Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113908
Name   oriT_pSX01 in_silico
Organism   Staphylococcus xylosus strain 378
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KP890694 (19550..19585 [+], 36 nt)
oriT length   36 nt
IRs (inverted repeats)      4..10, 14..20  (GCGAACG..CGTTCGC)
Location of nic site      29..30
Conserved sequence flanking the
  nic site    		  GTGCGCCCTT
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 36 nt

>oriT_pSX01
CACGCGAACGGAACGTTCGCATAAGTGCGCCCTTAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8930 GenBank   WP_030061449
Name   MobA_MobL_HTE24_RS00090_pSX01 insolico UniProt ID   A0A848EWD6
Length   665 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 665 a.a.        Molecular weight: 78725.60 Da        Isoelectric Point: 5.1613

>WP_030061449.1 MULTISPECIES: MobA/MobL family protein [Staphylococcus]
MAMYHFQNKFVSKANGQSATAKAAYNSASRIKDFKENEFKDYSNKQCDYSEILLPNNADDKFKDREYLWN
KVNDVENRKNSQVAREIIIGLPNEFDPNSNIELAKEFAESLSNEGMIVDLNIHKINDENPHAHLLCTLRG
LDKNNEFEPKRKGNDYIRDWNTKDKHNEWRKRWETVQNKHLEMNGFSVRVSADSYKKQNIDLEPTKKEGW
KARKFEDETGKKSSISKHNESIKKRNQQKINKMFDEVDDMKSHKLNAFSYMDKSDSTTLKDMAKDLKIYV
TPINMYEENERLYDLKQKTALITDDEDRLNKIENIEDRQKKLESINEVFEKQAGIFFDKNYPEQALNYSD
DEKIFITRTILNDRDVLPANHELEDIVKEKRIKEAQISLNTVIGNRDISIESIEKESNFFADKLSNILDK
NNLSFDDVLENKHEGIEDSLKIDYYTSKLEVLRNAENTLEDYYDVQIKELFTDDEDYKAFNEVTDIKEKQ
QLIDFKTYHGTENTLEMLETGNFIPKYSDEDRKYITEQVKLLQEKEFKPNKNQHDKFVFGAIQKKLLNEY
DFDYSDNNDLKHLYQESNEVGDETSKDNIEEFYEGNDILVDKETYNNYNRKQQAYGLVNAGLDSMIFNFN
EIFRERMPKYINNQYKGKNHSKQRHELKNKRGMHL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-216)

Nicking enzyme C-terminal middle helical domain (NES_C_h)

(265-359)


  Protein structure


Source ID Structure
AlphaFold DB A0A848EWD6


T4CP

ID   10371 GenBank   WP_030061486
Name   t4cp2_HTE24_RS00180_pSX01 insolico UniProt ID   _
Length   548 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 548 a.a.        Molecular weight: 62899.75 Da        Isoelectric Point: 5.9714

>WP_030061486.1 MULTISPECIES: VirD4-like conjugal transfer protein, CD1115 family [Staphylococcaceae]
MTTLLGELESKATSINKKNLVIQDFDTKCPNRNIFVVGGPGSFKSAGYVIPNVIVKNQQSIVVTDPSGEV
YEKTANIKRMQGYDVRVVNFKNFLASDRQNFFDYIDKDSDCSIVAELIIKSAGDSKMNKDVWYKSSVGLL
NSLLLYAKYEFEPEKRTIGNIIKFIQNNKPNHDDEGSVELDNRFNELPKDHPARESYEFGFAVSEGRTRA
SIILTFVADLRNYIDNEIRSYTSDSDFDLRDVGLRKTIIYVMLPVLGNTVQSLSSLFFSQMFQQLYRLGD
ENGARLPVPVDFLLDEWPNIGAIPDYEETLATCRKYGISITTIVQSISQAVDKYNKDKANAIIGNHAVIL
CLGNVNNDTAKYIKEELGNATVEFETSSEGSSSGKDSRSKSSNKNVSYTGRALLNEDEISNMQQDKAILI
TKNRNPKIIKKLAYFKMFPNLTETYIAPQNEYKRKKNQSMIDKHNRLREEWDKKQEKIKQQKLEEYKEEQ
RQKELEEEQQAQEEQQNEEVKESKSKNEEQQEDKKDEQQKINDSKKAFYEKLKQKQAK

  Protein domains


Predicted by InterproScan.

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

(3-462)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 24980..36583

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTE24_RS00100 20050..20283 + 234 WP_000602212 hypothetical protein -
HTE24_RS00105 20564..21586 + 1023 WP_224684886 parM protein -
HTE24_RS00110 21589..21918 + 330 WP_030061459 plasmid segregation protein ParR -
HTE24_RS00115 21922..22182 - 261 WP_001008214 helix-turn-helix domain-containing protein -
HTE24_RS00120 22565..23524 + 960 WP_030061463 replication initiator protein A -
HTE24_RS00125 23628..23816 - 189 WP_030061465 hypothetical protein -
HTE24_RS00130 23989..24963 + 975 WP_030061467 conjugative transfer protein TrsA -
HTE24_RS00135 24980..25297 + 318 WP_030061469 CagC family type IV secretion system protein virB2
HTE24_RS00140 25356..25763 + 408 WP_030061471 hypothetical protein trsC
HTE24_RS00145 25750..26433 + 684 WP_030061473 TrsD/TraD family conjugative transfer protein trsD
HTE24_RS00150 26454..28466 + 2013 WP_030061475 VirB4 family type IV secretion system protein virb4
HTE24_RS00155 28478..29758 + 1281 WP_030061477 hypothetical protein trsF
HTE24_RS00160 29776..30852 + 1077 WP_031921304 CHAP domain-containing protein trsG
HTE24_RS00165 30862..31347 + 486 WP_000735570 TrsH/TraH family protein -
HTE24_RS00170 31363..33465 + 2103 WP_030061483 DNA topoisomerase III -
HTE24_RS00175 33481..33945 + 465 WP_000715271 hypothetical protein trsJ
HTE24_RS00180 33942..35588 + 1647 WP_030061486 VirD4-like conjugal transfer protein, CD1115 family -
HTE24_RS00185 35666..36583 + 918 WP_030061488 conjugal transfer protein TrbL family protein trsL
HTE24_RS00190 36600..36995 + 396 WP_000608969 single-stranded DNA-binding protein -
HTE24_RS00195 37052..37783 + 732 WP_000869299 hypothetical protein -
HTE24_RS00200 37820..38443 + 624 WP_030061493 hypothetical protein -
HTE24_RS00205 38459..39073 + 615 WP_030061494 hypothetical protein -
HTE24_RS00210 39142..39408 + 267 WP_030061495 hypothetical protein -

Host bacterium

ID   14343 GenBank   NZ_KP890694
Plasmid name   pSX01 Incompatibility group   -
Plasmid size   39969 bp Coordinate of oriT [Strand]   19550..19585 [+]
Host baterium   Staphylococcus xylosus strain 378

Cargo genes

Drug resistance gene   cfr, aac(6')-aph(2'')
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21