Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105483
Name   oriT_p652-4 in_silico
Organism   Klebsiella pneumoniae strain 15-652
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP097194 (27895..28510 [+], 616 nt)
oriT length   616 nt
IRs (inverted repeats)      599..604, 609..614  (ATGCCC..GGGCAT)
 526..532, 538..544  (CCTCCCG..CGGGAGG)
 462..467, 471..476  (GTTCGC..GCGAAC)
 52..58, 62..68  (CATTATC..GATAATG)
 40..45, 54..59  (TGATAA..TTATCA)
Location of nic site      322..323
Conserved sequence flanking the
  nic site    		  TCCTGCATCG
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 616 nt

>oriT_p652-4
TCTTACTTCTTTGCGTAGCTGTTAAATACAGCGTTGTTTTGATAAAATCATCATTATCATCGATAATGCTTTCTTCAATTTTTTTATCCTTACTCTTTAATAAAGCACTTGCTAATAACTTCATACCTTTTGCAACTGTCAAATTTGGTTCATCAGGGTAAATGCTTTTAAGGCATACTAACAAATAATCATGGTCTTCATCTTCAACTCTAAACTGAATTTTTTTCATCATAACTCCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGCTGAAAAATAACGTCGAATGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3736 GenBank   WP_223820406
Name   Mob_Pre_M4I39_RS28245_p652-4 insolico UniProt ID   _
Length   103 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 103 a.a.        Molecular weight: 11864.27 Da        Isoelectric Point: 7.7517

>WP_223820406.1 MULTISPECIES: plasmid recombination protein [Gammaproteobacteria]
MGTVAAALQHCYRDRETPNADQERTPDNDHLAARSTDEAMGKLRERLPEKRRKDAVLAVEYVMSASPEWW
QTASADQQREFFKRSTEWLAACRKFRCSATAMN

  Protein domains


Predicted by InterproScan.

Plasmid recombination enzyme (Mob_Pre)

(4-90)


  Protein structure



No available structure.




T4CP

ID   3729 GenBank   WP_025755766
Name   t4cp2_M4I39_RS28315_p652-4 insolico UniProt ID   _
Length   611 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 611 a.a.        Molecular weight: 69235.06 Da        Isoelectric Point: 8.0208

>WP_025755766.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MSLKLPDKGQWAFIILVMCLIAYYTGSVAIYFFNHKTTLYIWKHYDSLLLWRVIIDSSIKSEVRFTALPS
LLSGALASLAAPAFIIWKLNQKDAPLFGDAKFASDSDLKKSKLLKWEKENDTDILVGRYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKITSKVREQILGNKVYLLDPFNTKTHKCNPLF
YVDLKSESGAKDLLKLVEILFPSFGLTGAEAHFNNLAGQYWTGLAKLLHFFINFAPEWIEELRVKPVFSI
GTVVDLYSNIDREQVLSNRETFEELAQGNETALFHLKDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFL
DEFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLLSAHPCRVIYAVSEEDDAKKIS
EKLGYITARSKGSSKTSGKATSRSNSENEAQRALVLPQELGTLDFSEEMIILKGEHPVKAEKALYYLDNY
FMERLMLVSPKLTALTASINRSNKIFGVKGIKYPSKEKMLSVGELESEVLL

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(102-581)

  Protein structure



No available structure.



ID   3730 GenBank   WP_000108725
Name   t4cp2_M4I39_RS28355_p652-4 insolico UniProt ID   _
Length   919 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 919 a.a.        Molecular weight: 104758.78 Da        Isoelectric Point: 6.1962

