Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107489
Name   oriT_pSTM37-118 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain TW-Stm37
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN334220 (49935..50007 [-], 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_pSTM37-118
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5013 GenBank   WP_000991386
Name   Relaxase_HTY43_RS00320_pSTM37-118 insolico UniProt ID   A0A648F3C8
Length   903 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 903 a.a.        Molecular weight: 104553.93 Da        Isoelectric Point: 7.5347

>WP_000991386.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLVWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFVISRPDVDLHRQRSEQYYHEYIRQQKSISGGHGASYAPVQDNEWTPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure


Source ID Structure
AlphaFold DB A0A648F3C8


Auxiliary protein

ID   2292 GenBank   WP_001291058
Name   WP_001291058_pSTM37-118 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   5216 GenBank   WP_000077652
Name   trbC_HTY43_RS00350_pSTM37-118 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: 86934.00 Da        Isoelectric Point: 7.3008

>WP_000077652.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHVM
FFATTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFVTQQSMILARDLGYRLE
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: 74321..107424

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTY43_RS00405 69759..70214 + 456 WP_001205146 DUF2569 family protein -
HTY43_RS00410 70414..71949 + 1536 WP_001317519 phosphoethanolamine transferase -
HTY43_RS00415 72042..72284 - 243 WP_001317518 hypothetical protein -
HTY43_RS00420 72616..72768 + 153 WP_001444391 Hok/Gef family protein -
HTY43_RS00655 72840..72926 - 87 Protein_84 antitoxin -
HTY43_RS00660 73083..73214 - 132 Protein_85 ethanolamine utilization protein EutE -
HTY43_RS00430 73316..73525 + 210 WP_000062945 HEAT repeat domain-containing protein -
HTY43_RS00435 73590..74234 - 645 WP_001005412 plasmid IncI1-type surface exclusion protein ExcA -
HTY43_RS00440 74321..76486 - 2166 WP_000691803 DotA/TraY family protein traY
HTY43_RS00445 76559..77128 - 570 WP_000650755 conjugal transfer protein TraX -
HTY43_RS00450 77125..78330 - 1206 WP_001189542 conjugal transfer protein TraW traW
HTY43_RS00455 78288..78908 - 621 WP_000286859 hypothetical protein traV
HTY43_RS00460 78908..81952 - 3045 WP_001024762 hypothetical protein traU
HTY43_RS00465 82177..82722 + 546 WP_001369268 hypothetical protein -
HTY43_RS00470 82695..83075 - 381 WP_000690882 hypothetical protein -
HTY43_RS00475 83075..83434 - 360 WP_000379509 hypothetical protein -
HTY43_RS00480 83493..84311 - 819 WP_072112391 conjugal transfer protein TraT traT
HTY43_RS00490 84534..84932 - 399 WP_000086067 DUF6750 family protein traR
HTY43_RS00495 84981..85511 - 531 WP_000987022 conjugal transfer protein TraQ traQ
HTY43_RS00500 85508..86221 - 714 WP_000787008 conjugal transfer protein TraP traP
HTY43_RS00505 86218..87549 - 1332 WP_001272016 conjugal transfer protein TraO traO
HTY43_RS00510 87553..88527 - 975 WP_001165564 DotH/IcmK family type IV secretion protein traN
HTY43_RS00515 88538..89233 - 696 WP_001287263 DotI/IcmL family type IV secretion protein traM
HTY43_RS00520 89245..89595 - 351 WP_001056369 hypothetical protein traL
HTY43_RS00525 89612..93628 - 4017 WP_000842446 LPD7 domain-containing protein -
HTY43_RS00670 93692..93982 - 291 WP_000817799 hypothetical protein traK
HTY43_RS00530 93979..95127 - 1149 WP_000625246 plasmid transfer ATPase TraJ virB11
HTY43_RS00535 95111..95947 - 837 WP_000848138 type IV secretory system conjugative DNA transfer family protein traI
HTY43_RS00540 95944..96396 - 453 WP_001081198 DotD/TraH family lipoprotein -
HTY43_RS00545 96755..97957 - 1203 WP_000980149 conjugal transfer protein TraF -
HTY43_RS00550 98046..98867 - 822 WP_000804092 hypothetical protein traE
HTY43_RS00555 99127..99447 + 321 WP_000695055 hypothetical protein -
HTY43_RS00560 99538..99705 - 168 WP_001379384 hypothetical protein -
HTY43_RS00565 99870..101039 - 1170 WP_000486830 site-specific integrase -
HTY43_RS00570 101654..103018 - 1365 WP_001168069 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTY43_RS00575 103023..103658 - 636 WP_000478594 prepilin peptidase -
HTY43_RS00580 103677..104150 - 474 WP_000870986 lytic transglycosylase domain-containing protein virB1
HTY43_RS00585 104204..104740 - 537 WP_001011158 type 4 pilus major pilin -
HTY43_RS00590 104814..105914 - 1101 WP_000670138 type II secretion system F family protein -
HTY43_RS00595 105916..107424 - 1509 WP_000886636 ATPase, T2SS/T4P/T4SS family virB11
HTY43_RS00600 107509..107961 - 453 WP_001112925 type IV pilus biogenesis protein PilP -
HTY43_RS00605 107951..109246 - 1296 WP_000129891 type 4b pilus protein PilO2 -
HTY43_RS00610 109267..110886 - 1620 WP_001034998 PilN family type IVB pilus formation outer membrane protein -
HTY43_RS00615 110917..111354 - 438 WP_000539685 type IV pilus biogenesis protein PilM -

Host bacterium

ID   7924 GenBank   NZ_MN334220
Plasmid name   pSTM37-118 Incompatibility group   IncB/O/K/Z
Plasmid size   118115 bp Coordinate of oriT [Strand]   49935..50007 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain TW-Stm37

Cargo genes

Drug resistance gene   dfrA5, tet(A)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -