Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104524
Name   oriT_SWHIN_101|unnamed2 in_silico
Organism   Shigella flexneri strain SWHIN_101
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055115 (31588..31660 [-], 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_SWHIN_101|unnamed2
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3272 GenBank   WP_058100850
Name   Relaxase_HUZ81_RS24980_SWHIN_101|unnamed2 insolico UniProt ID   A0A1M0DNA5
Length   906 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 906 a.a.        Molecular weight: 105098.51 Da        Isoelectric Point: 8.3663

>WP_058100850.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPAMARNGELKSCLAVHRTLAEAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWHSVPKDIFTQVIPGERFRGHSIGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
ALIQCRSQIEEMIAGGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAAADIFERVKPECRYNPELAASDEVEPGFRRDPELRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAHIRVQFRDPQLRKLHYHIAEVQRMQALIRLKENVREERLALMAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNADRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLDLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure


Source ID Structure
AlphaFold DB A0A1M0DNA5


Auxiliary protein

ID   1462 GenBank   WP_001291058
Name   WP_001291058_SWHIN_101|unnamed2 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   3202 GenBank   WP_058100849
Name   trbC_HUZ81_RS24985_SWHIN_101|unnamed2 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 87195.08 Da        Isoelectric Point: 6.6676

>WP_058100849.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHII
FFSTTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVRERKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFITQQSMILARDLGYRLE
GTDAQTLEVKKYKGRFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMTAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGVMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYIAIEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTEKTSRKRRKKHTEPYRIIDTFQDQLKRTQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKAILNTLLPLEILLPVAENNKSQTINNDHPQKSCGAQPTTDEKY

