Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115916
Name   oriT_pMQB_Silv108.1 in_silico
Organism   Raoultella ornithinolytica strain MQB_Silv_108
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104454 (32740..32840 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      32..38, 43..49  (TTACGAT..ATCGTAA)
 21..26, 38..43  (TTTTCA..TGAAAA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pMQB_Silv108.1
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATACCATTCCGTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10188 GenBank   WP_153244953
Name   mobF_N2J37_RS30460_pMQB_Silv108.1 insolico UniProt ID   _
Length   969 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108538.63 Da        Isoelectric Point: 9.7924

>WP_153244953.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINEYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDRIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(475-649)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)

TrwC relaxase (TrwC)

(14-287)


  Protein structure



No available structure.




T4CP

ID   11898 GenBank   WP_021536815
Name   t4cp2_N2J37_RS30465_pMQB_Silv108.1 insolico UniProt ID   _
Length   525 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 525 a.a.        Molecular weight: 58961.81 Da        Isoelectric Point: 9.3727

>WP_021536815.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MNEADKGKICLGALLFTPLVTWFIAAKALYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASITKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKCCLMRGKMQRVASNKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
GVSIVPTAKDSQTEEWNGYGRLLFTEVSRKVFNTSRNPTMEEVFYWTNEVPLEELEEYVRGTKAQALFAG
SGRAVGSARFVLSNKLAAHLKMPAGNFSIREWLEDPKGGNLYITWTDEMREALKSLISCWTDSIFSIVLG
MSKSNSRKIWTFIDELESLDYLPSLRDALTKGRKKGLRVVTGYQSYSQVISIYGSDVAETLLSNHRTSVV
MAAGRLGERTLEFVSKSLGEIEGEREKTGISRRFGQLGTKNTNDDHKRERAVTPTEIATLDDLTGYIAFP
GNLPVAKFETHHVNYTRSNPVPGVVLRESTAFAGM

  Protein domains


Predicted by InterproScan.

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

(111-499)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10840..32298

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N2J37_RS30320 (N2J37_30320) 8171..8740 - 570 WP_001749988 recombinase family protein -
N2J37_RS30325 (N2J37_30325) 9210..9455 + 246 WP_016240386 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
N2J37_RS30330 (N2J37_30330) 9467..9724 + 258 WP_088529430 hypothetical protein -
N2J37_RS30335 (N2J37_30335) 9714..10040 + 327 WP_000817647 endoribonuclease MazF -
N2J37_RS30340 (N2J37_30340) 10139..10864 - 726 WP_223307254 restriction endonuclease -
N2J37_RS30345 (N2J37_30345) 10840..11154 - 315 WP_000851068 hypothetical protein tfc15
N2J37_RS30350 (N2J37_30350) 11157..11474 - 318 WP_153244963 TrbM/KikA/MpfK family conjugal transfer protein -
N2J37_RS30355 (N2J37_30355) 11480..11917 - 438 WP_153244962 hypothetical protein -
N2J37_RS30360 (N2J37_30360) 11929..12165 - 237 WP_021536804 H-NS family nucleoid-associated regulatory protein -
N2J37_RS30365 (N2J37_30365) 12228..12968 + 741 WP_021536805 lytic transglycosylase domain-containing protein virB1
N2J37_RS30370 (N2J37_30370) 12991..13308 + 318 WP_218374601 hypothetical protein -
N2J37_RS30375 (N2J37_30375) 13292..13582 + 291 WP_153244960 TrbC/VirB2 family protein virB2
N2J37_RS30380 (N2J37_30380) 13632..13946 + 315 WP_001053888 type IV secretion system protein VirB3 virB3
N2J37_RS30385 (N2J37_30385) 13946..16576 + 2631 WP_153244959 VirB4 family type IV secretion/conjugal transfer ATPase virb4
N2J37_RS30390 (N2J37_30390) 16586..17293 + 708 WP_047929021 type IV secretion system protein virB5
N2J37_RS30395 (N2J37_30395) 17297..17533 + 237 WP_000733633 EexN family lipoprotein -
N2J37_RS30400 (N2J37_30400) 17552..18595 + 1044 WP_260990885 type IV secretion system protein virB6
N2J37_RS30405 (N2J37_30405) 18690..18860 + 171 WP_021536809 hypothetical protein -
N2J37_RS30410 (N2J37_30410) 18863..19579 + 717 WP_000914645 virB8 family protein virB8
N2J37_RS30415 (N2J37_30415) 19582..20469 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
N2J37_RS30420 (N2J37_30420) 20466..21620 + 1155 WP_021536811 type IV secretion system protein VirB10 virB10
N2J37_RS30425 (N2J37_30425) 21613..22644 + 1032 WP_260990886 P-type DNA transfer ATPase VirB11 virB11
N2J37_RS30430 (N2J37_30430) 22607..23161 + 555 WP_000616063 phospholipase D family protein -
N2J37_RS30435 (N2J37_30435) 23174..23350 + 177 WP_260990880 hypothetical protein -
N2J37_RS30440 (N2J37_30440) 23366..26263 - 2898 WP_023307208 Tn3-like element Tn5403 family transposase -
N2J37_RS30445 (N2J37_30445) 26358..26963 + 606 WP_000509966 recombinase family protein -
N2J37_RS30450 (N2J37_30450) 27020..27325 + 306 WP_260990887 GNAT family N-acetyltransferase -
N2J37_RS30455 (N2J37_30455) 27337..27531 + 195 WP_046082581 hypothetical protein -
N2J37_RS30460 (N2J37_30460) 27809..30718 - 2910 WP_153244953 MobF family relaxase -
N2J37_RS30465 (N2J37_30465) 30721..32298 - 1578 WP_021536815 type IV secretion system DNA-binding domain-containing protein virb4
N2J37_RS30470 (N2J37_30470) 32291..32638 - 348 WP_001139329 hypothetical protein -
N2J37_RS30475 (N2J37_30475) 33070..33513 + 444 WP_153244952 hypothetical protein -
N2J37_RS30480 (N2J37_30480) 33526..34236 + 711 WP_021544361 StbB family protein -
N2J37_RS30485 (N2J37_30485) 34238..34606 + 369 WP_015345231 plasmid stabilization protein StbC -
N2J37_RS30490 (N2J37_30490) 34820..35590 + 771 WP_021536818 SprT-like domain-containing protein -
N2J37_RS30495 (N2J37_30495) 35631..35819 - 189 WP_001001010 hypothetical protein -
N2J37_RS30500 (N2J37_30500) 35824..36081 - 258 WP_021536820 hypothetical protein -
N2J37_RS30505 (N2J37_30505) 36154..36309 - 156 WP_021536821 hypothetical protein -
N2J37_RS30510 (N2J37_30510) 36462..36704 - 243 WP_218374599 hypothetical protein -
N2J37_RS30515 (N2J37_30515) 36759..37046 - 288 WP_001098466 hypothetical protein -

Host bacterium

ID   16349 GenBank   NZ_CP104454
Plasmid name   pMQB_Silv108.1 Incompatibility group   -
Plasmid size   44010 bp Coordinate of oriT [Strand]   32740..32840 [+]
Host baterium   Raoultella ornithinolytica strain MQB_Silv_108

Cargo genes

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