Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103049
Name   oriT_pFAM22321 in_silico
Organism   Escherichia coli strain FAM22321
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU288634 (41881..41966 [-], 86 nt)
oriT length   86 nt
IRs (inverted repeats)      61..68, 73..80  (TTGGTGGT..ACCACCAA)
 27..34, 37..44  (GCAAAAAC..GTTTTTGC)
 8..14, 20..26  (TGATTTA..TAAATCA)
Location of nic site      53..54
Conserved sequence flanking the
  nic site    		  TGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_pFAM22321
AATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2280 GenBank   WP_172687633
Name   traI_HTG94_RS00460_pFAM22321 insolico UniProt ID   _
Length   1750 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1750 a.a.        Molecular weight: 190990.46 Da        Isoelectric Point: 5.6392

>WP_172687633.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPAMGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLQQRS
GETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVVIM
KEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEAQQKAML
KGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVMVPVLNT
ANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVTLYTPDK
IRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAITAHGAQ
GASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVLEPKPDR
EVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPL
TTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNP
GAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLPDGKTEQ
AVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQIERDMVRDLQKEKTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(968-1150)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-626)

DNA helicase TraI (TraI_C)

(1428-1551)


  Protein structure



No available structure.




Auxiliary protein

ID   938 GenBank   WP_001354030
Name   WP_001354030_pFAM22321 insolico UniProt ID   A0A734M5H3
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14508.47 Da        Isoelectric Point: 4.7116

>WP_001354030.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVILYISNDVYDKVNAIVEQRRQEGARDKDISVSGTASMLLELGLRVYEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A734M5H3

ID   939 GenBank   WP_000089263
Name   WP_000089263_pFAM22321 insolico UniProt ID   A0A3U3XJL9
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8541.74 Da        Isoelectric Point: 8.6796

>WP_000089263.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MSRNIIRPAPGNKVLLVLDDATNHKLLGARERSGRTKTNEVLVRLRDHLNRFPDFYNLDAIKEGAEETDS
IIKDL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-60)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U3XJL9


T4CP

ID   1982 GenBank   WP_000069777
Name   traC_HTG94_RS00360_pFAM22321 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: 99195.86 Da        Isoelectric Point: 6.1126

>WP_000069777.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(468-764)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.



ID   1983 GenBank   WP_000009330
Name   traD_HTG94_RS00455_pFAM22321 insolico UniProt ID   _
Length   744 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 744 a.a.        Molecular weight: 84607.33 Da        Isoelectric Point: 5.1644

>WP_000009330.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILIGLVLWVKISWQTFINGCIYWWCTSLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV
DMAAYEAWQQENHPDIQQHMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 41313..69429

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTG94_RS00245 37285..37719 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
HTG94_RS00250 37716..38478 + 763 Protein_48 plasmid SOS inhibition protein A -
HTG94_RS00510 38657..38806 + 150 Protein_49 plasmid maintenance protein Mok -
HTG94_RS00255 38748..38873 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HTG94_RS00500 39192..39488 - 297 Protein_51 hypothetical protein -
HTG94_RS00270 39788..40084 + 297 WP_001272251 hypothetical protein -
HTG94_RS00275 40195..41016 + 822 WP_001234445 DUF932 domain-containing protein -
HTG94_RS00280 41313..41915 - 603 WP_000243713 transglycosylase SLT domain-containing protein virB1
HTG94_RS00285 42238..42621 + 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
HTG94_RS00290 42815..43486 + 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
HTG94_RS00295 43623..43850 + 228 WP_000089263 conjugal transfer relaxosome protein TraY -
HTG94_RS00300 43883..44242 + 360 WP_001098992 type IV conjugative transfer system pilin TraA -
HTG94_RS00305 44257..44568 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
HTG94_RS00310 44590..45156 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
HTG94_RS00315 45143..45871 + 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
HTG94_RS00320 45871..47322 + 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
HTG94_RS00325 47312..47878 + 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
HTG94_RS00330 47865..48185 + 321 WP_001057307 conjugal transfer protein TrbD -
HTG94_RS00335 48182..48697 + 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
HTG94_RS00340 48832..49053 + 222 WP_001278683 conjugal transfer protein TraR -
HTG94_RS00345 49046..49522 + 477 WP_000549587 hypothetical protein -
HTG94_RS00350 49602..49820 + 219 WP_000556745 hypothetical protein -
HTG94_RS00355 49848..50195 + 348 WP_000836682 hypothetical protein -
HTG94_RS00360 50321..52951 + 2631 WP_000069777 type IV secretion system protein TraC virb4
HTG94_RS00365 52948..53334 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
HTG94_RS00370 53331..53963 + 633 WP_001203728 type-F conjugative transfer system protein TraW traW
HTG94_RS00375 53960..54952 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTG94_RS00380 54982..55287 + 306 WP_000224416 hypothetical protein -
HTG94_RS00385 55296..55934 + 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTG94_RS00390 55931..57781 + 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTG94_RS00395 57808..58065 + 258 WP_000864353 conjugal transfer protein TrbE -
HTG94_RS00400 58058..58801 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
HTG94_RS00405 58815..59159 + 345 WP_000556796 conjugal transfer protein TrbA -
HTG94_RS00410 59278..59562 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
HTG94_RS00415 59549..60094 + 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTG94_RS00420 60024..60371 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
HTG94_RS00425 60352..60744 + 393 WP_000660699 F-type conjugal transfer protein TrbF -
HTG94_RS00430 60731..62104 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
HTG94_RS00435 62101..64923 + 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
HTG94_RS00440 64939..65424 + 486 WP_000605870 hypothetical protein -
HTG94_RS00445 65473..66204 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HTG94_RS00450 66407..67144 + 738 WP_000199905 hypothetical protein -
HTG94_RS00455 67195..69429 + 2235 WP_000009330 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3492 GenBank   NZ_KU288634
Plasmid name   pFAM22321 Incompatibility group   IncFII
Plasmid size   78962 bp Coordinate of oriT [Strand]   41881..41966 [-]
Host baterium   Escherichia coli strain FAM22321

Cargo genes

Drug resistance gene   aac(3)-IIa, blaTEM-1B, blaCTX-M-14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -