Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113979
Name   oriT_pConj83k in_silico
Organism   Salmonella enterica subsp. enterica serovar Anatum strain R13.0957_pConj83k
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK033501 (70889..70989 [+], 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_pConj83k
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8977 GenBank   WP_049286431
Name   mobF_HTU29_RS00490_pConj83k insolico UniProt ID   A0A3G4RLH4
Length   969 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108469.56 Da        Isoelectric Point: 9.7925

>WP_049286431.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITTGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVTMPPTDRANALIITGTNDSRKKINAYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
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


Source ID Structure
AlphaFold DB A0A3G4RLH4


T4CP

ID   10415 GenBank   WP_021536815
Name   t4cp2_HTU29_RS00495_pConj83k 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: 52657..70447

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU29_RS00345 48300..49184 - 885 WP_063448731 replication protein RepA -
HTU29_RS00350 49217..49801 - 585 WP_021544366 recombinase family protein -
HTU29_RS00355 50027..50221 + 195 WP_000468405 hypothetical protein -
HTU29_RS00360 50253..50498 + 246 WP_021536799 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
HTU29_RS00365 50539..50715 - 177 WP_172686111 hypothetical protein -
HTU29_RS00370 50757..51083 + 327 WP_016240388 endoribonuclease MazF -
HTU29_RS00375 51092..51529 + 438 WP_042041938 hypothetical protein -
HTU29_RS00380 51554..51790 - 237 WP_042041953 Hha/YmoA family nucleoid-associated regulatory protein -
HTU29_RS00385 51956..52681 - 726 WP_224132007 restriction endonuclease -
HTU29_RS00390 52657..52971 - 315 WP_110962185 hypothetical protein tfc15
HTU29_RS00395 52974..53291 - 318 WP_059324879 TrbM/KikA/MpfK family conjugal transfer protein -
HTU29_RS00400 53296..53733 - 438 WP_023187074 hypothetical protein -
HTU29_RS00405 53745..53981 - 237 WP_021536804 H-NS family nucleoid-associated regulatory protein -
HTU29_RS00410 54044..54784 + 741 WP_059324881 lytic transglycosylase domain-containing protein virB1
HTU29_RS00415 54807..55124 + 318 WP_001267114 hypothetical protein -
HTU29_RS00420 55108..55398 + 291 WP_023223518 TrbC/VirB2 family protein virB2
HTU29_RS00425 55450..55764 + 315 WP_001053888 type IV secretion system protein VirB3 virB3
HTU29_RS00430 55764..58394 + 2631 WP_042041932 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTU29_RS00435 58404..59111 + 708 WP_023187073 type IV secretion system protein virB5
HTU29_RS00440 59115..59351 + 237 WP_000733633 EexN family lipoprotein -
HTU29_RS00445 59370..60413 + 1044 WP_021536808 type IV secretion system protein virB6
HTU29_RS00450 60463..60678 + 216 WP_087871672 hypothetical protein -
HTU29_RS00455 60681..61397 + 717 WP_000914645 virB8 family protein virB8
HTU29_RS00460 61400..62287 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTU29_RS00465 62284..63438 + 1155 WP_001224296 type IV secretion system protein VirB10 virB10
HTU29_RS00470 63431..64462 + 1032 WP_000138004 P-type DNA transfer ATPase VirB11 virB11
HTU29_RS00475 64425..64979 + 555 WP_000616063 phospholipase D family protein -
HTU29_RS00480 64980..65474 + 495 WP_052765801 GNAT family N-acetyltransferase -
HTU29_RS00485 65486..65680 + 195 WP_110962186 hypothetical protein -
HTU29_RS00490 65958..68867 - 2910 WP_049286431 MobF family relaxase -
HTU29_RS00495 68870..70447 - 1578 WP_021536815 type IV secretion system DNA-binding domain-containing protein virb4
HTU29_RS00500 70440..70820 - 381 WP_015345229 hypothetical protein -
HTU29_RS00505 71274..71708 + 435 WP_045348531 hypothetical protein -
HTU29_RS00510 71721..72431 + 711 WP_000686338 StbB family protein -
HTU29_RS00515 72433..72801 + 369 WP_049286430 plasmid stabilization protein StbC -
HTU29_RS00520 72973..73677 - 705 WP_001067855 IS6-like element IS26 family transposase -
HTU29_RS00525 73743..73964 + 222 Protein_104 tyrosine-type recombinase/integrase -
HTU29_RS00530 74261..74818 + 558 WP_001162012 recombinase family protein -

Host bacterium

ID   14414 GenBank   NZ_MK033501
Plasmid name   pConj83k Incompatibility group   -
Plasmid size   83425 bp Coordinate of oriT [Strand]   70889..70989 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Anatum strain R13.0957_pConj83k

Cargo genes

Drug resistance gene   sul1, blaDHA-1, qnrB4, aadA2, lnu(F), sul2, aph(3'')-Ib, aph(6)-Id, tet(A), floR, dfrA23
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -