Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   101223
Name   oriT_pSS20EcIncN in_silico
Organism   Escherichia coli strain EcSS20
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SDDW01000035 (3089..3189 [-], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site  
 
 GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pSS20EcIncN
TATTTATTTTTTTATCTTTTAAATCAGCATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   1204 GenBank   WP_129015033
Name   mobF_ERL57_RS23110_pSS20EcIncN insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120114.30 Da        Isoelectric Point: 6.5512

>WP_129015033.1 MobF family relaxase [Escherichia coli]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RNVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

(851-895)

(16-287)

(477-653)


  Protein structure



No available structure.




Auxiliary protein


ID   420 GenBank   WP_000706094
Name   WP_000706094_pSS20EcIncN insolico UniProt ID   B6UZ32
Length   96 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 96 a.a.        Molecular weight: 10829.54 Da        Isoelectric Point: 8.5040

>WP_000706094.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MKIVADRLSDVNRKLDYLFDRASDADFGPLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIA
EPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B6UZ32


T4CP


ID   813 GenBank   WP_000342688
Name   t4cp2_ERL57_RS23105_pSS20EcIncN insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57762.87 Da        Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

(113-489)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 3756..20043

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ERL57_RS23075 (ERL57_23075) 103..282 + 180 WP_012561134 protein CcgAI -
ERL57_RS23080 (ERL57_23080) 744..1088 - 345 WP_012561137 hypothetical protein -
ERL57_RS23085 (ERL57_23085) 1289..1657 - 369 WP_012561138 plasmid stabilization protein StbC -
ERL57_RS23090 (ERL57_23090) 1659..2375 - 717 WP_012561139 StbB family protein -
ERL57_RS23095 (ERL57_23095) 2384..2770 - 387 WP_013279398 plasmid stabilization protein StbA -
ERL57_RS23100 (ERL57_23100) 3464..3754 + 291 WP_000706094 hypothetical protein -
ERL57_RS23105 (ERL57_23105) 3756..5285 + 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
ERL57_RS23110 (ERL57_23110) 5285..8521 + 3237 WP_129015033 MobF family relaxase -
ERL57_RS23115 (ERL57_23115) 8521..9147 + 627 WP_013851369 DUF6710 family protein -
ERL57_RS23120 (ERL57_23120) 9320..9853 - 534 WP_129015034 phospholipase D family protein -
ERL57_RS23125 (ERL57_23125) 9853..10848 - 996 WP_129015035 ATPase, T2SS/T4P/T4SS family virB11
ERL57_RS23130 (ERL57_23130) 10890..12050 - 1161 WP_033547518 type IV secretion system protein VirB10 virB10
ERL57_RS23135 (ERL57_23135) 12050..12934 - 885 WP_163562551 TrbG/VirB9 family P-type conjugative transfer protein virB9
ERL57_RS23140 (ERL57_23140) 12945..13643 - 699 WP_000646594 type IV secretion system protein virB8
ERL57_RS23145 (ERL57_23145) 13633..13779 - 147 WP_001257173 conjugal transfer protein TraN -
ERL57_RS23150 (ERL57_23150) 13862..14902 - 1041 WP_001749958 type IV secretion system protein virB6
ERL57_RS23155 (ERL57_23155) 14918..15145 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
ERL57_RS23160 (ERL57_23160) 15153..15866 - 714 WP_113472287 type IV secretion system protein virB5
ERL57_RS23165 (ERL57_23165) 15884..18484 - 2601 WP_012561149 VirB4 family type IV secretion/conjugal transfer ATPase virb4
ERL57_RS23170 (ERL57_23170) 18484..18801 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
ERL57_RS23175 (ERL57_23175) 18851..19144 - 294 WP_001749962 hypothetical protein virB2
ERL57_RS23180 (ERL57_23180) 19154..19435 - 282 WP_032335136 transcriptional repressor KorA -
ERL57_RS23185 (ERL57_23185) 19444..20043 - 600 WP_049067177 lytic transglycosylase domain-containing protein virB1
ERL57_RS23190 (ERL57_23190) 20221..20592 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
ERL57_RS23195 (ERL57_23195) 20602..20952 + 351 WP_250188724 hypothetical protein -
ERL57_RS23200 (ERL57_23200) 20949..21263 + 315 WP_113472288 TrbM/KikA/MpfK family conjugal transfer protein -
ERL57_RS23205 (ERL57_23205) 21299..21610 + 312 WP_001452736 hypothetical protein -
ERL57_RS23210 (ERL57_23210) 21660..22313 + 654 WP_113472289 restriction endonuclease -
ERL57_RS23215 (ERL57_23215) 22314..22532 + 219 WP_113472290 hypothetical protein -
ERL57_RS23220 (ERL57_23220) 22532..22714 + 183 WP_071884977 Hha/YmoA family nucleoid-associated regulatory protein -
ERL57_RS23225 (ERL57_23225) 23014..23583 + 570 WP_001749988 recombinase family protein -


Host bacterium


ID   1667 GenBank   NZ_SDDW01000035
Plasmid name   pSS20EcIncN Incompatibility group   -
Plasmid size   28224 bp Coordinate of oriT [Strand]   3089..3189 [-]
Host baterium   Escherichia coli strain EcSS20

Cargo genes


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