Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111990
Name   oriT_pEX_sc17-9839-KPC2 in_silico
Organism   Enterobacter hormaechei strain sc17259839
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAFHPF010000114 (19363..19462 [-], 100 nt)
oriT length   100 nt
IRs (inverted repeats)      77..82, 90..95  (AAAAAA..TTTTTT)
 78..83, 90..95  (AAAAAA..TTTTTT)
 79..84, 90..95  (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: 100 nt

>oriT_pEX_sc17-9839-KPC2
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGAAAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7729 GenBank   WP_012561142
Name   mobF_KKR58_RS24815_pEX_sc17-9839-KPC2 insolico UniProt ID   A0A1S6KKJ9
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120195.37 Da        Isoelectric Point: 6.5230

>WP_012561142.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)

TrwC relaxase (TrwC)

(16-287)


  Protein structure


Source ID Structure
AlphaFold DB A0A1S6KKJ9


Auxiliary protein

ID   4196 GenBank   WP_000706094
Name   WP_000706094_pEX_sc17-9839-KPC2 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   8836 GenBank   WP_000342688
Name   t4cp2_KKR58_RS24810_pEX_sc17-9839-KPC2 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.

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: 54383..64712

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KKR58_RS24985 50358..51218 + 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -
KKR58_RS24990 51477..52358 + 882 WP_004199234 carbapenem-hydrolyzing class A beta-lactamase KPC-2 -
KKR58_RS24995 52608..53927 - 1320 WP_004152397 IS1182-like element ISKpn6 family transposase -
KKR58_RS25000 54279..54383 - 105 Protein_60 phospholipase D family protein -
KKR58_RS25005 54383..55378 - 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
KKR58_RS25010 55420..56580 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
KKR58_RS25015 56580..57464 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
KKR58_RS25020 57475..58173 - 699 WP_000646594 type IV secretion system protein virB8
KKR58_RS25025 58392..59432 - 1041 WP_001749958 type IV secretion system protein virB6
KKR58_RS25030 59448..59675 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
KKR58_RS25035 59683..60396 - 714 WP_001749960 type IV secretion system protein virB5
KKR58_RS25040 60414..62882 - 2469 WP_223669807 VirB4 family type IV secretion/conjugal transfer ATPase virb4
KKR58_RS25045 63014..63331 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
KKR58_RS25050 63382..63675 - 294 WP_001749962 hypothetical protein virB2
KKR58_RS25055 63685..63966 - 282 WP_016338364 transcriptional repressor KorA -
KKR58_RS25060 63975..64712 - 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
KKR58_RS25065 64821..65126 + 306 WP_012561154 H-NS family nucleoid-associated regulatory protein -
KKR58_RS25070 65142..65486 + 345 WP_012561155 hypothetical protein -
KKR58_RS25075 65483..65797 + 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
KKR58_RS25080 65911..66144 + 234 WP_012561157 hypothetical protein -
KKR58_RS25085 66200..66460 + 261 WP_016359294 hypothetical protein -
KKR58_RS25090 66502..67470 - 969 WP_022652343 IS5-like element IS903B family transposase -
KKR58_RS25095 67554..67907 + 354 WP_225622145 restriction endonuclease -
KKR58_RS25100 67912..68118 + 207 WP_001749967 hypothetical protein -
KKR58_RS25105 68129..68401 - 273 Protein_81 IS1 family transposase -

Host bacterium

ID   12425 GenBank   NZ_JAFHPF010000114
Plasmid name   pEX_sc17-9839-KPC2 Incompatibility group   IncN
Plasmid size   71340 bp Coordinate of oriT [Strand]   19363..19462 [-]
Host baterium   Enterobacter hormaechei strain sc17259839

Cargo genes

Drug resistance gene   aph(6)-Id, aph(3'')-Ib, dfrA19, sul1, qacE, ARR-3, catB3, blaOXA-1, aac(6')-Ib-cr, aac(3)-IId, blaTEM-1B, blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -