Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118061
Name   oriT_pC272187-KPC_94k in_silico
Organism   Klebsiella aerogenes strain C272187
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139415 (78550..78598 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pC272187-KPC_94k
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11462 GenBank   WP_320945035
Name   traI_SM911_RS25655_pC272187-KPC_94k 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: 190865.85 Da        Isoelectric Point: 6.1053

>WP_320945035.1 conjugative transfer relaxase/helicase TraI [Klebsiella aerogenes]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)

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   13395 GenBank   WP_014386205
Name   traD_SM911_RS25660_pC272187-KPC_94k 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: 85924.97 Da        Isoelectric Point: 5.1787

>WP_014386205.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAVAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 50561..79156

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM911_RS25660 (SM911_25660) 50561..52870 - 2310 WP_014386205 type IV conjugative transfer system coupling protein TraD virb4
SM911_RS25665 (SM911_25665) 52997..53686 - 690 WP_013023831 hypothetical protein -
SM911_RS25670 (SM911_25670) 53879..54610 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
SM911_RS25675 (SM911_25675) 54861..55463 - 603 WP_013214035 conjugal transfer protein TraS -
SM911_RS25680 (SM911_25680) 55486..58308 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
SM911_RS25685 (SM911_25685) 58308..59687 - 1380 WP_072157884 conjugal transfer pilus assembly protein TraH traH
SM911_RS25690 (SM911_25690) 59665..60108 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
SM911_RS25695 (SM911_25695) 60154..60711 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SM911_RS25700 (SM911_25700) 60683..60922 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
SM911_RS25705 (SM911_25705) 60933..61685 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
SM911_RS25710 (SM911_25710) 61706..62032 - 327 WP_004152676 hypothetical protein -
SM911_RS25715 (SM911_25715) 62045..62293 - 249 WP_004152675 hypothetical protein -
SM911_RS25720 (SM911_25720) 62271..62525 - 255 WP_004152674 conjugal transfer protein TrbE -
SM911_RS25725 (SM911_25725) 62557..64512 - 1956 WP_030003482 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SM911_RS25730 (SM911_25730) 64571..65209 - 639 WP_069985712 type-F conjugative transfer system pilin assembly protein TrbC trbC
SM911_RS25735 (SM911_25735) 65222..66211 - 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
SM911_RS25740 (SM911_25740) 66208..66609 - 402 WP_004194979 hypothetical protein -
SM911_RS25745 (SM911_25745) 66644..67279 - 636 WP_029497419 type-F conjugative transfer system protein TraW traW
SM911_RS25750 (SM911_25750) 67279..67668 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
SM911_RS25755 (SM911_25755) 67668..70307 - 2640 WP_013214024 type IV secretion system protein TraC virb4
SM911_RS25760 (SM911_25760) 70379..70777 - 399 WP_023179972 hypothetical protein -
SM911_RS25765 (SM911_25765) 71156..71560 - 405 WP_004197817 hypothetical protein -
SM911_RS25770 (SM911_25770) 71627..71938 - 312 WP_029497417 hypothetical protein -
SM911_RS25775 (SM911_25775) 71939..72157 - 219 WP_004195468 hypothetical protein -
SM911_RS25780 (SM911_25780) 72480..73064 - 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
SM911_RS25785 (SM911_25785) 73137..74561 - 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
SM911_RS25790 (SM911_25790) 74561..75301 - 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
SM911_RS25795 (SM911_25795) 75288..75854 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
SM911_RS25800 (SM911_25800) 75874..76179 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
SM911_RS25805 (SM911_25805) 76193..76561 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
SM911_RS25810 (SM911_25810) 76630..76830 - 201 WP_004194116 TraY domain-containing protein -
SM911_RS25815 (SM911_25815) 76916..77617 - 702 WP_004194113 hypothetical protein -
SM911_RS25820 (SM911_25820) 77847..78239 - 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
SM911_RS25825 (SM911_25825) 78671..79156 + 486 WP_032440470 transglycosylase SLT domain-containing protein virB1
SM911_RS25830 (SM911_25830) 79189..79518 - 330 WP_071994324 DUF5983 family protein -
SM911_RS25835 (SM911_25835) 79551..80372 - 822 WP_023287138 DUF932 domain-containing protein -
SM911_RS25840 (SM911_25840) 81197..81760 - 564 WP_004152756 methyltransferase -
SM911_RS25845 (SM911_25845) 81808..83163 - 1356 WP_013054814 DUF3560 domain-containing protein -
SM911_RS25850 (SM911_25850) 83215..83445 - 231 WP_001568051 hypothetical protein -
SM911_RS25855 (SM911_25855) 83537..83764 - 228 WP_001568050 hypothetical protein -

Host bacterium

ID   18494 GenBank   NZ_CP139415
Plasmid name   pC272187-KPC_94k Incompatibility group   -
Plasmid size   94042 bp Coordinate of oriT [Strand]   78550..78598 [+]
Host baterium   Klebsiella aerogenes strain C272187

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -