Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113578
Name   oriT_pSF150802 in_silico
Organism   Shigella flexneri 2a strain 1508
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP030917 (87127..87199 [-], 73 nt)
oriT length   73 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 73 nt

>oriT_pSF150802
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8699 GenBank   WP_052984280
Name   Relaxase_B5690_RS27490_pSF150802 insolico UniProt ID   _
Length   903 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 903 a.a.        Molecular weight: 104663.00 Da        Isoelectric Point: 7.4180

>WP_052984280.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRYFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEL
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFVISRPDVDLHRQRSEQYYHEYIRQQKSISGGNDTSYTPVQDNEWTPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure



No available structure.




Auxiliary protein

ID   5082 GenBank   WP_001291058
Name   WP_001291058_pSF150802 insolico UniProt ID   A0A7I0L241
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12730.52 Da        Isoelectric Point: 9.9656

>WP_001291058.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSEKKTRTGSENRKRIVKFTARFTEDEAEIVREKAESSGQTVSTFIRSSSLDKVVNCRTDDRMIDEIMRL
GRLQKHLFVEGKRTGDKEYAEVLVAITEYVNALRRDLMGR

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A7I0L241


T4CP

ID   10064 GenBank   WP_000077663
Name   trbC_B5690_RS27525_pSF150802 insolico UniProt ID   _
Length   767 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 767 a.a.        Molecular weight: 87012.13 Da        Isoelectric Point: 7.3008

>WP_000077663.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNITGLCLAGSIITALIWPLALPVCLLFTLVTSVIFMLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETFPARGIFYVGYRRINDIGRELWLSMDDLTRHVM
FFATTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFVTQQSMLLARDLGYRLE
GTDAQTLEVKKYKGSFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMTAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGVMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYISVEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTAKPSRKRRKNRTEPYRIIDTFQRQLATAQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKAILNTLLPLEMLLPVPDLTASPPHKKNVAQTPSGGKQESRKKRF

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(439-528)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2597..24002

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B5690_RS26835 (B5690_26800) 43..2303 - 2261 Protein_0 ATP-binding protein -
B5690_RS26845 (B5690_26810) 2597..3223 - 627 WP_000785703 hypothetical protein traT
B5690_RS29065 (B5690_26815) 3330..3581 - 252 WP_001277573 hypothetical protein -
B5690_RS26855 (B5690_26820) 3638..4036 - 399 WP_000088813 DUF6750 family protein traR
B5690_RS26860 (B5690_26825) 4083..4613 - 531 WP_000987023 conjugal transfer protein TraQ traQ
B5690_RS26865 (B5690_26830) 4610..5323 - 714 WP_000787003 conjugal transfer protein TraP traP
B5690_RS26870 (B5690_26835) 5320..6649 - 1330 Protein_6 conjugal transfer protein TraO -
B5690_RS26875 (B5690_26840) 6653..7627 - 975 WP_000547383 DotH/IcmK family type IV secretion protein traN
B5690_RS26880 (B5690_26845) 7638..8333 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
B5690_RS26885 (B5690_26850) 8345..8695 - 351 WP_001056367 hypothetical protein traL
B5690_RS26890 (B5690_26855) 8712..12773 - 4062 WP_000842447 LPD7 domain-containing protein -
B5690_RS26895 (B5690_26860) 12837..13127 - 291 WP_000817801 IcmT/TraK family protein traK
B5690_RS26900 (B5690_26865) 13124..14272 - 1149 WP_000775210 plasmid transfer ATPase TraJ virB11
B5690_RS26905 (B5690_26870) 14256..15092 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
B5690_RS26910 (B5690_26875) 15089..15547 - 459 WP_001170111 DotD/TraH family lipoprotein -
B5690_RS26915 (B5690_26880) 15651..16853 - 1203 WP_000979993 conjugal transfer protein TraF -
B5690_RS26920 (B5690_26885) 16955..17776 - 822 WP_000845373 hypothetical protein traE
B5690_RS28900 (B5690_26890) 17941..18135 - 195 Protein_17 integrase -
B5690_RS26930 (B5690_26895) 18249..19610 - 1362 WP_001168171 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
B5690_RS26935 (B5690_26900) 19628..20254 - 627 WP_000939244 prepilin peptidase -
B5690_RS26940 (B5690_26905) 20270..20755 - 486 WP_063612151 lytic transglycosylase domain-containing protein virB1
B5690_RS26945 (B5690_26910) 20800..21336 - 537 WP_000111534 type 4 pilus major pilin -
B5690_RS26950 (B5690_26915) 21398..22492 - 1095 WP_000697158 type II secretion system F family protein -
B5690_RS26955 (B5690_26920) 22494..24002 - 1509 WP_000880806 GspE/PulE family protein virB11
B5690_RS26960 (B5690_26925) 24106..24564 - 459 WP_000095886 type IV pilus biogenesis protein PilP -
B5690_RS26965 (B5690_26930) 24554..25849 - 1296 WP_000129883 type 4b pilus protein PilO2 -
B5690_RS26970 (B5690_26935) 25870..27489 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
B5690_RS26975 (B5690_26940) 27521..27934 - 414 WP_124983997 type IV pilus biogenesis protein PilM -

Host bacterium

ID   14013 GenBank   NZ_CP030917
Plasmid name   pSF150802 Incompatibility group   IncB/O/K/Z
Plasmid size   110019 bp Coordinate of oriT [Strand]   87127..87199 [-]
Host baterium   Shigella flexneri 2a strain 1508

Cargo genes

Drug resistance gene   mph(A), aac(3)-IId, sul1, qacE, aadA16, dfrA27, ARR-3, aac(6')-Ib-cr
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -