Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122094
Name   oriT_pIncFIIK in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain VMC06
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHSUB010000027 (48313..48361 [+], 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_pIncFIIK
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13932 GenBank   WP_259608905
Name   traI_KVG89_RS23695_pIncFIIK insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190396.04 Da        Isoelectric Point: 6.1182

>WP_259608905.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTIQ
AQIWSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTVVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGESRKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(576-628)

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

(634-713)

AAA domain (AAA_30)

(970-1156)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   7745 GenBank   WP_087829209
Name   WP_087829209_pIncFIIK insolico UniProt ID   _
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14907.97 Da        Isoelectric Point: 4.5248

>WP_087829209.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure



No available structure.




T4CP

ID   16333 GenBank   WP_087829319
Name   traD_KVG89_RS23700_pIncFIIK insolico UniProt ID   _
Length   761 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 761 a.a.        Molecular weight: 85294.30 Da        Isoelectric Point: 4.9677

>WP_087829319.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFIFAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLSLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRSLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPAEVTV
SPAPVKATQTTKMPAEEPSVRATEPPVLRVTTVPLIKPKAAGTAATASSAGTPVAPAGGTEQELVQHSTE
QGRDMLPAGMNEDGVIEDMQAYDAWLADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 20149..48919

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KVG89_RS23700 (KVG89_23635) 20149..22434 - 2286 WP_087829319 type IV conjugative transfer system coupling protein TraD virb4
KVG89_RS23705 (KVG89_23640) 22506..22766 - 261 WP_020803850 hypothetical protein -
KVG89_RS23710 22790..23458 - 669 WP_020803846 hypothetical protein -
KVG89_RS23715 (KVG89_23650) 23641..24168 - 528 WP_020803849 hypothetical protein -
KVG89_RS23720 (KVG89_23655) 24174..27023 - 2850 WP_032744228 conjugal transfer mating-pair stabilization protein TraG traG
KVG89_RS23725 (KVG89_23660) 27023..28402 - 1380 WP_162495503 conjugal transfer pilus assembly protein TraH traH
KVG89_RS23730 (KVG89_23665) 28380..28823 - 444 WP_020804675 F-type conjugal transfer protein TrbF -
KVG89_RS23735 (KVG89_23670) 28869..29426 - 558 WP_020804677 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KVG89_RS23740 (KVG89_23675) 29398..29637 - 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
KVG89_RS23745 (KVG89_23680) 30092..30844 - 753 WP_023316406 type-F conjugative transfer system pilin assembly protein TraF traF
KVG89_RS23750 (KVG89_23685) 30865..31191 - 327 WP_020323521 hypothetical protein -
KVG89_RS23755 (KVG89_23690) 31202..31429 - 228 WP_012540032 conjugal transfer protein TrbE -
KVG89_RS23760 (KVG89_23695) 31419..31700 - 282 WP_022644736 hypothetical protein -
KVG89_RS23765 (KVG89_23700) 31733..33688 - 1956 WP_020803160 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KVG89_RS23770 (KVG89_23705) 33747..34385 - 639 WP_064182677 type-F conjugative transfer system pilin assembly protein TrbC trbC
KVG89_RS23775 (KVG89_23710) 34398..35357 - 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
KVG89_RS23780 (KVG89_23715) 35401..36027 - 627 WP_020314628 type-F conjugative transfer system protein TraW traW
KVG89_RS23785 (KVG89_23720) 36027..36416 - 390 WP_020314627 type-F conjugative transfer system protein TrbI -
KVG89_RS23790 (KVG89_23725) 36416..39055 - 2640 WP_020323518 type IV secretion system protein TraC virb4
KVG89_RS23795 (KVG89_23730) 39127..39525 - 399 WP_072156904 hypothetical protein -
KVG89_RS23800 (KVG89_23735) 39533..39823 - 291 WP_020323516 hypothetical protein -
KVG89_RS23805 (KVG89_23740) 39820..40224 - 405 WP_023316404 hypothetical protein -
KVG89_RS23810 (KVG89_23745) 40291..40602 - 312 WP_023316403 hypothetical protein -
KVG89_RS23815 (KVG89_23750) 40603..40821 - 219 WP_023316402 hypothetical protein -
KVG89_RS23820 (KVG89_23755) 40845..41129 - 285 WP_023316401 hypothetical protein -
KVG89_RS23825 (KVG89_23760) 41134..41544 - 411 WP_023316400 hypothetical protein -
KVG89_RS23830 (KVG89_23765) 41676..42245 - 570 WP_023316399 type IV conjugative transfer system lipoprotein TraV traV
KVG89_RS23835 (KVG89_23770) 42268..42864 - 597 WP_023316398 conjugal transfer pilus-stabilizing protein TraP -
KVG89_RS23840 (KVG89_23775) 42857..44281 - 1425 WP_023316397 F-type conjugal transfer pilus assembly protein TraB traB
KVG89_RS23845 (KVG89_23780) 44281..45021 - 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
KVG89_RS23850 (KVG89_23785) 45008..45574 - 567 WP_064373744 type IV conjugative transfer system protein TraE traE
KVG89_RS23855 (KVG89_23790) 45594..45899 - 306 WP_087829212 type IV conjugative transfer system protein TraL traL
KVG89_RS23860 (KVG89_23795) 45913..46281 - 369 WP_087829211 type IV conjugative transfer system pilin TraA -
KVG89_RS23865 (KVG89_23800) 46343..46507 - 165 WP_032444506 TraY domain-containing protein -
KVG89_RS23870 (KVG89_23805) 46699..47373 - 675 WP_095033684 hypothetical protein -
KVG89_RS23875 (KVG89_23810) 47612..48001 - 390 WP_087829209 conjugal transfer relaxosome DNA-binding protein TraM -
KVG89_RS23880 (KVG89_23815) 48434..48919 + 486 WP_022631514 transglycosylase SLT domain-containing protein virB1
KVG89_RS23885 (KVG89_23820) 48952..49281 - 330 WP_011977736 DUF5983 family protein -
KVG89_RS23890 (KVG89_23825) 49314..50135 - 822 WP_004152492 DUF932 domain-containing protein -
KVG89_RS23895 (KVG89_23830) 50955..51788 - 834 WP_004152751 N-6 DNA methylase -
KVG89_RS23900 (KVG89_23835) 51839..51985 - 147 WP_004152750 hypothetical protein -
KVG89_RS23905 (KVG89_23840) 52080..52427 - 348 WP_004152749 hypothetical protein -
KVG89_RS23910 (KVG89_23845) 52484..52837 - 354 WP_023179962 hypothetical protein -
KVG89_RS23915 (KVG89_23850) 53467..53817 - 351 WP_004153414 hypothetical protein -

Host bacterium

ID   22521 GenBank   NZ_JAHSUB010000027
Plasmid name   pIncFIIK Incompatibility group   IncFII
Plasmid size   67064 bp Coordinate of oriT [Strand]   48313..48361 [+]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain VMC06

Cargo genes

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