  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: 37246..81558

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ81_RS24985 (HUZ81_24750) 34965..37265 - 2301 WP_058100849 F-type conjugative transfer protein TrbC -
HUZ81_RS24990 (HUZ81_24755) 37246..38370 - 1125 WP_058100848 DsbC family protein trbB
HUZ81_RS24995 (HUZ81_24760) 38367..39629 - 1263 WP_045145416 IncI1-type conjugal transfer protein TrbA trbA
HUZ81_RS25000 (HUZ81_24765) 40294..40761 - 468 WP_045145415 thermonuclease family protein -
HUZ81_RS25005 (HUZ81_24770) 40926..41549 + 624 WP_045145414 helix-turn-helix domain-containing protein -
HUZ81_RS25010 (HUZ81_24775) 41747..41962 - 216 WP_000266543 hypothetical protein -
HUZ81_RS25015 (HUZ81_24780) 41966..42334 - 369 WP_001302696 hypothetical protein -
HUZ81_RS25020 (HUZ81_24785) 42346..42537 - 192 WP_000751583 hypothetical protein -
HUZ81_RS25025 (HUZ81_24790) 42634..42876 - 243 WP_000650933 hypothetical protein -
HUZ81_RS25030 (HUZ81_24795) 43205..43357 + 153 WP_021532728 Hok/Gef family protein -
HUZ81_RS25035 (HUZ81_24800) 43926..44078 + 153 WP_001367784 Hok/Gef family protein -
HUZ81_RS25040 (HUZ81_24805) 44075..44236 - 162 WP_021580032 hypothetical protein -
HUZ81_RS25045 (HUZ81_24810) 44298..45869 - 1572 WP_239622816 IS66-like element ISCro1 family transposase -
HUZ81_RS25050 (HUZ81_24815) 45889..46236 - 348 WP_012904570 IS66 family insertion sequence element accessory protein TnpB -
HUZ81_RS25055 (HUZ81_24820) 46236..46913 - 678 WP_053287942 IS66-like element accessory protein TnpA -
HUZ81_RS25060 47099..47230 - 132 Protein_62 ethanolamine utilization protein EutE -
HUZ81_RS25065 (HUZ81_24825) 47325..47534 + 210 WP_000062946 HEAT repeat domain-containing protein -
HUZ81_RS25070 (HUZ81_24830) 47599..48246 - 648 WP_072643575 plasmid IncI1-type surface exclusion protein ExcA -
HUZ81_RS25075 (HUZ81_24835) 48334..50493 - 2160 WP_058100846 DotA/TraY family protein traY
HUZ81_RS25080 (HUZ81_24840) 50566..51135 - 570 WP_058100845 conjugal transfer protein TraX -
HUZ81_RS25085 (HUZ81_24845) 51132..52337 - 1206 WP_052908626 conjugal transfer protein TraW traW
HUZ81_RS25090 (HUZ81_24850) 52298..52915 - 618 WP_052908627 hypothetical protein traV
HUZ81_RS25095 (HUZ81_24855) 52915..55959 - 3045 WP_058100844 conjugal transfer protein traU
HUZ81_RS25100 (HUZ81_24860) 56135..56515 - 381 WP_058100843 hypothetical protein -
HUZ81_RS25105 (HUZ81_24865) 56515..56874 - 360 WP_058100842 hypothetical protein -
HUZ81_RS25110 (HUZ81_24870) 56931..57749 - 819 WP_239622807 conjugal transfer protein TraT traT
HUZ81_RS25520 (HUZ81_24875) 57664..57915 - 252 WP_001277575 hypothetical protein -
HUZ81_RS25120 (HUZ81_24880) 57972..58370 - 399 WP_021532718 DUF6750 family protein traR
HUZ81_RS25125 (HUZ81_24885) 58417..58947 - 531 WP_227316726 conjugal transfer protein TraQ traQ
HUZ81_RS25130 (HUZ81_24890) 58944..59657 - 714 WP_072657236 conjugal transfer protein TraP traP
HUZ81_RS25135 (HUZ81_24895) 59654..60985 - 1332 WP_058100840 conjugal transfer protein TraO traO
HUZ81_RS25140 (HUZ81_24900) 60989..61963 - 975 WP_021532715 DotH/IcmK family type IV secretion protein traN
HUZ81_RS25145 (HUZ81_24905) 61974..62669 - 696 WP_029391932 DotI/IcmL family type IV secretion protein traM
HUZ81_RS25150 (HUZ81_24910) 62681..63031 - 351 WP_021532713 hypothetical protein traL
HUZ81_RS25155 (HUZ81_24915) 63048..67109 - 4062 WP_058100839 LPD7 domain-containing protein -
HUZ81_RS25160 (HUZ81_24920) 67173..67463 - 291 WP_000817799 hypothetical protein traK
HUZ81_RS25165 (HUZ81_24925) 67460..68608 - 1149 WP_058100838 plasmid transfer ATPase TraJ virB11
HUZ81_RS25170 (HUZ81_24930) 68592..69428 - 837 WP_000745049 type IV secretory system conjugative DNA transfer family protein traI
HUZ81_RS25175 (HUZ81_24935) 69425..69883 - 459 WP_001170111 DotD/TraH family lipoprotein -
HUZ81_RS25180 (HUZ81_24940) 69987..71189 - 1203 WP_053287757 conjugal transfer protein TraF -
HUZ81_RS25185 (HUZ81_24945) 71291..72112 - 822 WP_001681675 hypothetical protein traE
HUZ81_RS25190 (HUZ81_24950) 72386..72706 + 321 WP_000695052 hypothetical protein -
HUZ81_RS25195 (HUZ81_24955) 72798..73088 - 291 WP_021532709 hypothetical protein -
HUZ81_RS25200 (HUZ81_24960) 73130..74299 - 1170 WP_021532708 site-specific integrase -
HUZ81_RS25205 (HUZ81_24965) 74969..75208 + 240 WP_000271302 hypothetical protein -
HUZ81_RS25210 (HUZ81_24970) 75213..75602 - 390 Protein_92 phage tail protein -
HUZ81_RS25215 (HUZ81_24975) 75886..77163 - 1278 WP_077891451 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HUZ81_RS25220 (HUZ81_24980) 77160..77867 - 708 WP_152920992 A24 family peptidase -
HUZ81_RS25225 (HUZ81_24985) 77827..78303 - 477 WP_029391914 lytic transglycosylase domain-containing protein virB1
HUZ81_RS25230 (HUZ81_24990) 78362..78898 - 537 WP_058100836 type 4 pilus major pilin -
HUZ81_RS25235 (HUZ81_24995) 78948..80048 - 1101 WP_001696153 type II secretion system F family protein -
HUZ81_RS25240 (HUZ81_25000) 80050..81558 - 1509 WP_058100835 ATPase, T2SS/T4P/T4SS family virB11
HUZ81_RS25245 (HUZ81_25005) 81655..82329 - 675 WP_226256164 hypothetical protein -
HUZ81_RS25250 (HUZ81_25010) 82347..82901 - 555 WP_021532699 hypothetical protein -
HUZ81_RS25255 (HUZ81_25015) 82950..83402 - 453 WP_021532698 type IV pilus biogenesis protein PilP -
HUZ81_RS25260 (HUZ81_25020) 83392..84687 - 1296 WP_058100834 type 4b pilus protein PilO2 -
HUZ81_RS25265 (HUZ81_25025) 84708..86327 - 1620 WP_021532696 PilN family type IVB pilus formation outer membrane protein -

Host bacterium

ID   4963 GenBank   NZ_CP055115
Plasmid name   SWHIN_101|unnamed2 Incompatibility group   IncB/O/K/Z
Plasmid size   91560 bp Coordinate of oriT [Strand]   31588..31660 [-]
Host baterium   Shigella flexneri strain SWHIN_101

Cargo genes

Drug resistance gene   aph(3')-IIa
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -