Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114810
Name   oriT_pXWZ in_silico
Organism   Staphylococcus capitis strain XWZ
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MT096435 (14031..14066 [+], 36 nt)
oriT length   36 nt
IRs (inverted repeats)     _
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_pXWZ
CACGCGATCGGAACGTTCGCATAAGTGCGCCCTTAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9492 GenBank   WP_030061449
Name   MobA_MobL_KY996_RS00065_pXWZ 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   11052 GenBank   WP_030061486
Name   t4cp2_KY996_RS00155_pXWZ 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: 19461..31064

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KY996_RS00075 14531..14764 + 234 WP_000602212 hypothetical protein -
KY996_RS00080 15045..16067 + 1023 WP_224684886 parM protein -
KY996_RS00085 16070..16399 + 330 WP_030061459 plasmid segregation protein ParR -
KY996_RS00090 16403..16663 - 261 WP_001008214 helix-turn-helix domain-containing protein -
KY996_RS00095 17046..18005 + 960 WP_030061463 replication initiator protein A -
KY996_RS00100 18109..18297 - 189 WP_030061465 hypothetical protein -
KY996_RS00105 18470..19444 + 975 WP_030061467 conjugative transfer protein TrsA -
KY996_RS00110 19461..19778 + 318 WP_030061469 CagC family type IV secretion system protein virB2
KY996_RS00115 19837..20244 + 408 WP_030061471 hypothetical protein trsC
KY996_RS00120 20231..20914 + 684 WP_030061473 TrsD/TraD family conjugative transfer protein trsD
KY996_RS00125 20935..22947 + 2013 WP_030061475 VirB4 family type IV secretion system protein virb4
KY996_RS00130 22959..24239 + 1281 WP_030061477 hypothetical protein trsF
KY996_RS00135 24257..25333 + 1077 WP_030061480 CHAP domain-containing protein trsG
KY996_RS00140 25343..25828 + 486 WP_000735570 TrsH/TraH family protein -
KY996_RS00145 25844..27946 + 2103 WP_030061483 DNA topoisomerase III -
KY996_RS00150 27962..28426 + 465 WP_000715271 hypothetical protein trsJ
KY996_RS00155 28423..30069 + 1647 WP_030061486 VirD4-like conjugal transfer protein, CD1115 family -
KY996_RS00160 30147..31064 + 918 WP_030061488 conjugal transfer protein TrbL family protein trsL
KY996_RS00165 31081..31476 + 396 WP_000608969 single-stranded DNA-binding protein -
KY996_RS00170 31533..32264 + 732 WP_000869299 hypothetical protein -
KY996_RS00175 32301..32924 + 624 WP_030061493 hypothetical protein -
KY996_RS00180 32940..33554 + 615 WP_030061494 hypothetical protein -
KY996_RS00185 33623..33889 + 267 WP_030061495 hypothetical protein -
KY996_RS00190 33975..35147 + 1173 WP_032495458 IS256-like element ISEnfa4 family transposase -
KY996_RS00195 35150..35662 + 513 WP_032495402 MerR family transcriptional regulator -
KY996_RS00210 35875..36009 + 135 WP_254903663 hypothetical protein -

Host bacterium

ID   15245 GenBank   NZ_MT096435
Plasmid name   pXWZ Incompatibility group   -
Plasmid size   39503 bp Coordinate of oriT [Strand]   14031..14066 [+]
Host baterium   Staphylococcus capitis strain XWZ

Cargo genes

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