Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104328
Name   oriT_pUA1139 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain ATCC 14028
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW655526 (55717..55805 [-], 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_pUA1139
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3169 GenBank   WP_001474686
Name   nikB_PYI36_RS00365_pUA1139 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   1385 GenBank   WP_001283947
Name   WP_001283947_pUA1139 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   3079 GenBank   WP_001289269
Name   trbC_PYI36_RS00370_pUA1139 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: 86899.11 Da        Isoelectric Point: 6.7712

>WP_001289269.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTAKTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 61183..99230

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PYI36_RS00370 (pUA1139_00074) 58899..61190 - 2292 WP_001289269 F-type conjugative transfer protein TrbC -
PYI36_RS00375 (pUA1139_00075) 61183..62253 - 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
PYI36_RS00380 (pUA1139_00076) 62272..63480 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
PYI36_RS00385 (pUA1139_00077) 63772..63924 + 153 WP_001303307 Hok/Gef family protein -
PYI36_RS00390 (pUA1139_00078) 63996..64247 - 252 WP_001291965 hypothetical protein -
PYI36_RS00395 64290..64454 + 165 WP_001323923 hypothetical protein -
PYI36_RS00400 65171..65455 - 285 WP_014640317 hypothetical protein -
PYI36_RS00405 (pUA1139_00080) 65556..65765 - 210 WP_130560710 hemolysin expression modulator Hha -
PYI36_RS00410 (pUA1139_00081) 65863..66477 - 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
PYI36_RS00415 (pUA1139_00082) 66553..68721 - 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
PYI36_RS00420 (pUA1139_00083) 68818..69402 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
PYI36_RS00425 (pUA1139_00084) 69431..70633 - 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
PYI36_RS00430 (pUA1139_00085) 70600..71214 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
PYI36_RS00435 (pUA1139_00086) 71214..74258 - 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
PYI36_RS00440 (pUA1139_00087) 74348..75148 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
PYI36_RS00445 (pUA1139_00088) 75132..75320 - 189 WP_001277255 putative conjugal transfer protein TraS -
PYI36_RS00450 (pUA1139_00089) 75384..75788 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
PYI36_RS00455 (pUA1139_00090) 75839..76366 - 528 WP_001055569 conjugal transfer protein TraQ traQ
PYI36_RS00460 (pUA1139_00091) 76366..77070 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
PYI36_RS00465 (pUA1139_00092) 77070..78359 - 1290 WP_130560709 conjugal transfer protein TraO traO
PYI36_RS00470 (pUA1139_00093) 78362..79345 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
PYI36_RS00475 (pUA1139_00094) 79356..80048 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
PYI36_RS00480 (pUA1139_00095) 80045..80392 - 348 WP_001055900 conjugal transfer protein traL
PYI36_RS00485 (pUA1139_00096) 80410..84177 - 3768 WP_001141534 LPD7 domain-containing protein -
PYI36_RS00490 (pUA1139_00097) 84267..84818 - 552 WP_000014584 phospholipase D family protein -
PYI36_RS00495 (pUA1139_00098) 84833..85123 - 291 WP_001299214 hypothetical protein traK
PYI36_RS00500 (pUA1139_00099) 85120..86268 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
PYI36_RS00505 (pUA1139_00100) 86265..87083 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
PYI36_RS00510 (pUA1139_00101) 87080..87538 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
PYI36_RS00515 (pUA1139_00102) 87933..88517 - 585 WP_000977522 histidine phosphatase family protein -
PYI36_RS00520 (pUA1139_00103) 88577..89779 - 1203 WP_000976353 conjugal transfer protein TraF -
PYI36_RS00525 (pUA1139_00104) 89865..90689 - 825 WP_001238927 conjugal transfer protein TraE traE
PYI36_RS00530 (pUA1139_00105) 90840..91994 - 1155 WP_001139958 site-specific integrase -
PYI36_RS00625 93079..93303 + 225 Protein_106 hypothetical protein -
PYI36_RS00535 (pUA1139_00106) 93300..94724 - 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
PYI36_RS00540 (pUA1139_00107) 94724..95380 - 657 WP_001193554 prepilin peptidase -
PYI36_RS00545 (pUA1139_00108) 95365..95925 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
PYI36_RS00550 (pUA1139_00109) 95935..96549 - 615 WP_000959785 type 4 pilus major pilin -
PYI36_RS00555 (pUA1139_00110) 96567..97664 - 1098 WP_044502562 type II secretion system F family protein -
PYI36_RS00560 (pUA1139_00111) 97677..99230 - 1554 WP_044502561 ATPase, T2SS/T4P/T4SS family virB11
PYI36_RS00565 (pUA1139_00112) 99241..99693 - 453 WP_044502560 type IV pilus biogenesis protein PilP -
PYI36_RS00570 (pUA1139_00113) 99680..100975 - 1296 WP_044502559 type 4b pilus protein PilO2 -
PYI36_RS00575 (pUA1139_00114) 100968..102650 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
PYI36_RS00580 (pUA1139_00115) 102664..103101 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
PYI36_RS00585 (pUA1139_00116) 103101..104168 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   4767 GenBank   NZ_MW655526
Plasmid name   pUA1139 Incompatibility group   IncI1
Plasmid size   110041 bp Coordinate of oriT [Strand]   55717..55805 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain ATCC 14028

Cargo genes

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