Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119629
Name   oriT_SB17034|unnamed in_silico
Organism   Escherichia sp. SB17034
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP141245 (58836..58908 [-], 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_SB17034|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12406 GenBank   WP_029391987
Name   Relaxase_VJF86_RS00370_SB17034|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   7062 GenBank   WP_001291058
Name   WP_001291058_SB17034|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   14563 GenBank   WP_029392471
Name   trbC_VJF86_RS00375_SB17034|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: 64495..110713

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VJF86_RS00375 62214..64514 - 2301 WP_029392471 F-type conjugative transfer protein TrbC -
VJF86_RS00380 64495..65613 - 1119 WP_029391999 DsbC family protein trbB
VJF86_RS00385 65610..66971 - 1362 WP_041498596 hypothetical protein trbA
VJF86_RS00390 67282..67365 + 84 WP_271298668 DinQ-like type I toxin DqlB -
VJF86_RS00395 67428..67604 - 177 WP_032172741 hypothetical protein -
VJF86_RS00400 67755..68222 - 468 WP_000598962 thermonuclease family protein -
VJF86_RS00405 68382..69005 + 624 WP_001155252 helix-turn-helix domain-containing protein -
VJF86_RS00410 69203..69418 - 216 WP_000266543 hypothetical protein -
VJF86_RS00415 69422..69790 - 369 WP_029391948 hypothetical protein -
VJF86_RS00420 69802..69993 - 192 WP_000751583 hypothetical protein -
VJF86_RS00425 70089..70331 - 243 WP_029391947 hypothetical protein -
VJF86_RS00430 70330..70515 + 186 WP_024194018 hypothetical protein -
VJF86_RS00435 70660..70812 + 153 WP_021532728 Hok/Gef family protein -
VJF86_RS00440 70809..70970 - 162 WP_021580032 hypothetical protein -
VJF86_RS00445 71126..71257 - 132 Protein_88 ethanolamine utilization protein EutE -
VJF86_RS00450 71352..71561 + 210 WP_000062946 HEAT repeat domain-containing protein -
VJF86_RS00455 71626..72279 - 654 WP_029391946 plasmid IncI1-type surface exclusion protein ExcA -
VJF86_RS00460 72367..74532 - 2166 WP_029391945 DotA/TraY family protein traY
VJF86_RS00465 74605..75174 - 570 WP_000650755 conjugal transfer protein TraX -
VJF86_RS00470 75171..76376 - 1206 WP_029391944 conjugal transfer protein TraW traW
VJF86_RS00475 76337..76954 - 618 WP_029391943 hypothetical protein traV
VJF86_RS00480 76954..79998 - 3045 WP_029391942 conjugal transfer protein traU
VJF86_RS00485 80174..80554 - 381 WP_000690886 hypothetical protein -
VJF86_RS00490 80554..80862 - 309 WP_029391941 hypothetical protein -
VJF86_RS00495 81058..81375 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
VJF86_RS00500 81372..81905 - 534 WP_001221666 lipocalin family protein -
VJF86_RS00505 81999..83144 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
VJF86_RS00510 83468..84730 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
VJF86_RS00515 85067..85693 - 627 WP_001597015 hypothetical protein traT
VJF86_RS00520 85800..86051 - 252 WP_021532719 hypothetical protein -
VJF86_RS00525 86108..86506 - 399 WP_029391936 DUF6750 family protein traR
VJF86_RS00530 86553..87083 - 531 WP_000987022 conjugal transfer protein TraQ traQ
VJF86_RS00535 87080..87793 - 714 WP_021532717 conjugal transfer protein TraP traP
VJF86_RS00540 87790..89121 - 1332 WP_029391934 conjugal transfer protein TraO traO
VJF86_RS00545 89125..90099 - 975 WP_029391933 DotH/IcmK family type IV secretion protein traN
VJF86_RS00550 90110..90805 - 696 WP_029391932 DotI/IcmL family type IV secretion protein traM
VJF86_RS00555 90817..91167 - 351 WP_021532713 hypothetical protein traL
VJF86_RS00560 91184..95245 - 4062 WP_029391931 LPD7 domain-containing protein -
VJF86_RS00565 95309..95599 - 291 WP_000817799 hypothetical protein traK
VJF86_RS00570 95596..96744 - 1149 WP_000625247 plasmid transfer ATPase TraJ virB11
VJF86_RS00575 96728..97564 - 837 WP_029391930 type IV secretory system conjugative DNA transfer family protein traI
VJF86_RS00580 97561..98013 - 453 WP_001081199 DotD/TraH family lipoprotein -
VJF86_RS00585 98251..98382 + 132 WP_257792844 hypothetical protein -
VJF86_RS00590 98372..99574 - 1203 WP_029391929 conjugal transfer protein TraF -
VJF86_RS00595 99664..100485 - 822 WP_000804089 hypothetical protein traE
VJF86_RS00600 100736..101281 - 546 WP_029391928 hypothetical protein -
VJF86_RS00605 101400..101681 - 282 WP_029391927 hypothetical protein -
VJF86_RS00610 101722..102891 - 1170 WP_029391926 site-specific integrase -
VJF86_RS00615 102946..103218 + 273 WP_048227902 hypothetical protein -
VJF86_RS00620 103532..103921 + 390 Protein_123 phage tail protein -
VJF86_RS00625 103926..104264 - 339 WP_072106734 prepilin, shufflon protein A -
VJF86_RS00630 104759..105112 + 354 WP_096940545 shufflon protein C -
VJF86_RS00635 105109..106317 - 1209 WP_139552086 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
VJF86_RS00640 106314..107021 - 708 WP_202110611 A24 family peptidase -
VJF86_RS00645 106981..107457 - 477 WP_029391914 lytic transglycosylase domain-containing protein virB1
VJF86_RS00650 107516..108052 - 537 WP_029391915 type 4 pilus major pilin -
VJF86_RS00655 108103..109203 - 1101 WP_029391916 type II secretion system F family protein -
VJF86_RS00660 109205..110713 - 1509 WP_021532701 GspE/PulE family protein virB11
VJF86_RS00665 110810..111406 - 597 WP_029391917 hypothetical protein -
VJF86_RS00670 111502..112056 - 555 WP_021532699 hypothetical protein -
VJF86_RS00675 112105..112557 - 453 WP_029391918 type IV pilus biogenesis protein PilP -
VJF86_RS00680 112547..113842 - 1296 WP_021532697 type 4b pilus protein PilO2 -
VJF86_RS00685 113863..115482 - 1620 WP_021532696 PilN family type IVB pilus formation outer membrane protein -

Host bacterium

ID   20059 GenBank   NZ_CP141245
Plasmid name   SB17034|unnamed Incompatibility group   IncB/O/K/Z
Plasmid size   120714 bp Coordinate of oriT [Strand]   58836..58908 [-]
Host baterium   Escherichia sp. SB17034

Cargo genes

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