Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103865
Name   oriT_p113k in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain BL10
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP025339 (59111..59199 [+], 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_p113k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2870 GenBank   WP_011264053
Name   nikB_CTI29_RS25275_p113k insolico UniProt ID   A0A767TAZ8
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103882.34 Da        Isoelectric Point: 7.4198

>WP_011264053.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
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 A0A767TAZ8


Auxiliary protein

ID   1191 GenBank   WP_001283947
Name   WP_001283947_p113k 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   2710 GenBank   WP_011264051
Name   trbC_CTI29_RS25270_p113k 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: 11035..53732

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CTI29_RS25020 (CTI29_25250) 6097..7164 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
CTI29_RS25025 (CTI29_25255) 7164..7601 + 438 WP_000539806 type IV pilus biogenesis protein PilM -
CTI29_RS25030 (CTI29_25260) 7615..9297 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
CTI29_RS25035 (CTI29_25265) 9290..10585 + 1296 WP_023518855 type 4b pilus protein PilO2 -
CTI29_RS25040 (CTI29_25270) 10572..11024 + 453 WP_001247337 type IV pilus biogenesis protein PilP -
CTI29_RS25045 (CTI29_25275) 11035..12588 + 1554 WP_023518854 ATPase, T2SS/T4P/T4SS family virB11
CTI29_RS25050 (CTI29_25280) 12601..13686 + 1086 WP_001208802 type II secretion system F family protein -
CTI29_RS25055 (CTI29_25285) 13703..14317 + 615 WP_000908227 type 4 pilus major pilin -
CTI29_RS25060 (CTI29_25290) 14327..14887 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
CTI29_RS25065 (CTI29_25295) 14872..15528 + 657 WP_001401940 A24 family peptidase -
CTI29_RS25070 (CTI29_25300) 15516..16898 + 1383 WP_224476474 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
CTI29_RS27455 17188..17472 - 285 WP_187642572 pilus assembly protein PilV -
CTI29_RS25085 (CTI29_25315) 17471..18625 + 1155 WP_001139955 site-specific integrase -
CTI29_RS25090 (CTI29_25320) 18776..19600 + 825 WP_023518851 conjugal transfer protein TraE traE
CTI29_RS25095 (CTI29_25325) 19686..20888 + 1203 WP_000976351 conjugal transfer protein TraF -
CTI29_RS25100 (CTI29_25330) 20948..21532 + 585 WP_000977522 histidine phosphatase family protein -
CTI29_RS25105 (CTI29_25335) 21927..22385 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
CTI29_RS25110 (CTI29_25340) 22382..23200 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
CTI29_RS25115 (CTI29_25345) 23197..24345 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
CTI29_RS25120 (CTI29_25350) 24342..24632 + 291 WP_001299214 hypothetical protein traK
CTI29_RS25125 (CTI29_25355) 24647..25198 + 552 WP_000014584 phospholipase D family protein -
CTI29_RS25130 (CTI29_25360) 25288..29055 + 3768 WP_023518849 LPD7 domain-containing protein -
CTI29_RS25135 (CTI29_25365) 29073..29420 + 348 WP_001055900 conjugal transfer protein traL
CTI29_RS25140 (CTI29_25370) 29417..30109 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
CTI29_RS25145 (CTI29_25375) 30120..31103 + 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
CTI29_RS25150 (CTI29_25380) 31106..32395 + 1290 WP_011264042 conjugal transfer protein TraO traO
CTI29_RS25155 (CTI29_25385) 32395..33099 + 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
CTI29_RS25160 (CTI29_25390) 33099..33626 + 528 WP_001055569 conjugal transfer protein TraQ traQ
CTI29_RS25165 (CTI29_25395) 33677..34081 + 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
CTI29_RS25170 (CTI29_25400) 34145..34333 + 189 WP_001277255 putative conjugal transfer protein TraS -
CTI29_RS25175 (CTI29_25405) 34317..35117 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
CTI29_RS25180 (CTI29_25410) 35207..38251 + 3045 WP_023518848 IncI1-type conjugal transfer protein TraU traU
CTI29_RS25185 (CTI29_25415) 38251..38865 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
CTI29_RS25190 (CTI29_25420) 38832..40034 + 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
CTI29_RS25195 (CTI29_25425) 40063..40647 + 585 WP_001746157 IncI1-type conjugal transfer protein TraX -
CTI29_RS25200 (CTI29_25430) 40744..42912 + 2169 WP_023518847 DotA/TraY family protein traY
CTI29_RS25205 (CTI29_25435) 42983..43645 + 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
CTI29_RS25210 (CTI29_25440) 43717..43926 - 210 WP_000062603 HEAT repeat domain-containing protein -
CTI29_RS27115 44318..44494 + 177 WP_001054897 hypothetical protein -
CTI29_RS27560 44559..44654 - 96 WP_000609148 DinQ-like type I toxin DqlB -
CTI29_RS25220 (CTI29_25450) 45155..45406 + 252 WP_001291964 hypothetical protein -
CTI29_RS25225 (CTI29_25455) 45478..45630 - 153 WP_001387489 Hok/Gef family protein -
CTI29_RS25230 (CTI29_25460) 45951..46325 + 375 WP_223349261 hypothetical protein -
CTI29_RS25235 (CTI29_25465) 46478..47740 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
CTI29_RS25240 (CTI29_25470) 48064..49209 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
CTI29_RS25245 (CTI29_25475) 49303..49836 + 534 WP_001221666 lipocalin family protein -
CTI29_RS25250 (CTI29_25480) 49833..50150 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
CTI29_RS25255 (CTI29_25485) 50346..51128 + 783 WP_023063753 protein FinQ -
CTI29_RS25260 (CTI29_25490) 51435..52643 + 1209 WP_011264049 IncI1-type conjugal transfer protein TrbA trbA
CTI29_RS25265 (CTI29_25495) 52662..53732 + 1071 WP_011264050 IncI1-type conjugal transfer protein TrbB trbB
CTI29_RS25270 (CTI29_25500) 53725..56016 + 2292 WP_011264051 F-type conjugative transfer protein TrbC -

Host bacterium

ID   4305 GenBank   NZ_CP025339
Plasmid name   p113k Incompatibility group   IncI1
Plasmid size   112565 bp Coordinate of oriT [Strand]   59111..59199 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain BL10

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2