Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121607
Name   oriT_2014C-4356|unnamed2 in_silico
Organism   Escherichia albertii strain 2014C-4356
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP024284 (39512..39597 [-], 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    		  TGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_2014C-4356|unnamed2
AATTACATGATTTAAAACGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13627 GenBank   WP_099588202
Name   traI_CCF14_RS25205_2014C-4356|unnamed2 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192144.84 Da        Isoelectric Point: 5.9371

>WP_099588202.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPALQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGISKDDRLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSEDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   7511 GenBank   WP_021559009
Name   WP_021559009_2014C-4356|unnamed2 insolico UniProt ID   _
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14493.50 Da        Isoelectric Point: 5.0120

>WP_021559009.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVILYISNDVYDKVNAIVEQRRQEGARDKDISISGTASMLLELGLRVHQAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSVEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   7512 GenBank   WP_000089265
Name   WP_000089265_2014C-4356|unnamed2 insolico UniProt ID   A0A1E5M428
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8472.68 Da        Isoelectric Point: 9.9218

>WP_000089265.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacteriaceae]
MSRNIIRPAPGNKVLLVLDDATNHKLLGARERSGRTKTNEVLVRLRDHLSRFPDFYNLDAIKEGTGETDS
IIKDL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-60)


  Protein structure


Source ID Structure
AlphaFold DB A0A1E5M428


T4CP

ID   15928 GenBank   WP_099588201
Name   traD_CCF14_RS25200_2014C-4356|unnamed2 insolico UniProt ID   _
Length   774 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 774 a.a.        Molecular weight: 88101.09 Da        Isoelectric Point: 5.2364

>WP_099588201.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFINGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHEKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPA
GGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINVHRERGEDVEP
GDDF

  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   15929 GenBank   WP_053884563
Name   traC_CCF14_RS25500_2014C-4356|unnamed2 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: 99465.46 Da        Isoelectric Point: 6.6265

>WP_053884563.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-770)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 38944..59079

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CCF14_RS25390 34911..35345 + 435 WP_032217500 conjugation system SOS inhibitor PsiB -
CCF14_RS25395 35342..36104 + 763 Protein_44 plasmid SOS inhibition protein A -
CCF14_RS28310 36073..36261 - 189 WP_001299721 hypothetical protein -
CCF14_RS28885 36283..36432 + 150 Protein_46 plasmid maintenance protein Mok -
CCF14_RS25400 36374..36499 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
CCF14_RS28890 36719..36949 + 231 WP_001426396 hypothetical protein -
CCF14_RS28895 36947..37120 - 174 Protein_49 hypothetical protein -
CCF14_RS28515 37190..37396 + 207 WP_000547971 hypothetical protein -
CCF14_RS25420 37421..37708 + 288 WP_000107535 hypothetical protein -
CCF14_RS25425 37826..38647 + 822 WP_001234469 DUF932 domain-containing protein -
CCF14_RS25430 38944..39546 - 603 WP_000243703 transglycosylase SLT domain-containing protein virB1
CCF14_RS25440 39869..40252 + 384 WP_021559009 conjugal transfer relaxosome DNA-binding protein TraM -
CCF14_RS25445 40446..41117 + 672 WP_032083167 conjugal transfer transcriptional regulator TraJ -
CCF14_RS25450 41254..41481 + 228 WP_000089265 conjugal transfer relaxosome protein TraY -
CCF14_RS25455 41514..41879 + 366 WP_069723393 type IV conjugative transfer system pilin TraA -
CCF14_RS25460 41894..42205 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
CCF14_RS25465 42227..42793 + 567 WP_099588205 type IV conjugative transfer system protein TraE traE
CCF14_RS25470 42780..43508 + 729 WP_019842729 type-F conjugative transfer system secretin TraK traK
CCF14_RS25475 43508..44935 + 1428 WP_099588206 F-type conjugal transfer pilus assembly protein TraB traB
CCF14_RS25480 44925..45512 + 588 WP_099588207 conjugal transfer pilus-stabilizing protein TraP -
CCF14_RS25485 45499..45819 + 321 WP_001057280 conjugal transfer protein TrbD -
CCF14_RS25490 45816..46331 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
CCF14_RS25495 46466..46687 + 222 WP_001278689 conjugal transfer protein TraR -
CCF14_RS25500 46847..49474 + 2628 WP_053884563 type IV secretion system protein TraC virb4
CCF14_RS25505 49471..49857 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
CCF14_RS25510 49854..50486 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
CCF14_RS25515 50483..51475 + 993 WP_000830183 conjugal transfer pilus assembly protein TraU traU
CCF14_RS25520 51505..51810 + 306 WP_029397934 hypothetical protein -
CCF14_RS25525 51819..52457 + 639 WP_029397935 type-F conjugative transfer system pilin assembly protein TrbC trbC
CCF14_RS25530 52454..52825 + 372 WP_000056336 hypothetical protein -
CCF14_RS25535 52851..53273 + 423 WP_001229309 HNH endonuclease -
CCF14_RS25540 53270..55120 + 1851 WP_072855051 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CCF14_RS25545 55147..55404 + 258 WP_069722914 conjugal transfer protein TrbE -
CCF14_RS25550 55397..56140 + 744 WP_001749618 type-F conjugative transfer system pilin assembly protein TraF traF
CCF14_RS25555 56301..56537 + 237 WP_001346259 type-F conjugative transfer system pilin chaperone TraQ -
CCF14_RS25560 56524..57069 + 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CCF14_RS25565 56999..57340 + 342 WP_071528036 P-type conjugative transfer protein TrbJ -
CCF14_RS25570 57327..57719 + 393 WP_205883537 F-type conjugal transfer protein TrbF -
CCF14_RS25575 57706..59079 + 1374 WP_172819747 conjugal transfer pilus assembly protein TraH traH

Host bacterium

ID   22034 GenBank   NZ_CP024284
Plasmid name   2014C-4356|unnamed2 Incompatibility group   IncFII
Plasmid size   59626 bp Coordinate of oriT [Strand]   39512..39597 [-]
Host baterium   Escherichia albertii strain 2014C-4356

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -