Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116287
Name   oriT_Ecl_20_981|unnamed1 in_silico
Organism   Enterobacter roggenkampii strain Ecl_20_981
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP048651 (136663..136765 [-], 103 nt)
oriT length   103 nt
IRs (inverted repeats)      89..94, 96..101  (AAATAA..TTATTT)
 28..33, 40..45  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 103 nt

>oriT_Ecl_20_981|unnamed1
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10418 GenBank   WP_188074406
Name   traI_G3T53_RS24930_Ecl_20_981|unnamed1 insolico UniProt ID   _
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189176.42 Da        Isoelectric Point: 6.1111

>WP_188074406.1 conjugative transfer relaxase/helicase TraI [Enterobacter roggenkampii]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMHT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNILVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGMLHVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPVGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMNKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKDVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAVFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLAGEARPWN
PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV
RDVVRDMERIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1430-1551)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(573-625)

AAA domain (AAA_30)

(967-1152)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(631-710)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




T4CP

ID   12162 GenBank   WP_071667446
Name   traD_G3T53_RS24935_Ecl_20_981|unnamed1 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 82349.90 Da        Isoelectric Point: 5.0372

>WP_071667446.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVIAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQLQQPAPCAADTASASASVAGAAGTGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAWQ
AEQDELSPQERQRREEVNINVYRAPEKDLEPGGYI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   12163 GenBank   WP_008324134
Name   traC_G3T53_RS25005_Ecl_20_981|unnamed1 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 98841.51 Da        Isoelectric Point: 5.7676

>WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(470-765)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 112216..137313

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G3T53_RS24935 (G3T53_24945) 112216..114423 - 2208 WP_071667446 type IV conjugative transfer system coupling protein TraD virb4
G3T53_RS24940 (G3T53_24950) 114795..115520 - 726 WP_140157827 conjugal transfer complement resistance protein TraT -
G3T53_RS24945 (G3T53_24955) 115596..116093 - 498 WP_063132060 hypothetical protein -
G3T53_RS24950 (G3T53_24960) 116112..118934 - 2823 WP_060446835 conjugal transfer mating-pair stabilization protein TraG traG
G3T53_RS24955 (G3T53_24965) 118934..120310 - 1377 WP_086551404 conjugal transfer pilus assembly protein TraH traH
G3T53_RS24960 (G3T53_24970) 120307..120852 - 546 WP_060446834 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
G3T53_RS24965 (G3T53_24975) 120842..121090 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
G3T53_RS24970 (G3T53_24980) 121107..121850 - 744 WP_060446849 type-F conjugative transfer system pilin assembly protein TraF traF
G3T53_RS24975 (G3T53_24985) 121887..122075 - 189 WP_025759809 conjugal transfer protein TrbE -
G3T53_RS24980 (G3T53_24990) 122107..123987 - 1881 WP_086551402 type-F conjugative transfer system mating-pair stabilization protein TraN traN
G3T53_RS24985 (G3T53_24995) 123984..124613 - 630 WP_086551401 type-F conjugative transfer system pilin assembly protein TrbC trbC
G3T53_RS24990 (G3T53_25000) 124630..125616 - 987 WP_188074411 conjugal transfer pilus assembly protein TraU traU
G3T53_RS24995 (G3T53_25005) 125619..126266 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
G3T53_RS25000 (G3T53_25010) 126266..126613 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
G3T53_RS25005 (G3T53_25015) 126610..129240 - 2631 WP_008324134 type IV secretion system protein TraC virb4
G3T53_RS25010 (G3T53_25020) 129233..129799 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
G3T53_RS25015 (G3T53_25025) 129789..130190 - 402 WP_008324137 hypothetical protein -
G3T53_RS25020 (G3T53_25030) 130174..130359 - 186 WP_008324139 hypothetical protein -
G3T53_RS25025 (G3T53_25035) 130363..130587 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
G3T53_RS25030 (G3T53_25040) 130707..131246 - 540 WP_008324154 type IV conjugative transfer system lipoprotein TraV traV
G3T53_RS25035 (G3T53_25045) 131268..132662 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
G3T53_RS25040 (G3T53_25050) 132649..133392 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
G3T53_RS25045 (G3T53_25055) 133379..133945 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
G3T53_RS25050 (G3T53_25060) 133960..134265 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
G3T53_RS25055 (G3T53_25065) 134416..134766 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
G3T53_RS25060 (G3T53_25070) 134824..135048 - 225 WP_008324165 TraY domain-containing protein -
G3T53_RS25065 (G3T53_25075) 135135..135824 - 690 WP_008324166 hypothetical protein -
G3T53_RS25070 (G3T53_25080) 136013..136405 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
G3T53_RS25075 (G3T53_25085) 136837..137313 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
G3T53_RS25080 (G3T53_25090) 137360..137890 - 531 WP_008324170 antirestriction protein -
G3T53_RS25085 (G3T53_25095) 138517..139347 - 831 WP_008324171 N-6 DNA methylase -
G3T53_RS25090 (G3T53_25100) 139390..139653 - 264 WP_008324174 hypothetical protein -
G3T53_RS25095 (G3T53_25105) 139739..140083 - 345 WP_008324177 hypothetical protein -
G3T53_RS25100 (G3T53_25110) 140130..140417 - 288 WP_008324178 hypothetical protein -
G3T53_RS25105 (G3T53_25115) 140471..140845 - 375 WP_008324180 hypothetical protein -
G3T53_RS25110 (G3T53_25120) 141472..141831 - 360 WP_008324181 hypothetical protein -
G3T53_RS25115 (G3T53_25125) 141893..142216 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   16720 GenBank   NZ_CP048651
Plasmid name   Ecl_20_981|unnamed1 Incompatibility group   IncFIB
Plasmid size   161986 bp Coordinate of oriT [Strand]   136663..136765 [-]
Host baterium   Enterobacter roggenkampii strain Ecl_20_981

Cargo genes

Drug resistance gene   mcr-10
Virulence gene   -
Metal resistance gene   terE, terD, terC, terB, terA, terZ, terW
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -