Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120058
Name   oriT_pKqq_SB98_2 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB98
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084805 (160884..160933 [+], 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_pKqq_SB98_2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12635 GenBank   WP_016831059
Name   traI_LGM23_RS28400_pKqq_SB98_2 insolico UniProt ID   A0A483GHZ7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190726.62 Da        Isoelectric Point: 6.1403

>WP_016831059.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELLEAAGPDASLKSRDVAALDTRKSKEAIDPAENMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETAMVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRIWAEPAPVAPVPQTGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(970-1156)

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

(634-713)

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

(576-628)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   14835 GenBank   WP_016831058
Name   traD_LGM23_RS28405_pKqq_SB98_2 insolico UniProt ID   _
Length   760 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 760 a.a.        Molecular weight: 84900.95 Da        Isoelectric Point: 5.0541

>WP_016831058.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYAAWLADDQTQRDMQRREEVNINHNHRHDEQDDVEIGGNI

  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: 131496..161491

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LGM23_RS28405 (LGM23_28405) 131496..133778 - 2283 WP_016831058 type IV conjugative transfer system coupling protein TraD virb4
LGM23_RS28410 (LGM23_28410) 133905..134594 - 690 WP_072159541 hypothetical protein -
LGM23_RS28415 (LGM23_28415) 134787..135518 - 732 WP_016831056 conjugal transfer complement resistance protein TraT -
LGM23_RS28420 (LGM23_28420) 135769..136371 - 603 WP_071604857 hypothetical protein -
LGM23_RS28425 (LGM23_28425) 136394..139216 - 2823 WP_016831055 conjugal transfer mating-pair stabilization protein TraG traG
LGM23_RS28430 (LGM23_28430) 139216..140595 - 1380 WP_073549766 conjugal transfer pilus assembly protein TraH traH
LGM23_RS28435 (LGM23_28435) 140573..141016 - 444 WP_016831053 F-type conjugal transfer protein TrbF -
LGM23_RS28440 (LGM23_28440) 141062..141619 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LGM23_RS28445 (LGM23_28445) 141591..141830 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LGM23_RS28450 (LGM23_28450) 141841..142593 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LGM23_RS28455 (LGM23_28455) 142614..142940 - 327 WP_016831051 hypothetical protein -
LGM23_RS28460 (LGM23_28460) 142953..143201 - 249 WP_004152675 hypothetical protein -
LGM23_RS28465 (LGM23_28465) 143179..143433 - 255 WP_015065558 conjugal transfer protein TrbE -
LGM23_RS28470 (LGM23_28470) 143465..145420 - 1956 WP_016831050 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LGM23_RS28475 (LGM23_28475) 145479..146126 - 648 WP_016831049 type-F conjugative transfer system pilin assembly protein TrbC trbC
LGM23_RS28480 (LGM23_28480) 146205..146381 - 177 WP_016831048 hypothetical protein -
LGM23_RS28485 (LGM23_28485) 146402..147391 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
LGM23_RS28490 (LGM23_28490) 147388..147789 - 402 WP_016831047 hypothetical protein -
LGM23_RS28495 (LGM23_28495) 147824..148459 - 636 WP_016831046 type-F conjugative transfer system protein TraW traW
LGM23_RS28500 (LGM23_28500) 148459..148848 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
LGM23_RS28505 (LGM23_28505) 148848..151487 - 2640 WP_016831045 type IV secretion system protein TraC virb4
LGM23_RS28510 (LGM23_28510) 151559..151957 - 399 WP_023158008 hypothetical protein -
LGM23_RS28515 (LGM23_28515) 151965..152183 - 219 WP_072196435 hypothetical protein -
LGM23_RS28520 (LGM23_28520) 152197..152355 - 159 WP_223338907 hypothetical protein -
LGM23_RS28525 (LGM23_28525) 152398..152802 - 405 WP_016831042 hypothetical protein -
LGM23_RS28530 (LGM23_28530) 152869..153180 - 312 WP_016831041 hypothetical protein -
LGM23_RS28535 (LGM23_28535) 153181..153399 - 219 WP_014386199 hypothetical protein -
LGM23_RS28540 (LGM23_28540) 153423..153712 - 290 Protein_161 hypothetical protein -
LGM23_RS28545 (LGM23_28545) 153717..154127 - 411 WP_016831039 hypothetical protein -
LGM23_RS28550 (LGM23_28550) 154259..154843 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LGM23_RS28555 (LGM23_28555) 154866..155462 - 597 Protein_164 conjugal transfer pilus-stabilizing protein TraP -
LGM23_RS28560 (LGM23_28560) 155455..156879 - 1425 WP_016831036 F-type conjugal transfer pilus assembly protein TraB traB
LGM23_RS28565 (LGM23_28565) 156879..157619 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
LGM23_RS28570 (LGM23_28570) 157606..158172 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
LGM23_RS28575 (LGM23_28575) 158192..158497 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LGM23_RS28580 (LGM23_28580) 158511..158879 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LGM23_RS28585 (LGM23_28585) 158941..159147 - 207 WP_171773970 TraY domain-containing protein -
LGM23_RS28590 (LGM23_28590) 159280..159999 - 720 WP_016831034 conjugal transfer protein TrbJ -
LGM23_RS28595 (LGM23_28595) 160199..160615 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LGM23_RS28600 (LGM23_28600) 161006..161491 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LGM23_RS28605 (LGM23_28605) 161524..161853 - 330 WP_011977736 DUF5983 family protein -
LGM23_RS28610 (LGM23_28610) 161886..162707 - 822 WP_004182076 DUF932 domain-containing protein -
LGM23_RS28615 (LGM23_28615) 163540..163953 - 414 WP_004182074 type II toxin-antitoxin system HigA family antitoxin -
LGM23_RS28620 (LGM23_28620) 163954..164232 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LGM23_RS28625 (LGM23_28625) 164222..164542 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LGM23_RS28630 (LGM23_28630) 164623..164847 - 225 WP_004152719 hypothetical protein -
LGM23_RS28635 (LGM23_28635) 164858..165070 - 213 WP_004182070 hypothetical protein -
LGM23_RS28640 (LGM23_28640) 165131..165487 - 357 WP_004152717 hypothetical protein -
LGM23_RS28645 (LGM23_28645) 166123..166473 - 351 WP_004182068 hypothetical protein -

Host bacterium

ID   20488 GenBank   NZ_CP084805
Plasmid name   pKqq_SB98_2 Incompatibility group   IncFIB
Plasmid size   195131 bp Coordinate of oriT [Strand]   160884..160933 [+]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB98

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, arsH, arsC, arsB, arsA, arsD, arsR, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9