Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200305
Name   oriT_ICE_SdyRE378_TnGBS2 in_silico
Organism   Streptococcus dysgalactiae subsp. equisimilis RE378
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_018712 (5943..5975 [-], 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_ICE_SdyRE378_TnGBS2
GCATGTGTCCGGACACGTGCTACGCTTGCCAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14345 GenBank   WP_000261836
Name   Relaxase_GGS_RS07840_ICE_SdyRE378_TnGBS2 insolico UniProt ID   Q8E5B1
Length   543 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 543 a.a.        Molecular weight: 63241.72 Da        Isoelectric Point: 6.9556

>WP_000261836.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Streptococcus]
MVVTKVIQIKSSKNLKRAINYIARDDATLIKGNGNLADEDYSYEVVNGQVMKRLVSGHDLTDISDTDMIY
EDFMLLKQSVDALYDNDTLSDLKNPNRVLAHHVIQSFSPNDELTPEEVNEIGRKTALELTGGDYQFVVAT
HQDKGHLHNHIIFSTTNQVTLKKFRWQKSTKKSLEHISDKHAELYGAKILEPKLRNSYTDYSAWRRKNNF
RYEIKERLDFLLKHSLDKDDFFQKAKALNLHIDTSGKYVTYKLIDSPQERPVRDRTLSKKGKYYLDKMVE
RFAINEVVYNLDHIKEKYDEEQAKKAEDFEMKVRIEPWQIKQLTNQSIHVSIIFGLDRQGTVAIPARMLD
QNEDGSFTAYLKKNDFFYFLNADHSEQNRFVKGTTLIKQLSAQNGEVILTKNKHVAELNRLVDEFNFLAA
NQVTDSTQFMQLKETFLEQLVETDKTLEQLDDKMTYLNKVLGALMDYQNGIIPSEVTMTILDKAKVDKDG
DTKSLRKEIKELQIERETLHKVRDQIVNDYDFAIEMTNRYDKSNKESKRRSML

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(13-270)


  Protein structure


Source ID Structure
AlphaFold DB Q8E5B1


T4CP

ID   16837 GenBank   WP_000421159
Name   t4cp2_GGS_RS07870_ICE_SdyRE378_TnGBS2 insolico UniProt ID   _
Length   681 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 681 a.a.        Molecular weight: 78354.02 Da        Isoelectric Point: 5.1508

>WP_000421159.1 MULTISPECIES: VirD4-like conjugal transfer protein, CD1115 family [Streptococcus]
MELKRKRLLPYLLLSLLLAYLTHRAYVLYCMAPQADMTNLFAPYTYVFEKITEPPYFYWNTSPLAILSAL
VGFFVGLLFYLKIRLDGNYRHGEESGSACFATAQELKGFQDEESRNNMIFSREAQMGLFNKRLPFERQLN
KNVLVAGLPGDGKTYTYVKPNLMQMNSSFIVTDPKGLLVREVGTMLKENGYQIKIFDLVNLTNSDMFNPF
RYMRSELDIDRITEAIVEGTKKGDREGEDFWNQAKLLLNRALLGYLYFDSQVRHYEPNLSMVADLLRNLK
RPNEKELSAVEKMFKQLEEKLPGNYACRQWELFNSNFEAETRTGVLSIVATQYSIFDHDAVTNLIKTDTM
EMDTWNTEKTAVFVAISETNKAYSFLASTFFTVVFDQLTHSADAIIQGEKKGYELKDLLHVQFYFDEFAN
CGKIPHFNEVLASIRSREMSIKIIIQAISQLDSLYGVPARKSMVNNCATLLFLGTNDEDTMKYFSMRAGK
QTIIQTSYSEQRGHRISGTTSRQAHQRDLMTPDEIARIGVDEALVFISKQNVFRDKKAMVSNHPMKDRLA
NHYQDKTWYHYKRFMEEGAEFIDAVMTGQIPEDRIWAPDMSDYQAFLEENGFDNTRQSAPETSVHNQVPV
TNPEMPSESPSQTSETSKKLVDMDTGEIFELPPEDREGFGEVSFDDQRVEI

  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: 1614901..1630074

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GGS_RS07865 (GGS_1495) 1612449..1612814 - 366 WP_000188894 hypothetical protein -
GGS_RS07870 (GGS_1496) 1612856..1614901 - 2046 WP_000421159 VirD4-like conjugal transfer protein, CD1115 family -
GGS_RS07875 (GGS_1497) 1614901..1615392 - 492 WP_000371901 DUF3801 domain-containing protein cd411
GGS_RS07880 (GGS_1498) 1615414..1616196 - 783 WP_000488485 hypothetical protein -
GGS_RS07885 1616196..1616468 - 273 WP_000606554 hypothetical protein -
GGS_RS07890 (GGS_1499) 1616488..1617093 - 606 WP_000567358 hypothetical protein prgL
GGS_RS07895 (GGS_1500) 1617114..1619804 - 2691 WP_000134095 phage tail tip lysozyme prgK
GGS_RS10965 1620293..1620436 - 144 WP_017645960 hypothetical protein -
GGS_RS07905 (GGS_1502) 1620441..1622792 - 2352 WP_000176428 VirB4-like conjugal transfer ATPase, CD1110 family virb4
GGS_RS07910 (GGS_1503) 1622773..1623132 - 360 WP_001037292 PrgI family protein -
GGS_RS07915 (GGS_1504) 1623194..1623652 - 459 WP_000609828 hypothetical protein -
GGS_RS07920 1623713..1623940 - 228 WP_000362731 hypothetical protein -
GGS_RS11215 1624184..1624492 - 309 WP_231846834 hypothetical protein -
GGS_RS07930 (GGS_1506) 1624695..1625447 - 753 WP_000651825 membrane protein prgHb
GGS_RS07935 (GGS_1507) 1625496..1625981 - 486 WP_000004254 hypothetical protein -
GGS_RS07940 1626087..1626314 - 228 WP_000447008 hypothetical protein prgF
GGS_RS07945 (GGS_1508) 1626589..1629387 - 2799 WP_001088030 SspB-related isopeptide-forming adhesin prgB
GGS_RS07950 (GGS_1509) 1629454..1630074 - 621 WP_015017288 LPXTG cell wall anchor domain-containing protein prgC
GGS_RS07955 (GGS_1510) 1630089..1632320 - 2232 WP_001071823 LPXTG cell wall anchor domain-containing protein -
GGS_RS07960 (GGS_1511) 1632337..1632636 - 300 WP_000129105 hypothetical protein -
GGS_RS07965 1633019..1633216 - 198 WP_000208122 helix-turn-helix transcriptional regulator -
GGS_RS07970 1633213..1633398 - 186 WP_000938679 hypothetical protein -
GGS_RS07975 (GGS_1512) 1633400..1634425 - 1026 WP_000822468 replication initiator protein A -
GGS_RS11035 1634427..1634591 - 165 WP_000166480 hypothetical protein -

Host bacterium

ID   273 Element type   ICE (Integrative and conjugative element)
Element name   ICE_SdyRE378_TnGBS2 GenBank   NC_018712
Element size   2151145 bp Coordinate of oriT [Strand]   5943..5975 [-]
Host bacterium   Streptococcus dysgalactiae subsp. equisimilis RE378 Coordinate of element   1602651..1636331

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7, AcrIIA21