Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103185
Name   oriT_pJB10 in_silico
Organism   Escherichia coli strain JB10
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KX452392 (53961..54049 [-], 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_pJB10
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2385 GenBank   WP_001474686
Name   nikB_HTI64_RS00350_pJB10 insolico UniProt ID   A0A2J0RB70
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103834.33 Da        Isoelectric Point: 7.3473

>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A2J0RB70


Auxiliary protein

ID   1006 GenBank   WP_001283947
Name   WP_001283947_pJB10 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   2137 GenBank   WP_001289271
Name   trbC_HTI64_RS00355_pJB10 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: 86927.12 Da        Isoelectric Point: 6.7713

>WP_001289271.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 59430..87486

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI64_RS00355 (pJB10_0074) 57146..59437 - 2292 WP_001289271 F-type conjugative transfer protein TrbC -
HTI64_RS00360 (pJB10_0075) 59430..60500 - 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
HTI64_RS00365 (pJB10_0076) 60519..61727 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HTI64_RS00370 (pJB10_0077) 62019..62171 + 153 WP_001303307 Hok/Gef family protein -
HTI64_RS00375 62243..62494 - 252 WP_001291965 hypothetical protein -
HTI64_RS00380 62537..62734 + 198 WP_172688491 hypothetical protein -
HTI64_RS00385 (pJB10_0078) 62854..63636 - 783 WP_001300609 IS21-like element IS100kyp family helper ATPase IstB -
HTI64_RS00390 (pJB10_0079) 63633..64655 - 1023 WP_000255944 IS21-like element IS100 family transposase -
HTI64_RS00395 (pJB10_0080) 65376..65660 - 285 WP_014640317 hypothetical protein -
HTI64_RS00400 65944..66153 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTI64_RS00405 (pJB10_0081) 66225..66887 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
HTI64_RS00410 (pJB10_0082) 66958..69126 - 2169 WP_000698368 DotA/TraY family protein traY
HTI64_RS00415 (pJB10_0083) 69223..69807 - 585 WP_001037998 conjugal transfer protein TraX -
HTI64_RS00420 (pJB10_0084) 69836..71038 - 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
HTI64_RS00425 (pJB10_0085) 71005..71619 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HTI64_RS00430 (pJB10_0086) 71619..74663 - 3045 WP_001024751 IncI1-type conjugal transfer protein TraU traU
HTI64_RS00435 (pJB10_0087) 74753..75553 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HTI64_RS00440 (pJB10_0088) 75537..75725 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTI64_RS00445 (pJB10_0089) 75789..76193 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HTI64_RS00450 (pJB10_0090) 76244..76771 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI64_RS00455 (pJB10_0091) 76771..77475 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI64_RS00460 (pJB10_0092) 77475..78764 - 1290 WP_001271997 conjugal transfer protein TraO traO
HTI64_RS00465 (pJB10_0093) 78767..79750 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HTI64_RS00470 (pJB10_0094) 79761..80453 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HTI64_RS00535 (pJB10_0095) 80450..80796 - 347 Protein_96 conjugal transfer protein -
HTI64_RS00475 80814..84580 - 3767 Protein_97 LPD7 domain-containing protein -
HTI64_RS00480 (pJB10_0098) 84670..85221 - 552 WP_000014584 phospholipase D family protein -
HTI64_RS00485 (pJB10_0099) 85236..85526 - 291 WP_001299214 hypothetical protein traK
HTI64_RS00490 (pJB10_0100) 85523..86671 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI64_RS00495 (pJB10_0101) 86668..87486 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTI64_RS00500 (pJB10_0102) 87483..87941 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI64_RS00505 (pJB10_0103) 88336..88920 - 585 WP_000977517 histidine phosphatase family protein -
HTI64_RS00510 (pJB10_0104) 88980..90182 - 1203 WP_000976353 conjugal transfer protein TraF -
HTI64_RS00515 (pJB10_0105) 90268..91093 - 826 Protein_105 conjugal transfer protein TraE -
HTI64_RS00520 (pJB10_0106) 91244..92398 - 1155 WP_001139958 site-specific integrase -

Host bacterium

ID   3628 GenBank   NZ_KX452392
Plasmid name   pJB10 Incompatibility group   IncI1
Plasmid size   93257 bp Coordinate of oriT [Strand]   53961..54049 [-]
Host baterium   Escherichia coli strain JB10

Cargo genes

Drug resistance gene   blaCMY-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -