Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116006
Name   oriT_pIsolateB_C in_silico
Organism   Enterobacter cloacae strain isolateB
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP135501 (42234..42334 [+], 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_pIsolateB_C
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10232 GenBank   WP_001749977
Name   mobF_RRL13_RS25040_pIsolateB_C insolico UniProt ID   A0A5C2CVP7
Length   1080 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1080 a.a.        Molecular weight: 120419.59 Da        Isoelectric Point: 6.5483

>WP_001749977.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVP7


Auxiliary protein

ID   6021 GenBank   WP_000706094
Name   WP_000706094_pIsolateB_C 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   11955 GenBank   WP_001749976
Name   t4cp2_RRL13_RS25045_pIsolateB_C 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: 57679.73 Da        Isoelectric Point: 9.5788

>WP_001749976.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Gammaproteobacteria]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVSARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELRDI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 21819..41667

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RRL13_RS24900 (RRL13_24900) 17664..19097 - 1434 WP_001288432 DNA cytosine methyltransferase -
RRL13_RS24905 (RRL13_24905) 19196..19468 + 273 Protein_21 IS1 family transposase -
RRL13_RS24910 (RRL13_24910) 19479..19685 - 207 WP_001749967 hypothetical protein -
RRL13_RS24915 (RRL13_24915) 19690..20337 - 648 WP_015344958 restriction endonuclease -
RRL13_RS24920 (RRL13_24920) 20387..20698 - 312 WP_001452736 hypothetical protein -
RRL13_RS24925 (RRL13_24925) 20734..21048 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
RRL13_RS24930 (RRL13_24930) 21045..21389 - 345 WP_001749964 hypothetical protein -
RRL13_RS24935 (RRL13_24935) 21405..21776 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
RRL13_RS24940 (RRL13_24940) 21819..22553 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
RRL13_RS24945 (RRL13_24945) 22562..22843 + 282 WP_000440698 transcriptional repressor KorA -
RRL13_RS24950 (RRL13_24950) 22853..23146 + 294 WP_001749962 hypothetical protein virB2
RRL13_RS24955 (RRL13_24955) 23196..23513 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
RRL13_RS24960 (RRL13_24960) 23645..26113 + 2469 WP_224743086 VirB4 family type IV secretion/conjugal transfer ATPase virb4
RRL13_RS24965 (RRL13_24965) 26131..26844 + 714 WP_001749960 type IV secretion system protein virB5
RRL13_RS24970 (RRL13_24970) 26852..27079 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
RRL13_RS24975 (RRL13_24975) 27095..28135 + 1041 WP_001749958 type IV secretion system protein virB6
RRL13_RS24980 (RRL13_24980) 28218..28364 + 147 WP_001257173 conjugal transfer protein TraN -
RRL13_RS24985 (RRL13_24985) 28354..29052 + 699 WP_000646594 virB8 family protein virB8
RRL13_RS24990 (RRL13_24990) 29063..29947 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
RRL13_RS24995 (RRL13_24995) 29947..31107 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
RRL13_RS25000 (RRL13_25000) 31149..32144 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
RRL13_RS25005 (RRL13_25005) 32144..32677 + 534 WP_000792636 phospholipase D family protein -
RRL13_RS25010 (RRL13_25010) 32851..33303 - 453 WP_001749956 DUF6710 family protein -
RRL13_RS25015 (RRL13_25015) 33614..33856 + 243 WP_000844627 transposase -
RRL13_RS25020 (RRL13_25020) 33888..34538 - 651 WP_315688745 tetracycline resistance transcriptional repressor TetR(A) -
RRL13_RS25025 (RRL13_25025) 34644..35843 + 1200 WP_012579085 tetracycline efflux MFS transporter Tet(A) -
RRL13_RS25030 (RRL13_25030) 35875..36528 - 654 Protein_46 EamA family transporter -
RRL13_RS25035 (RRL13_25035) 36723..36896 - 174 WP_001749978 hypothetical protein -
RRL13_RS25040 (RRL13_25040) 36896..40138 - 3243 WP_001749977 MobF family relaxase -
RRL13_RS25045 (RRL13_25045) 40138..41667 - 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
RRL13_RS25050 (RRL13_25050) 41669..41959 - 291 WP_000706094 hypothetical protein -
RRL13_RS25055 (RRL13_25055) 42576..42995 + 420 WP_001749974 plasmid stabilization protein StbA -
RRL13_RS25060 (RRL13_25060) 43004..43720 + 717 WP_001749973 StbB family protein -
RRL13_RS25065 (RRL13_25065) 43722..44090 + 369 WP_001749972 plasmid stabilization protein StbC -
RRL13_RS25070 (RRL13_25070) 44272..44616 + 345 WP_000999874 hypothetical protein -
RRL13_RS25075 (RRL13_25075) 44727..45047 - 321 WP_001749971 protein CcgAII -
RRL13_RS25080 (RRL13_25080) 45102..45281 - 180 WP_000214483 protein CcgAI -
RRL13_RS25085 (RRL13_25085) 46008..46517 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   16439 GenBank   NZ_CP135501
Plasmid name   pIsolateB_C Incompatibility group   IncN
Plasmid size   55403 bp Coordinate of oriT [Strand]   42234..42334 [+]
Host baterium   Enterobacter cloacae strain isolateB

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, ARR-3, dfrA27, aadA16, qacE, sul1, qnrB6, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -