Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120837
Name   oriT_p31B20003_C_KPC in_silico
Organism   Serratia marcescens strain 31B20CPO003
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ821196 (54908..55008 [-], 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_p31B20003_C_KPC
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13144 GenBank   WP_012561166
Name   mobF_SLH58_RS00360_p31B20003_C_KPC insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  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 D7RU03


Auxiliary protein

ID   7327 GenBank   WP_001749975
Name   WP_001749975_p31B20003_C_KPC 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   15425 GenBank   WP_000342688
Name   t4cp2_SLH58_RS00355_p31B20003_C_KPC 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: 8168..20940

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SLH58_RS00025 (LAPDCNKN_00004) 3972..6083 + 2112 Protein_4 Tn3-like element Tn3 family transposase -
SLH58_RS00030 (LAPDCNKN_00005) 6103..6663 - 561 Protein_5 IS6-like element IS26 family transposase -
SLH58_RS00035 (LAPDCNKN_00006) 6728..6907 - 180 Protein_6 helix-turn-helix domain-containing protein -
SLH58_RS00040 7174..7461 + 288 Protein_7 DUF6710 family protein -
SLH58_RS00045 (LAPDCNKN_00007) 7635..8168 - 534 WP_000792636 phospholipase D family protein -
SLH58_RS00050 (LAPDCNKN_00008) 8168..9163 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
SLH58_RS00055 (LAPDCNKN_00009) 9205..10365 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
SLH58_RS00060 (LAPDCNKN_00010) 10365..11111 - 747 Protein_11 TrbG/VirB9 family P-type conjugative transfer protein -
SLH58_RS00065 (LAPDCNKN_00011) 11149..12687 - 1539 WP_016808813 IS66 family transposase -
SLH58_RS00070 (LAPDCNKN_00012) 12737..13084 - 348 WP_004114612 IS66 family insertion sequence element accessory protein TnpB -
SLH58_RS00075 (LAPDCNKN_00013) 13081..13458 - 378 WP_004118218 transposase -
SLH58_RS00080 (LAPDCNKN_00014) 13550..13696 - 147 Protein_15 conjugal transfer protein TraO -
SLH58_RS00085 (LAPDCNKN_00015) 13707..14405 - 699 WP_000646594 virB8 family protein virB8
SLH58_RS00090 14395..14553 - 159 WP_012561180 hypothetical protein -
SLH58_RS00095 (LAPDCNKN_00016) 14624..15664 - 1041 WP_001749958 type IV secretion system protein virB6
SLH58_RS00100 (LAPDCNKN_00017) 15680..15907 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
SLH58_RS00105 (LAPDCNKN_00018) 15915..16679 - 765 WP_013149461 type IV secretion system protein virB5
SLH58_RS00110 (LAPDCNKN_00019) 16646..19246 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
SLH58_RS00115 (LAPDCNKN_00020) 19246..19563 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
SLH58_RS00120 (LAPDCNKN_00021) 19613..19906 - 294 WP_001749962 hypothetical protein virB2
SLH58_RS00125 (LAPDCNKN_00022) 19916..20197 - 282 WP_000440698 transcriptional repressor KorA -
SLH58_RS00130 (LAPDCNKN_00023) 20206..20940 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
SLH58_RS00135 (LAPDCNKN_00024) 20983..21354 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
SLH58_RS00140 (LAPDCNKN_00025) 21370..21714 + 345 WP_001749964 hypothetical protein -
SLH58_RS00145 (LAPDCNKN_00026) 21711..22025 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
SLH58_RS00150 (LAPDCNKN_00027) 22139..22372 + 234 WP_001191790 hypothetical protein -
SLH58_RS00155 (LAPDCNKN_00028) 22422..23069 + 648 WP_012561184 restriction endonuclease -
SLH58_RS00160 (LAPDCNKN_00029) 23074..23280 + 207 WP_001749967 hypothetical protein -
SLH58_RS00165 (LAPDCNKN_00030) 23291..23563 - 273 Protein_32 IS1 family transposase -
SLH58_RS00170 (LAPDCNKN_00031) 23662..25095 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   21266 GenBank   NZ_OQ821196
Plasmid name   p31B20003_C_KPC Incompatibility group   IncN
Plasmid size   67187 bp Coordinate of oriT [Strand]   54908..55008 [-]
Host baterium   Serratia marcescens strain 31B20CPO003

Cargo genes

Drug resistance gene   blaKPC-3, dfrA14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -