Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105242
Name   oriT_pRHBSTW-00982_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00982
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056217 (126216..126265 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pRHBSTW-00982_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3600 GenBank   WP_074384307
Name   traI_HV343_RS25910_pRHBSTW-00982_2 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: 190909.02 Da        Isoelectric Point: 6.1572

>WP_074384307.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKEVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLVGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1157)

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)


  Protein structure



No available structure.




T4CP

ID   3560 GenBank   WP_038990999
Name   traD_HV343_RS25915_pRHBSTW-00982_2 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: 85979.08 Da        Isoelectric Point: 5.0632

>WP_038990999.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSVGIPAAAAGGTE
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: 98824..126817

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV343_RS25915 (HV343_25915) 98824..101133 - 2310 WP_038990999 type IV conjugative transfer system coupling protein TraD virb4
HV343_RS25920 (HV343_25920) 101493..102224 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
HV343_RS25925 (HV343_25925) 102414..102941 - 528 WP_004153030 hypothetical protein -
HV343_RS25930 (HV343_25930) 102947..105796 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
HV343_RS25935 (HV343_25935) 105796..107166 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
HV343_RS25940 (HV343_25940) 107153..107581 - 429 WP_023292146 hypothetical protein -
HV343_RS25945 (HV343_25945) 107574..108146 - 573 WP_023292147 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV343_RS25950 (HV343_25950) 108118..108357 - 240 WP_023292148 type-F conjugative transfer system pilin chaperone TraQ -
HV343_RS25955 (HV343_25955) 108368..109120 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
HV343_RS25960 (HV343_25960) 109141..109467 - 327 WP_004152685 hypothetical protein -
HV343_RS26570 109513..109698 - 186 WP_004152684 hypothetical protein -
HV343_RS25965 (HV343_25965) 109695..109931 - 237 WP_023292149 conjugal transfer protein TrbE -
HV343_RS25970 (HV343_25970) 109963..111918 - 1956 WP_032429306 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV343_RS25975 (HV343_25975) 111966..112604 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV343_RS25980 (HV343_25980) 112617..113576 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV343_RS25985 (HV343_25985) 113620..114246 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
HV343_RS25990 (HV343_25990) 114246..114635 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
HV343_RS25995 (HV343_25995) 114635..117274 - 2640 WP_004152592 type IV secretion system protein TraC virb4
HV343_RS26000 (HV343_26000) 117346..117744 - 399 WP_004153071 hypothetical protein -
HV343_RS26005 (HV343_26005) 117752..118042 - 291 WP_023292151 hypothetical protein -
HV343_RS26010 (HV343_26010) 118039..118443 - 405 WP_023292152 hypothetical protein -
HV343_RS26015 (HV343_26015) 118510..118827 - 318 WP_023292153 hypothetical protein -
HV343_RS26020 (HV343_26020) 118828..119046 - 219 WP_004171484 hypothetical protein -
HV343_RS26025 (HV343_26025) 119070..119360 - 291 WP_032429299 hypothetical protein -
HV343_RS26030 (HV343_26030) 119365..119775 - 411 WP_023292154 hypothetical protein -
HV343_RS26035 (HV343_26035) 119907..120476 - 570 WP_032429300 type IV conjugative transfer system lipoprotein TraV traV
HV343_RS26040 (HV343_26040) 120495..120680 - 186 WP_038990989 hypothetical protein -
HV343_RS26045 (HV343_26045) 120677..122101 - 1425 WP_023292156 F-type conjugal transfer pilus assembly protein TraB traB
HV343_RS26050 (HV343_26050) 122101..122841 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV343_RS26055 (HV343_26055) 122828..123394 - 567 WP_020316627 type IV conjugative transfer system protein TraE traE
HV343_RS26060 (HV343_26060) 123414..123719 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV343_RS26065 (HV343_26065) 123733..124101 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
HV343_RS26070 (HV343_26070) 124155..124526 - 372 WP_004208838 TraY domain-containing protein -
HV343_RS26075 (HV343_26075) 124610..125305 - 696 WP_023292158 transcriptional regulator TraJ family protein -
HV343_RS26080 (HV343_26080) 125512..125904 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
HV343_RS26085 (HV343_26085) 126410..126817 + 408 WP_225375048 transglycosylase SLT domain-containing protein virB1
HV343_RS26090 (HV343_26090) 126855..127385 - 531 WP_023292160 antirestriction protein -
HV343_RS26095 (HV343_26095) 128010..128843 - 834 WP_038990979 N-6 DNA methylase -
HV343_RS26100 (HV343_26100) 128890..129120 - 231 WP_038990977 hypothetical protein -
HV343_RS26105 (HV343_26105) 129208..129555 - 348 WP_038990975 hypothetical protein -
HV343_RS26110 (HV343_26110) 129622..130002 - 381 WP_038990973 hypothetical protein -
HV343_RS26115 (HV343_26115) 130907..131026 - 120 WP_223156217 type I toxin-antitoxin system Hok family toxin -
HV343_RS26455 130971..131123 - 153 WP_224230667 DUF5431 family protein -
HV343_RS26120 (HV343_26120) 131282..131608 - 327 WP_038992719 hypothetical protein -

Host bacterium

ID   5680 GenBank   NZ_CP056217
Plasmid name   pRHBSTW-00982_2 Incompatibility group   IncFIB
Plasmid size   144961 bp Coordinate of oriT [Strand]   126216..126265 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00982

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -