Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104580
Name   oriT_STEFF_19|unnamed2 in_silico
Organism   Klebsiella pneumoniae strain STEFF_19
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055176 (96868..96917 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_STEFF_19|unnamed2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3297 GenBank   WP_201435300
Name   traI_HUZ47_RS27990_STEFF_19|unnamed2 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190427.99 Da        Isoelectric Point: 6.0251

>WP_201435300.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKIDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGINAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVAPVPQAGADIILPPEVLAQRATEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1554)

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

(576-628)

TrwC relaxase (TrwC)

(10-283)

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

(634-713)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4CP

ID   3236 GenBank   WP_239612801
Name   traD_HUZ47_RS27985_STEFF_19|unnamed2 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: 85934.07 Da        Isoelectric Point: 5.1819

>WP_239612801.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPISQPA
PADMAVSPAPVKAPPTTKRPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDVWLADEQTQRDMQRREEVNINHSHRRDEQDDVEIGGNF

  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: 96310..125814

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ47_RS27780 (HUZ47_27735) 92330..92686 + 357 WP_019706019 hypothetical protein -
HUZ47_RS27785 (HUZ47_27740) 92747..92959 + 213 WP_019706020 hypothetical protein -
HUZ47_RS27790 (HUZ47_27745) 92970..93194 + 225 WP_014343499 hypothetical protein -
HUZ47_RS27795 (HUZ47_27750) 93275..93595 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HUZ47_RS27800 (HUZ47_27755) 93585..93863 + 279 WP_020801586 helix-turn-helix transcriptional regulator -
HUZ47_RS27805 (HUZ47_27760) 93864..94265 + 402 WP_015065522 helix-turn-helix domain-containing protein -
HUZ47_RS27810 (HUZ47_27765) 95094..95915 + 822 WP_004152492 DUF932 domain-containing protein -
HUZ47_RS27815 (HUZ47_27770) 95948..96277 + 330 WP_011977736 DUF5983 family protein -
HUZ47_RS27820 (HUZ47_27775) 96310..96795 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HUZ47_RS27825 (HUZ47_27780) 97186..97602 + 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
HUZ47_RS27830 (HUZ47_27785) 97802..98539 + 738 WP_013214018 conjugal transfer protein TrbJ -
HUZ47_RS27835 (HUZ47_27790) 98654..98860 + 207 WP_171773970 TraY domain-containing protein -
HUZ47_RS27840 (HUZ47_27795) 98922..99290 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HUZ47_RS27845 (HUZ47_27800) 99304..99609 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HUZ47_RS27850 (HUZ47_27805) 99629..100195 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
HUZ47_RS27855 (HUZ47_27810) 100182..100922 + 741 WP_064161334 type-F conjugative transfer system secretin TraK traK
HUZ47_RS27860 (HUZ47_27815) 100922..102346 + 1425 WP_239612799 F-type conjugal transfer pilus assembly protein TraB traB
HUZ47_RS27865 (HUZ47_27820) 102418..103002 + 585 WP_023287136 type IV conjugative transfer system lipoprotein TraV traV
HUZ47_RS27870 (HUZ47_27825) 103325..103543 + 219 WP_004195468 hypothetical protein -
HUZ47_RS27875 (HUZ47_27830) 103544..103855 + 312 WP_013214022 hypothetical protein -
HUZ47_RS27880 (HUZ47_27835) 103922..104326 + 405 WP_004197817 hypothetical protein -
HUZ47_RS27885 (HUZ47_27840) 104703..105101 + 399 WP_014343490 hypothetical protein -
HUZ47_RS27890 (HUZ47_27845) 105173..107812 + 2640 WP_013214024 type IV secretion system protein TraC virb4
HUZ47_RS27895 (HUZ47_27850) 107812..108201 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
HUZ47_RS27900 (HUZ47_27855) 108201..108827 + 627 WP_065810777 type-F conjugative transfer system protein TraW traW
HUZ47_RS27905 (HUZ47_27860) 108871..109830 + 960 WP_202560610 conjugal transfer pilus assembly protein TraU traU
HUZ47_RS27910 (HUZ47_27865) 109843..110481 + 639 WP_022644933 type-F conjugative transfer system pilin assembly protein TrbC trbC
HUZ47_RS27915 (HUZ47_27870) 110540..112495 + 1956 WP_025712707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HUZ47_RS27920 (HUZ47_27875) 112527..112781 + 255 WP_020804203 conjugal transfer protein TrbE -
HUZ47_RS27925 (HUZ47_27880) 112759..113007 + 249 WP_004152675 hypothetical protein -
HUZ47_RS27930 (HUZ47_27885) 113020..113346 + 327 WP_004144402 hypothetical protein -
HUZ47_RS27935 (HUZ47_27890) 113367..114119 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HUZ47_RS27940 (HUZ47_27895) 114130..114369 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HUZ47_RS27945 (HUZ47_27900) 114341..114898 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HUZ47_RS27950 (HUZ47_27905) 114944..115387 + 444 WP_025712708 F-type conjugal transfer protein TrbF -
HUZ47_RS27955 (HUZ47_27910) 115365..116744 + 1380 WP_074187349 conjugal transfer pilus assembly protein TraH traH
HUZ47_RS27960 (HUZ47_27915) 116744..119587 + 2844 WP_239612800 conjugal transfer mating-pair stabilization protein TraG traG
HUZ47_RS27965 (HUZ47_27920) 119598..120131 + 534 WP_063266999 hypothetical protein -
HUZ47_RS27970 (HUZ47_27925) 120560..121680 + 1121 WP_085956072 IS3-like element ISKpn34 family transposase -
HUZ47_RS27975 (HUZ47_27935) 121764..122493 + 730 Protein_150 conjugal transfer complement resistance protein TraT -
HUZ47_RS27980 (HUZ47_27940) 122686..123375 + 690 WP_014343485 hypothetical protein -
HUZ47_RS27985 (HUZ47_27945) 123502..125814 + 2313 WP_239612801 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5019 GenBank   NZ_CP055176
Plasmid name   STEFF_19|unnamed2 Incompatibility group   IncFIA
Plasmid size   136415 bp Coordinate of oriT [Strand]   96868..96917 [-]
Host baterium   Klebsiella pneumoniae strain STEFF_19

Cargo genes

Drug resistance gene   -
Virulence gene   mrkA, mrkB, mrkC, mrkD, mrkF, mrkJ
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9