Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107495
Name   oriT_pSTM32_108 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain TW-Stm32
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN334219 (39885..39957 [-], 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_pSTM32_108
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5018 GenBank   WP_000991386
Name   Relaxase_HTY50_RS00260_pSTM32_108 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   2299 GenBank   WP_001291058
Name   WP_001291058_pSTM32_108 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   5222 GenBank   WP_000077652
Name   trbC_HTY50_RS00290_pSTM32_108 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: 64271..97374

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTY50_RS00340 59709..60164 + 456 WP_001205146 DUF2569 family protein -
HTY50_RS00345 60364..61899 + 1536 WP_001317519 phosphoethanolamine transferase -
HTY50_RS00350 61992..62234 - 243 WP_001317518 hypothetical protein -
HTY50_RS00355 62566..62718 + 153 WP_001444391 Hok/Gef family protein -
HTY50_RS00590 62790..62876 - 87 Protein_72 antitoxin -
HTY50_RS00595 63033..63164 - 132 Protein_73 ethanolamine utilization protein EutE -
HTY50_RS00365 63266..63475 + 210 WP_000062945 HEAT repeat domain-containing protein -
HTY50_RS00370 63540..64184 - 645 WP_001005412 plasmid IncI1-type surface exclusion protein ExcA -
HTY50_RS00375 64271..66436 - 2166 WP_000691803 DotA/TraY family protein traY
HTY50_RS00380 66509..67078 - 570 WP_000650755 conjugal transfer protein TraX -
HTY50_RS00385 67075..68280 - 1206 WP_001189542 conjugal transfer protein TraW traW
HTY50_RS00390 68238..68858 - 621 WP_000286859 hypothetical protein traV
HTY50_RS00395 68858..71902 - 3045 WP_001024762 hypothetical protein traU
HTY50_RS00400 72127..72672 + 546 WP_001369268 hypothetical protein -
HTY50_RS00405 72645..73025 - 381 WP_000690882 hypothetical protein -
HTY50_RS00410 73025..73384 - 360 WP_000379509 hypothetical protein -
HTY50_RS00415 73443..74261 - 819 WP_072112391 conjugal transfer protein TraT traT
HTY50_RS00610 74176..74427 - 252 WP_001277575 hypothetical protein -
HTY50_RS00425 74484..74882 - 399 WP_000086067 DUF6750 family protein traR
HTY50_RS00430 74931..75461 - 531 WP_000987022 conjugal transfer protein TraQ traQ
HTY50_RS00435 75458..76171 - 714 WP_000787008 conjugal transfer protein TraP traP
HTY50_RS00440 76168..77499 - 1332 WP_001272016 conjugal transfer protein TraO traO
HTY50_RS00445 77503..78477 - 975 WP_001165564 DotH/IcmK family type IV secretion protein traN
HTY50_RS00450 78488..79183 - 696 WP_001287263 DotI/IcmL family type IV secretion protein traM
HTY50_RS00455 79195..79545 - 351 WP_001056369 hypothetical protein traL
HTY50_RS00460 79562..83578 - 4017 WP_000842446 LPD7 domain-containing protein -
HTY50_RS00605 83642..83932 - 291 WP_000817799 hypothetical protein traK
HTY50_RS00465 83929..85077 - 1149 WP_000625246 plasmid transfer ATPase TraJ virB11
HTY50_RS00470 85061..85897 - 837 WP_000848138 type IV secretory system conjugative DNA transfer family protein traI
HTY50_RS00475 85894..86346 - 453 WP_001081198 DotD/TraH family lipoprotein -
HTY50_RS00480 86705..87907 - 1203 WP_000980149 conjugal transfer protein TraF -
HTY50_RS00485 87996..88817 - 822 WP_000804092 hypothetical protein traE
HTY50_RS00490 89077..89397 + 321 WP_000695055 hypothetical protein -
HTY50_RS00495 89488..89778 - 291 WP_000681898 hypothetical protein -
HTY50_RS00500 89820..90989 - 1170 WP_000486830 site-specific integrase -
HTY50_RS00505 91604..92968 - 1365 WP_001168069 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTY50_RS00510 92973..93608 - 636 WP_000478594 prepilin peptidase -
HTY50_RS00515 93627..94100 - 474 WP_000870986 lytic transglycosylase domain-containing protein virB1
HTY50_RS00520 94154..94690 - 537 WP_001011158 type 4 pilus major pilin -
HTY50_RS00525 94764..95864 - 1101 WP_000670138 type II secretion system F family protein -
HTY50_RS00530 95866..97374 - 1509 WP_000886636 ATPase, T2SS/T4P/T4SS family virB11
HTY50_RS00535 97459..97911 - 453 WP_001112925 type IV pilus biogenesis protein PilP -
HTY50_RS00540 97901..99196 - 1296 WP_000129891 type 4b pilus protein PilO2 -
HTY50_RS00545 99217..100836 - 1620 WP_001034998 PilN family type IVB pilus formation outer membrane protein -
HTY50_RS00550 100867..101304 - 438 WP_000539685 type IV pilus biogenesis protein PilM -

Host bacterium

ID   7930 GenBank   NZ_MN334219
Plasmid name   pSTM32_108 Incompatibility group   IncB/O/K/Z
Plasmid size   108065 bp Coordinate of oriT [Strand]   39885..39957 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain TW-Stm32

Cargo genes

Drug resistance gene   dfrA5, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -