Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106022
Name   oriT_pKP_160-3 in_silico
Organism   Klebsiella pneumoniae strain KP_160
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP078035 (75343..75392 [+], 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_pKP_160-3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4049 GenBank   WP_043907038
Name   traI_EGK18_RS28140_pKP_160-3 insolico UniProt ID   A0A0S1TKY9
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190458.19 Da        Isoelectric Point: 6.0263

>WP_043907038.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSLSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   4062 GenBank   WP_043907039
Name   traD_EGK18_RS28145_pKP_160-3 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: 85906.85 Da        Isoelectric Point: 5.0577

>WP_043907039.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 46786..75950

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EGK18_RS28145 (EGK18_028145) 46786..49098 - 2313 WP_043907039 type IV conjugative transfer system coupling protein TraD virb4
EGK18_RS28150 (EGK18_028150) 49227..49916 - 690 WP_004198206 hypothetical protein -
EGK18_RS28155 (EGK18_028155) 50108..50839 - 732 WP_004152622 conjugal transfer complement resistance protein TraT -
EGK18_RS28160 (EGK18_028160) 51023..51571 - 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
EGK18_RS28165 (EGK18_028165) 51584..54433 - 2850 WP_004152624 conjugal transfer mating-pair stabilization protein TraG traG
EGK18_RS28170 (EGK18_028170) 54433..55812 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
EGK18_RS28175 (EGK18_028175) 55790..56233 - 444 WP_030003485 F-type conjugal transfer protein TrbF -
EGK18_RS28180 (EGK18_028180) 56279..56836 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EGK18_RS28185 (EGK18_028185) 56808..57047 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
EGK18_RS28190 (EGK18_028190) 57058..57810 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
EGK18_RS28195 (EGK18_028195) 57831..58157 - 327 WP_013214030 hypothetical protein -
EGK18_RS28200 (EGK18_028200) 58170..58418 - 249 WP_013214029 hypothetical protein -
EGK18_RS28205 (EGK18_028205) 58396..58650 - 255 WP_004152674 conjugal transfer protein TrbE -
EGK18_RS28210 (EGK18_028210) 58682..60637 - 1956 WP_040145764 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EGK18_RS28215 (EGK18_028215) 60685..61323 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
EGK18_RS28220 (EGK18_028220) 61336..62295 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
EGK18_RS28225 (EGK18_028225) 62339..62965 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
EGK18_RS28230 (EGK18_028230) 62965..63343 - 379 Protein_52 type-F conjugative transfer system protein TrbI -
EGK18_RS28235 (EGK18_028235) 63343..65982 - 2640 WP_004152592 type IV secretion system protein TraC virb4
EGK18_RS28240 (EGK18_028240) 66054..66452 - 399 WP_004153071 hypothetical protein -
EGK18_RS28245 (EGK18_028245) 66748..67152 - 405 WP_004152594 hypothetical protein -
EGK18_RS28250 (EGK18_028250) 67219..67536 - 318 WP_004152595 hypothetical protein -
EGK18_RS28255 (EGK18_028255) 67537..67755 - 219 WP_004171484 hypothetical protein -
EGK18_RS28260 (EGK18_028260) 67779..68069 - 291 WP_004152596 hypothetical protein -
EGK18_RS28265 (EGK18_028265) 68074..68484 - 411 WP_004152597 lipase chaperone -
EGK18_RS28270 (EGK18_028270) 68616..69185 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
EGK18_RS28275 (EGK18_028275) 69208..69804 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
EGK18_RS28280 (EGK18_028280) 69797..71221 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
EGK18_RS28285 (EGK18_028285) 71221..71961 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
EGK18_RS28290 (EGK18_028290) 71948..72514 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
EGK18_RS28295 (EGK18_028295) 72534..72839 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
EGK18_RS28300 (EGK18_028300) 72853..73221 - 369 WP_004152496 type IV conjugative transfer system pilin TraA -
EGK18_RS28305 (EGK18_028305) 73275..73646 - 372 WP_004208838 TraY domain-containing protein -
EGK18_RS28310 (EGK18_028310) 73730..74425 - 696 WP_004178061 transcriptional regulator TraJ family protein -
EGK18_RS28315 (EGK18_028315) 74639..75031 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
EGK18_RS28320 (EGK18_028320) 75465..75950 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
EGK18_RS28325 (EGK18_028325) 75983..76312 - 330 WP_011977736 DUF5983 family protein -
EGK18_RS28330 (EGK18_028330) 76345..77166 - 822 WP_004178064 DUF932 domain-containing protein -
EGK18_RS28335 (EGK18_028335) 78000..78413 - 414 WP_004152722 helix-turn-helix domain-containing protein -
EGK18_RS28340 (EGK18_028340) 78414..78692 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
EGK18_RS28345 (EGK18_028345) 78682..79002 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
EGK18_RS28350 (EGK18_028350) 79083..79307 - 225 WP_004152719 hypothetical protein -
EGK18_RS28355 (EGK18_028355) 79318..79530 - 213 WP_004152718 hypothetical protein -
EGK18_RS28360 (EGK18_028360) 79591..79947 - 357 WP_004152717 hypothetical protein -
EGK18_RS28365 (EGK18_028365) 80583..80933 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   6459 GenBank   NZ_CP078035
Plasmid name   pKP_160-3 Incompatibility group   IncFIB
Plasmid size   103816 bp Coordinate of oriT [Strand]   75343..75392 [+]
Host baterium   Klebsiella pneumoniae strain KP_160

Cargo genes

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