Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200515
Name   oriT_TnSang2.1 in_silico
Organism   Streptococcus anginosus SK52 = DSM 20563 strain SK52
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AFIM01000003 (29866..29898 [+], 33 nt)
oriT length   33 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 33 nt

>oriT_TnSang2.1
GCATGTGTCCGGACACATGCTAATCTCGCCAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14571 GenBank   WP_003030377
Name   Relaxase_HMPREF9966_RS00370_TnSang2.1 insolico UniProt ID   A0A3S4LPM6
Length   542 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 542 a.a.        Molecular weight: 63512.00 Da        Isoelectric Point: 8.7215

>WP_003030377.1 relaxase/mobilization nuclease domain-containing protein [Streptococcus anginosus]
MVVTKVIQIKSSKNLKRAINYITRDDATLIHDNGSQKEEDVFSYELVNNQVMKRLVAGHHLTDISDVDMI
YEDFILLKQSVDAFYDNEVLSDLKNDNRVLAHHVIQSFSPEDHLTPEQVNEIGRKTALELTGGHYQFVIA
THVDKGHLHNHIIFNTTNEVTLKKFRWQKNTARNLFQISNKHAEVYGAKILKPKMRNSYTDYSAWRRKNN
FRVEIKERLDFLMKHSLDQKDFFQKARALDLRIDTSGKYVTYQLTDQPQQRPVRDRTLSKKGKYSLEKLQ
ERFATNEVVYNLENVKDRYEEEKIKKEEDFELKITIEPWQITHLTATSIHIPITFGLDRKGTVSIPSRML
DQNDNGSFTAYLKRNDFFYFLNADHSEQNRFIKGTTLIKQLAAQNGELILTKNKNISKLDRLVEEFNFLA
INQVSNFKQFEILEGQFLAQLSETDQTLESLDNKIVYLNKLLGALLDYQNELVPSQVSLHLLDTSKINKE
MAPDSLRKEIKELQIERSTLQEHRDRIVTDYDFANEMKQRYNANRKQSQTRL

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(13-284)


  Protein structure


Source ID Structure
AlphaFold DB A0A3S4LPM6


T4CP

ID   17188 GenBank   WP_003030370
Name   t4cp2_HMPREF9966_RS00350_TnSang2.1 insolico UniProt ID   _
Length   685 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 685 a.a.        Molecular weight: 78471.45 Da        Isoelectric Point: 5.1223

>WP_003030370.1 VirD4-like conjugal transfer protein, CD1115 family [Streptococcus anginosus]
MQVQKKPFFPYLLLSLVLAFATHRCYVLYSVAPEPDMTNLFSQYTYVFKNFFVSPYLYFDISPLALFSAL
VGFFIGMLFYLKVKLGGNYRHGEESGSARFATAQELQGFQDKKLSNNMIFSKQAMMGLFNKLLPFEWQLN
KNVLVVGLPGDGKTFTFVKPNLMQMNSSFIVTDPKGVLVREVGTMLEENGYQIKVFDLVNLTNSDMFNPF
KYMTSELDIDRITEALVEGTKRGDREGEDFWLQAKLLLNRALLGYLYFDSQVRGYEPNLSMVADLLRNLK
RPNEKKASPVEKLFKQLEKAMPGNYACRQWELFNSNFEAETRTSVLAIVATQYSIFDHEAVTNLIKSDTM
NMDTWNTEKTAVFVAISETNKAYSFLVSTFFTVVFDQLTHQVDAIIQGQKKGYGPENLLHVQFIFDEFAN
CGKIPHFNEVLSSIRSREMSIKIIIQAISQLDSLYGLPARKSIVNNCATLLFLGTNDEDTMKYFSMRAGK
QTIIQTSYSEQRGQRVSGTTSRQSHQRDLMTPDEIARIGVDEALVFITKQNVFRDKKARVTDHPMKDRLA
NHYKDDTWYDYKRFMEDGAEFIDAVMTGKIKEKQVWAPDMANYQAFVESNGFNNQFSKVPESPVYEQVPV
TVPEITSEDQSQTLSTGENQFKIVDMETEEIFELPPEDRSDTFGEVSLNDERLDV

  Protein domains


Predicted by InterproScan.

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

(141-549)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 7354..22502

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HMPREF9966_RS00260 (HMPREF9966_1902) 3355..3645 + 291 WP_018543573 hypothetical protein -
HMPREF9966_RS00265 (HMPREF9966_1903) 3638..3904 + 267 WP_003030391 helix-turn-helix transcriptional regulator -
HMPREF9966_RS00270 (HMPREF9966_1904) 4214..4531 + 318 WP_003030405 hypothetical protein -
HMPREF9966_RS00275 (HMPREF9966_1905) 4681..7239 + 2559 WP_003030374 SEC10/PgrA surface exclusion domain-containing protein -
HMPREF9966_RS00280 (HMPREF9966_1906) 7354..11133 + 3780 WP_003030363 SspB-related isopeptide-forming adhesin prgB
HMPREF9966_RS00285 (HMPREF9966_1907) 11213..11983 + 771 WP_003030357 LPXTG cell wall anchor domain-containing protein prgC
HMPREF9966_RS00290 (HMPREF9966_1908) 12097..12324 + 228 WP_003030381 hypothetical protein prgF
HMPREF9966_RS00295 (HMPREF9966_1909) 12419..12964 + 546 WP_000852162 hypothetical protein -
HMPREF9966_RS00300 (HMPREF9966_1910) 13018..13770 + 753 WP_000651827 membrane protein prgHb
HMPREF9966_RS00305 (HMPREF9966_1911) 13781..14239 + 459 WP_000233592 hypothetical protein -
HMPREF9966_RS00310 (HMPREF9966_1912) 14175..14801 + 627 WP_022524481 hypothetical protein -
HMPREF9966_RS00315 (HMPREF9966_1913) 14873..15226 + 354 WP_001037290 PrgI family mobile element protein -
HMPREF9966_RS00320 (HMPREF9966_1914) 15204..17564 + 2361 WP_001014605 VirB4-like conjugal transfer ATPase, CD1110 family virb4
HMPREF9966_RS00325 (HMPREF9966_1915) 17597..20293 + 2697 WP_003030354 phage tail tip lysozyme prgK
HMPREF9966_RS00330 (HMPREF9966_1916) 20315..20926 + 612 WP_003030395 hypothetical protein prgL
HMPREF9966_RS00335 (HMPREF9966_1917) 20944..21216 + 273 WP_000981847 hypothetical protein -
HMPREF9966_RS00340 (HMPREF9966_1918) 21216..21986 + 771 WP_003030379 hypothetical protein -
HMPREF9966_RS00345 (HMPREF9966_1919) 22011..22502 + 492 WP_000434508 DUF3801 domain-containing protein cd411
HMPREF9966_RS00350 (HMPREF9966_1920) 22502..24559 + 2058 WP_003030370 VirD4-like conjugal transfer protein, CD1115 family -

Host bacterium

ID   458 Element type   ICE (Integrative and conjugative element)
Element name   TnSang2.1 GenBank   NZ_AFIM01000003
Element size   33673 bp Coordinate of oriT [Strand]   29866..29898 [+]
Host bacterium   Streptococcus anginosus SK52 = DSM 20563 strain SK52 Coordinate of element   1..33673

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21