Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105842
Name   oriT_pY-2.p1 in_silico
Organism   Enterobacter hormaechei strain Y-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP090797 (32328..32417 [-], 90 nt)
oriT length   90 nt
IRs (inverted repeats)      34..41, 44..51  (AGTGCGAT..ATCGCACT)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 90 nt

>oriT_pY-2.p1
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3945 GenBank   WP_024561907
Name   mobF_L0Y15_RS22205_pY-2.p1 insolico UniProt ID   H1ZMV6
Length   1072 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1072 a.a.        Molecular weight: 118896.59 Da        Isoelectric Point: 6.4636

>WP_024561907.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDHDKEGYGL

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(16-288)

AAA domain (AAA_30)

(480-656)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(855-899)


  Protein structure


Source ID Structure
AlphaFold DB H1ZMV6


T4CP

ID   3961 GenBank   WP_032493179
Name   t4cp2_L0Y15_RS22200_pY-2.p1 insolico UniProt ID   _
Length   510 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 510 a.a.        Molecular weight: 57912.96 Da        Isoelectric Point: 9.5127

>WP_032493179.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERDHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGTDKRIVLDPNGEYVETFYRPGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
ESKERSAEEWYRYGRLIYREVSKKLLTLKRSPTMEEVMHWCTIVENEKLKEFVKGTPAEALFIKGAERAT
GSARFVLGDKLAPHLKMPAGDFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTYSQLIERYGINIAETLLGSMRSGIVMGSSRL
GKETLEQMSRALGEIEGEVEHKQGNPFQAGIGNRPRIETRTVRAVTPTEISELKNLTGYVYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR

  Protein domains


Predicted by InterproScan.

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

(113-492)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6494..16770

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L0Y15_RS21975 (L0Y15_21975) 1548..2171 - 624 WP_003155741 recombinase family protein -
L0Y15_RS21980 (L0Y15_21980) 2233..3450 - 1218 WP_006122485 TniQ family protein -
L0Y15_RS21985 (L0Y15_21985) 3447..4355 - 909 WP_003155746 TniB family NTP-binding protein -
L0Y15_RS21990 (L0Y15_21990) 4358..6037 - 1680 WP_000179844 Mu transposase C-terminal domain-containing protein -
L0Y15_RS21995 (L0Y15_21995) 6112..6177 - 66 Protein_6 EAL domain-containing protein -
L0Y15_RS22000 (L0Y15_22000) 6177..6497 - 321 Protein_7 phospholipase D-like domain-containing protein -
L0Y15_RS22005 (L0Y15_22005) 6494..7495 - 1002 WP_001076634 ATPase, T2SS/T4P/T4SS family virB11
L0Y15_RS22010 (L0Y15_22010) 7546..8679 - 1134 WP_000101920 type IV secretion system protein VirB10 virB10
L0Y15_RS22015 (L0Y15_22015) 8679..9566 - 888 WP_000758230 TrbG/VirB9 family P-type conjugative transfer protein virB9
L0Y15_RS22020 (L0Y15_22020) 9577..10272 - 696 WP_001208352 type IV secretion system protein virB8
L0Y15_RS22490 10283..10414 - 132 WP_032493177 hypothetical protein -
L0Y15_RS22025 (L0Y15_22025) 10491..11528 - 1038 WP_014014948 type IV secretion system protein virB6
L0Y15_RS22030 (L0Y15_22030) 11545..11787 - 243 WP_000858958 EexN family lipoprotein -
L0Y15_RS22035 (L0Y15_22035) 11797..12498 - 702 WP_014014949 type IV secretion system protein virB5
L0Y15_RS22040 (L0Y15_22040) 12514..15087 - 2574 WP_032493176 VirB4 family type IV secretion/conjugal transfer ATPase virb4
L0Y15_RS22045 (L0Y15_22045) 15088..15405 - 318 WP_000462629 VirB3 family type IV secretion system protein virB3
L0Y15_RS22050 (L0Y15_22050) 15445..15741 - 297 WP_015060075 TrbC/VirB2 family protein virB2
L0Y15_RS22055 (L0Y15_22055) 15988..16770 - 783 WP_024562119 lytic transglycosylase domain-containing protein virB1
L0Y15_RS22060 (L0Y15_22060) 16870..16989 + 120 Protein_20 H-NS histone family protein -
L0Y15_RS22065 (L0Y15_22065) 16990..17187 + 198 WP_001642194 H-NS family nucleoid-associated regulatory protein -
L0Y15_RS22070 (L0Y15_22070) 17191..17541 + 351 WP_024562120 hypothetical protein -
L0Y15_RS22075 (L0Y15_22075) 17538..17876 + 339 WP_032493175 hypothetical protein -
L0Y15_RS22080 (L0Y15_22080) 17880..18188 + 309 WP_000733764 hypothetical protein -
L0Y15_RS22085 (L0Y15_22085) 18473..18658 + 186 WP_024562121 ribbon-helix-helix domain-containing protein -
L0Y15_RS22090 (L0Y15_22090) 18655..19263 - 609 WP_000275218 recombinase family protein -
L0Y15_RS22095 (L0Y15_22095) 19450..19782 - 333 WP_045723726 hypothetical protein -
L0Y15_RS22100 (L0Y15_22100) 19854..20048 - 195 WP_050136673 hypothetical protein -
L0Y15_RS22105 (L0Y15_22105) 20135..20764 - 630 WP_064754415 hypothetical protein -

Host bacterium

ID   6279 GenBank   NZ_CP090797
Plasmid name   pY-2.p1 Incompatibility group   IncN3
Plasmid size   41269 bp Coordinate of oriT [Strand]   32328..32417 [-]
Host baterium   Enterobacter hormaechei strain Y-2

Cargo genes

Drug resistance gene   blaIMP-8
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -