Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114066
Name   oriT_pLH87-a-B in_silico
Organism   Klebsiella grimontii strain LH87-a
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100484 (13020..13109 [-], 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_pLH87-a-B
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9035 GenBank   WP_254547965
Name   mobF_NLZ17_RS28905_pLH87-a-B insolico UniProt ID   _
Length   1072 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1072 a.a.        Molecular weight: 118954.63 Da        Isoelectric Point: 6.4032

>WP_254547965.1 MobF family relaxase [Klebsiella grimontii]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVDDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
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



No available structure.




T4CP

ID   10462 GenBank   WP_254547963
Name   t4cp2_NLZ17_RS28900_pLH87-a-B 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: 57870.96 Da        Isoelectric Point: 9.5852

>WP_254547963.1 type IV secretion system DNA-binding domain-containing protein [Klebsiella grimontii]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGTDKRIVLDPNGEYVETFYRLGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
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: 26347..36623

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NLZ17_RS28940 (NLZ17_28940) 22257..22961 + 705 WP_001067855 IS6-like element IS26 family transposase -
NLZ17_RS28950 (NLZ17_28950) 25515..25826 - 312 WP_000570332 hypothetical protein -
NLZ17_RS28955 (NLZ17_28955) 25823..26335 - 513 WP_029697418 phospholipase D family protein -
NLZ17_RS28960 (NLZ17_28960) 26347..27348 - 1002 WP_001076634 ATPase, T2SS/T4P/T4SS family virB11
NLZ17_RS28965 (NLZ17_28965) 27399..28532 - 1134 WP_000101920 type IV secretion system protein VirB10 virB10
NLZ17_RS28970 (NLZ17_28970) 28532..29419 - 888 WP_000758230 TrbG/VirB9 family P-type conjugative transfer protein virB9
NLZ17_RS28975 (NLZ17_28975) 29430..30125 - 696 WP_001208352 type IV secretion system protein virB8
NLZ17_RS29200 30136..30267 - 132 WP_032493177 hypothetical protein -
NLZ17_RS28980 (NLZ17_28980) 30344..31381 - 1038 WP_254547956 type IV secretion system protein virB6
NLZ17_RS28985 (NLZ17_28985) 31398..31640 - 243 WP_000858958 EexN family lipoprotein -
NLZ17_RS28990 (NLZ17_28990) 31650..32351 - 702 WP_254547958 type IV secretion system protein virB5
NLZ17_RS28995 (NLZ17_28995) 32367..34940 - 2574 WP_032493176 VirB4 family type IV secretion/conjugal transfer ATPase virb4
NLZ17_RS29000 (NLZ17_29000) 34941..35258 - 318 WP_000462629 type IV secretion system protein VirB3 virB3
NLZ17_RS29005 (NLZ17_29005) 35298..35639 - 342 WP_001121032 TrbC/VirB2 family protein virB2
NLZ17_RS29010 (NLZ17_29010) 35841..36623 - 783 WP_024562119 lytic transglycosylase domain-containing protein virB1
NLZ17_RS29015 (NLZ17_29015) 36687..37040 + 354 WP_225988093 H-NS family nucleoid-associated regulatory protein -
NLZ17_RS29020 (NLZ17_29020) 37044..37394 + 351 WP_024562120 hypothetical protein -
NLZ17_RS29025 (NLZ17_29025) 37391..37729 + 339 WP_000040982 hypothetical protein -
NLZ17_RS29030 (NLZ17_29030) 37733..38041 + 309 WP_000733764 hypothetical protein -
NLZ17_RS29035 (NLZ17_29035) 38326..38511 + 186 WP_024562121 ribbon-helix-helix domain-containing protein -
NLZ17_RS29040 (NLZ17_29040) 38508..39116 - 609 WP_000275218 recombinase family protein -
NLZ17_RS29045 (NLZ17_29045) 39282..39614 - 333 WP_000140165 hypothetical protein -

Host bacterium

ID   14501 GenBank   NZ_CP100484
Plasmid name   pLH87-a-B Incompatibility group   IncN2
Plasmid size   39753 bp Coordinate of oriT [Strand]   13020..13109 [-]
Host baterium   Klebsiella grimontii strain LH87-a

Cargo genes

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