Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102248
Name   oriT_pB16 P26 in_silico
Organism   Klebsiella pneumoniae strain B16
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NTCW01000077 (49356..49405 [+], 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_pB16 P26
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1730 GenBank   WP_065898399
Name   traI_CLI87_RS28780_pB16 P26 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: 190718.76 Da        Isoelectric Point: 6.2077

>WP_065898399.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTL
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   1313 GenBank   WP_004152630
Name   traD_CLI87_RS28785_pB16 P26 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: 21545..49963

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CLI87_RS28785 (CLI87_28795) 21545..23854 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
CLI87_RS28790 (CLI87_28800) 24214..24945 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
CLI87_RS28795 (CLI87_28805) 25135..25662 - 528 WP_004153030 hypothetical protein -
CLI87_RS28800 (CLI87_28810) 25668..28517 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
CLI87_RS28805 (CLI87_28815) 28517..29887 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
CLI87_RS28810 (CLI87_28820) 29874..30302 - 429 WP_004152689 hypothetical protein -
CLI87_RS28815 (CLI87_28825) 30295..30867 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CLI87_RS28820 (CLI87_28830) 30839..31078 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
CLI87_RS28825 (CLI87_28835) 31089..31841 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
CLI87_RS28830 (CLI87_28840) 31862..32188 - 327 WP_004152685 hypothetical protein -
CLI87_RS32465 (CLI87_28845) 32234..32419 - 186 WP_004152684 hypothetical protein -
CLI87_RS28840 (CLI87_28850) 32416..32652 - 237 WP_004152683 conjugal transfer protein TrbE -
CLI87_RS28845 (CLI87_28855) 32684..34639 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CLI87_RS28850 (CLI87_28860) 34687..35325 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
CLI87_RS28855 (CLI87_28865) 35338..36297 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
CLI87_RS28860 (CLI87_28870) 36341..36967 - 627 WP_094387712 type-F conjugative transfer system protein TraW traW
CLI87_RS28865 (CLI87_28875) 36967..37356 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
CLI87_RS28870 (CLI87_28880) 37356..39995 - 2640 WP_004152592 type IV secretion system protein TraC virb4
CLI87_RS28875 (CLI87_28885) 40067..40465 - 399 WP_004153071 hypothetical protein -
CLI87_RS28885 (CLI87_28895) 40761..41165 - 405 WP_004152594 hypothetical protein -
CLI87_RS28890 (CLI87_28900) 41232..41549 - 318 WP_004152595 hypothetical protein -
CLI87_RS28895 (CLI87_28905) 41550..41768 - 219 WP_004171484 hypothetical protein -
CLI87_RS28900 (CLI87_28910) 41792..42082 - 291 WP_004152596 hypothetical protein -
CLI87_RS28905 (CLI87_28915) 42087..42497 - 411 WP_004152597 lipase chaperone -
CLI87_RS28910 (CLI87_28920) 42629..43198 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
CLI87_RS28915 (CLI87_28925) 43221..43817 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
CLI87_RS28920 (CLI87_28930) 43810..45234 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
CLI87_RS28925 (CLI87_28935) 45234..45974 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
CLI87_RS28930 (CLI87_28940) 45961..46527 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
CLI87_RS28935 (CLI87_28945) 46547..46852 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
CLI87_RS28940 (CLI87_28950) 46866..47234 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
CLI87_RS28945 (CLI87_28955) 47288..47659 - 372 WP_004208838 TraY domain-containing protein -
CLI87_RS28950 (CLI87_28960) 47743..48438 - 696 WP_004178061 transcriptional regulator TraJ family protein -
CLI87_RS28955 (CLI87_28965) 48652..49044 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
CLI87_RS28960 (CLI87_28970) 49478..49963 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
CLI87_RS28965 (CLI87_28975) 49996..50325 - 330 WP_011977736 DUF5983 family protein -
CLI87_RS28970 (CLI87_28980) 50358..51179 - 822 WP_004178064 DUF932 domain-containing protein -
CLI87_RS28985 (CLI87_28995) 51809..52159 - 351 WP_004152758 hypothetical protein -
CLI87_RS28990 (CLI87_29000) 52156..52428 - 273 WP_004152759 hypothetical protein -
CLI87_RS28995 (CLI87_29005) 53128..53289 - 162 WP_004118124 type I toxin-antitoxin system Hok family toxin -
CLI87_RS29000 (CLI87_29010) 53361..54440 + 1080 WP_004220208 IS481-like element ISKpn28 family transposase -

Host bacterium

ID   2692 GenBank   NZ_NTCW01000077
Plasmid name   pB16 P26 Incompatibility group   IncFII
Plasmid size   65332 bp Coordinate of oriT [Strand]   49356..49405 [+]
Host baterium   Klebsiella pneumoniae strain B16

Cargo genes

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