Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102251
Name   oriT_pKPN3 in_silico
Organism   Klebsiella pneumoniae strain LKP817909
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PHFH01000054 (1852..1901 [-], 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_pKPN3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1732 GenBank   WP_004153029
Name   traI_CVO78_RS06710_pKPN3 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   1314 GenBank   WP_004152630
Name   traD_CVO78_RS06705_pKPN3 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: 1294..29712

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CVO78_RS06520 (CVO78_06545) 78..899 + 822 WP_004178064 DUF932 domain-containing protein -
CVO78_RS06525 (CVO78_06550) 932..1261 + 330 WP_011977736 DUF5983 family protein -
CVO78_RS06530 (CVO78_06555) 1294..1779 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
CVO78_RS06535 (CVO78_06560) 2213..2605 + 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
CVO78_RS06540 (CVO78_06565) 2819..3514 + 696 WP_004178061 transcriptional regulator TraJ family protein -
CVO78_RS06545 (CVO78_06570) 3598..3969 + 372 WP_004208838 TraY domain-containing protein -
CVO78_RS06550 (CVO78_06575) 4023..4391 + 369 WP_004178060 type IV conjugative transfer system pilin TraA -
CVO78_RS06555 (CVO78_06580) 4405..4710 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
CVO78_RS06560 (CVO78_06585) 4730..5296 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
CVO78_RS06565 (CVO78_06590) 5283..6023 + 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
CVO78_RS06570 (CVO78_06595) 6023..7447 + 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
CVO78_RS06575 (CVO78_06600) 7440..8036 + 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
CVO78_RS06580 (CVO78_06605) 8059..8628 + 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
CVO78_RS06585 (CVO78_06610) 8760..9170 + 411 WP_004152597 lipase chaperone -
CVO78_RS06590 (CVO78_06615) 9175..9465 + 291 WP_004152596 hypothetical protein -
CVO78_RS06595 (CVO78_06620) 9489..9707 + 219 WP_004171484 hypothetical protein -
CVO78_RS06600 (CVO78_06625) 9708..10025 + 318 WP_004152595 hypothetical protein -
CVO78_RS06605 (CVO78_06630) 10092..10496 + 405 WP_004152594 hypothetical protein -
CVO78_RS06615 (CVO78_06640) 10792..11190 + 399 WP_004153071 hypothetical protein -
CVO78_RS06620 (CVO78_06645) 11262..13901 + 2640 WP_004152592 type IV secretion system protein TraC virb4
CVO78_RS06625 (CVO78_06650) 13901..14290 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
CVO78_RS06630 (CVO78_06655) 14290..14916 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
CVO78_RS06635 (CVO78_06660) 14960..15919 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
CVO78_RS06640 (CVO78_06665) 15932..16570 + 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
CVO78_RS06645 (CVO78_06670) 16618..18573 + 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CVO78_RS06650 (CVO78_06675) 18605..18841 + 237 WP_004152683 conjugal transfer protein TrbE -
CVO78_RS29995 (CVO78_06680) 18838..19023 + 186 WP_004152684 hypothetical protein -
CVO78_RS06660 (CVO78_06685) 19069..19395 + 327 WP_004152685 hypothetical protein -
CVO78_RS06665 (CVO78_06690) 19416..20168 + 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
CVO78_RS06670 (CVO78_06695) 20179..20418 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
CVO78_RS06675 (CVO78_06700) 20390..20962 + 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CVO78_RS06680 (CVO78_06705) 20955..21383 + 429 WP_004152689 hypothetical protein -
CVO78_RS06685 (CVO78_06710) 21370..22740 + 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
CVO78_RS06690 (CVO78_06715) 22740..25589 + 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
CVO78_RS06695 (CVO78_06720) 25595..26122 + 528 WP_004153030 hypothetical protein -
CVO78_RS06700 (CVO78_06725) 26312..27043 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
CVO78_RS06705 (CVO78_06730) 27403..29712 + 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2695 GenBank   NZ_PHFH01000054
Plasmid name   pKPN3 Incompatibility group   IncFII
Plasmid size   51084 bp Coordinate of oriT [Strand]   1852..1901 [-]
Host baterium   Klebsiella pneumoniae strain LKP817909

Cargo genes

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