Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114854
Name   oriT_pL22-2 in_silico
Organism   Klebsiella quasipneumoniae strain L22
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP031259 (28900..29000 [-], 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_pL22-2
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9522 GenBank   WP_012561142
Name   mobF_DV026_RS27005_pL22-2 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   5595 GenBank   WP_001749975
Name   WP_001749975_pL22-2 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   11103 GenBank   WP_000342688
Name   t4cp2_DV026_RS27000_pL22-2 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: 29567..47428

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DV026_RS26970 25903..26082 + 180 WP_040120359 protein CcgAI -
DV026_RS26975 26544..26888 - 345 WP_040120358 hypothetical protein -
DV026_RS26980 27089..27457 - 369 WP_012561138 plasmid stabilization protein StbC -
DV026_RS26985 27459..28175 - 717 WP_012561139 StbB family protein -
DV026_RS26990 28184..28570 - 387 WP_013279398 plasmid stabilization protein StbA -
DV026_RS26995 29149..29565 + 417 WP_001749975 hypothetical protein -
DV026_RS27000 29567..31096 + 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
DV026_RS27005 31096..34332 + 3237 WP_012561142 MobF family relaxase -
DV026_RS27010 34332..34730 + 399 WP_012561143 DUF6710 family protein -
DV026_RS27015 34794..35084 + 291 WP_001247892 nucleotidyltransferase family protein -
DV026_RS27020 35081..35482 + 402 WP_001293886 DUF86 domain-containing protein -
DV026_RS27025 35472..35828 + 357 WP_000215515 cupin domain-containing protein -
DV026_RS27030 36083..36397 + 315 WP_000091613 hypothetical protein -
DV026_RS27035 36570..37103 - 534 WP_000792636 phospholipase D family protein -
DV026_RS27040 37103..38098 - 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
DV026_RS27045 38140..39300 - 1161 WP_012561145 type IV secretion system protein VirB10 virB10
DV026_RS27050 39300..40184 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
DV026_RS27055 40195..40893 - 699 WP_000646594 virB8 family protein virB8
DV026_RS27065 41112..42152 - 1041 WP_001749958 type IV secretion system protein virB6
DV026_RS27070 42168..42395 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
DV026_RS27075 42403..43116 - 714 WP_001749960 type IV secretion system protein virB5
DV026_RS27080 43134..45734 - 2601 WP_117985298 VirB4 family type IV secretion/conjugal transfer ATPase virb4
DV026_RS27085 45734..46051 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
DV026_RS27090 46101..46394 - 294 WP_001749962 hypothetical protein virB2
DV026_RS27095 46404..46685 - 282 WP_000440698 transcriptional repressor KorA -
DV026_RS27100 46694..47428 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
DV026_RS27105 47537..47842 + 306 WP_000960954 H-NS family nucleoid-associated regulatory protein -
DV026_RS27110 47858..48202 + 345 WP_001749964 hypothetical protein -
DV026_RS27115 48199..48513 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
DV026_RS27120 48627..48860 + 234 WP_001191790 hypothetical protein -
DV026_RS27125 48910..49557 + 648 WP_015344958 restriction endonuclease -
DV026_RS27130 49562..49768 + 207 WP_001749967 hypothetical protein -
DV026_RS27135 49779..50051 - 273 Protein_55 IS1 family transposase -
DV026_RS27140 50150..51583 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   15289 GenBank   NZ_CP031259
Plasmid name   pL22-2 Incompatibility group   IncN
Plasmid size   59149 bp Coordinate of oriT [Strand]   28900..29000 [-]
Host baterium   Klebsiella quasipneumoniae strain L22

Cargo genes

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