Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101427
Name   oriT_pCRE19_1 in_silico
Organism   Klebsiella pneumoniae strain S19_CRE19
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHBNP010000002 (140702..140751 [-], 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_pCRE19_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1295 GenBank   WP_004153029
Name   traI_KIN62_RS27790_pCRE19_1 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   909 GenBank   WP_004152630
Name   traD_KIN62_RS27785_pCRE19_1 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: 140144..168562

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KIN62_RS27575 (KIN62_27505) 135161..135511 + 351 WP_004152758 hypothetical protein -
KIN62_RS27580 (KIN62_27510) 136147..136503 + 357 WP_004152717 hypothetical protein -
KIN62_RS27585 (KIN62_27515) 136564..136776 + 213 WP_004152718 hypothetical protein -
KIN62_RS27590 (KIN62_27520) 136787..137011 + 225 WP_004152719 hypothetical protein -
KIN62_RS27595 (KIN62_27525) 137092..137412 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
KIN62_RS27600 (KIN62_27530) 137402..137680 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
KIN62_RS27605 (KIN62_27535) 137681..138094 + 414 WP_004152722 helix-turn-helix domain-containing protein -
KIN62_RS27610 (KIN62_27540) 138928..139749 + 822 WP_004178064 DUF932 domain-containing protein -
KIN62_RS27615 (KIN62_27545) 139782..140111 + 330 WP_011977736 DUF5983 family protein -
KIN62_RS27620 (KIN62_27550) 140144..140629 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
KIN62_RS27625 (KIN62_27555) 141063..141455 + 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
KIN62_RS27630 (KIN62_27560) 141669..142364 + 696 WP_004178061 transcriptional regulator TraJ family protein -
KIN62_RS27635 (KIN62_27565) 142448..142819 + 372 WP_004208838 TraY domain-containing protein -
KIN62_RS27640 (KIN62_27570) 142873..143241 + 369 WP_004178060 type IV conjugative transfer system pilin TraA -
KIN62_RS27645 (KIN62_27575) 143255..143560 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
KIN62_RS27650 (KIN62_27580) 143580..144146 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
KIN62_RS27655 (KIN62_27585) 144133..144873 + 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
KIN62_RS27660 (KIN62_27590) 144873..146297 + 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
KIN62_RS27665 (KIN62_27595) 146290..146886 + 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
KIN62_RS27670 (KIN62_27600) 146909..147478 + 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
KIN62_RS27675 (KIN62_27605) 147610..148020 + 411 WP_004152597 lipase chaperone -
KIN62_RS27680 (KIN62_27610) 148025..148315 + 291 WP_004152596 hypothetical protein -
KIN62_RS27685 (KIN62_27615) 148339..148557 + 219 WP_004171484 hypothetical protein -
KIN62_RS27690 (KIN62_27620) 148558..148875 + 318 WP_004152595 hypothetical protein -
KIN62_RS27695 (KIN62_27625) 148942..149346 + 405 WP_004152594 hypothetical protein -
KIN62_RS27700 (KIN62_27630) 149642..150040 + 399 WP_004153071 hypothetical protein -
KIN62_RS27705 (KIN62_27635) 150112..152751 + 2640 WP_004152592 type IV secretion system protein TraC virb4
KIN62_RS27710 (KIN62_27640) 152751..153140 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
KIN62_RS27715 (KIN62_27645) 153140..153766 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
KIN62_RS27720 (KIN62_27650) 153810..154769 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
KIN62_RS27725 (KIN62_27655) 154782..155420 + 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
KIN62_RS27730 (KIN62_27660) 155468..157423 + 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KIN62_RS27735 (KIN62_27665) 157455..157691 + 237 WP_004152683 conjugal transfer protein TrbE -
KIN62_RS29205 157688..157873 + 186 WP_004152684 hypothetical protein -
KIN62_RS27740 (KIN62_27670) 157919..158245 + 327 WP_004152685 hypothetical protein -
KIN62_RS27745 (KIN62_27675) 158266..159018 + 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
KIN62_RS27750 (KIN62_27680) 159029..159268 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
KIN62_RS27755 (KIN62_27685) 159240..159812 + 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KIN62_RS27760 (KIN62_27690) 159805..160233 + 429 WP_004152689 hypothetical protein -
KIN62_RS27765 (KIN62_27695) 160220..161590 + 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
KIN62_RS27770 (KIN62_27700) 161590..164439 + 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
KIN62_RS27775 (KIN62_27705) 164445..164972 + 528 WP_004153030 hypothetical protein -
KIN62_RS27780 (KIN62_27710) 165162..165893 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
KIN62_RS27785 (KIN62_27715) 166253..168562 + 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1871 GenBank   NZ_JAHBNP010000002
Plasmid name   pCRE19_1 Incompatibility group   IncFIB
Plasmid size   211957 bp Coordinate of oriT [Strand]   140702..140751 [-]
Host baterium   Klebsiella pneumoniae strain S19_CRE19

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, fecE, fecD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9