Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200511
Name   oriT_Tn6198 in_silico
Organism   Listeria monocytogenes strain TTH-2007
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   JX120102 (5792..5924 [+], 133 nt)
oriT length   133 nt
IRs (inverted repeats)      65..70, 83..88  (AAATCC..GGATTT)
 6..12, 23..29  (ACCCCCC..GGGGGGT)
Location of nic site      75..76
Conserved sequence flanking the
  nic site    		  TTTGGTTACA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 133 nt

>oriT_Tn6198
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14565 GenBank   AGC70174
Name   Rep_trans_-_Tn6198 insolico UniProt ID   _
Length   329 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 329 a.a.        Molecular weight: 39099.72 Da        Isoelectric Point: 7.0754

>AGC70174.1 hypothetical protein [Listeria monocytogenes]
MLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGRGC
RQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRSGE
LVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLLVY
DNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQVAP
TLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK

  Protein domains


Predicted by InterproScan.

Rolling Circle replication initiation protein N-terminal domain (Rol_Rep_N)

(2-89)

Replication initiation factor (Rep_trans)

(97-301)


  Protein structure



No available structure.




Auxiliary protein

ID   7935 GenBank   AGC70191
Name   AGC70191_Tn6198 insolico UniProt ID   _
Length   405 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 405 a.a.        Molecular weight: 47021.92 Da        Isoelectric Point: 9.7978

>AGC70191.1 integrase [Listeria monocytogenes]
MSEKRRDNKGRILKTGESQRKDGRYLYKYIDSFGEPQFVYSWKLVATDRVPAGKRDCISLREKIAELQKD
IHDGIDVVGKKMTLCQLYAKQNAQRPKVRKNTETGRKYLMDILKKDKLGVRSIDSIKPSDAKEWAIRMSE
NGYAYQTINNYKRSLKASFYIAIQDDCVRKNPFDFQLKAVLDDDTVPKTVLTEEQEEKLLAFAKADKTYS
KNYDEILILLKTGLRISEFGGLTLPDLDFENRLVNIDHQLLRDTEIGYYIETPKTKSGERQVPMVEEAYQ
AFKRVLANRKNDKRVEIDGYSDFLFLNRKNYPKVASDYNGMMKGLVKKYNKYNEDKLPHITPHSLRHTFC
TNYANAGMNPKALQYIMGHANIAMTLNYYAHATFDSAMAEMKRLNKEKQQERLVA

  Protein domains


Predicted by InterproScan.

Phage integrase family (Phage_integrase)

(190-383)

DNA binding domain of tn916 integrase (Integrase_DNA)

(1-71)


  Protein structure



No available structure.




T4CP

ID   17182 GenBank   AGC70173
Name   tcpA_-_Tn6198 insolico UniProt ID   _
Length   461 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53370.27 Da        Isoelectric Point: 9.0687

>AGC70173.1 hypothetical protein [Listeria monocytogenes]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3627..15036

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Locus_0 200..319 + 120 AGC70167 hypothetical protein -
Locus_1 578..814 + 237 AGC70168 hypothetical protein -
Locus_2 821..2773 + 1953 AGC70169 hypothetical protein -
Locus_3 2845..3342 - 498 AGC70170 dihydrofolate reductase -
Locus_4 3627..3941 + 315 AGC70171 hypothetical protein orf23
Locus_5 3957..4343 + 387 AGC70172 hypothetical protein orf23
Locus_6 4372..5757 + 1386 AGC70173 hypothetical protein virb4
Locus_7 6151..7140 + 990 AGC70174 hypothetical protein -
Locus_8 7183..7404 + 222 AGC70175 hypothetical protein orf19
Locus_9 7521..8018 + 498 AGC70176 hypothetical protein -
Locus_10 7993..8499 + 507 AGC70177 hypothetical protein orf17a
Locus_11 8483..10930 + 2448 AGC70178 hypothetical protein virb4
Locus_12 10933..13197 + 2265 AGC70179 hypothetical protein orf15
Locus_13 13106..14107 + 1002 AGC70180 hypothetical protein orf14
Locus_14 14104..15036 + 933 AGC70181 hypothetical protein orf13
Locus_15 15311..15397 + 87 AGC70182 tet(M) leader peptide -
Locus_16 15413..17332 + 1920 AGC70183 tetracycline resistance -
Locus_17 17430..17618 + 189 AGC70184 hypothetical protein -
Locus_18 17678..18031 - 354 AGC70185 hypothetical protein -
Locus_19 18236..18307 + 72 AGC70186 hypothetical protein -
Locus_20 18485..18958 + 474 AGC70187 hypothetical protein -
Locus_21 18955..19185 + 231 AGC70188 hypothetical protein -
Locus_22 19411..19662 - 252 AGC70189 hypothetical protein -
Locus_23 19646..19849 + 204 AGC70190 excisionase -

Host bacterium

ID   454 Element type   ICE (Integrative and conjugative element)
Element name   Tn6198 GenBank   JX120102
Element size   21322 bp Coordinate of oriT [Strand]   5792..5924 [+]
Host bacterium   Listeria monocytogenes strain TTH-2007 Coordinate of element   1..21322

Cargo genes

Drug resistance gene   dfrG, tet(M)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -