Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100625
Name   oriT_PCN061p4 in_silico
Organism   Escherichia coli PCN061
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP006640 (21166..21519 [+], 354 nt)
oriT length   354 nt
IRs (inverted repeats)      IR1: 145..155, 161..171  (ATGTGTAATAC..GTATTACACAT)
  IR2: 208..218, 222..232  (GCATTTACGAT..ATCGTAATTGC)
  IR3: 335..343, 346..354  (CTTTCATGC..GCATGAAAG)
Location of nic site      241..242
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 354 nt

>oriT_PCN061p4
ACTCCGATACGTTGCCCTCCGAACGGTATTCAAGGTCGATTTTTTGCTCTTCGGTCACTCTTAAACTGATAGATGGCATAGGTTTCCTTTGTGTAATACAGATGTAATACATACAAATCTAGCATATATGCGGCTTAGAACCACATGTGTAATACGTTGCGTATTACACATTAAAACACAAATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGGGAGAAACAGCTCTTACACACGCATAAAACGCTCAAAAAGCGTTCACATTCACCACTTTCATGCTTGCATGAAAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   697 GenBank   WP_033544595
Name   Relaxase_PCN061p4 insolico UniProt ID   _
Length   968 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 968 a.a.        Molecular weight: 108346.45 Da        Isoelectric Point: 9.7636

>WP_033544595.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVSLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHELKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRSKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINEYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKSVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDTREKGRDKAEPTQDKGNARPKDKGHEKNNDDRALRL

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(14-287)

AAA domain (AAA_30)

(475-649)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 4211..20904

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PCN061_RS23235 (PCN061_p402) 239..484 + 246 WP_033544576 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
PCN061_RS23240 (PCN061_p403) 484..1026 + 543 WP_047929020 hypothetical protein -
PCN061_RS23245 (PCN061_p404) 996..1292 + 297 WP_226426392 hypothetical protein -
PCN061_RS23250 (PCN061_p405) 1282..1608 + 327 WP_000817647 endoribonuclease MazF -
PCN061_RS30090 (PCN061_p407) 1722..2123 - 402 WP_306415735 Hha/YmoA family nucleoid-associated regulatory protein -
PCN061_RS23265 (PCN061_p408) 2124..2849 - 726 WP_226426391 restriction endonuclease -
PCN061_RS23270 (PCN061_p409) 2825..3139 - 315 WP_033544579 hypothetical protein -
PCN061_RS23275 (PCN061_p410) 3143..3364 - 222 WP_226426390 TrbM/KikA/MpfK family conjugal transfer protein -
PCN061_RS23280 (PCN061_p411) 3463..3900 - 438 WP_033544581 hypothetical protein -
PCN061_RS28125 (PCN061_p412) 3915..4148 - 234 WP_033544582 H-NS histone family protein -
PCN061_RS23290 (PCN061_p413) 4211..4951 + 741 WP_033544583 lytic transglycosylase domain-containing protein virB1
PCN061_RS23295 (PCN061_p414) 4974..5291 + 318 WP_050008675 hypothetical protein -
PCN061_RS23300 (PCN061_p415) 5275..5565 + 291 WP_033544584 TrbC/VirB2 family protein virB2
PCN061_RS23305 (PCN061_p416) 5617..5931 + 315 WP_033544585 VirB3 family type IV secretion system protein virB3
PCN061_RS23310 (PCN061_p417) 6231..8561 + 2331 WP_226426389 VirB4 family type IV secretion/conjugal transfer ATPase -
PCN061_RS23315 (PCN061_p418) 8571..9278 + 708 WP_047929021 type IV secretion system protein virB5
PCN061_RS23320 (PCN061_p419) 9282..9518 + 237 WP_033544588 EexN family lipoprotein -
PCN061_RS23325 (PCN061_p420) 9573..10580 + 1008 WP_170913282 type IV secretion system protein virB6
PCN061_RS29205 (PCN061_p421) 10648..10845 + 198 WP_158414531 hypothetical protein -
PCN061_RS23330 (PCN061_p422) 10848..11564 + 717 WP_000914645 type IV secretion system protein virB8
PCN061_RS23335 (PCN061_p423) 11567..12454 + 888 WP_033544590 TrbG/VirB9 family P-type conjugative transfer protein virB9
PCN061_RS23340 (PCN061_p424) 12451..13605 + 1155 WP_050008676 type IV secretion system protein VirB10 virB10
PCN061_RS23345 (PCN061_p425) 13598..14629 + 1032 WP_033544592 P-type DNA transfer ATPase VirB11 virB11
PCN061_RS23350 (PCN061_p426) 14592..15146 + 555 WP_042036424 phospholipase D family protein -
PCN061_RS23355 (PCN061_p427) 15159..15641 + 483 WP_033544604 GNAT family protein -
PCN061_RS23360 (PCN061_p428) 15653..15847 + 195 WP_000529710 hypothetical protein -
PCN061_RS23365 (PCN061_p429) 16121..16408 - 288 WP_033544594 hypothetical protein -
PCN061_RS23370 (PCN061_p430) 16418..19324 - 2907 WP_033544595 MobF family relaxase -
PCN061_RS23375 (PCN061_p431) 19327..20904 - 1578 WP_047929022 type IV secretion system DNA-binding domain-containing protein virb4
PCN061_RS23380 (PCN061_p432) 20897..21244 - 348 WP_047929023 hypothetical protein -
PCN061_RS24910 (PCN061_p433) 21729..22163 + 435 WP_053059852 hypothetical protein -
PCN061_RS23390 (PCN061_p434) 22176..22886 + 711 WP_047929024 StbB family protein -
PCN061_RS23395 (PCN061_p435) 22888..23256 + 369 WP_015345231 plasmid stabilization protein StbC -
PCN061_RS23400 (PCN061_p437) 23470..24240 + 771 WP_039026342 SprT-like domain-containing protein -
PCN061_RS29210 (PCN061_p438) 24359..24514 - 156 WP_021536821 hypothetical protein -
PCN061_RS23405 (PCN061_p439) 24667..24909 - 243 WP_042036420 hypothetical protein -
PCN061_RS23410 (PCN061_p440) 24945..25232 - 288 WP_001098466 hypothetical protein -

Host bacterium

ID   1085 GenBank   NZ_CP006640
Plasmid name   PCN061p4 Incompatibility group   _
Plasmid size   34692 bp Coordinate of oriT [Strand]   21166..21519 [+]
Host baterium   Escherichia coli PCN061

Cargo genes

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