Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113435
Name   oriT_EF262|p1 in_silico
Organism   Klebsiella quasipneumoniae strain EF262
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP092513 (178963..179012 [+], 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_EF262|p1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8611 GenBank   WP_114506537
Name   traI_MKM89_RS26470_EF262|p1 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: 190853.98 Da        Isoelectric Point: 6.1199

>WP_114506537.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTYRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRLALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQFVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(635-714)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(577-629)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   9947 GenBank   WP_095835928
Name   traD_MKM89_RS26475_EF262|p1 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85922.99 Da        Isoelectric Point: 5.1149

>WP_095835928.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADITVSPAPVKAPPTTKMPAEEPSVRSTEPSALRLTTVPLIKPKAAAAAAAAATVSSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDNVEIGGNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 149771..176465

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MKM89_RS26475 (MKM89_26470) 149771..152083 - 2313 WP_095835928 type IV conjugative transfer system coupling protein TraD virb4
MKM89_RS26480 (MKM89_26475) 152443..153174 - 732 WP_032415736 conjugal transfer complement resistance protein TraT -
MKM89_RS26485 (MKM89_26480) 153426..154028 - 603 WP_023280878 hypothetical protein -
MKM89_RS26490 (MKM89_26485) 154052..156874 - 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
MKM89_RS26495 (MKM89_26490) 156874..158253 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
MKM89_RS26500 (MKM89_26495) 158231..158674 - 444 WP_015065638 F-type conjugal transfer protein TrbF -
MKM89_RS26505 (MKM89_26500) 158719..159261 - 543 WP_013054815 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MKM89_RS26510 (MKM89_26505) 159248..159475 - 228 WP_114506536 type-F conjugative transfer system pilin chaperone TraQ -
MKM89_RS26515 (MKM89_26510) 159486..160238 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
MKM89_RS26520 (MKM89_26515) 160259..160585 - 327 WP_032436744 hypothetical protein -
MKM89_RS27865 160631..160816 - 186 WP_032436745 hypothetical protein -
MKM89_RS26525 (MKM89_26520) 160813..161049 - 237 WP_032436746 conjugal transfer protein TrbE -
MKM89_RS26530 (MKM89_26525) 161081..163036 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MKM89_RS26535 (MKM89_26530) 163095..163733 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
MKM89_RS26540 (MKM89_26535) 163746..164705 - 960 WP_249108283 conjugal transfer pilus assembly protein TraU traU
MKM89_RS26545 (MKM89_26540) 164749..165375 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
MKM89_RS26550 (MKM89_26545) 165375..165764 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
MKM89_RS26555 (MKM89_26550) 165764..168403 - 2640 WP_016528865 type IV secretion system protein TraC virb4
MKM89_RS26560 (MKM89_26555) 168475..168873 - 399 WP_072158599 hypothetical protein -
MKM89_RS26565 (MKM89_26560) 168881..169171 - 291 WP_023307542 hypothetical protein -
MKM89_RS26570 (MKM89_26565) 169168..169572 - 405 WP_249108278 hypothetical protein -
MKM89_RS26575 (MKM89_26570) 169639..169956 - 318 WP_023307544 hypothetical protein -
MKM89_RS26580 (MKM89_26575) 169957..170175 - 219 WP_004171484 hypothetical protein -
MKM89_RS26585 (MKM89_26580) 170199..170489 - 291 WP_032423381 hypothetical protein -
MKM89_RS26590 (MKM89_26585) 170494..170904 - 411 WP_023307546 hypothetical protein -
MKM89_RS26595 (MKM89_26590) 171036..171605 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
MKM89_RS26600 (MKM89_26595) 171900..172880 - 981 WP_048293623 IS5-like element ISKpn26 family transposase -
MKM89_RS26605 (MKM89_26600) 172921..173430 - 510 Protein_184 conjugal transfer pilus-stabilizing protein TraP -
MKM89_RS26610 (MKM89_26605) 173423..174847 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
MKM89_RS26615 (MKM89_26610) 174847..175587 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
MKM89_RS26620 (MKM89_26615) 175574..176140 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
MKM89_RS26625 (MKM89_26620) 176160..176465 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
MKM89_RS26630 (MKM89_26625) 176479..176847 - 369 WP_023307550 type IV conjugative transfer system pilin TraA -
MKM89_RS26635 (MKM89_26630) 176901..177272 - 372 WP_004208838 TraY domain-containing protein -
MKM89_RS26640 (MKM89_26635) 177356..178051 - 696 WP_023307551 transcriptional regulator TraJ family protein -
MKM89_RS26645 (MKM89_26640) 178258..178650 - 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
MKM89_RS26650 (MKM89_26645) 179157..179564 + 408 WP_224396658 transglycosylase SLT domain-containing protein -
MKM89_RS26655 (MKM89_26650) 179602..180132 - 531 WP_082226180 antirestriction protein -

Host bacterium

ID   13870 GenBank   NZ_CP092513
Plasmid name   EF262|p1 Incompatibility group   IncFIB
Plasmid size   203351 bp Coordinate of oriT [Strand]   178963..179012 [+]
Host baterium   Klebsiella quasipneumoniae strain EF262

Cargo genes

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