Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119101
Name   oriT_p201603898-2 in_silico
Organism   Shigella sonnei strain 201603898
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP038269 (45127..45199 [-], 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_p201603898-2
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12063 GenBank   WP_052984280
Name   Relaxase_OVP32_RS00295_p201603898-2 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   6897 GenBank   WP_001291058
Name   WP_001291058_p201603898-2 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   14126 GenBank   WP_000077663
Name   trbC_OVP32_RS00320_p201603898-2 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: 53053..91858

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OVP32_RS00300 (p201603898-2__00061) 48343..48705 + 363 Protein_61 cell envelope integrity TolA C-terminal domain-containing protein -
OVP32_RS00305 (p201603898-2__00062) 48773..49753 + 981 WP_052990530 IS5-like element ISKpn26 family transposase -
OVP32_RS00310 49903..49974 + 72 Protein_63 tolA family protein -
OVP32_RS00315 50072..50302 - 231 WP_065406859 hypothetical protein -
OVP32_RS00320 (p201603898-2__00065) 50769..53072 - 2304 WP_000077663 F-type conjugative transfer protein TrbC -
OVP32_RS00325 (p201603898-2__00066) 53053..54177 - 1125 WP_000152381 DsbC family protein trbB
OVP32_RS00330 (p201603898-2__00067) 54174..55454 - 1281 WP_052973421 IncI1-type conjugal transfer protein TrbA trbA
OVP32_RS00595 56251..56346 + 96 WP_001363141 DinQ-like type I toxin DqlB -
OVP32_RS00340 (p201603898-2__00069) 56409..56585 - 177 WP_001054907 hypothetical protein -
OVP32_RS00345 (p201603898-2__00070) 56735..57202 - 468 WP_000598962 thermonuclease family protein -
OVP32_RS00350 (p201603898-2__00071) 57361..57984 + 624 WP_001155247 helix-turn-helix domain-containing protein -
OVP32_RS00355 (p201603898-2__00073) 58182..58397 - 216 WP_000266543 hypothetical protein -
OVP32_RS00360 (p201603898-2__00074) 58401..58769 - 369 WP_001345852 hypothetical protein -
OVP32_RS00365 (p201603898-2__00075) 59060..59302 - 243 WP_000650923 hypothetical protein -
OVP32_RS00370 (p201603898-2__00076) 59632..59784 + 153 WP_001335079 Hok/Gef family protein -
OVP32_RS00375 (p201603898-2__00077) 59922..61508 - 1587 WP_000004564 TnsA endonuclease N-terminal domain-containing protein -
OVP32_RS00380 (p201603898-2__00079) 61782..62435 - 654 WP_001401768 plasmid IncI1-type surface exclusion protein ExcA -
OVP32_RS00385 (p201603898-2__00080) 62523..64688 - 2166 WP_000691808 DotA/TraY family protein traY
OVP32_RS00390 (p201603898-2__00081) 64763..65332 - 570 WP_000650752 conjugal transfer protein TraX -
OVP32_RS00395 (p201603898-2__00082) 65329..66534 - 1206 WP_001189548 conjugal transfer protein TraW traW
OVP32_RS00400 (p201603898-2__00083) 66492..67112 - 621 WP_000286854 hypothetical protein traV
OVP32_RS00405 (p201603898-2__00084) 67112..70156 - 3045 WP_001024766 conjugal transfer protein traU
OVP32_RS00410 (p201603898-2__00085) 70451..71269 - 819 WP_000753550 hypothetical protein traT
OVP32_RS00600 (p201603898-2__00086) 71184..71468 - 285 WP_001353683 hypothetical protein -
OVP32_RS00420 (p201603898-2__00087) 71492..71890 - 399 WP_000088813 DUF6750 family protein traR
OVP32_RS00425 (p201603898-2__00088) 71937..72467 - 531 WP_000987023 conjugal transfer protein TraQ traQ
OVP32_RS00430 (p201603898-2__00089) 72464..73177 - 714 WP_000787003 conjugal transfer protein TraP traP
OVP32_RS00435 (p201603898-2__00090) 73174..74505 - 1332 WP_001288254 conjugal transfer protein TraO traO
OVP32_RS00440 (p201603898-2__00091) 74509..75483 - 975 WP_000547383 DotH/IcmK family type IV secretion protein traN
OVP32_RS00445 (p201603898-2__00092) 75494..76189 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
OVP32_RS00450 (p201603898-2__00093) 76201..76551 - 351 WP_001056367 hypothetical protein traL
OVP32_RS00455 (p201603898-2__00094) 76568..80629 - 4062 WP_000842447 LPD7 domain-containing protein -
OVP32_RS00460 (p201603898-2__00095) 80693..80983 - 291 WP_000817801 IcmT/TraK family protein traK
OVP32_RS00465 (p201603898-2__00096) 80980..82128 - 1149 WP_000775210 plasmid transfer ATPase TraJ virB11
OVP32_RS00470 (p201603898-2__00097) 82112..82948 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
OVP32_RS00475 (p201603898-2__00098) 82945..83403 - 459 WP_001170111 DotD/TraH family lipoprotein -
OVP32_RS00480 (p201603898-2__00099) 83507..84709 - 1203 WP_000979993 conjugal transfer protein TraF -
OVP32_RS00485 (p201603898-2__00100) 84811..85632 - 822 WP_000845373 hypothetical protein traE
OVP32_RS00490 85797..85991 - 195 Protein_99 integrase -
OVP32_RS00495 (p201603898-2__00101) 86105..87466 - 1362 WP_001168171 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
OVP32_RS00500 (p201603898-2__00102) 87484..88020 - 537 WP_023649457 prepilin peptidase -
OVP32_RS00505 (p201603898-2__00103) 88126..88611 - 486 WP_063612151 lytic transglycosylase domain-containing protein virB1
OVP32_RS00510 (p201603898-2__00104) 88656..89192 - 537 WP_000111534 type 4 pilus major pilin -
OVP32_RS00515 (p201603898-2__00105) 89254..90348 - 1095 WP_000697158 type II secretion system F family protein -
OVP32_RS00520 (p201603898-2__00106) 90350..91858 - 1509 WP_000880807 GspE/PulE family protein virB11
OVP32_RS00525 (p201603898-2__00107) 91961..92419 - 459 WP_000095885 type IV pilus biogenesis protein PilP -
OVP32_RS00530 (p201603898-2__00108) 92409..93704 - 1296 WP_000129883 type 4b pilus protein PilO2 -
OVP32_RS00535 (p201603898-2__00109) 93725..95344 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
OVP32_RS00540 (p201603898-2__00110) 95376..95813 - 438 WP_000539952 type IV pilus biogenesis protein PilM -

Host bacterium

ID   19533 GenBank   NZ_OP038269
Plasmid name   p201603898-2 Incompatibility group   IncB/O/K/Z
Plasmid size   102642 bp Coordinate of oriT [Strand]   45127..45199 [-]
Host baterium   Shigella sonnei strain 201603898

Cargo genes

Drug resistance gene   mph(A), blaCTX-M-55, aac(3)-IIa
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -