Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100958
Name   oriT_p95JB1B in_silico
Organism   Escherichia coli strain 95JB1
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP021337 (23968..24257 [+], 290 nt)
oriT length   290 nt
IRs (inverted repeats)      225..232, 235..242 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      251..252
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 290 nt

>oriT_p95JB1B
CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCCCCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAAGAGAAACTAATTTTTCATAAATCTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1028 GenBank   WP_000986985
Name   TraI_p95JB1B insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192047.53 Da        Isoelectric Point: 5.9267

>WP_000986985.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSTFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFTELGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLSASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIVGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

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

(575-627)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10893..21736

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EC95JB1_RS29120 (EC95JB1_B0009) 10893..13100 - 2208 WP_001369726 type IV conjugative transfer system coupling protein TraD virb4
EC95JB1_RS29125 (EC95JB1_B0010) 13353..14084 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
EC95JB1_RS29130 (EC95JB1_B0011) 14098..14607 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
EC95JB1_RS29135 (EC95JB1_B0012) 14604..17429 - 2826 WP_001007031 conjugal transfer mating-pair stabilization protein TraG traG
EC95JB1_RS29140 (EC95JB1_B0013) 17426..18025 - 600 Protein_12 conjugal transfer protein TraH -
EC95JB1_RS29145 18021..18176 - 156 Protein_13 DUF2689 domain-containing protein -
EC95JB1_RS29150 (EC95JB1_B0014) 18115..18705 - 591 WP_000002783 conjugal transfer pilus-stabilizing protein TraP -
EC95JB1_RS29155 (EC95JB1_B0015) 18695..20122 - 1428 WP_000146670 F-type conjugal transfer pilus assembly protein TraB traB
EC95JB1_RS29160 (EC95JB1_B0016) 20122..20850 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
EC95JB1_RS29165 (EC95JB1_B0017) 20837..21403 - 567 WP_000399788 type IV conjugative transfer system protein TraE traE
EC95JB1_RS29170 (EC95JB1_B0018) 21425..21736 - 312 WP_000012122 type IV conjugative transfer system protein TraL traL
EC95JB1_RS29175 (EC95JB1_B0019) 21751..22110 - 360 WP_000994781 type IV conjugative transfer system pilin TraA -
EC95JB1_RS29180 (EC95JB1_B0020) 22143..22538 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
EC95JB1_RS29185 (EC95JB1_B0021) 22637..23326 - 690 WP_000283373 conjugal transfer transcriptional regulator TraJ -
EC95JB1_RS29190 (EC95JB1_B0022) 23513..23896 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
EC95JB1_RS29195 24310..24819 + 510 Protein_23 transglycosylase SLT domain-containing protein -
EC95JB1_RS29200 (EC95JB1_B0025) 25116..25937 - 822 WP_001234469 DUF932 domain-containing protein -
EC95JB1_RS29205 (EC95JB1_B0026) 26057..26344 - 288 WP_000107535 hypothetical protein -
EC95JB1_RS30880 26369..26575 - 207 WP_000547973 hypothetical protein -

Host bacterium

ID   1416 GenBank   NZ_CP021337
Plasmid name   p95JB1B Incompatibility group   IncFII
Plasmid size   83138 bp Coordinate of oriT [Strand]   23968..24257 [+]
Host baterium   Escherichia coli strain 95JB1

Cargo genes

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