Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116692
Name   oriT_362.5013889|1 in_silico
Organism   Lacticaseibacillus paracasei subsp. paracasei 8700:2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_022114 (3470..3507 [-], 38 nt)
oriT length   38 nt
IRs (inverted repeats)      1..7, 19..25  (ACACAAC..GTTGTGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 38 nt

>oriT_362.5013889|1
ACACAACCAACTTTAGTTGTTGTGTGTAAGTGCGCATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10648 GenBank   WP_003660197
Name   mobQ_LBPG_RS14340_362.5013889|1 insolico UniProt ID   _
Length   687 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 687 a.a.        Molecular weight: 80774.12 Da        Isoelectric Point: 9.3501

>WP_003660197.1 MobQ family relaxase [Lacticaseibacillus paracasei]
MAIFHMSFSNISAGKGRSAIAGASYRSGEKLFDQKEGRSYFYARSVMPESFILTPKNAPEWASDREKLWN
EVERKDRRSNSRYAKEFNVALPVELSEDEQKELLTKYVQENFVDEGMVADVAIHRDHPDNPHAHVMLTNR
PFNPDGTWGLKSKRENILDENGNKTYTGNSRFPRSRKVWLVDWDKKEKINQWRHNWAVSVNQVLEQKNIP
DRISEKSFENQGIDEVPTQHEGINSKRHERKEFNQQVKDYRKTKASYKNNQEKAINRGHLDSLSKHFSFN
EKRVVKELSHELKTYISLENLDDKRRMLFNWKNSTLIKHAVGEDVTKQLLTINQQESSLKKADELLNKVV
DRTTKKLYPELNFEQTTQAERRELIKETDSEQTVFKGSELNERLMNIRDDLLTQQLLTFTKRPYVGWKLL
MQQEKEVKIELKYTLMIHDDNLESLEHVDQGLLEKYSPTEQQKITRAVKDLRAIMAVKQVIKTQYHEVLK
RAFPNGDLDDLSLGKQEQVYTAVMYYDPTLKPLKVETMEQWQANPPQVFSTQEHQLGLAYLSGQLSLDQL
ENHHLQRVLKHDGTKQIFFGECKVDPTIKNSQIEKIQKQLKEQQAKDDQYRKANIGHYQPLNYKPVSPDY
YLKTAFSNAIMTALYARDEDYQRQKQARSLKETEWEMTKKQRQHQTRNRHEDGGMHL

  Protein domains


Predicted by InterproScan.

Nicking enzyme C-terminal middle helical domain (NES_C_h)

(276-384)

MobA/MobL family (MobA_MobL)

(17-241)


  Protein structure



No available structure.




T4CP

ID   12441 GenBank   WP_003660146
Name   t4cp2_LBPG_RS14405_362.5013889|1 insolico UniProt ID   _
Length   513 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 513 a.a.        Molecular weight: 57668.93 Da        Isoelectric Point: 5.1942

>WP_003660146.1 VirD4-like conjugal transfer protein, CD1115 family [Lacticaseibacillus paracasei]
MNGTILGIVDKRIVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKTAGIK
LAQGYQVHVVNFANMAHSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRPPEQQNLAGVTQVLQENDVEAEEKGADSPLDTLFLDLTMSDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDKEVANFTSFSDFDLKEIGKAKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADHHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKDKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEDQSLLIFSNARPVKA
TKAFQFKLFPGADHLVNLSQNEYQGQPEASQETNFHQKVAKWKAKLKETDQKKAANKMSQTEEEQQQDSL
DSDLERVSNKDSQTEEPDDNLFG

  Protein domains


Predicted by InterproScan.

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

(24-443)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 7051..17313

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LBPG_RS14325 (LBPG_04103) 2141..2821 + 681 WP_003660201 zeta toxin family protein -
LBPG_RS14330 (LBPG_04104) 2811..3089 - 279 WP_003603789 hypothetical protein -
LBPG_RS14335 (LBPG_04105) 3112..3339 - 228 WP_003555660 hypothetical protein -
LBPG_RS14340 (LBPG_04106) 3592..5655 + 2064 WP_003660197 MobQ family relaxase -
LBPG_RS15880 (LBPG_04107) 5739..6065 + 327 WP_003660195 hypothetical protein -
LBPG_RS14350 (LBPG_04108) 6079..6693 + 615 WP_020967646 hypothetical protein -
LBPG_RS14355 (LBPG_04109) 6695..7030 + 336 WP_003660303 CagC family type IV secretion system protein -
LBPG_RS14360 (LBPG_04110) 7051..7413 + 363 WP_003660301 hypothetical protein trsC
LBPG_RS14365 (LBPG_04111) 7382..8041 + 660 WP_020967647 TrsD/TraD family conjugative transfer protein trsD
LBPG_RS14370 (LBPG_04112) 8053..10068 + 2016 WP_020967648 VirB4 family type IV secretion system protein virb4
LBPG_RS14375 (LBPG_04113) 10061..11479 + 1419 WP_003660132 type VII secretion protein EssB/YukC trsF
LBPG_RS14380 (LBPG_04114) 11480..12634 + 1155 WP_003660135 phage tail tip lysozyme prgK
LBPG_RS14385 (LBPG_04115) 12648..13265 + 618 WP_003660138 hypothetical protein -
LBPG_RS14390 (LBPG_04116) 13252..13620 + 369 WP_003660139 hypothetical protein -
LBPG_RS14395 (LBPG_04117) 13623..14108 + 486 WP_003660141 hypothetical protein trsJ
LBPG_RS14400 (LBPG_04118) 14105..14494 + 390 WP_003660144 hypothetical protein -
LBPG_RS14405 (LBPG_04119) 14510..16051 + 1542 WP_003660146 VirD4-like conjugal transfer protein, CD1115 family -
LBPG_RS14410 (LBPG_04120) 16066..16455 + 390 WP_003660147 hypothetical protein -
LBPG_RS14415 (LBPG_04121) 16474..17313 + 840 WP_003660150 conjugal transfer protein TrbL family protein trsL
LBPG_RS14420 (LBPG_04122) 17328..17738 + 411 WP_003660151 hypothetical protein -
LBPG_RS14425 (LBPG_04123) 17745..19880 + 2136 WP_003660153 type IA DNA topoisomerase -
LBPG_RS14430 (LBPG_04124) 20001..20216 + 216 WP_003660156 hypothetical protein -
LBPG_RS16425 20219..21094 + 876 Protein_25 ArdC-like ssDNA-binding domain-containing protein -

Host bacterium

ID   17125 GenBank   NC_022114
Plasmid name   362.5013889|1 Incompatibility group   -
Plasmid size   24207 bp Coordinate of oriT [Strand]   3470..3507 [-]
Host baterium   Lacticaseibacillus paracasei subsp. paracasei 8700:2

Cargo genes

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