Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117606
Name   oriT_pTHO-011-1 in_silico
Organism   Klebsiella michiganensis strain THO-011
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022548 (97087..97175 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pTHO-011-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11220 GenBank   WP_001306778
Name   nikB_JLG71_RS28285_pTHO-011-1 insolico UniProt ID   Q79VV7
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_001306778.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB Q79VV7


Auxiliary protein

ID   6487 GenBank   WP_001283947
Name   WP_001283947_pTHO-011-1 insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   13103 GenBank   WP_024255997
Name   trbC_JLG71_RS28290_pTHO-011-1 insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86940.16 Da        Isoelectric Point: 7.0662

>WP_024255997.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1684..36680

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JLG71_RS27725 (THOKLE011_P10010) 102..278 - 177 WP_001054900 hypothetical protein -
JLG71_RS27730 (THOKLE011_P10020) 670..879 + 210 WP_000062603 HEAT repeat domain-containing protein -
JLG71_RS27735 (THOKLE011_P10030) 951..1613 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
JLG71_RS27740 (THOKLE011_P10040) 1684..3852 - 2169 WP_200914336 DotA/TraY family protein traY
JLG71_RS27745 (THOKLE011_P10050) 3949..4533 - 585 WP_001037985 IncI1-type conjugal transfer protein TraX -
JLG71_RS27750 (THOKLE011_P10060) 4562..5764 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
JLG71_RS27755 (THOKLE011_P10070) 5731..6345 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
JLG71_RS27760 (THOKLE011_P10080) 6345..9389 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
JLG71_RS27765 (THOKLE011_P10090) 9479..10279 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
JLG71_RS27770 (THOKLE011_P10100) 10263..10451 - 189 WP_001277255 putative conjugal transfer protein TraS -
JLG71_RS27775 (THOKLE011_P10110) 10515..10919 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
JLG71_RS27780 (THOKLE011_P10120) 10970..11497 - 528 WP_001055569 conjugal transfer protein TraQ traQ
JLG71_RS27785 11497..12201 - 705 WP_000801919 IncI1-type conjugal transfer protein TraP traP
JLG71_RS27790 (THOKLE011_P10140) 12201..13490 - 1290 WP_033544219 conjugal transfer protein TraO traO
JLG71_RS27795 (THOKLE011_P10150) 13493..14476 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
JLG71_RS27800 (THOKLE011_P10160) 14487..15179 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
JLG71_RS27805 (THOKLE011_P10170) 15176..15523 - 348 WP_001055900 conjugal transfer protein traL
JLG71_RS27810 (THOKLE011_P10180) 15541..19307 - 3767 Protein_17 LPD7 domain-containing protein -
JLG71_RS27815 (THOKLE011_P10200) 19397..19948 - 552 WP_000014584 phospholipase D family protein -
JLG71_RS27820 (THOKLE011_P10210) 19963..20253 - 291 WP_001299214 hypothetical protein traK
JLG71_RS27825 (THOKLE011_P10220) 20250..21398 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
JLG71_RS27830 (THOKLE011_P10230) 21395..22213 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
JLG71_RS27835 (THOKLE011_P10240) 22210..22668 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
JLG71_RS27840 (THOKLE011_P10250) 23063..23647 - 585 WP_061671621 histidine phosphatase family protein -
JLG71_RS27845 (THOKLE011_P10260) 23707..24909 - 1203 WP_000976357 conjugal transfer protein TraF -
JLG71_RS27850 (THOKLE011_P10270) 24995..25819 - 825 WP_015058912 conjugal transfer protein TraE traE
JLG71_RS27855 (THOKLE011_P10280) 25970..27124 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
JLG71_RS27860 (THOKLE011_P10310) 28418..30031 - 1614 WP_130564469 IS66 family transposase -
JLG71_RS27865 (THOKLE011_P10320) 30062..30412 - 351 WP_000624710 IS66 family insertion sequence element accessory protein TnpB -
JLG71_RS27870 (THOKLE011_P10330) 30409..30828 - 420 WP_004018134 transposase -
JLG71_RS27875 (THOKLE011_P10340) 30879..32186 - 1308 WP_200914337 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
JLG71_RS27880 (THOKLE011_P10350) 32186..32843 - 658 Protein_31 A24 family peptidase -
JLG71_RS27885 (THOKLE011_P10360) 32828..33388 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
JLG71_RS27890 (THOKLE011_P10370) 33398..34012 - 615 WP_000908228 type 4 pilus major pilin -
JLG71_RS27895 (THOKLE011_P10380) 34029..35114 - 1086 WP_001208803 type II secretion system F family protein -
JLG71_RS27900 (THOKLE011_P10390) 35127..36680 - 1554 WP_000362204 GspE/PulE family protein virB11
JLG71_RS27905 36691..37143 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
JLG71_RS27910 (THOKLE011_P10400) 37130..38425 - 1296 WP_000752776 type 4b pilus protein PilO2 -
JLG71_RS27915 (THOKLE011_P10410) 38418..40100 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
JLG71_RS27920 (THOKLE011_P10420) 40114..40551 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
JLG71_RS27925 (THOKLE011_P10430) 40551..41618 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   18039 GenBank   NZ_AP022548
Plasmid name   pTHO-011-1 Incompatibility group   IncI1
Plasmid size   106439 bp Coordinate of oriT [Strand]   97087..97175 [-]
Host baterium   Klebsiella michiganensis strain THO-011

Cargo genes

Drug resistance gene   blaCTX-M-8
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -