Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113608
Name   oriT_S18BD03411|p69 in_silico
Organism   Shigella sonnei strain S18BD03411
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099769 (50931..51003 [-], 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_S18BD03411|p69
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8717 GenBank   WP_000991387
Name   Relaxase_NHV90_RS00345_S18BD03411|p69 insolico UniProt ID   A0A7I0L2J7
Length   903 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 903 a.a.        Molecular weight: 104567.95 Da        Isoelectric Point: 7.5259

>WP_000991387.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRYFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEL
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFVISRPDVDLHRQRSEQYYHEYIRQQKSISGGHGASYAPVQDNEWTPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure


Source ID Structure
AlphaFold DB A0A7I0L2J7


Auxiliary protein

ID   5103 GenBank   WP_001291058
Name   WP_001291058_S18BD03411|p69 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   10094 GenBank   WP_000077664
Name   trbC_NHV90_RS00360_S18BD03411|p69 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: 87040.19 Da        Isoelectric Point: 7.4857

>WP_000077664.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNITGLCLAGSIITALIWPLALPVCLLFTLVTSVIFMLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETFPARGIFYVGYRRINDIGRELWLSMDDLTRHVM
FFATTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFVTQQSMLLARDLGYRLE
GTDAQTLEVKKYKGSFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMTAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGVMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYISVEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTAKPSRKRRKNRTEPYRIIDTFQRRLATAQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
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: 57657..103012

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NHV90_RS00350 54147..54578 + 432 WP_001335086 cell envelope integrity TolA C-terminal domain-containing protein -
NHV90_RS00660 54676..54825 - 150 WP_001536674 hypothetical protein -
NHV90_RS00360 55373..57676 - 2304 WP_000077664 F-type conjugative transfer protein TrbC -
NHV90_RS00365 57657..58781 - 1125 WP_000152387 DsbC family protein trbB
NHV90_RS00370 58778..60085 - 1308 WP_021577249 IncI1-type conjugal transfer protein TrbA trbA
NHV90_RS00665 60882..60977 + 96 WP_001363141 DinQ-like type I toxin DqlB -
NHV90_RS00380 61040..61216 - 177 WP_001054907 hypothetical protein -
NHV90_RS00385 61366..61833 - 468 WP_000598962 thermonuclease family protein -
NHV90_RS00390 61992..62615 + 624 WP_001155247 helix-turn-helix domain-containing protein -
NHV90_RS00395 62813..63028 - 216 WP_000266543 hypothetical protein -
NHV90_RS00400 63032..63400 - 369 WP_001345852 hypothetical protein -
NHV90_RS00405 63412..63603 - 192 WP_000751583 hypothetical protein -
NHV90_RS00410 63691..63933 - 243 WP_000650923 hypothetical protein -
NHV90_RS00415 64263..64415 + 153 WP_001335079 Hok/Gef family protein -
NHV90_RS00420 64553..66139 - 1587 WP_000004564 TnsA endonuclease N-terminal domain-containing protein -
NHV90_RS00425 66413..67060 - 648 WP_015056434 plasmid IncI1-type surface exclusion protein ExcA -
NHV90_RS00430 67148..69307 - 2160 WP_000691811 DotA/TraY family protein traY
NHV90_RS00435 69382..69951 - 570 WP_000650752 conjugal transfer protein TraX -
NHV90_RS00440 69948..71153 - 1206 WP_001189548 conjugal transfer protein TraW traW
NHV90_RS00445 71111..71731 - 621 WP_000286854 hypothetical protein traV
NHV90_RS00450 71731..74775 - 3045 WP_001024766 conjugal transfer protein traU
NHV90_RS00455 74841..75077 + 237 WP_005082508 hypothetical protein -
NHV90_RS00460 75070..75888 - 819 WP_000753550 hypothetical protein traT
NHV90_RS00670 75803..76054 - 252 WP_001277573 hypothetical protein -
NHV90_RS00470 76111..76509 - 399 WP_000088813 DUF6750 family protein traR
NHV90_RS00475 76556..77086 - 531 WP_000987023 conjugal transfer protein TraQ traQ
NHV90_RS00480 77083..77796 - 714 WP_000787003 conjugal transfer protein TraP traP
NHV90_RS00485 77793..79130 - 1338 WP_013307873 conjugal transfer protein TraO traO
NHV90_RS00490 79134..80108 - 975 WP_000547383 DotH/IcmK family type IV secretion protein traN
NHV90_RS00495 80119..80814 - 696 WP_001681668 DotI/IcmL family type IV secretion protein traM
NHV90_RS00500 80826..81176 - 351 WP_001056367 hypothetical protein traL
NHV90_RS00505 81193..85254 - 4062 WP_013307874 LPD7 domain-containing protein -
NHV90_RS00510 85608..86189 - 582 WP_025750394 hypothetical protein -
NHV90_RS00515 86197..86652 - 456 Protein_104 IS5 family transposase -
NHV90_RS00520 86687..87562 - 876 WP_001617865 extended-spectrum class A beta-lactamase CTX-M-14 -
NHV90_RS00525 87812..89074 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
NHV90_RS00530 89486..89776 - 291 WP_000817801 IcmT/TraK family protein traK
NHV90_RS00535 89773..90921 - 1149 WP_013307876 plasmid transfer ATPase TraJ virB11
NHV90_RS00540 90905..91741 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
NHV90_RS00545 91738..92196 - 459 WP_025750398 DotD/TraH family lipoprotein -
NHV90_RS00550 92300..93502 - 1203 WP_013307879 conjugal transfer protein TraF -
NHV90_RS00555 93604..94425 - 822 WP_001681675 hypothetical protein traE
NHV90_RS00560 94638..95762 - 1125 WP_013307880 site-specific integrase -
NHV90_RS00565 95812..96120 + 309 WP_102166912 pilus assembly protein -
NHV90_RS00570 96403..96792 + 390 Protein_115 phage tail protein -
NHV90_RS00575 96797..97135 - 339 WP_072106734 prepilin, shufflon protein A -
NHV90_RS00580 97385..98620 - 1236 WP_032151497 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NHV90_RS00585 98638..99264 - 627 WP_013307883 prepilin peptidase -
NHV90_RS00590 99280..99765 - 486 WP_001080767 lytic transglycosylase domain-containing protein virB1
NHV90_RS00595 99810..100346 - 537 WP_000111521 type 4 pilus major pilin -
NHV90_RS00600 100408..101502 - 1095 WP_032253914 type II secretion system F family protein -
NHV90_RS00605 101504..103012 - 1509 WP_000880806 GspE/PulE family protein virB11
NHV90_RS00610 103116..103574 - 459 WP_000095886 type IV pilus biogenesis protein PilP -
NHV90_RS00615 103564..104859 - 1296 WP_000129883 type 4b pilus protein PilO2 -
NHV90_RS00620 104880..106499 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
NHV90_RS00625 106531..106944 - 414 WP_124983997 type IV pilus biogenesis protein PilM -

Host bacterium

ID   14043 GenBank   NZ_CP099769
Plasmid name   S18BD03411|p69 Incompatibility group   IncB/O/K/Z
Plasmid size   111597 bp Coordinate of oriT [Strand]   50931..51003 [-]
Host baterium   Shigella sonnei strain S18BD03411

Cargo genes

Drug resistance gene   mph(A), aac(3)-IId, sul1, qacE, aadA5, blaCTX-M-14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -