Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104082
Name   oriT_pEA25_1 in_silico
Organism   Escherichia albertii strain BIA_25
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117616 (44017..44102 [-], 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_pEA25_1
AATTACATGATTTAAAACGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3018 GenBank   WP_273813309
Name   traI_PS046_RS23600_pEA25_1 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: 192496.10 Da        Isoelectric Point: 6.0524

>WP_273813309.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDLFTRLLEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQITFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMTEWLQT
LKETGFDIRAYRDAADQRAEIRTQTPGPASQDWPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPG
NGVIDRARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVAVHPEKSVPRTACYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVYGGDRLQAASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEPRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFTELGREIDA
QIKRGDLLHVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPERSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIHPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAEEKPDHP
DDKTEQAVREIAGQERDRAAISEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

AAA domain (AAA_30)

(969-1156)

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

(575-627)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   1282 GenBank   WP_161527390
Name   WP_161527390_pEA25_1 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: 14536.52 Da        Isoelectric Point: 4.7116

>WP_161527390.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia albertii]
MARVILYISNDVYDKVNAIVEQRRQEGARDKDISLSGTASMLLELGLRVYEAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   1283 GenBank   WP_072247434
Name   WP_072247434_pEA25_1 insolico UniProt ID   _
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8556.84 Da        Isoelectric Point: 10.7978

>WP_072247434.1 conjugal transfer relaxosome protein TraY [Escherichia albertii]
MSRNIIRPAPGNKVLLVLDDATNHKLLGARERSGRTKTNEVLVRLRDHLRRFPDFYNIDSIKEGTGKTDS
IIKDL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-57)


  Protein structure



No available structure.




T4CP

ID   2897 GenBank   WP_273813308
Name   traD_PS046_RS23585_pEA25_1 insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82932.69 Da        Isoelectric Point: 5.1048

>WP_273813308.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLMAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKSAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASLQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPREINPEMENRLSAVLAAREAEGRQMASLFEPDMPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPVSPVINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 43449..59362

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS046_RS23460 (PS046_23460) 39383..39946 + 564 WP_021548773 class I SAM-dependent methyltransferase -
PS046_RS23465 (PS046_23465) 40035..40457 - 423 Protein_43 hypothetical protein -
PS046_RS23470 (PS046_23470) 40736..41740 - 1005 WP_273813360 IS110 family transposase -
PS046_RS23475 (PS046_23475) 41924..42211 + 288 WP_085457081 hypothetical protein -
PS046_RS23480 (PS046_23480) 42332..43153 + 822 WP_032342235 DUF932 domain-containing protein -
PS046_RS23485 (PS046_23485) 43449..44051 - 603 WP_207610769 transglycosylase SLT domain-containing protein virB1
PS046_RS23490 (PS046_23490) 44374..44757 + 384 WP_161527390 conjugal transfer relaxosome DNA-binding protein TraM -
PS046_RS23495 (PS046_23495) 44952..45623 + 672 WP_059257109 conjugal transfer transcriptional regulator TraJ -
PS046_RS23500 (PS046_23500) 45761..45988 + 228 WP_072247434 conjugal transfer relaxosome protein TraY -
PS046_RS23505 (PS046_23505) 46021..46380 + 360 WP_059257108 type IV conjugative transfer system pilin TraA -
PS046_RS23510 (PS046_23510) 46395..46706 + 312 WP_000012118 type IV conjugative transfer system protein TraL traL
PS046_RS23515 (PS046_23515) 46728..47294 + 567 WP_059259957 type IV conjugative transfer system protein TraE traE
PS046_RS23520 (PS046_23520) 47307..48008 + 702 WP_273813362 type-F conjugative transfer system secretin TraK traK
PS046_RS23525 (PS046_23525) 48008..49435 + 1428 WP_273813352 F-type conjugal transfer pilus assembly protein TraB traB
PS046_RS23530 (PS046_23530) 49425..50009 + 585 WP_273813354 conjugal transfer pilus-stabilizing protein TraP -
PS046_RS23535 (PS046_23535) 49996..50316 + 321 WP_273813356 conjugal transfer protein TrbD -
PS046_RS23540 (PS046_23540) 50313..50825 + 513 WP_161527393 type IV conjugative transfer system lipoprotein TraV traV
PS046_RS23545 (PS046_23545) 50960..51022 + 63 Protein_59 conjugal transfer protein TraR -
PS046_RS23550 (PS046_23550) 51076..51753 + 678 WP_001339397 IS66-like element accessory protein TnpA -
PS046_RS23555 (PS046_23555) 51753..52100 + 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
PS046_RS23560 (PS046_23560) 52120..53691 + 1572 WP_273811869 IS66 family transposase -
PS046_RS23565 (PS046_23565) 53722..54213 + 492 Protein_63 complement resistance protein TraT -
PS046_RS23570 (PS046_23570) 54481..56052 - 1572 WP_273811869 IS66 family transposase -
PS046_RS23575 (PS046_23575) 56072..56419 - 348 WP_273813306 IS66 family insertion sequence element accessory protein TnpB -
PS046_RS23580 (PS046_23580) 56419..57096 - 678 WP_001339397 IS66-like element accessory protein TnpA -
PS046_RS23585 (PS046_23585) 57173..59362 + 2190 WP_273813308 type IV conjugative transfer system coupling protein TraD virb4
PS046_RS23590 (PS046_23590) 59371..59769 - 399 WP_059257082 tRNA(fMet)-specific endonuclease VapC -
PS046_RS23595 (PS046_23595) 59769..59996 - 228 WP_000450526 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   4521 GenBank   NZ_CP117616
Plasmid name   pEA25_1 Incompatibility group   IncFIB
Plasmid size   100741 bp Coordinate of oriT [Strand]   44017..44102 [-]
Host baterium   Escherichia albertii strain BIA_25

Cargo genes

Drug resistance gene   -
Virulence gene   gspG, gspH, vat
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -