Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102684
Name   oriT_pEc98_1 in_silico
Organism   Escherichia coli strain UFU_EC98
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP024093 (16807..16895 [-], 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_pEc98_1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1981 GenBank   WP_016231887
Name   nikB_CQ842_RS24930_pEc98_1 insolico UniProt ID   A0A078BC53
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103902.42 Da        Isoelectric Point: 7.5153

>WP_016231887.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMNGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVVIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A078BC53


Auxiliary protein

ID   804 GenBank   WP_001283947
Name   WP_001283947_pEc98_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   1622 GenBank   WP_016231889
Name   t4cp2_CQ842_RS24955_pEc98_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: 86985.10 Da        Isoelectric Point: 6.7713

>WP_016231889.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNAFQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMARLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRIAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRTERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 25978..65293

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CQ842_RS24940 (CQ842_24900) 21346..21723 - 378 WP_001559792 RidA family protein -
CQ842_RS24945 (CQ842_24905) 21745..22704 - 960 WP_016231888 sugar phosphate isomerase/epimerase family protein -
CQ842_RS24950 (CQ842_24910) 22890..23552 + 663 WP_000835776 PAS domain-containing protein -
CQ842_RS24955 (CQ842_24915) 23694..25985 - 2292 WP_016231889 F-type conjugative transfer protein TrbC -
CQ842_RS24960 (CQ842_24920) 25978..27048 - 1071 WP_016231890 IncI1-type conjugal transfer protein TrbB trbB
CQ842_RS24965 (CQ842_24925) 27067..28275 - 1209 WP_052978849 IncI1-type conjugal transfer protein TrbA trbA
CQ842_RS24970 (CQ842_24930) 28493..29479 - 987 WP_024194699 hypothetical protein -
CQ842_RS24975 (CQ842_24935) 30048..30200 + 153 WP_001387489 Hok/Gef family protein -
CQ842_RS24980 (CQ842_24940) 30272..30523 - 252 WP_001291965 hypothetical protein -
CQ842_RS26335 31182..31358 - 177 WP_001054901 hypothetical protein -
CQ842_RS24985 (CQ842_24945) 31690..31899 + 210 WP_000062603 HEAT repeat domain-containing protein -
CQ842_RS24990 (CQ842_24950) 31971..32621 - 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
CQ842_RS24995 (CQ842_24955) 32695..34863 - 2169 WP_016231892 DotA/TraY family protein traY
CQ842_RS25000 (CQ842_24960) 34960..35544 - 585 WP_016231893 IncI1-type conjugal transfer protein TraX -
CQ842_RS25005 (CQ842_24965) 35573..36775 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
CQ842_RS25010 (CQ842_24970) 36742..37356 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
CQ842_RS25015 (CQ842_24975) 37356..40321 - 2966 Protein_44 IncI1-type conjugal transfer protein TraU -
CQ842_RS25020 (CQ842_24980) 40411..41211 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
CQ842_RS25025 (CQ842_24985) 41195..41383 - 189 WP_001277255 putative conjugal transfer protein TraS -
CQ842_RS25030 (CQ842_24990) 41447..41851 - 405 WP_016231895 IncI1-type conjugal transfer protein TraR traR
CQ842_RS25035 (CQ842_24995) 41902..42429 - 528 WP_001055569 conjugal transfer protein TraQ traQ
CQ842_RS25040 (CQ842_25000) 42429..43133 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
CQ842_RS25045 (CQ842_25005) 43133..44422 - 1290 WP_016231896 conjugal transfer protein TraO traO
CQ842_RS25050 (CQ842_25010) 44425..45408 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
CQ842_RS25055 (CQ842_25015) 45419..46111 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
CQ842_RS25060 (CQ842_25020) 46108..46455 - 348 WP_001055900 conjugal transfer protein traL
CQ842_RS25065 (CQ842_25025) 46473..50240 - 3768 WP_001141534 LPD7 domain-containing protein -
CQ842_RS25070 (CQ842_25030) 50330..50881 - 552 WP_000014584 phospholipase D family protein -
CQ842_RS25075 (CQ842_25035) 50896..51186 - 291 WP_001299214 hypothetical protein traK
CQ842_RS25080 (CQ842_25040) 51183..52331 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
CQ842_RS25085 (CQ842_25045) 52328..53146 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
CQ842_RS25090 (CQ842_25050) 53143..53601 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
CQ842_RS25095 (CQ842_25055) 53996..54580 - 585 WP_000977522 histidine phosphatase family protein -
CQ842_RS25100 (CQ842_25060) 54640..55842 - 1203 WP_000976353 conjugal transfer protein TraF -
CQ842_RS25105 (CQ842_25065) 55928..56752 - 825 WP_082210287 conjugal transfer protein TraE traE
CQ842_RS25110 (CQ842_25070) 56903..58057 - 1155 WP_001139958 site-specific integrase -
CQ842_RS25130 (CQ842_25090) 59250..59498 + 249 WP_001349157 hypothetical protein -
CQ842_RS25135 (CQ842_25095) 59495..60787 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
CQ842_RS25140 (CQ842_25100) 60787..61443 - 657 WP_001193554 prepilin peptidase -
CQ842_RS25145 (CQ842_25105) 61428..61988 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
CQ842_RS25150 (CQ842_25110) 61998..62612 - 615 WP_000959785 type 4 pilus major pilin -
CQ842_RS25155 (CQ842_25115) 62630..63727 - 1098 WP_044502562 type II secretion system F family protein -
CQ842_RS25160 (CQ842_25120) 63740..65293 - 1554 WP_044502561 ATPase, T2SS/T4P/T4SS family virB11
CQ842_RS25165 (CQ842_25125) 65304..65756 - 453 WP_044502560 type IV pilus biogenesis protein PilP -
CQ842_RS25170 (CQ842_25130) 65743..67038 - 1296 WP_044502559 type 4b pilus protein PilO2 -
CQ842_RS25175 (CQ842_25135) 67031..68713 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
CQ842_RS25180 (CQ842_25140) 68727..69164 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
CQ842_RS25185 (CQ842_25145) 69164..70231 - 1068 WP_099451049 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3128 GenBank   NZ_CP024093
Plasmid name   pEc98_1 Incompatibility group   IncI1
Plasmid size   88230 bp Coordinate of oriT [Strand]   16807..16895 [-]
Host baterium   Escherichia coli strain UFU_EC98

Cargo genes

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