Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105285
Name   oriT_pRHB32-C05_3 in_silico
Organism   Escherichia fergusonii strain RHB32-C05
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057245 (65402..65490 [-], 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_pRHB32-C05_3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3616 GenBank   WP_181576135
Name   nikB_HVY96_RS24035_pRHB32-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: 104089.61 Da        Isoelectric Point: 7.3473

>WP_181576135.1 IncI1-type relaxase NikB [Escherichia fergusonii]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNVLADKLDLIAPVLFWRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1624 GenBank   WP_001283947
Name   WP_001283947_pRHB32-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   3581 GenBank   WP_001289276
Name   trbC_HVY96_RS24040_pRHB32-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: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
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: 70868..106282

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVY96_RS24040 (HVY96_24015) 68584..70875 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HVY96_RS24045 (HVY96_24020) 70868..71938 - 1071 WP_001542508 IncI1-type conjugal transfer protein TrbB trbB
HVY96_RS24050 (HVY96_24025) 71957..73165 - 1209 WP_175237471 IncI1-type conjugal transfer protein TrbA trbA
HVY96_RS24055 (HVY96_24030) 73457..73609 + 153 WP_024179514 Hok/Gef family protein -
HVY96_RS24060 (HVY96_24035) 73681..73932 - 252 WP_001291965 hypothetical protein -
HVY96_RS25190 74430..74528 + 99 WP_022630883 DinQ-like type I toxin DqlB -
HVY96_RS24065 (HVY96_24040) 74975..75184 - 210 WP_015059315 hemolysin expression modulator Hha -
HVY96_RS24070 (HVY96_24045) 75282..75896 - 615 WP_015059316 plasmid IncI1-type surface exclusion protein ExcA -
HVY96_RS24075 (HVY96_24050) 75972..78140 - 2169 WP_181667536 IncI1-type conjugal transfer membrane protein TraY traY
HVY96_RS24080 (HVY96_24055) 78237..78821 - 585 WP_003566808 IncI1-type conjugal transfer protein TraX -
HVY96_RS24085 (HVY96_24060) 78850..80052 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HVY96_RS24090 (HVY96_24065) 80019..80633 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
HVY96_RS24095 (HVY96_24070) 80633..83677 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HVY96_RS24100 (HVY96_24075) 83767..84567 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HVY96_RS24105 (HVY96_24080) 84551..84739 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVY96_RS24110 (HVY96_24085) 84803..85207 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HVY96_RS24115 (HVY96_24090) 85258..85785 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HVY96_RS24120 (HVY96_24095) 85785..86489 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HVY96_RS24125 (HVY96_24100) 86489..87778 - 1290 WP_001271992 conjugal transfer protein TraO traO
HVY96_RS24130 (HVY96_24105) 87781..88764 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
HVY96_RS24135 (HVY96_24110) 88775..89467 - 693 WP_181576137 DotI/IcmL family type IV secretion protein traM
HVY96_RS24140 (HVY96_24115) 89464..89811 - 348 WP_001055900 conjugal transfer protein traL
HVY96_RS24145 (HVY96_24120) 89829..93596 - 3768 WP_181576138 LPD7 domain-containing protein -
HVY96_RS24150 (HVY96_24125) 93686..94237 - 552 WP_000014584 phospholipase D family protein -
HVY96_RS24155 (HVY96_24130) 94252..94542 - 291 WP_001299214 hypothetical protein traK
HVY96_RS24160 (HVY96_24135) 94539..95687 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HVY96_RS24165 (HVY96_24140) 95684..96502 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HVY96_RS24170 (HVY96_24145) 96499..96957 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVY96_RS24175 (HVY96_24150) 97352..97936 - 585 WP_000977526 histidine phosphatase family protein -
HVY96_RS24180 (HVY96_24155) 97996..99198 - 1203 WP_000976350 conjugal transfer protein TraF -
HVY96_RS24185 (HVY96_24160) 99284..100108 - 825 WP_001238943 conjugal transfer protein TraE traE
HVY96_RS24190 (HVY96_24165) 100316..100441 + 126 Protein_113 transposase -
HVY96_RS24195 (HVY96_24170) 100498..101790 - 1293 WP_181576140 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVY96_RS24200 (HVY96_24175) 101790..102446 - 657 WP_001193549 A24 family peptidase -
HVY96_RS24205 (HVY96_24180) 102431..102991 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
HVY96_RS24210 (HVY96_24185) 103001..103614 - 614 Protein_117 type 4 pilus major pilin -
HVY96_RS24215 (HVY96_24190) 103631..104716 - 1086 WP_001208802 type II secretion system F family protein -
HVY96_RS24220 (HVY96_24195) 104729..106282 - 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
HVY96_RS24225 (HVY96_24200) 106293..106745 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
HVY96_RS24230 (HVY96_24205) 106732..108027 - 1296 WP_000752780 type 4b pilus protein PilO2 -
HVY96_RS24235 (HVY96_24210) 108020..109702 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HVY96_RS24240 (HVY96_24215) 109716..110153 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HVY96_RS24245 (HVY96_24220) 110153..111220 - 1068 WP_042012078 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5723 GenBank   NZ_CP057245
Plasmid name   pRHB32-C05_3 Incompatibility group   IncI1
Plasmid size   116001 bp Coordinate of oriT [Strand]   65402..65490 [-]
Host baterium   Escherichia fergusonii strain RHB32-C05

Cargo genes

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