>WP_000108725.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacteriaceae]
MSTVFKGLTRPALIRGLGVPLYPFLAMCVLVVLLGVWIDDLMYFLILPGWFAIKRVTKIDERFFDLLYLR
AVVKGHPLANKRFSAVHYAGSQYDEVDISKVDNFMKLKDQASIEALIPYSSHITDDLVVTKNRDLLATWQ
VDGAYFECVDDEDLTLLTDQLNTLIRSFEGRAITFYTHRVRVRKEVKVGFNSKIPFVNRVMNDYYSSLSE
PEYFENRLYLTICYKPFNIEDKVSHFISKNKKENNIFDEPINDMNEICGRLDTYLSRFHAHRLGLVEENG
RVFSDQLSLFQYLLSGKWQKVRVTNSPFYTYLGGKDLFFGNDAGQITASQNARYFRSIEIKDYFQETDAG
IFDALMYLPVEYVFTSSFTSMDKQAAVKALDDQIDKLELTDDAAKSLLADLRVGLDMVSSGYNSFGKCHQ
TLIVFADTPERLVKDTNIVTTTLEDLGLIVTYSTLSLGAAFFSQLPGNYNLRPRLSMLSSLNFAEMESFH
NFFHGKATGNTWGNSLMALRGSGNDVYHLNYHMTTENINFFGKNPTLGHCEILGTSNVGKTVLMMIMSYA
AQQFGTPESFPENRKVRKLTTVFFDKDRAGEVGIRAMGGAYFRVKGGEPTGWNPAALPPTKRNIAFVKDI
IRLICKLNGNTVDDYQHSLISSAVDRLMQREDRSFPISKLIPLIMEPDDTETKRHGLKARLRAWKQGGEY
GWLLDNASDSFDVAHLDVFGIDGTEFLDDKVVAPVASFYLIYRVTMLADGRRLLIYMDEFWQWINNDAFK
DFVYNKLKTGRKLDMVLVPATQSPDELIKSPIAAAVREQCATHIYLANPKAKRNEYVDELQVRDLYFDKI
KAIDPLSRQFLVVKNPQRQGERDDFAAFAKLDLGKAAYYLPILSASAEQLELFDEIWSEGMAPEEWIDTY
LERANRGVK

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(689-817)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(272-474)

Type IV secretory pathway, VirB3-like protein (VirB3)

(2-83)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 15451..25341

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
M4I39_RS28295 (M4I39_28265) 11671..11916 - 246 WP_001243650 hypothetical protein -
M4I39_RS28300 (M4I39_28270) 12331..12801 - 471 WP_025755767 thermonuclease family protein -
M4I39_RS28305 (M4I39_28275) 12884..13216 - 333 WP_000699980 hypothetical protein -
M4I39_RS28310 (M4I39_28280) 13219..13614 - 396 WP_000733627 cag pathogenicity island Cag12 family protein -
M4I39_RS28315 (M4I39_28285) 13611..15446 - 1836 WP_025755766 type IV secretory system conjugative DNA transfer family protein -
M4I39_RS28320 (M4I39_28290) 15451..16488 - 1038 WP_000217791 P-type DNA transfer ATPase VirB11 virB11
M4I39_RS28325 (M4I39_28295) 16506..17720 - 1215 WP_025755765 VirB10/TraB/TrbI family type IV secretion system protein virB10
M4I39_RS28330 (M4I39_28300) 17717..18646 - 930 WP_025755764 TrbG/VirB9 family P-type conjugative transfer protein virB9
M4I39_RS28335 (M4I39_28305) 18652..19374 - 723 WP_000394570 type IV secretion system protein virB8
M4I39_RS28340 (M4I39_28310) 19564..20619 - 1056 WP_000235774 type IV secretion system protein virB6
M4I39_RS28345 (M4I39_28315) 20631..20891 - 261 WP_001228869 EexN family lipoprotein -
M4I39_RS28350 (M4I39_28320) 20901..21638 - 738 WP_000737859 type IV secretion system protein -
M4I39_RS28355 (M4I39_28325) 21640..24399 - 2760 WP_000108725 VirB3 family type IV secretion system protein virb4
M4I39_RS28360 (M4I39_28330) 24423..24713 - 291 WP_000921916 TrbC/VirB2 family protein virB2
M4I39_RS28365 (M4I39_28335) 24697..25341 - 645 WP_000953539 lytic transglycosylase domain-containing protein virB1
M4I39_RS28370 (M4I39_28340) 25566..26057 - 492 WP_000872475 transcription termination/antitermination NusG family protein -
M4I39_RS28375 (M4I39_28345) 26418..27575 - 1158 WP_000538023 DNA distortion polypeptide 2 -
M4I39_RS28380 (M4I39_28350) 27578..28123 - 546 WP_038976855 DNA distortion polypeptide 1 -
M4I39_RS28385 (M4I39_28355) 28450..28722 - 273 WP_000160399 hypothetical protein -
M4I39_RS28390 (M4I39_28360) 28735..28884 - 150 WP_000003880 hypothetical protein -
M4I39_RS28395 (M4I39_28365) 29171..29500 - 330 WP_000866648 hypothetical protein -
M4I39_RS28400 (M4I39_28370) 29593..29808 - 216 WP_001180116 hypothetical protein -
M4I39_RS28405 (M4I39_28375) 29798..30043 - 246 WP_000356546 hypothetical protein -

Host bacterium

ID   5921 GenBank   NZ_CP097194
Plasmid name   p652-4 Incompatibility group   IncX1
Plasmid size   43761 bp Coordinate of oriT [Strand]   27895..28510 [+]
Host baterium   Klebsiella pneumoniae strain 15-652

Cargo genes

Drug resistance gene   tet(M), floR, mcr-1.1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -