Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118568
Name   oriT_AR_0062|tig00000053_pilon in_silico
Organism   Klebsiella aerogenes strain AR_0062
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP026757 (24515..24615 [+], 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_AR_0062|tig00000053_pilon
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11782 GenBank   WP_001749977
Name   mobF_AM441_RS26065_AR_0062|tig00000053_pilon 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   6782 GenBank   WP_001749975
Name   WP_001749975_AR_0062|tig00000053_pilon insolico UniProt ID   A0A5C2CVS6
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   13801 GenBank   WP_001749976
Name   t4cp2_AM441_RS26070_AR_0062|tig00000053_pilon 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: 4100..23948

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM441_RS25940 (AM441_26085) 585..1493 - 909 WP_001749993 SDR family oxidoreductase -
AM441_RS25945 (AM441_26090) 1742..2134 + 393 WP_088537417 YdeI family stress tolerance OB fold protein -
AM441_RS25950 (AM441_26100) 2464..3444 - 981 WP_000019403 IS5-like element IS5 family transposase -
AM441_RS25955 (AM441_26110) 3485..3670 - 186 WP_104891163 hypothetical protein -
AM441_RS25960 (AM441_26115) 3686..3991 - 306 WP_000960954 H-NS family nucleoid-associated regulatory protein -
AM441_RS25965 (AM441_26120) 4100..4834 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
AM441_RS25970 (AM441_26125) 4843..5124 + 282 WP_000440698 transcriptional repressor KorA -
AM441_RS25975 (AM441_26130) 5134..5427 + 294 WP_001749962 hypothetical protein virB2
AM441_RS25980 (AM441_26135) 5477..5794 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
AM441_RS25985 (AM441_26140) 5794..8394 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
AM441_RS25990 (AM441_26145) 8412..9125 + 714 WP_001749960 type IV secretion system protein virB5
AM441_RS25995 (AM441_26150) 9133..9360 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
AM441_RS26000 (AM441_26155) 9376..10416 + 1041 WP_001749958 type IV secretion system protein virB6
AM441_RS27705 (AM441_26160) 10517..10645 + 129 WP_071882546 conjugal transfer protein TraN -
AM441_RS26010 (AM441_26165) 10635..11333 + 699 WP_000646594 virB8 family protein virB8
AM441_RS26015 (AM441_26170) 11344..12228 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
AM441_RS26020 (AM441_26175) 12228..13388 + 1161 WP_104891164 type IV secretion system protein VirB10 virB10
AM441_RS26025 (AM441_26180) 13430..14425 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
AM441_RS26030 (AM441_26185) 14425..14958 + 534 WP_000792636 phospholipase D family protein -
AM441_RS27710 15132..15584 - 453 WP_001749956 DUF6710 family protein -
AM441_RS26040 (AM441_26195) 15858..16511 + 654 Protein_21 EamA family transporter -
AM441_RS26045 (AM441_26200) 16543..17742 - 1200 WP_012579085 tetracycline efflux MFS transporter Tet(A) -
AM441_RS26050 (AM441_26205) 17848..18498 + 651 WP_000164043 tetracycline resistance transcriptional repressor TetR(A) -
AM441_RS26055 (AM441_26210) 18530..18772 - 243 WP_000844627 transposase -
AM441_RS26060 (AM441_26215) 19004..19177 - 174 WP_001749978 hypothetical protein -
AM441_RS26065 (AM441_26220) 19177..22419 - 3243 WP_001749977 MobF family relaxase -
AM441_RS26070 (AM441_26225) 22419..23948 - 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
AM441_RS26075 (AM441_26230) 23950..24366 - 417 WP_001749975 hypothetical protein -
AM441_RS27550 24857..25276 + 420 WP_001749974 plasmid stabilization protein StbA -
AM441_RS26085 (AM441_26240) 25285..26001 + 717 WP_001749973 StbB family protein -
AM441_RS26090 (AM441_26245) 26003..26371 + 369 WP_000414913 plasmid stabilization protein StbC -
AM441_RS26095 (AM441_26250) 26553..26897 + 345 WP_000999874 hypothetical protein -
AM441_RS26100 (AM441_26255) 27008..27328 - 321 WP_001749971 protein CcgAII -
AM441_RS26105 (AM441_26260) 27383..27562 - 180 WP_000214483 protein CcgAI -
AM441_RS26110 (AM441_26265) 28289..28798 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   19001 GenBank   NZ_CP026757
Plasmid name   AR_0062|tig00000053_pilon Incompatibility group   IncN
Plasmid size   54418 bp Coordinate of oriT [Strand]   24515..24615 [+]
Host baterium   Klebsiella aerogenes strain AR_0062

Cargo genes

Drug resistance gene   tet(A), dfrA12, aadA2, qacE, sul1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -