Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101608
Name   oriT_L1M8-CTX01|unnamed in_silico
Organism   Escherichia coli strain L1M8-CTX01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAQIYV010000016 (61602..61690 [+], 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_L1M8-CTX01|unnamed
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1423 GenBank   WP_024143648
Name   nikB_PEA77_RS18165_L1M8-CTX01|unnamed insolico UniProt ID   A0A023JAU0
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_024143648.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A023JAU0


Auxiliary protein

ID   555 GenBank   WP_001283947
Name   WP_001283947_L1M8-CTX01|unnamed 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   1082 GenBank   WP_001289276
Name   trbC_PEA77_RS18160_L1M8-CTX01|unnamed 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: 15246..56224

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PEA77_RS17920 (PEA77_17910) 10308..11375 + 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -
PEA77_RS17925 (PEA77_17915) 11375..11812 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
PEA77_RS17930 (PEA77_17920) 11826..13508 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
PEA77_RS17935 (PEA77_17925) 13501..14796 + 1296 WP_000752772 type 4b pilus protein PilO2 -
PEA77_RS17940 (PEA77_17930) 14783..15235 + 453 WP_001247334 type IV pilus biogenesis protein PilP -
PEA77_RS17945 (PEA77_17935) 15246..16799 + 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
PEA77_RS17950 (PEA77_17940) 16812..17909 + 1098 WP_001208805 type II secretion system F family protein -
PEA77_RS17955 (PEA77_17945) 17927..18541 + 615 WP_000959785 type 4 pilus major pilin -
PEA77_RS17960 (PEA77_17950) 18551..19111 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
PEA77_RS17965 (PEA77_17955) 19096..19752 + 657 WP_001193553 prepilin peptidase -
PEA77_RS17970 (PEA77_17960) 19752..20846 + 1095 Protein_23 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
PEA77_RS17975 (PEA77_17965) 21064..22326 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
PEA77_RS17980 (PEA77_17970) 22614..23489 + 876 WP_013188473 extended-spectrum class A beta-lactamase CTX-M-1 -
PEA77_RS17985 (PEA77_17975) 23536..23880 - 345 Protein_26 WbuC family cupin fold metalloprotein -
PEA77_RS17990 (PEA77_17980) 23880..24089 + 210 Protein_27 hypothetical protein -
PEA77_RS24720 24365..24586 + 222 Protein_28 prepilin -
PEA77_RS17995 (PEA77_17985) 24583..24831 - 249 WP_001349157 hypothetical protein -
PEA77_RS18000 (PEA77_17990) 25489..26643 + 1155 WP_001139957 site-specific integrase -
PEA77_RS18005 (PEA77_17995) 26794..27618 + 825 WP_001238939 conjugal transfer protein TraE traE
PEA77_RS18010 (PEA77_18000) 27703..28905 + 1203 WP_000976351 conjugal transfer protein TraF -
PEA77_RS18015 (PEA77_18005) 28965..29549 + 585 WP_000977522 histidine phosphatase family protein -
PEA77_RS18020 (PEA77_18010) 29944..30402 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
PEA77_RS18025 (PEA77_18015) 30399..31217 + 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
PEA77_RS18030 (PEA77_18020) 31214..32362 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
PEA77_RS18035 (PEA77_18025) 32359..32649 + 291 WP_001299214 hypothetical protein traK
PEA77_RS18040 (PEA77_18030) 32664..33215 + 552 WP_000014583 phospholipase D family protein -
PEA77_RS18045 (PEA77_18035) 33304..37071 + 3768 WP_001141527 LPD7 domain-containing protein -
PEA77_RS18050 (PEA77_18040) 37089..37436 + 348 WP_001055900 conjugal transfer protein traL
PEA77_RS18055 (PEA77_18045) 37433..38125 + 693 WP_271180446 DotI/IcmL family type IV secretion protein traM
PEA77_RS18060 (PEA77_18050) 38136..39119 + 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
PEA77_RS18065 (PEA77_18055) 39122..40411 + 1290 WP_001272003 conjugal transfer protein TraO traO
PEA77_RS18070 (PEA77_18060) 40411..41115 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
PEA77_RS18075 (PEA77_18065) 41115..41642 + 528 WP_001055569 conjugal transfer protein TraQ traQ
PEA77_RS18080 (PEA77_18070) 41693..42097 + 405 WP_000086958 IncI1-type conjugal transfer protein TraR traR
PEA77_RS18085 (PEA77_18075) 42161..42349 + 189 WP_001277255 putative conjugal transfer protein TraS -
PEA77_RS18090 (PEA77_18080) 42333..43133 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
PEA77_RS18095 (PEA77_18085) 43223..46267 + 3045 WP_021265678 IncI1-type conjugal transfer protein TraU traU
PEA77_RS18100 (PEA77_18090) 46267..46881 + 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
PEA77_RS18105 (PEA77_18095) 46848..48050 + 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
PEA77_RS18110 (PEA77_18100) 48079..48663 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
PEA77_RS18115 (PEA77_18105) 48760..50928 + 2169 WP_021537350 DotA/TraY family protein traY
PEA77_RS18120 (PEA77_18110) 51002..51652 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
PEA77_RS18125 (PEA77_18115) 51724..51933 - 210 WP_000062603 HEAT repeat domain-containing protein -
PEA77_RS18130 (PEA77_18120) 52325..52501 + 177 WP_001054904 hypothetical protein -
PEA77_RS24725 52566..52661 - 96 WP_001303310 DinQ-like type I toxin DqlB -
PEA77_RS18140 (PEA77_18130) 53160..53411 + 252 WP_001291964 hypothetical protein -
PEA77_RS18145 (PEA77_18135) 53483..53635 - 153 WP_001331364 Hok/Gef family protein -
PEA77_RS18150 (PEA77_18140) 53927..55135 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
PEA77_RS18155 (PEA77_18145) 55154..56224 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
PEA77_RS18160 (PEA77_18150) 56217..58508 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   2052 GenBank   NZ_JAQIYV010000016
Plasmid name   L1M8-CTX01|unnamed Incompatibility group   IncI1
Plasmid size   106875 bp Coordinate of oriT [Strand]   61602..61690 [+]
Host baterium   Escherichia coli strain L1M8-CTX01

Cargo genes

Drug resistance gene   blaCTX-M-1, sul2, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -