Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102287
Name   oriT_pB03 P20 in_silico
Organism   Klebsiella pneumoniae strain B03
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NTHT01000079 (49297..49346 [+], 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_pB03 P20
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1754 GenBank   WP_065898399
Name   traI_CK488_RS27025_pB03 P20 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   1344 GenBank   WP_004152630
Name   traD_CK488_RS27030_pB03 P20 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: 21486..49904

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CK488_RS27030 (CK488_26935) 21486..23795 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
CK488_RS27035 (CK488_26940) 24155..24886 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
CK488_RS27040 (CK488_26945) 25076..25603 - 528 WP_004153030 hypothetical protein -
CK488_RS27045 (CK488_26950) 25609..28458 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
CK488_RS27050 (CK488_26955) 28458..29828 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
CK488_RS27055 (CK488_26960) 29815..30243 - 429 WP_004152689 hypothetical protein -
CK488_RS27060 (CK488_26965) 30236..30808 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CK488_RS27065 (CK488_26970) 30780..31019 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
CK488_RS27070 (CK488_26975) 31030..31782 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
CK488_RS27075 (CK488_26980) 31803..32129 - 327 WP_004152685 hypothetical protein -
CK488_RS29775 (CK488_26985) 32175..32360 - 186 WP_004152684 hypothetical protein -
CK488_RS27085 (CK488_26990) 32357..32593 - 237 WP_004152683 conjugal transfer protein TrbE -
CK488_RS27090 (CK488_26995) 32625..34580 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CK488_RS27095 (CK488_27000) 34628..35266 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
CK488_RS27100 (CK488_27005) 35279..36238 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
CK488_RS27105 (CK488_27010) 36282..36908 - 627 WP_094387712 type-F conjugative transfer system protein TraW traW
CK488_RS27110 (CK488_27015) 36908..37297 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
CK488_RS27115 (CK488_27020) 37297..39936 - 2640 WP_004152592 type IV secretion system protein TraC virb4
CK488_RS27120 (CK488_27025) 40008..40406 - 399 WP_004153071 hypothetical protein -
CK488_RS27130 (CK488_27035) 40702..41106 - 405 WP_004152594 hypothetical protein -
CK488_RS27135 (CK488_27040) 41173..41490 - 318 WP_004152595 hypothetical protein -
CK488_RS27140 (CK488_27045) 41491..41709 - 219 WP_004171484 hypothetical protein -
CK488_RS27145 (CK488_27050) 41733..42023 - 291 WP_004152596 hypothetical protein -
CK488_RS27150 (CK488_27055) 42028..42438 - 411 WP_004152597 lipase chaperone -
CK488_RS27155 (CK488_27060) 42570..43139 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
CK488_RS27160 (CK488_27065) 43162..43758 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
CK488_RS27165 (CK488_27070) 43751..45175 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
CK488_RS27170 (CK488_27075) 45175..45915 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
CK488_RS27175 (CK488_27080) 45902..46468 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
CK488_RS27180 (CK488_27085) 46488..46793 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
CK488_RS27185 (CK488_27090) 46807..47175 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
CK488_RS27190 (CK488_27095) 47229..47600 - 372 WP_004208838 TraY domain-containing protein -
CK488_RS27195 (CK488_27100) 47684..48379 - 696 WP_004178061 transcriptional regulator TraJ family protein -
CK488_RS27200 (CK488_27105) 48593..48985 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
CK488_RS27205 (CK488_27110) 49419..49904 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
CK488_RS27210 (CK488_27115) 49937..50266 - 330 WP_011977736 DUF5983 family protein -
CK488_RS27215 (CK488_27120) 50299..51120 - 822 WP_004178064 DUF932 domain-containing protein -
CK488_RS27235 (CK488_27140) 51718..52131 - 414 WP_004152722 helix-turn-helix domain-containing protein -
CK488_RS27240 (CK488_27145) 52132..52410 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
CK488_RS27245 (CK488_27150) 52400..52720 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
CK488_RS27250 (CK488_27155) 52801..53025 - 225 WP_004152719 hypothetical protein -
CK488_RS27255 (CK488_27160) 53036..53248 - 213 WP_004152718 hypothetical protein -
CK488_RS27260 (CK488_27165) 53309..53665 - 357 WP_004152717 hypothetical protein -
CK488_RS27265 (CK488_27170) 53824..54174 - 351 WP_004152758 hypothetical protein -
CK488_RS27270 (CK488_27175) 54171..54443 - 273 WP_004152759 hypothetical protein -

Host bacterium

ID   2731 GenBank   NZ_NTHT01000079
Plasmid name   pB03 P20 Incompatibility group   IncFII
Plasmid size   63562 bp Coordinate of oriT [Strand]   49297..49346 [+]
Host baterium   Klebsiella pneumoniae strain B03

Cargo genes

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