Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120050
Name   oriT_pKqq_01A030T_1 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain 01A030T
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084877 (143516..143565 [+], 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_pKqq_01A030T_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12631 GenBank   WP_044525168
Name   traI_LGM20_RS26135_pKqq_01A030T_1 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: 190549.78 Da        Isoelectric Point: 6.4837

>WP_044525168.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDTDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALITIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASERYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRIWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1154)

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)


  Protein structure



No available structure.




T4CP

ID   14831 GenBank   WP_015065643
Name   traD_LGM20_RS26140_pKqq_01A030T_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: 85851.84 Da        Isoelectric Point: 5.0577

>WP_015065643.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSIVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARTLFMPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
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: 115629..144123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LGM20_RS26140 (LGM20_26140) 115629..117938 - 2310 WP_015065643 type IV conjugative transfer system coupling protein TraD virb4
LGM20_RS26145 (LGM20_26145) 118300..119031 - 732 Protein_121 conjugal transfer complement resistance protein TraT -
LGM20_RS26150 (LGM20_26150) 119221..119748 - 528 WP_032423397 conjugal transfer protein TraS -
LGM20_RS26155 (LGM20_26155) 119754..122603 - 2850 WP_023307534 conjugal transfer mating-pair stabilization protein TraG traG
LGM20_RS26160 (LGM20_26160) 122603..123982 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
LGM20_RS26165 (LGM20_26165) 123960..124403 - 444 WP_015065638 F-type conjugal transfer protein TrbF -
LGM20_RS26170 (LGM20_26170) 124448..125005 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LGM20_RS26175 (LGM20_26175) 124977..125216 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LGM20_RS26180 (LGM20_26180) 125227..125979 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
LGM20_RS26185 (LGM20_26185) 126000..126326 - 327 WP_004152685 hypothetical protein -
LGM20_RS26595 126372..126557 - 186 WP_023307535 hypothetical protein -
LGM20_RS26190 (LGM20_26190) 126554..126790 - 237 WP_023307536 conjugal transfer protein TrbE -
LGM20_RS26195 (LGM20_26195) 126822..128777 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LGM20_RS26200 (LGM20_26200) 128836..129474 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
LGM20_RS26205 (LGM20_26205) 129487..130446 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LGM20_RS26210 (LGM20_26210) 130490..131116 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
LGM20_RS26215 (LGM20_26215) 131116..131517 - 402 WP_023307539 type-F conjugative transfer system protein TrbI -
LGM20_RS26220 (LGM20_26220) 131517..134156 - 2640 WP_016528865 type IV secretion system protein TraC virb4
LGM20_RS26225 (LGM20_26225) 134228..134626 - 399 WP_072158599 hypothetical protein -
LGM20_RS26230 (LGM20_26230) 134634..134924 - 291 WP_023307542 hypothetical protein -
LGM20_RS26235 (LGM20_26235) 134921..135325 - 405 WP_023307543 hypothetical protein -
LGM20_RS26240 (LGM20_26240) 135392..135709 - 318 WP_023307544 hypothetical protein -
LGM20_RS26245 (LGM20_26245) 135710..135928 - 219 WP_023307545 hypothetical protein -
LGM20_RS26250 (LGM20_26250) 135952..136242 - 291 WP_032423381 hypothetical protein -
LGM20_RS26255 (LGM20_26255) 136247..136657 - 411 WP_023307546 hypothetical protein -
LGM20_RS26260 (LGM20_26260) 136789..137358 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
LGM20_RS26265 (LGM20_26265) 137570..137983 - 414 Protein_146 conjugal transfer pilus-stabilizing protein TraP -
LGM20_RS26270 (LGM20_26270) 137976..139400 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
LGM20_RS26275 (LGM20_26275) 139400..140140 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
LGM20_RS26280 (LGM20_26280) 140127..140693 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LGM20_RS26285 (LGM20_26285) 140713..141018 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LGM20_RS26290 (LGM20_26290) 141032..141400 - 369 WP_023307550 type IV conjugative transfer system pilin TraA -
LGM20_RS26295 (LGM20_26295) 141454..141825 - 372 WP_004208838 TraY domain-containing protein -
LGM20_RS26300 (LGM20_26300) 141909..142604 - 696 WP_023307551 transcriptional regulator TraJ family protein -
LGM20_RS26305 (LGM20_26305) 142811..143203 - 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
LGM20_RS26310 (LGM20_26310) 143638..144123 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
LGM20_RS26315 (LGM20_26315) 144156..144485 - 330 WP_011977736 DUF5983 family protein -
LGM20_RS26320 (LGM20_26320) 144512..145339 - 828 WP_023307552 DUF932 domain-containing protein -
LGM20_RS26325 (LGM20_26325) 146169..146582 - 414 WP_023280875 type II toxin-antitoxin system HigA family antitoxin -
LGM20_RS26330 (LGM20_26330) 146583..146861 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LGM20_RS26335 (LGM20_26335) 146851..147171 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LGM20_RS26340 (LGM20_26340) 147252..147476 - 225 WP_004152719 hypothetical protein -
LGM20_RS26345 (LGM20_26345) 147487..147699 - 213 WP_004152718 hypothetical protein -
LGM20_RS26350 (LGM20_26350) 147760..148116 - 357 WP_004152717 hypothetical protein -
LGM20_RS26355 (LGM20_26355) 148753..149103 - 351 WP_023280874 hypothetical protein -

Host bacterium

ID   20480 GenBank   NZ_CP084877
Plasmid name   pKqq_01A030T_1 Incompatibility group   IncFIB
Plasmid size   163751 bp Coordinate of oriT [Strand]   143516..143565 [+]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain 01A030T

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1
Virulence gene   -
Metal resistance gene   arsH, arsR, arsB, arsC, fecE, fecD, merR2, merT, merP, merF, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9