Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120067
Name   oriT_pKqq_SB1124_1 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB1124
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084807 (250900..250949 [+], 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_SB1124_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12638 GenBank   WP_226683647
Name   traI_LGM22_RS26165_pKqq_SB1124_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: 190575.66 Da        Isoelectric Point: 6.3079

>WP_226683647.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHLALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNGMIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHSAQGASERYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRIWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASEGLQRERLQAVERDMVRDLNREKTL
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)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(971-1155)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   14839 GenBank   WP_048235023
Name   traD_LGM22_RS26170_pKqq_SB1124_1 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: 85941.02 Da        Isoelectric Point: 5.1149

>WP_048235023.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRSTEPSALRLTTVPLIKPKAAAAAAAAATVSSAGTPAAAAGGTE
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: 222890..251507

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LGM22_RS26170 (LGM22_26170) 222890..225202 - 2313 WP_048235023 type IV conjugative transfer system coupling protein TraD virb4
LGM22_RS26175 (LGM22_26175) 225258..225371 - 114 Protein_228 hypothetical protein -
LGM22_RS26180 (LGM22_26180) 225562..226293 - 732 WP_032415736 conjugal transfer complement resistance protein TraT -
LGM22_RS26185 (LGM22_26185) 226545..227147 - 603 WP_023280878 hypothetical protein -
LGM22_RS26190 (LGM22_26190) 227171..229993 - 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
LGM22_RS26195 (LGM22_26195) 229993..231372 - 1380 WP_072158600 conjugal transfer pilus assembly protein TraH traH
LGM22_RS26200 (LGM22_26200) 231350..231793 - 444 WP_032436741 F-type conjugal transfer protein TrbF -
LGM22_RS26205 (LGM22_26205) 231838..232395 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LGM22_RS26210 (LGM22_26210) 232367..232606 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LGM22_RS26215 (LGM22_26215) 232617..233369 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LGM22_RS26220 (LGM22_26220) 233390..233716 - 327 WP_136069834 hypothetical protein -
LGM22_RS29010 233762..233947 - 186 WP_032436745 hypothetical protein -
LGM22_RS26225 (LGM22_26225) 233944..234180 - 237 WP_032436746 conjugal transfer protein TrbE -
LGM22_RS26230 (LGM22_26230) 234212..236167 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LGM22_RS26235 (LGM22_26235) 236226..236864 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
LGM22_RS26240 (LGM22_26240) 236877..237836 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LGM22_RS26245 (LGM22_26245) 237880..238506 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
LGM22_RS26250 (LGM22_26250) 238506..238895 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
LGM22_RS26255 (LGM22_26255) 238895..241534 - 2640 WP_016528865 type IV secretion system protein TraC virb4
LGM22_RS26260 (LGM22_26260) 241606..242004 - 399 WP_072158599 hypothetical protein -
LGM22_RS26265 (LGM22_26265) 242012..242302 - 291 WP_023307542 hypothetical protein -
LGM22_RS26270 (LGM22_26270) 242299..242703 - 405 WP_023307543 hypothetical protein -
LGM22_RS26275 (LGM22_26275) 242770..243087 - 318 WP_023307544 hypothetical protein -
LGM22_RS26280 (LGM22_26280) 243088..243306 - 219 WP_004171484 hypothetical protein -
LGM22_RS26285 (LGM22_26285) 243330..243620 - 291 WP_032423381 hypothetical protein -
LGM22_RS26290 (LGM22_26290) 243625..244035 - 411 WP_023307546 hypothetical protein -
LGM22_RS26295 (LGM22_26295) 244167..244736 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
LGM22_RS26300 (LGM22_26300) 244948..245367 - 420 Protein_254 conjugal transfer pilus-stabilizing protein TraP -
LGM22_RS26305 (LGM22_26305) 245360..246784 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
LGM22_RS26310 (LGM22_26310) 246784..247524 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
LGM22_RS26315 (LGM22_26315) 247511..248077 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LGM22_RS26320 (LGM22_26320) 248097..248402 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LGM22_RS26325 (LGM22_26325) 248416..248784 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
LGM22_RS26330 (LGM22_26330) 248838..249209 - 372 WP_004208838 TraY domain-containing protein -
LGM22_RS26335 (LGM22_26335) 249293..249988 - 696 WP_023307551 transcriptional regulator TraJ family protein -
LGM22_RS26340 (LGM22_26340) 250195..250587 - 393 WP_032436755 conjugal transfer relaxosome DNA-binding protein TraM -
LGM22_RS26345 (LGM22_26345) 251022..251507 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
LGM22_RS26350 (LGM22_26350) 251540..251869 - 330 WP_011977736 DUF5983 family protein -
LGM22_RS26355 (LGM22_26355) 251902..252723 - 822 WP_004152492 DUF932 domain-containing protein -
LGM22_RS26360 (LGM22_26360) 253283..253696 - 414 WP_023280875 type II toxin-antitoxin system HigA family antitoxin -
LGM22_RS26365 (LGM22_26365) 253697..253975 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LGM22_RS26370 (LGM22_26370) 253965..254285 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LGM22_RS26375 (LGM22_26375) 254366..254590 - 225 WP_004152719 hypothetical protein -
LGM22_RS26380 (LGM22_26380) 254601..254813 - 213 WP_004152718 hypothetical protein -
LGM22_RS26385 (LGM22_26385) 254874..255230 - 357 WP_004152717 hypothetical protein -
LGM22_RS26390 (LGM22_26390) 255867..256217 - 351 WP_023280874 hypothetical protein -
LGM22_RS26395 (LGM22_26395) 256214..256486 - 273 WP_023280873 hypothetical protein -

Host bacterium

ID   20497 GenBank   NZ_CP084807
Plasmid name   pKqq_SB1124_1 Incompatibility group   IncFIB
Plasmid size   283582 bp Coordinate of oriT [Strand]   250900..250949 [+]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB1124

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsC, arsB, arsA, arsD, arsR, fecD, fecE, merR2, merT, merP, merF, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9