Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116367
Name   oriT_pK2521-1 in_silico
Organism   Citrobacter koseri strain K2521
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP136830 (30303..30391 [-], 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_pK2521-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10457 GenBank   WP_052971501
Name   nikB_R1917_RS24055_pK2521-1 insolico UniProt ID   A0A3G2C959
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103896.37 Da        Isoelectric Point: 7.4198

>WP_052971501.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
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 A0A3G2C959


Auxiliary protein

ID   6136 GenBank   WP_001283947
Name   WP_001283947_pK2521-1 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   12210 GenBank   WP_011264051
Name   trbC_R1917_RS24060_pK2521-1 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 35769..75184

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
R1917_RS24060 (R1917_24060) 33485..35776 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
R1917_RS24065 (R1917_24065) 35769..36839 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
R1917_RS24070 (R1917_24070) 36858..38066 - 1209 WP_001383960 IncI1-type conjugal transfer protein TrbA trbA
R1917_RS24075 (R1917_24075) 38284..39270 - 987 WP_001257838 hypothetical protein -
R1917_RS24080 (R1917_24080) 39543..39695 + 153 WP_001331364 Hok/Gef family protein -
R1917_RS24085 (R1917_24085) 39767..40018 - 252 WP_001291964 hypothetical protein -
R1917_RS24090 (R1917_24090) 40517..40612 + 96 WP_001303310 DinQ-like type I toxin DqlB -
R1917_RS24095 (R1917_24095) 40677..40853 - 177 WP_001054900 hypothetical protein -
R1917_RS24100 (R1917_24100) 41185..41394 + 210 WP_000062602 HEAT repeat domain-containing protein -
R1917_RS24105 (R1917_24105) 41466..42128 - 663 WP_317361617 plasmid IncI1-type surface exclusion protein ExcA -
R1917_RS24110 (R1917_24110) 42193..44361 - 2169 WP_077250315 DotA/TraY family protein traY
R1917_RS24115 (R1917_24115) 44458..45042 - 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
R1917_RS24120 (R1917_24120) 45071..46273 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
R1917_RS24125 (R1917_24125) 46240..46854 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
R1917_RS24130 (R1917_24130) 46854..49898 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
R1917_RS24135 (R1917_24135) 49988..50788 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
R1917_RS24140 (R1917_24140) 50772..50960 - 189 WP_001277255 putative conjugal transfer protein TraS -
R1917_RS24145 (R1917_24145) 51024..51428 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
R1917_RS24150 (R1917_24150) 51479..52006 - 528 WP_001055569 conjugal transfer protein TraQ traQ
R1917_RS24155 (R1917_24155) 52006..52710 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
R1917_RS24160 (R1917_24160) 52710..53999 - 1290 WP_001271994 conjugal transfer protein TraO traO
R1917_RS24165 (R1917_24165) 54002..54985 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
R1917_RS24170 (R1917_24170) 54996..55688 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
R1917_RS24175 (R1917_24175) 55685..56032 - 348 WP_001055900 conjugal transfer protein traL
R1917_RS24180 (R1917_24180) 56050..59817 - 3768 WP_006855639 LPD7 domain-containing protein -
R1917_RS24185 (R1917_24185) 59907..60458 - 552 WP_000014584 phospholipase D family protein -
R1917_RS24190 (R1917_24190) 60473..60763 - 291 WP_001299214 hypothetical protein traK
R1917_RS24195 (R1917_24195) 60760..61908 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
R1917_RS24200 (R1917_24200) 61905..62723 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
R1917_RS24205 (R1917_24205) 62720..63178 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
R1917_RS24210 (R1917_24210) 63573..64157 - 585 WP_000977520 histidine phosphatase family protein -
R1917_RS24215 (R1917_24215) 64217..65419 - 1203 WP_000976357 conjugal transfer protein TraF -
R1917_RS24220 (R1917_24220) 65505..66329 - 825 WP_015058912 conjugal transfer protein TraE traE
R1917_RS24225 (R1917_24225) 66480..67634 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
R1917_RS24230 (R1917_24230) 69049..69270 + 222 Protein_78 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
R1917_RS24235 (R1917_24235) 69267..70703 - 1437 WP_015058913 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
R1917_RS24240 (R1917_24240) 70691..71347 - 657 WP_001193551 A24 family peptidase -
R1917_RS24245 (R1917_24245) 71332..71892 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
R1917_RS24250 (R1917_24250) 71902..72516 - 615 WP_000908228 type 4 pilus major pilin -
R1917_RS24255 (R1917_24255) 72533..73618 - 1086 WP_001208803 type II secretion system F family protein -
R1917_RS24260 (R1917_24260) 73631..75184 - 1554 WP_000362204 GspE/PulE family protein virB11
R1917_RS24265 (R1917_24265) 75195..75647 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
R1917_RS24270 (R1917_24270) 75634..76929 - 1296 WP_058649964 type 4b pilus protein PilO2 -
R1917_RS24275 (R1917_24275) 76922..78604 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
R1917_RS24280 (R1917_24280) 78618..79055 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
R1917_RS24285 (R1917_24285) 79055..80122 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   16800 GenBank   NZ_CP136830
Plasmid name   pK2521-1 Incompatibility group   IncI1
Plasmid size   84607 bp Coordinate of oriT [Strand]   30303..30391 [-]
Host baterium   Citrobacter koseri strain K2521

Cargo genes

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