Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116928
Name   oriT_FDAARGOS_1502|unnamed1 in_silico
Organism   UNVERIFIED_ORG: Hafnia paralvei strain FDAARGOS_1502
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084665 (5149..6854 [+], 1706 nt)
oriT length   1706 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 1706 nt

>oriT_FDAARGOS_1502|unnamed1
GCCGTATGAATGACATCTATTTCCGTCCAATTCATCGAAACCAGTATTTTGAGGAAATGAAAGCATGATAAAGCAAATTAAAGTAATCATGTTGGCAGCAATAGTTACCGGATGTTCATCGCCACCTCCTCCCGTTCCTGTGGAGTGGGATAAAGCCGCTGCCCCATTAAATACCAGTTTACCGCAATGGAGTGACAATAACGTTATAGTCCCTTCCCCGACAGTTAACGGTAAATGGACATCATCAATCAGCGCACAAAGTTTCTACGATACAACATGGACTCCAGCAGTATTTTACGCAGTCGCCCATTCAACACGAATTGTCGTCACTGCACAATCAGGCACTGATTTCTTTAATGCCAAAAACTGGCTTCGCCAGAATGGCGCAAAAGGCGTTATTGAATACCAGCCTGTCTTTAATTGCCTGACGTGCAGAGAAACCACTATTTATTTCTCTCGCTAATCCATTTAAGCAACACAATCTAATAAGGATTTATCATGAAAAAAACCGTTATCGCGGCGGCTGTATTATGCCTGACCGCAGGAACGCCGATTTATTCCTTTGCCGCTGACCCGTGCGAAGTTGTTCTTTGCATGTACGGAAAAGCTACAGGTAATAGTGGTGGGAGTGAATGCAGTTCAGCAGAACGCGCATTTTTTAAAATAAACGCATTTAAAAAACACCATCGTTTTAATCCGGGTAAAACATTCGATATGCGAAAAGAATTTTTAGGGGAGTGCAAAGCCGCAGACCCTGAATCAATAAGCAAAATCCTTTCAAAATTTGGCAGAGTGAAAGGATAACTGACATATCCATTTTAATATGAGAGGTTCGAAATGATAAACGAAGATTTATTCATTAAGAATATACACTCAAAAAATCAGGACAGAATATCTGTAGCCCTGGTATATTACACGTTATCAAAAGAAGCCCACCGAGGTTGTGGGCTGTATTACGAAATATATGAAAGTTGTTTTATCGGTCTTTTGCGCGATCATCTTTCAGAACTTAATGAAGCTGACGCAAATAAATTAAGACGCTATGCCGAGAGTAAAGGTACGAAAATTGATGATGCGTCCTACAGTGAAGCACTGGAAGCTGAAAGGGAGTGCAGGGCTGAAATATACCGCGAGCAAATGTAATCACACAAAACAAAAGTGTATTGTACAATACACAGACTAACAGGCGACGGGGTTTTAAGGCTTCATTATTTTTGGCTTCAATTTCGAAGAAATTGTTAAGACGAAAAATAATGAAGTGGTACGCGGAAAGAAAATTCAATTTCGGAGAAATTGCTAATTTTCAGGAACCGCGCCCACCTGCGAACATTCGCCCACAGCGAATTGAGCAGGCCGGGGGGAGCCGCAAAAATTTTGCCGCCCCAGCGAGCAAAAAGGCACGCCCACGTGCCGTTTTTTGTGGGGGGCTTGCCCCGCACACCGTCGCAGCCAGGTAATATAACCCGCCCCAGCGGGGGATATTACCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCGATTTTTTCGAGCTTGCGAGGAAAAATAGGCTAAACGCAGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCAAGACGGTGTGCCGCCTTTGACCTTGGGGGTTTTGGCTCGGCGTCCAGCCGGGACATTACCCCCATGTGTCATGCAGTGAGGGCGTCCAGCCCGAACGTAATGGCACACGCCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   12626 GenBank   WP_023316385
Name   t4cp2_LA328_RS22130_FDAARGOS_1502|unnamed1 insolico UniProt ID   _
Length   578 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 578 a.a.        Molecular weight: 65637.82 Da        Isoelectric Point: 7.2144

>WP_023316385.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLLAGLTLPFIFHLPREERNNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKSLDNNILFRVPLWIMTIVFTAAGLIFHIAARRLLAGEIDNLKHRMIKKSKLERNT
RTDVRKVKELLPDPIEYNPLDYIDLKKGVFIGLNKDDQPQYITIKEFKTQHAAIIGTTGSGKGVTATVLL
YQAILLGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKLNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLRDLFNTDFVQSLREDVPAFCGELEEIALVNSINAKNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDSVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKVDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTSTELPRATKMFQVQVKKENIELLSFEYK
QATPEKNESQEHKPSINL

  Protein domains


Predicted by InterproScan.

Helicase HerA, central domain (DUF87)

(174-314)

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

(336-537)

  Protein structure



No available structure.



ID   12627 GenBank   WP_226229126
Name   t4cp2_LA328_RS22220_FDAARGOS_1502|unnamed1 insolico UniProt ID   _
Length   912 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 912 a.a.        Molecular weight: 103085.00 Da        Isoelectric Point: 7.2988

>WP_226229126.1 VirB3 family type IV secretion system protein [Hafnia paralvei]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGNPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKVL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(269-470)

Type IV secretory pathway, VirB3-like protein (VirB3)

(3-79)

TraG P-loop domain (P-loop_TraG)

(535-813)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 27..8807

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LA328_RS22085 (LA328_22085) 27..1097 + 1071 WP_023316380 type IV secretion system protein virB6
LA328_RS22090 (LA328_22090) 1189..1326 + 138 WP_000825479 hypothetical protein -
LA328_RS22095 (LA328_22095) 1319..2002 + 684 WP_023316381 type IV secretion system protein virB8
LA328_RS22100 (LA328_22100) 1999..2907 + 909 WP_077763931 P-type conjugative transfer protein VirB9 virB9
LA328_RS22105 (LA328_22105) 2951..4201 + 1251 WP_032152567 VirB10/TraB/TrbI family type IV secretion system protein virB10
LA328_RS22110 (LA328_22110) 4191..5216 + 1026 WP_226229132 P-type DNA transfer ATPase VirB11 virB11
LA328_RS22115 (LA328_22115) 5213..5611 + 399 WP_071841197 cag pathogenicity island Cag12 family protein -
LA328_RS22120 (LA328_22120) 5647..5952 + 306 WP_012457118 hypothetical protein -
LA328_RS22125 (LA328_22125) 5986..6291 + 306 WP_023316384 hypothetical protein -
LA328_RS22130 (LA328_22130) 7071..8807 + 1737 WP_023316385 type IV secretory system conjugative DNA transfer family protein virb4
LA328_RS22135 (LA328_22135) 8816..9571 + 756 WP_023316386 MobC family replication-relaxation protein -
LA328_RS22140 (LA328_22140) 9608..10081 + 474 WP_023316387 thermonuclease family protein -
LA328_RS22145 (LA328_22145) 10187..10483 + 297 WP_086814137 hypothetical protein -
LA328_RS22150 (LA328_22150) 10521..10754 - 234 WP_004178129 hypothetical protein -
LA328_RS22155 (LA328_22155) 10795..11442 - 648 WP_004178130 ParA family protein -
LA328_RS22160 (LA328_22160) 11646..12326 - 681 WP_023316389 hypothetical protein -
LA328_RS22165 (LA328_22165) 12829..13452 - 624 WP_023316390 hypothetical protein -

Host bacterium

ID   17361 GenBank   NZ_CP084665
Plasmid name   FDAARGOS_1502|unnamed1 Incompatibility group   IncFII
Plasmid size   23963 bp Coordinate of oriT [Strand]   5149..6854 [+]
Host baterium   UNVERIFIED_ORG: Hafnia paralvei strain FDAARGOS_1502

Cargo genes

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