Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103009
Name   oriT_pEC012 in_silico
Organism   Escherichia coli strain EC012
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT282968 (86253..86341 [-], 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_pEC012
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2258 GenBank   WP_006855641
Name   nikB_HTG78_RS00535_pEC012 insolico UniProt ID   A0A620WL05
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104006.42 Da        Isoelectric Point: 7.3526

>WP_006855641.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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 A0A620WL05


Auxiliary protein

ID   920 GenBank   WP_001283947
Name   WP_001283947_pEC012 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   1947 GenBank   WP_001289275
Name   trbC_HTG78_RS00540_pEC012 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: 86957.15 Da        Isoelectric Point: 6.7713

>WP_001289275.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 91719..130608

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTG78_RS00540 (pEC012_00108) 89435..91726 - 2292 WP_001289275 F-type conjugative transfer protein TrbC -
HTG78_RS00545 (pEC012_00109) 91719..92789 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTG78_RS00550 (pEC012_00110) 92808..94016 - 1209 WP_001383960 IncI1-type conjugal transfer protein TrbA trbA
HTG78_RS00555 (pEC012_00111) 94323..95102 - 780 WP_275450201 protein FinQ -
HTG78_RS00560 95729..95881 + 153 WP_001387489 Hok/Gef family protein -
HTG78_RS00565 (pEC012_00112) 95953..96204 - 252 WP_001291964 hypothetical protein -
HTG78_RS00810 96705..96800 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HTG78_RS00575 96865..97149 - 285 WP_001707309 hypothetical protein -
HTG78_RS00580 (pEC012_00115) 97433..97642 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTG78_RS00585 (pEC012_00116) 97714..98376 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
HTG78_RS00590 (pEC012_00117) 98447..100615 - 2169 WP_058649949 DotA/TraY family protein traY
HTG78_RS00595 (pEC012_00118) 100712..101296 - 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
HTG78_RS00600 (pEC012_00119) 101325..102527 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HTG78_RS00605 (pEC012_00120) 102494..103108 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
HTG78_RS00610 (pEC012_00121) 103108..106152 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
HTG78_RS00615 (pEC012_00122) 106242..107042 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
HTG78_RS00620 (pEC012_00123) 107026..107214 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTG78_RS00625 (pEC012_00124) 107278..107682 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HTG78_RS00630 (pEC012_00125) 107733..108260 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTG78_RS00635 (pEC012_00126) 108260..108964 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
HTG78_RS00640 (pEC012_00127) 108964..110253 - 1290 WP_001271994 conjugal transfer protein TraO traO
HTG78_RS00645 (pEC012_00128) 110256..111239 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
HTG78_RS00650 (pEC012_00129) 111250..111942 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HTG78_RS00655 (pEC012_00130) 111939..112286 - 348 WP_001055900 conjugal transfer protein traL
HTG78_RS00660 (pEC012_00131) 112304..116071 - 3768 WP_058649948 LPD7 domain-containing protein -
HTG78_RS00665 (pEC012_00132) 116161..116712 - 552 WP_000014584 phospholipase D family protein -
HTG78_RS00670 (pEC012_00133) 116727..117017 - 291 WP_001299214 hypothetical protein traK
HTG78_RS00675 (pEC012_00134) 117014..118162 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
HTG78_RS00680 (pEC012_00135) 118159..118977 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTG78_RS00685 (pEC012_00136) 118974..119432 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTG78_RS00690 (pEC012_00137) 119827..120411 - 585 WP_000977520 histidine phosphatase family protein -
HTG78_RS00695 (pEC012_00138) 120471..121673 - 1203 WP_000976353 conjugal transfer protein TraF -
HTG78_RS00700 (pEC012_00139) 121759..122583 - 825 WP_058649947 conjugal transfer protein TraE traE
HTG78_RS00705 (pEC012_00140) 122734..123888 - 1155 WP_001139955 site-specific integrase -
HTG78_RS00820 123928..124197 + 270 Protein_140 hypothetical protein -
HTG78_RS00825 124470..124694 + 225 Protein_141 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTG78_RS00715 (pEC012_00141) 124691..126127 - 1437 WP_015058913 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTG78_RS00720 (pEC012_00142) 126115..126771 - 657 WP_001193551 A24 family peptidase -
HTG78_RS00725 (pEC012_00143) 126756..127316 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
HTG78_RS00730 (pEC012_00144) 127326..127940 - 615 WP_000908228 type 4 pilus major pilin -
HTG78_RS00735 (pEC012_00145) 127957..129042 - 1086 WP_001208803 type II secretion system F family protein -
HTG78_RS00740 (pEC012_00146) 129055..130608 - 1554 WP_000362204 ATPase, T2SS/T4P/T4SS family virB11
HTG78_RS00745 (pEC012_00147) 130619..131071 - 453 WP_058649963 type IV pilus biogenesis protein PilP -
HTG78_RS00750 (pEC012_00148) 131058..132353 - 1296 WP_058649964 type 4b pilus protein PilO2 -
HTG78_RS00755 (pEC012_00149) 132346..134028 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTG78_RS00760 (pEC012_00150) 134042..134479 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
HTG78_RS00765 (pEC012_00151) 134479..135546 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3452 GenBank   NZ_KT282968
Plasmid name   pEC012 Incompatibility group   IncI
Plasmid size   139622 bp Coordinate of oriT [Strand]   86253..86341 [-]
Host baterium   Escherichia coli strain EC012

Cargo genes

Drug resistance gene   blaTEM-1B, floR, aph(4)-Ia, aac(3)-IVa, oqxB, oqxA, rmtB, blaCTX-M-65, fosA3
Virulence gene   -
Metal resistance gene   arsA, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF11, AcrVA2