Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105267
Name   oriT_pRHB19-C05_3 in_silico
Organism   Escherichia fergusonii strain RHB19-C05
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057659 (32320..32408 [-], 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_pRHB19-C05_3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3609 GenBank   WP_171961801
Name   nikB_HVX45_RS22955_pRHB19-C05_3 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103958.35 Da        Isoelectric Point: 7.2603

>WP_171961801.1 MULTISPECIES: IncI1-type relaxase NikB [Escherichia]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWCK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1616 GenBank   WP_001283947
Name   WP_001283947_pRHB19-C05_3 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   3572 GenBank   WP_109444318
Name   trbC_HVX45_RS22960_pRHB19-C05_3 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: 86910.09 Da        Isoelectric Point: 6.7713

>WP_109444318.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Escherichia]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENPISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 37786..76089

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVX45_RS22960 (HVX45_22960) 35502..37793 - 2292 WP_109444318 F-type conjugative transfer protein TrbC -
HVX45_RS22965 (HVX45_22965) 37786..38856 - 1071 WP_001542508 IncI1-type conjugal transfer protein TrbB trbB
HVX45_RS22970 (HVX45_22970) 38875..40083 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HVX45_RS22975 (HVX45_22975) 40375..40527 + 153 WP_001331364 Hok/Gef family protein -
HVX45_RS22980 (HVX45_22980) 40599..40850 - 252 WP_001291964 hypothetical protein -
HVX45_RS23555 41351..41446 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HVX45_RS22990 (HVX45_22990) 41511..41687 - 177 WP_001054904 hypothetical protein -
HVX45_RS22995 (HVX45_22995) 42079..42288 + 210 WP_000062603 HEAT repeat domain-containing protein -
HVX45_RS23000 (HVX45_23000) 42360..43010 - 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
HVX45_RS23005 (HVX45_23005) 43084..45252 - 2169 WP_000698357 DotA/TraY family protein traY
HVX45_RS23010 (HVX45_23010) 45349..45933 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HVX45_RS23015 (HVX45_23015) 45962..47164 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HVX45_RS23020 (HVX45_23020) 47131..47745 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HVX45_RS23025 (HVX45_23025) 47745..50789 - 3045 WP_024227038 IncI1-type conjugal transfer protein TraU traU
HVX45_RS23030 (HVX45_23030) 50879..51679 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HVX45_RS23035 (HVX45_23035) 51663..51851 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVX45_RS23040 (HVX45_23040) 51915..52319 - 405 WP_001422824 IncI1-type conjugal transfer protein TraR traR
HVX45_RS23045 (HVX45_23045) 52370..52897 - 528 WP_022630880 conjugal transfer protein TraQ traQ
HVX45_RS23050 (HVX45_23050) 52897..53601 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
HVX45_RS23055 (HVX45_23055) 53601..54890 - 1290 WP_001271991 conjugal transfer protein TraO traO
HVX45_RS23060 (HVX45_23060) 54893..55876 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
HVX45_RS23065 (HVX45_23065) 55887..56579 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
HVX45_RS23070 (HVX45_23070) 56576..56923 - 348 WP_001055900 conjugal transfer protein traL
HVX45_RS23075 (HVX45_23075) 56941..60708 - 3768 WP_024227037 LPD7 domain-containing protein -
HVX45_RS23080 (HVX45_23080) 60799..61350 - 552 WP_000014584 phospholipase D family protein -
HVX45_RS23085 (HVX45_23085) 61365..61655 - 291 WP_071791905 conjugal transfer protein traK
HVX45_RS23090 (HVX45_23090) 61652..62800 - 1149 WP_001024971 plasmid transfer ATPase TraJ virB11
HVX45_RS23095 (HVX45_23095) 62797..63615 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HVX45_RS23100 (HVX45_23100) 63612..64070 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVX45_RS23105 (HVX45_23105) 64464..65048 - 585 WP_000977522 histidine phosphatase family protein -
HVX45_RS23110 (HVX45_23110) 65108..66310 - 1203 WP_128452171 conjugal transfer protein TraF -
HVX45_RS23115 (HVX45_23115) 66396..67220 - 825 WP_001238932 conjugal transfer protein TraE traE
HVX45_RS23120 (HVX45_23120) 67371..68525 - 1155 WP_001139955 site-specific integrase -
HVX45_RS23125 (HVX45_23125) 68860..69066 - 207 WP_000008650 hypothetical protein -
HVX45_RS23605 (HVX45_23130) 69612..69833 + 222 Protein_79 prepilin -
HVX45_RS23135 (HVX45_23135) 69830..70078 - 249 WP_001349157 hypothetical protein -
HVX45_RS23140 (HVX45_23140) 70213..71583 - 1371 WP_001393542 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVX45_RS23145 (HVX45_23145) 71583..72239 - 657 WP_001193553 prepilin peptidase -
HVX45_RS23150 (HVX45_23150) 72224..72784 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HVX45_RS23155 (HVX45_23155) 72794..73408 - 615 WP_001542527 type 4 pilus major pilin -
HVX45_RS23160 (HVX45_23160) 73426..74523 - 1098 WP_001492931 type II secretion system F family protein -
HVX45_RS23165 (HVX45_23165) 74536..76089 - 1554 WP_001492932 ATPase, T2SS/T4P/T4SS family virB11
HVX45_RS23170 (HVX45_23170) 76100..76552 - 453 WP_001247870 type IV pilus biogenesis protein PilP -
HVX45_RS23175 (HVX45_23175) 76539..77834 - 1296 WP_001388364 type 4b pilus protein PilO2 -
HVX45_RS23180 (HVX45_23180) 77827..79509 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HVX45_RS23185 (HVX45_23185) 79523..79960 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HVX45_RS23190 (HVX45_23190) 79960..81027 - 1068 WP_012783947 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5705 GenBank   NZ_CP057659
Plasmid name   pRHB19-C05_3 Incompatibility group   IncI1
Plasmid size   89313 bp Coordinate of oriT [Strand]   32320..32408 [-]
Host baterium   Escherichia fergusonii strain RHB19-C05

Cargo genes

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