WP_053390286 hypothetical protein -
H5G40_RS00705 88155..88556 + 402 WP_064343532 hypothetical protein -
H5G40_RS00530 88553..88852 + 300 WP_053390308 hypothetical protein -
H5G40_RS00535 88940..89323 + 384 WP_064359955 hypothetical protein -
H5G40_RS00540 89416..92055 + 2640 WP_064343533 type IV secretion system protein TraC virb4
H5G40_RS00545 92055..92447 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
H5G40_RS00550 92444..93069 + 626 Protein_112 type-F conjugative transfer system protein TraW -
H5G40_RS00555 93113..94072 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
H5G40_RS00560 94085..94732 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
H5G40_RS00565 94729..95112 + 384 WP_053390297 hypothetical protein -
H5G40_RS00570 95109..97064 + 1956 WP_064359956 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H5G40_RS00575 97349..97960 + 612 WP_053390217 hypothetical protein -
H5G40_RS00580 97950..98192 + 243 WP_053390218 conjugal transfer protein TrbE -
H5G40_RS00585 98238..98564 + 327 WP_053390219 hypothetical protein -
H5G40_RS00590 98585..99337 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
H5G40_RS00595 99348..99584 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
H5G40_RS00600 99559..100119 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H5G40_RS00605 100106..101476 + 1371 WP_049078362 conjugal transfer pilus assembly protein TraH traH
H5G40_RS00610 101476..104319 + 2844 WP_049078361 conjugal transfer mating-pair stabilization protein TraG traG
H5G40_RS00615 104325..104840 + 516 WP_049078360 conjugal transfer protein TraS -
H5G40_RS00620 104930..105649 + 720 WP_181718667 hypothetical protein -
H5G40_RS00625 105889..108183 + 2295 WP_064343540 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19902 GenBank   NZ_MN661403
Plasmid name   pKP18-31-2 Incompatibility group   IncFII
Plasmid size   119810 bp Coordinate of oriT [Strand]   80769..80817 [-]
Host baterium   Klebsiella quasipneumoniae strain KP18-31

Cargo genes

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