Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119096
Name   oriT_p201701093-2 in_silico
Organism   Shigella sonnei strain 201701093
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP038271 (49804..49876 [-], 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_p201701093-2
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12058 GenBank   WP_000991385
Name   Relaxase_OVP38_RS00320_p201701093-2 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: 104606.99 Da        Isoelectric Point: 7.5261

>WP_000991385.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEL
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRVRREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFVISRPDVDLHRQRSEQYYHEYIRQQKSISGGNDTSYTPVQDNEWTPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure



No available structure.




Auxiliary protein

ID   6892 GenBank   WP_001291058
Name   WP_001291058_p201701093-2 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   14121 GenBank   WP_000077663
Name   trbC_OVP38_RS00335_p201701093-2 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: 56530..93848

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OVP38_RS00325 (p201701093-2__00069) 53020..53451 + 432 WP_001335086 cell envelope integrity TolA C-terminal domain-containing protein -
OVP38_RS00330 53549..53779 - 231 WP_065406859 hypothetical protein -
OVP38_RS00335 (p201701093-2__00072) 54246..56549 - 2304 WP_000077663 F-type conjugative transfer protein TrbC -
OVP38_RS00340 (p201701093-2__00073) 56530..57654 - 1125 WP_000152386 DsbC family protein trbB
OVP38_RS00345 (p201701093-2__00074) 57651..58931 - 1281 WP_032255244 IncI1-type conjugal transfer protein TrbA trbA
OVP38_RS00585 (p201701093-2__00075) 59488..59583 + 96 WP_001388983 DinQ-like type I toxin DqlB -
OVP38_RS00590 60172..60267 + 96 WP_271383691 DinQ-like type I toxin DqlB -
OVP38_RS00355 (p201701093-2__00078) 60657..61124 - 468 WP_000598962 thermonuclease family protein -
OVP38_RS00360 (p201701093-2__00079) 61284..61907 + 624 WP_001155251 helix-turn-helix domain-containing protein -
OVP38_RS00365 (p201701093-2__00081) 62105..62320 - 216 WP_000266543 hypothetical protein -
OVP38_RS00370 (p201701093-2__00082) 62324..62692 - 369 WP_000654481 hypothetical protein -
OVP38_RS00375 (p201701093-2__00083) 62983..63225 - 243 WP_000650923 hypothetical protein -
OVP38_RS00595 63555..63635 + 81 Protein_79 Hok/Gef family protein -
OVP38_RS00380 (p201701093-2__00085) 63774..64424 - 651 WP_001044247 plasmid IncI1-type surface exclusion protein ExcA -
OVP38_RS00385 (p201701093-2__00086) 64513..66678 - 2166 WP_000691810 DotA/TraY family protein traY
OVP38_RS00390 (p201701093-2__00087) 66753..67322 - 570 WP_000650752 conjugal transfer protein TraX -
OVP38_RS00395 (p201701093-2__00088) 67319..68524 - 1206 WP_001189548 conjugal transfer protein TraW traW
OVP38_RS00400 (p201701093-2__00089) 68482..69102 - 621 WP_000286854 hypothetical protein traV
OVP38_RS00405 (p201701093-2__00090) 69102..72146 - 3045 WP_001024766 conjugal transfer protein traU
OVP38_RS00410 (p201701093-2__00091) 72441..73259 - 819 WP_000753550 hypothetical protein traT
OVP38_RS00600 (p201701093-2__00092) 73174..73425 - 252 WP_001277573 hypothetical protein -
OVP38_RS00420 (p201701093-2__00093) 73482..73880 - 399 WP_000088813 DUF6750 family protein traR
OVP38_RS00425 (p201701093-2__00094) 73927..74457 - 531 WP_000987023 conjugal transfer protein TraQ traQ
OVP38_RS00430 (p201701093-2__00095) 74454..75167 - 714 WP_000787003 conjugal transfer protein TraP traP
OVP38_RS00435 (p201701093-2__00096) 75164..76495 - 1332 WP_001288254 conjugal transfer protein TraO traO
OVP38_RS00440 (p201701093-2__00097) 76499..77473 - 975 WP_000547383 DotH/IcmK family type IV secretion protein traN
OVP38_RS00445 (p201701093-2__00098) 77484..78179 - 696 WP_001287545 DotI/IcmL family type IV secretion protein traM
OVP38_RS00450 (p201701093-2__00099) 78191..78541 - 351 WP_001056367 hypothetical protein traL
OVP38_RS00455 (p201701093-2__00100) 78558..82619 - 4062 WP_032179948 LPD7 domain-containing protein -
OVP38_RS00460 (p201701093-2__00101) 82683..82973 - 291 WP_000817801 IcmT/TraK family protein traK
OVP38_RS00465 (p201701093-2__00102) 82970..84118 - 1149 WP_000775210 plasmid transfer ATPase TraJ virB11
OVP38_RS00470 (p201701093-2__00103) 84102..84938 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
OVP38_RS00475 (p201701093-2__00104) 84935..85393 - 459 WP_001170111 DotD/TraH family lipoprotein -
OVP38_RS00480 (p201701093-2__00105) 85497..86699 - 1203 WP_000979993 conjugal transfer protein TraF -
OVP38_RS00485 (p201701093-2__00106) 86801..87622 - 822 WP_000845373 hypothetical protein traE
OVP38_RS00490 87787..87981 - 195 Protein_102 integrase -
OVP38_RS00495 (p201701093-2__00107) 88095..89456 - 1362 WP_001168171 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
OVP38_RS00500 (p201701093-2__00108) 89474..90034 - 561 WP_267191410 prepilin peptidase -
OVP38_RS00505 (p201701093-2__00109) 90116..90601 - 486 WP_001080767 lytic transglycosylase domain-containing protein virB1
OVP38_RS00510 (p201701093-2__00110) 90646..91182 - 537 WP_000111534 type 4 pilus major pilin -
OVP38_RS00515 (p201701093-2__00111) 91244..92338 - 1095 WP_000697158 type II secretion system F family protein -
OVP38_RS00520 (p201701093-2__00112) 92340..93848 - 1509 WP_000880807 GspE/PulE family protein virB11
OVP38_RS00525 (p201701093-2__00113) 93952..94410 - 459 WP_000095885 type IV pilus biogenesis protein PilP -
OVP38_RS00530 (p201701093-2__00114) 94400..95695 - 1296 WP_000129883 type 4b pilus protein PilO2 -
OVP38_RS00535 (p201701093-2__00115) 95716..97335 - 1620 WP_001035562 PilN family type IVB pilus formation outer membrane protein -
OVP38_RS00540 (p201701093-2__00116) 97367..97780 - 414 WP_124983997 type IV pilus biogenesis protein PilM -

Host bacterium

ID   19528 GenBank   NZ_OP038271
Plasmid name   p201701093-2 Incompatibility group   IncB/O/K/Z
Plasmid size   102387 bp Coordinate of oriT [Strand]   49804..49876 [-]
Host baterium   Shigella sonnei strain 201701093

Cargo genes

Drug resistance gene   qnrS13, mph(A), erm(B), dfrA5, sul1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -