Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111730
Name   oriT_PS184-R|unnamed in_silico
Organism   Escherichia sp. PS184-R
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP141242 (57500..57572 [-], 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_PS184-R|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7607 GenBank   WP_029391987
Name   Relaxase_VJF72_RS00365_PS184-R|unnamed insolico UniProt ID   A0A2H5C199
Length   906 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 906 a.a.        Molecular weight: 105112.51 Da        Isoelectric Point: 8.2682

>WP_029391987.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGHSIGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
ALIQCRSQIEEMIAGGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQVRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNADRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLDLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-315)


  Protein structure


Source ID Structure
AlphaFold DB A0A2H5C199


Auxiliary protein

ID   4160 GenBank   WP_001291058
Name   WP_001291058_PS184-R|unnamed 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   8676 GenBank   WP_029392471
Name   trbC_VJF72_RS00370_PS184-R|unnamed 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: 87239.20 Da        Isoelectric Point: 6.6676

>WP_029392471.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHII
FFSTTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVRERKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFITQQSMILARDLGYRLE
GTDAQTLEVKKYKGRFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMMAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGLMGESWVDGNQITIQMESKIDVQDLIRLN
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: 63159..109377

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VJF72_RS00370 60878..63178 - 2301 WP_029392471 F-type conjugative transfer protein TrbC -
VJF72_RS00375 63159..64277 - 1119 WP_029391999 DsbC family protein trbB
VJF72_RS00380 64274..65635 - 1362 WP_041498596 hypothetical protein trbA
VJF72_RS00385 65946..66029 + 84 WP_271298668 DinQ-like type I toxin DqlB -
VJF72_RS00390 66092..66268 - 177 WP_032172741 hypothetical protein -
VJF72_RS00395 66419..66886 - 468 WP_000598962 thermonuclease family protein -
VJF72_RS00400 67046..67669 + 624 WP_001155252 helix-turn-helix domain-containing protein -
VJF72_RS00405 67867..68082 - 216 WP_000266543 hypothetical protein -
VJF72_RS00410 68086..68454 - 369 WP_029391948 hypothetical protein -
VJF72_RS00415 68753..68995 - 243 WP_029391947 hypothetical protein -
VJF72_RS00420 69324..69476 + 153 WP_021532728 Hok/Gef family protein -
VJF72_RS00425 69473..69634 - 162 WP_021580032 hypothetical protein -
VJF72_RS00430 69790..69921 - 132 Protein_85 ethanolamine utilization protein EutE -
VJF72_RS00435 70016..70225 + 210 WP_000062946 HEAT repeat domain-containing protein -
VJF72_RS00440 70290..70943 - 654 WP_029391946 plasmid IncI1-type surface exclusion protein ExcA -
VJF72_RS00445 71031..73196 - 2166 WP_029391945 DotA/TraY family protein traY
VJF72_RS00450 73269..73838 - 570 WP_000650755 conjugal transfer protein TraX -
VJF72_RS00455 73835..75040 - 1206 WP_029391944 conjugal transfer protein TraW traW
VJF72_RS00460 75001..75618 - 618 WP_029391943 hypothetical protein traV
VJF72_RS00465 75618..78662 - 3045 WP_029391942 conjugal transfer protein traU
VJF72_RS00470 78838..79218 - 381 WP_000690886 hypothetical protein -
VJF72_RS00475 79218..79526 - 309 WP_029391941 hypothetical protein -
VJF72_RS00480 79722..80039 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
VJF72_RS00485 80036..80569 - 534 WP_001221666 lipocalin family protein -
VJF72_RS00490 80663..81808 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
VJF72_RS00495 82132..83394 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
VJF72_RS00500 83731..84549 - 819 WP_072132149 conjugal transfer protein TraT traT
VJF72_RS00505 84464..84715 - 252 WP_021532719 hypothetical protein -
VJF72_RS00510 84772..85170 - 399 WP_029391936 DUF6750 family protein traR
VJF72_RS00515 85217..85747 - 531 WP_000987022 conjugal transfer protein TraQ traQ
VJF72_RS00520 85744..86457 - 714 WP_021532717 conjugal transfer protein TraP traP
VJF72_RS00525 86454..87785 - 1332 WP_029391934 conjugal transfer protein TraO traO
VJF72_RS00530 87789..88763 - 975 WP_029391933 DotH/IcmK family type IV secretion protein traN
VJF72_RS00535 88774..89469 - 696 WP_029391932 DotI/IcmL family type IV secretion protein traM
VJF72_RS00540 89481..89831 - 351 WP_021532713 hypothetical protein traL
VJF72_RS00545 89848..93909 - 4062 WP_029391931 LPD7 domain-containing protein -
VJF72_RS00550 93973..94263 - 291 WP_000817799 hypothetical protein traK
VJF72_RS00555 94260..95408 - 1149 WP_000625247 plasmid transfer ATPase TraJ virB11
VJF72_RS00560 95392..96228 - 837 WP_029391930 type IV secretory system conjugative DNA transfer family protein traI
VJF72_RS00565 96225..96677 - 453 WP_001081199 DotD/TraH family lipoprotein -
VJF72_RS00570 96915..97046 + 132 WP_257792844 hypothetical protein -
VJF72_RS00575 97036..98238 - 1203 WP_029391929 conjugal transfer protein TraF -
VJF72_RS00580 98328..99149 - 822 WP_000804089 hypothetical protein traE
VJF72_RS00585 99400..99945 - 546 WP_029391928 hypothetical protein -
VJF72_RS00590 100064..100345 - 282 WP_029391927 hypothetical protein -
VJF72_RS00595 100386..101555 - 1170 WP_029391926 site-specific integrase -
VJF72_RS00600 101610..101969 + 360 WP_013307881 hypothetical protein -
VJF72_RS00605 101974..102363 - 390 Protein_120 phage tail protein -
VJF72_RS00610 102634..103080 - 447 WP_242647288 hypothetical protein -
VJF72_RS00615 103734..104981 - 1248 WP_119726051 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
VJF72_RS00620 104978..105685 - 708 WP_202110611 A24 family peptidase -
VJF72_RS00625 105645..106121 - 477 WP_029391914 lytic transglycosylase domain-containing protein virB1
VJF72_RS00630 106180..106716 - 537 WP_029391915 type 4 pilus major pilin -
VJF72_RS00635 106767..107867 - 1101 WP_029391916 type II secretion system F family protein -
VJF72_RS00640 107869..109377 - 1509 WP_021532701 ATPase, T2SS/T4P/T4SS family virB11
VJF72_RS00645 109474..110070 - 597 WP_029391917 hypothetical protein -
VJF72_RS00650 110238..110915 + 678 WP_001682408 IS66-like element accessory protein TnpA -
VJF72_RS00655 110915..111262 + 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
VJF72_RS00660 111282..112853 + 1572 WP_000381395 IS66-like element ISCro1 family transposase -
VJF72_RS00665 112774..113427 - 654 WP_323873519 hypothetical protein -
VJF72_RS00670 113476..113928 - 453 WP_029391918 type IV pilus biogenesis protein PilP -

Host bacterium

ID   12165 GenBank   NZ_CP141242
Plasmid name   PS184-R|unnamed Incompatibility group   IncB/O/K/Z
Plasmid size   122085 bp Coordinate of oriT [Strand]   57500..57572 [-]
Host baterium   Escherichia sp. PS184-R

Cargo genes

Drug resistance gene   tet(A), sul1, qacE, aac(3)-VIa, ant(3'')-Ia, blaCMY-2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -