Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102801
Name   oriT_pKp_Goe_588-1 in_silico
Organism   Klebsiella pneumoniae strain Kp_Goe_821588
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP018693 (3354..3403 [-], 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_Goe_588-1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2075 GenBank   WP_004153029
Name   traI_BB749_RS27885_pKp_Goe_588-1 insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
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)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1734 GenBank   WP_004152630
Name   traD_BB749_RS27880_pKp_Goe_588-1 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: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 2796..25415

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BB749_RS27715 (BB749_27715) 54..332 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
BB749_RS27720 (BB749_27720) 333..746 + 414 WP_004152722 helix-turn-helix domain-containing protein -
BB749_RS27740 (BB749_27740) 1580..2401 + 822 WP_004178064 DUF932 domain-containing protein -
BB749_RS27745 (BB749_27745) 2434..2763 + 330 WP_011977736 DUF5983 family protein -
BB749_RS27750 (BB749_27750) 2796..3281 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
BB749_RS27755 (BB749_27755) 3709..3951 + 243 Protein_6 conjugal transfer relaxosome DNA-binding protein TraM -
BB749_RS27760 (BB749_27760) 4013..4981 - 969 WP_072198477 IS5 family transposase -
BB749_RS27770 (BB749_27770) 5192..5410 + 219 WP_004171484 hypothetical protein -
BB749_RS27775 (BB749_27775) 5411..5728 + 318 WP_004152595 hypothetical protein -
BB749_RS27780 (BB749_27780) 5795..6199 + 405 WP_004152594 hypothetical protein -
BB749_RS27790 (BB749_27790) 6495..6893 + 399 WP_004153071 hypothetical protein -
BB749_RS27795 (BB749_27795) 6965..9604 + 2640 WP_004152592 type IV secretion system protein TraC virb4
BB749_RS27800 (BB749_27800) 9604..9993 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
BB749_RS27805 (BB749_27805) 9993..10619 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
BB749_RS27810 (BB749_27810) 10663..11622 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
BB749_RS27815 (BB749_27815) 11635..12273 + 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
BB749_RS27820 (BB749_27820) 12321..14276 + 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BB749_RS27825 (BB749_27825) 14308..14544 + 237 WP_004152683 conjugal transfer protein TrbE -
BB749_RS31145 (BB749_27830) 14541..14726 + 186 WP_004152684 hypothetical protein -
BB749_RS27835 (BB749_27835) 14772..15098 + 327 WP_004152685 hypothetical protein -
BB749_RS27840 (BB749_27840) 15119..15871 + 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
BB749_RS27845 (BB749_27845) 15882..16121 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
BB749_RS27850 (BB749_27850) 16093..16665 + 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BB749_RS27855 (BB749_27855) 16658..17086 + 429 WP_004152689 hypothetical protein -
BB749_RS27860 (BB749_27860) 17073..18443 + 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
BB749_RS27865 (BB749_27865) 18443..21292 + 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
BB749_RS27870 (BB749_27870) 21298..21825 + 528 WP_004153030 hypothetical protein -
BB749_RS27875 (BB749_27875) 22015..22746 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
BB749_RS27880 (BB749_27880) 23106..25415 + 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3244 GenBank   NZ_CP018693
Plasmid name   pKp_Goe_588-1 Incompatibility group   IncFII
Plasmid size   180027 bp Coordinate of oriT [Strand]   3354..3403 [-]
Host baterium   Klebsiella pneumoniae strain Kp_Goe_821588

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, blaOXA-1, aac(3)-IIa, blaCTX-M-15, dfrA14, aph(3')-Ia
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC, arsH, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9