Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101521
Name   oriT_pKP1806281_2 in_silico
Organism   Klebsiella pneumoniae strain KP1806281
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAZBHJ010000016 (154658..154707 [+], 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_pKP1806281_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1354 GenBank   WP_328795786
Name   traI_VZ555_RS28725_pKP1806281_2 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: 190890.93 Da        Isoelectric Point: 6.1910

>WP_328795786.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKTLFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQTLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITSLTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLTTALETGGDKIPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHEARRENGETGREEVTL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEQAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGKARKAGEP
VERVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1158)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(636-714)

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

(577-629)


  Protein structure



No available structure.




T4CP

ID   985 GenBank   WP_111460473
Name   traD_VZ555_RS28730_pKP1806281_2 insolico UniProt ID   _
Length   768 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 768 a.a.        Molecular weight: 85876.99 Da        Isoelectric Point: 5.0689

>WP_111460473.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIAIIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSQPA
PAEVTVSPAPVKAPPTTKSPAAEPSARAAEPPVLRVTTVPLIKPKAAAAAAAAATASSVGTPAAGGTEQE
LAQQSAEQGQEMLPTGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINRSHRHDEQDDVEIGGNF

  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: 126216..152160

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VZ555_RS28730 (VZ555_28735) 126216..128522 - 2307 WP_111460473 type IV conjugative transfer system coupling protein TraD virb4
VZ555_RS28735 (VZ555_28740) 128884..129615 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
VZ555_RS28740 (VZ555_28745) 129805..130332 - 528 WP_047665858 conjugal transfer protein TraS -
VZ555_RS28745 (VZ555_28750) 130338..133187 - 2850 WP_328795787 conjugal transfer mating-pair stabilization protein TraG traG
VZ555_RS28750 (VZ555_28755) 133187..134557 - 1371 WP_047665852 conjugal transfer pilus assembly protein TraH traH
VZ555_RS28755 (VZ555_28760) 134544..134966 - 423 WP_111460475 hypothetical protein -
VZ555_RS28760 (VZ555_28765) 134959..135531 - 573 WP_055323574 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
VZ555_RS28765 (VZ555_28770) 135503..135742 - 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
VZ555_RS28770 (VZ555_28775) 135753..136505 - 753 WP_040107944 type-F conjugative transfer system pilin assembly protein TraF traF
VZ555_RS28775 (VZ555_28780) 136526..136852 - 327 WP_111460476 hypothetical protein -
VZ555_RS28780 (VZ555_28785) 136863..137090 - 228 WP_047665846 conjugal transfer protein TrbE -
VZ555_RS28785 (VZ555_28790) 137152..137361 - 210 WP_111460477 hypothetical protein -
VZ555_RS28790 (VZ555_28795) 137394..139349 - 1956 WP_111460478 type-F conjugative transfer system mating-pair stabilization protein TraN traN
VZ555_RS28795 (VZ555_28800) 139408..140046 - 639 WP_135725261 type-F conjugative transfer system pilin assembly protein TrbC trbC
VZ555_RS28800 (VZ555_28805) 140059..141048 - 990 WP_111460479 conjugal transfer pilus assembly protein TraU traU
VZ555_RS28805 (VZ555_28810) 141045..141434 - 390 WP_032445235 hypothetical protein -
VZ555_RS28810 (VZ555_28815) 141476..142102 - 627 WP_004152507 type-F conjugative transfer system protein TraW traW
VZ555_RS28815 (VZ555_28820) 142102..142491 - 390 WP_046622835 type-F conjugative transfer system protein TrbI -
VZ555_RS28820 (VZ555_28825) 142491..145130 - 2640 WP_111460480 type IV secretion system protein TraC virb4
VZ555_RS28825 (VZ555_28830) 145201..145599 - 399 WP_167878373 hypothetical protein -
VZ555_RS28830 (VZ555_28835) 145607..145996 - 390 WP_032740695 hypothetical protein -
VZ555_RS28835 (VZ555_28840) 146039..146443 - 405 WP_032740694 hypothetical protein -
VZ555_RS28840 (VZ555_28845) 146510..146821 - 312 WP_032740692 hypothetical protein -
VZ555_RS28845 (VZ555_28850) 146822..147040 - 219 WP_032740686 hypothetical protein -
VZ555_RS28850 (VZ555_28855) 147064..147354 - 291 WP_032740684 hypothetical protein -
VZ555_RS28855 (VZ555_28860) 147383..147781 - 399 WP_223170083 hypothetical protein -
VZ555_RS28860 (VZ555_28865) 147937..148506 - 570 WP_046622829 type IV conjugative transfer system lipoprotein TraV traV
VZ555_RS28865 (VZ555_28870) 148529..149125 - 597 WP_111460481 conjugal transfer pilus-stabilizing protein TraP -
VZ555_RS28870 (VZ555_28875) 149118..150542 - 1425 WP_046622826 F-type conjugal transfer pilus assembly protein TraB traB
VZ555_RS28875 (VZ555_28880) 150542..151282 - 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
VZ555_RS28880 (VZ555_28885) 151269..151835 - 567 WP_047665763 type IV conjugative transfer system protein TraE traE
VZ555_RS28885 (VZ555_28890) 151855..152160 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
VZ555_RS28890 (VZ555_28895) 152174..152542 - 369 WP_047665762 type IV conjugative transfer system pilin TraA -
VZ555_RS28895 (VZ555_28900) 152596..152967 - 372 WP_004208838 TraY domain-containing protein -
VZ555_RS28900 (VZ555_28905) 153051..153746 - 696 WP_111460482 transcriptional regulator TraJ family protein -
VZ555_RS28905 (VZ555_28910) 153953..154345 - 393 WP_228972259 conjugal transfer relaxosome DNA-binding protein TraM -
VZ555_RS28910 (VZ555_28915) 154852..155259 + 408 WP_023292159 transglycosylase SLT domain-containing protein -
VZ555_RS28915 (VZ555_28920) 155297..155827 - 531 WP_110183759 antirestriction protein -

Host bacterium

ID   1965 GenBank   NZ_JAZBHJ010000016
Plasmid name   pKP1806281_2 Incompatibility group   IncFIB
Plasmid size   177956 bp Coordinate of oriT [Strand]   154658..154707 [+]
Host baterium   Klebsiella pneumoniae strain KP1806281

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR, chrA, ncrA, ncrB, ncrC, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -