Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100327
Name   oriT_pRA1 in_silico
Organism   Aeromonas hydrophila
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_012885 (48601..49151 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      62..69, 72..79  (AACCCGTT..ACCGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pRA1
GAGCAGAGCTATGTGTGACAAGAAGTATAGAGATTACGAGGTAGCCATCATGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAAGGCCAATCAGCAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAAAAGTATGAGGACCCGGCCAGAATAGGGGCATTTCTGGAAACCCTGATCACTGAAACTTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGTGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTTTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCTCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGTGTGAAAACTGTTTTAAGGAGAACCGACT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   398 GenBank   YP_002995557
Name   TraI_pRA1 insolico UniProt ID   C6GA16
Length   987 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109309.90 Da        Isoelectric Point: 4.8467

>YP_002995557.1 type IV secretion-like conjugative relaxase TraI (plasmid) [Aeromonas hydrophila]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLEIPDITEPEKQEEQPKPDFVPQEQNSLQDGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKPQQQKPEVDAGAGPEQKTKDKSLQQQPKEKQGNVVSLVEEQGRKPVQDP
EKQNVARLPKREAQPVAPKPKVEHEKELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB C6GA16


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 46735..71839

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS670_RS00320 42775..43008 - 234 WP_001191893 hypothetical protein -
HS670_RS00325 (pRA1_0058) 42990..43607 - 618 WP_012766323 hypothetical protein -
HS670_RS00330 (pRA1_0059) 43775..46738 + 2964 WP_012766324 MobH family relaxase -
HS670_RS00335 (pRA1_0060) 46735..48600 + 1866 WP_012766325 conjugative transfer system coupling protein TraD virb4
HS670_RS00340 (pRA1_0061) 48611..49195 + 585 WP_000332867 hypothetical protein -
HS670_RS00345 (pRA1_0062) 49152..49781 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
HS670_RS00350 (pRA1_0063) 49792..50238 + 447 WP_000122583 hypothetical protein -
HS670_RS00355 (pRA1_0064) 50248..50625 + 378 WP_000869260 hypothetical protein -
HS670_RS00360 (pRA1_0065) 50625..51287 + 663 WP_000045163 hypothetical protein -
HS670_RS00365 51466..51609 + 144 WP_023356351 hypothetical protein -
HS670_RS00370 (pRA1_0066) 51622..51969 + 348 WP_001102160 hypothetical protein -
HS670_RS00375 (pRA1_0067) 52112..52393 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
HS670_RS00380 (pRA1_0068) 52390..53016 + 627 WP_001049718 TraE/TraK family type IV conjugative transfer system protein traE
HS670_RS00385 (pRA1_0069) 53000..53917 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
HS670_RS00390 (pRA1_0070) 53914..55230 + 1317 WP_000595204 TraB/VirB10 family protein traB
HS670_RS00395 (pRA1_0071) 55227..55805 + 579 WP_000794193 type IV conjugative transfer system lipoprotein TraV traV
HS670_RS00400 (pRA1_0072) 55809..56201 + 393 WP_012766327 TraA family conjugative transfer protein -
HS670_RS00405 (pRA1_0073) 56402..61888 + 5487 WP_012766328 Ig-like domain-containing protein -
HS670_RS00410 (pRA1_0074) 62037..62744 + 708 WP_001259344 DsbC family protein -
HS670_RS00415 (pRA1_0075) 62741..65188 + 2448 WP_012766329 type IV secretion system protein TraC virb4
HS670_RS00420 (pRA1_0076) 65203..65520 + 318 WP_000364398 hypothetical protein -
HS670_RS00425 (pRA1_0077) 65517..66047 + 531 WP_000672456 S26 family signal peptidase -
HS670_RS00430 (pRA1_0078) 66010..67278 + 1269 WP_012766330 TrbC family F-type conjugative pilus assembly protein traW
HS670_RS00435 (pRA1_0079) 67275..67952 + 678 WP_012766331 EAL domain-containing protein -
HS670_RS00440 (pRA1_0080) 67946..68950 + 1005 WP_000911304 TraU family protein traU
HS670_RS00445 (pRA1_0081) 69101..71839 + 2739 WP_012766332 conjugal transfer mating pair stabilization protein TraN traN
HS670_RS00450 (pRA1_0082) 71878..72738 - 861 WP_012766333 hypothetical protein -
HS670_RS00455 (pRA1_0083) 72850..73500 - 651 WP_000796641 hypothetical protein -
HS670_RS00460 (pRA1_0084) 73791..74111 + 321 WP_012766334 hypothetical protein -
HS670_RS00465 (pRA1_0085) 74422..74607 + 186 WP_001186892 hypothetical protein -
HS670_RS00470 (pRA1_0086) 74828..75796 + 969 WP_001553257 AAA family ATPase -
HS670_RS00475 (pRA1_0087) 75808..76713 + 906 WP_012766335 hypothetical protein -

Host bacterium

ID   788 GenBank   NC_012885
Plasmid name   pRA1 Incompatibility group   IncA/C
Plasmid size   143963 bp Coordinate of oriT [Strand]   48601..49151 [+]
Host baterium   Aeromonas hydrophila

Cargo genes

Drug resistance gene   tet(D), sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -