Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101502
Name   oriT_p2165-1 in_silico
Organism   Escherichia coli strain GN02165
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JALJQH010000008 (144458..144543 [-], 86 nt)
oriT length   86 nt
IRs (inverted repeats)      61..68, 73..80  (TTGGTGGT..ACCACCAA)
 27..34, 37..44  (GCAAAAAC..GTTTTTGC)
 8..13, 21..26  (TGATTT..AAATCA)
Location of nic site      53..54
Conserved sequence flanking the
  nic site    		  GGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_p2165-1
AATTACATGATTTAAAACACAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   966 GenBank   WP_032152342
Name   traC_MWG53_RS26450_p2165-1 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: 99342.22 Da        Isoelectric Point: 6.7391

>WP_032152342.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVKASWLAKKNQARIDDVVNFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

Family of unknown function (DUF5934) (DUF5934)

(291-447)

TraG P-loop domain (P-loop_TraG)

(468-764)

  Protein structure



No available structure.



ID   967 GenBank   WP_000009324
Name   traD_MWG53_RS26540_p2165-1 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81528.14 Da        Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   968 GenBank   WP_001064245
Name   traC_MWG53_RS27245_p2165-1 insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99159.81 Da        Isoelectric Point: 5.8486

>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.



ID   969 GenBank   WP_000009324
Name   traD_MWG53_RS27335_p2165-1 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81528.14 Da        Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2651..20914

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MWG53_RS26415 (MWG53_26435) 1..203 + 203 Protein_0 conjugal transfer protein TraP -
MWG53_RS26420 (MWG53_26440) 190..509 + 320 Protein_1 DUF2689 domain-containing protein -
MWG53_RS26425 (MWG53_26445) 509..1026 + 518 Protein_2 type IV conjugative transfer system lipoprotein TraV -
MWG53_RS26430 (MWG53_26450) 1161..1382 + 222 WP_001278695 conjugal transfer protein TraR -
MWG53_RS26435 (MWG53_26455) 1375..1852 + 478 Protein_4 hypothetical protein -
MWG53_RS26440 (MWG53_26460) 1932..2150 + 219 WP_000556745 hypothetical protein -
MWG53_RS26445 (MWG53_26465) 2178..2525 + 348 WP_000836682 hypothetical protein -
MWG53_RS26450 (MWG53_26470) 2651..5281 + 2631 WP_032152342 type IV secretion system protein TraC virb4
MWG53_RS26455 (MWG53_26475) 5278..5664 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
MWG53_RS26460 (MWG53_26480) 5661..6293 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
MWG53_RS26465 (MWG53_26485) 6290..7282 + 993 WP_000830849 conjugal transfer pilus assembly protein TraU traU
MWG53_RS26470 (MWG53_26490) 7312..7617 + 306 WP_000224418 hypothetical protein -
MWG53_RS26475 (MWG53_26495) 7626..8264 + 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
MWG53_RS26480 (MWG53_26500) 8261..10111 + 1851 WP_000821860 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MWG53_RS26485 (MWG53_26505) 10138..10395 + 258 WP_000864329 conjugal transfer protein TrbE -
MWG53_RS26490 (MWG53_26510) 10388..11131 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
MWG53_RS26495 (MWG53_26515) 11145..11489 + 345 WP_000556796 conjugal transfer protein TrbA -
MWG53_RS26500 (MWG53_26520) 11608..11892 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
MWG53_RS26505 (MWG53_26525) 11879..12424 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MWG53_RS26510 (MWG53_26530) 12354..12701 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
MWG53_RS26515 (MWG53_26535) 12682..13074 + 393 WP_000660700 F-type conjugal transfer protein TrbF -
MWG53_RS26520 (MWG53_26540) 13061..14434 + 1374 WP_001535740 conjugal transfer pilus assembly protein TraH traH
MWG53_RS26525 (MWG53_26545) 14431..17256 + 2826 WP_268091492 conjugal transfer mating-pair stabilization protein TraG traG
MWG53_RS26530 (MWG53_26550) 17253..17762 + 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
MWG53_RS26535 (MWG53_26555) 17776..18508 + 733 Protein_24 conjugal transfer complement resistance protein TraT -
MWG53_RS26540 (MWG53_26560) 18761..20914 + 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
MWG53_RS26545 (MWG53_26565) 20923..21321 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
MWG53_RS26550 (MWG53_26570) 21321..21548 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Region 2: 143890..170112

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MWG53_RS27135 (MWG53_27160) 139887..140321 + 435 WP_000845928 conjugation system SOS inhibitor PsiB -
MWG53_RS27140 (MWG53_27165) 140318..141080 + 763 Protein_144 plasmid SOS inhibition protein A -
MWG53_RS27145 (MWG53_27170) 141254..141403 + 150 Protein_145 DUF5431 family protein -
MWG53_RS27150 (MWG53_27175) 141345..141470 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
MWG53_RS27155 (MWG53_27180) 141771..142067 - 297 Protein_147 hypothetical protein -
MWG53_RS27160 (MWG53_27185) 142137..142343 + 207 WP_000547965 hypothetical protein -
MWG53_RS27165 (MWG53_27190) 142368..142655 + 288 WP_000107546 hypothetical protein -
MWG53_RS27170 (MWG53_27195) 142774..143595 + 822 WP_001234475 DUF932 domain-containing protein -
MWG53_RS27175 (MWG53_27200) 143890..144492 - 603 WP_077248356 transglycosylase SLT domain-containing protein virB1
MWG53_RS27180 (MWG53_27205) 144832..145215 + 384 WP_001063020 conjugal transfer relaxosome DNA-binding protein TraM -
MWG53_RS27185 (MWG53_27210) 145407..146054 + 648 WP_000332520 conjugal transfer transcriptional regulator TraJ -
MWG53_RS27190 (MWG53_27215) 146190..146405 + 216 WP_001352842 conjugal transfer relaxosome protein TraY -
MWG53_RS27195 (MWG53_27220) 146448..146813 + 366 WP_000340282 type IV conjugative transfer system pilin TraA -
MWG53_RS27200 (MWG53_27225) 146828..147139 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
MWG53_RS27205 (MWG53_27230) 147161..147727 + 567 WP_000399790 type IV conjugative transfer system protein TraE traE
MWG53_RS27210 (MWG53_27235) 147714..148442 + 729 WP_001230813 type-F conjugative transfer system secretin TraK traK
MWG53_RS27215 (MWG53_27240) 148442..149869 + 1428 WP_000146676 F-type conjugal transfer pilus assembly protein TraB traB
MWG53_RS27220 (MWG53_27245) 149859..150449 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
MWG53_RS27225 (MWG53_27250) 150436..150633 + 198 WP_024179215 conjugal transfer protein TrbD -
MWG53_RS27230 (MWG53_27255) 150645..150896 + 252 WP_001038342 conjugal transfer protein TrbG -
MWG53_RS27235 (MWG53_27260) 150893..151408 + 516 WP_000809838 type IV conjugative transfer system lipoprotein TraV traV
MWG53_RS27240 (MWG53_27265) 151543..151764 + 222 WP_001278689 conjugal transfer protein TraR -
MWG53_RS27245 (MWG53_27270) 151924..154551 + 2628 WP_001064245 type IV secretion system protein TraC virb4
MWG53_RS27250 (MWG53_27275) 154548..154934 + 387 WP_000099691 type-F conjugative transfer system protein TrbI -
MWG53_RS27255 (MWG53_27280) 154931..155563 + 633 WP_001203717 type-F conjugative transfer system protein TraW traW
MWG53_RS27260 (MWG53_27285) 155560..156552 + 993 WP_000830183 conjugal transfer pilus assembly protein TraU traU
MWG53_RS27265 (MWG53_27290) 156561..157199 + 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
MWG53_RS27270 (MWG53_27295) 157196..159004 + 1809 WP_000821838 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MWG53_RS27275 (MWG53_27300) 159031..159288 + 258 WP_000864318 conjugal transfer protein TrbE -
MWG53_RS27280 (MWG53_27305) 159281..160024 + 744 WP_001030377 type-F conjugative transfer system pilin assembly protein TraF traF
MWG53_RS27285 (MWG53_27310) 160040..160387 + 348 WP_001287910 conjugal transfer protein TrbA -
MWG53_RS27290 (MWG53_27315) 160389..160703 - 315 WP_001324103 hypothetical protein -
MWG53_RS27295 (MWG53_27320) 160784..161068 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
MWG53_RS27300 (MWG53_27325) 161055..161600 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MWG53_RS27305 (MWG53_27330) 161530..161871 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
MWG53_RS27310 (MWG53_27335) 161858..162238 + 381 WP_001389370 F-type conjugal transfer protein TrbF -
MWG53_RS27315 (MWG53_27340) 162238..163611 + 1374 WP_001517790 conjugal transfer pilus assembly protein TraH traH
MWG53_RS27320 (MWG53_27345) 163608..166430 + 2823 WP_001007018 conjugal transfer mating-pair stabilization protein TraG traG
MWG53_RS27325 (MWG53_27350) 166446..166943 + 498 WP_000605857 entry exclusion protein -
MWG53_RS27330 (MWG53_27355) 166975..167706 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -
MWG53_RS27335 (MWG53_27360) 167959..170112 + 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
MWG53_RS27340 (MWG53_27365) 170121..170519 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
MWG53_RS27345 (MWG53_27370) 170519..170746 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1946 GenBank   NZ_JALJQH010000008
Plasmid name   p2165-1 Incompatibility group   IncFIC
Plasmid size   175550 bp Coordinate of oriT [Strand]   144458..144543 [-]
Host baterium   Escherichia coli strain GN02165

Cargo genes

Drug resistance gene   sitABCD
Virulence gene   vat, iroN, iroE, iroD, iroC, iroB, iucA, iucB, iucC, iutA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -