Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103815
Name   oriT_CFBP 2055|unnamed in_silico
Organism   Xanthomonas translucens pv. undulosa strain CFBP 2055
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP074362 (4055..4131 [-], 77 nt)
oriT length   77 nt
IRs (inverted repeats)      25..31, 37..43  (TAACCGG..CCGGTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 77 nt

>oriT_CFBP 2055|unnamed
CGAATAAGGGACAGCGAAGATAGATAACCGGCTCGCCCGGTTAGCTAACTTCGCACATCCTGCCCGCCTTACGGCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2831 GenBank   WP_058358167
Name   Relaxase_KCU58_RS20050_CFBP 2055|unnamed insolico UniProt ID   _
Length   757 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 757 a.a.        Molecular weight: 83436.27 Da        Isoelectric Point: 10.8897

>WP_058358167.1 TraI/MobA(P) family conjugative relaxase [Xanthomonas translucens]
MIAKHVPMRSLGKSDFAGLVNYVTDAQSKDHRLGQVQITNCDAVSVQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHNDTDNLHIHIAINKIHPTRNTMHEPYYSHRA
LAELCTTLERDYGLERDNHEPRQRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRAN
GLELRERANGLVIEAGDGTMLKASTLARDLSKPKLEARLGPFEASPERHTRTKAKRQYQKDPIRLRVNTV
ELYARYKAEQQTLTATRGQALEQARRRRDRLVEAAKRSGRLRRATIKVIGENGANKKLLYAQASNALRDE
IQAINKQYQQDRQALYESHSRRTWADWLKKEATHGNAEALTALRAREAAQGLKGNTIQGRGDSRPGHAPV
TDNITKKGTIIFRAGLTAVRDDGDKLQVSREATREGLQEALRLAMGRYGSRITVNGTKQFQAQIIRAAVD
SQLPITFADPALESRRLALLKKENTHERPDRTEQADQRPAEHRGRAGRGAGGPGQRTAAHDDAARPVAIA
RAGIGRPGRGRPGRGRADAAGVHAGAVHRKPDIGRIGRVPPPQSQHRLRTLSQLGVVRIAGGSEVLLPRD
VPRHLEQQGTQPDHQLRRGISRPGTGVAAAPPGLTAADKYIAEREAKRSKGFDIPKHARYTAGDGALAFQ
GVRNIEGQALALLKRGDEVMVMPIDQATARRLSRIAVSEAVTITPKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(420-507)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)


  Protein structure



No available structure.




T4CP

ID   2656 GenBank   WP_058358168
Name   t4cp2_KCU58_RS20055_CFBP 2055|unnamed insolico UniProt ID   _
Length   634 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 634 a.a.        Molecular weight: 69436.46 Da        Isoelectric Point: 8.5058

>WP_058358168.1 type IV secretory system conjugative DNA transfer family protein [Xanthomonas translucens]
MKIKMNNAVGPQVRSAKPKPSKLLPILGGVSLVGGLQAATQFFAYTFQYHASLGANFGHVYAPWSILSWS
AKWYGQYPDEIMRAGSIGMVTATVGLLGVAVAKVVTANSSKANEYLHGSARWAEKKDIQAAGLLPRGRSV
LEVVTGKDAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASSSGGVCWNPLDEIRLGTDNEVGDVQNLATLIVDPDGKGLATHWD
KTAFALTVGVVLHALYKAKNEGGTATLGSIDAMLADPNRDIGELWMEMITYGHVDGENHRAIGSAARDML
DRPDEEAGSVLSTFKSNLSLYRDPVVERNISRSDFSIKDLMHANDPVSLYIVTQPNDKTRLKPLVRIMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDEAITSNCHVQNAYPPNRIETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFQARASIPAPKATDRLRQVVEAGE
GITI

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(121-618)

  Protein structure



No available structure.



ID   2657 GenBank   WP_058358147
Name   t4cp2_KCU58_RS20165_CFBP 2055|unnamed insolico UniProt ID   _
Length   852 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 852 a.a.        Molecular weight: 93915.10 Da        Isoelectric Point: 6.3552

>WP_058358147.1 VirB4 family type IV secretion/conjugal transfer ATPase [Xanthomonas translucens]
MIEAIAIAIAVLGAVLLLILFARIRDVDAELKLKKHRAKDAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGDDNASSTEEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERGVSSFPDSVSLAIDEERRRLF
EGLGAMFEGYFVLTVTWFPPVLAQRKFVELMFDDDAVAPDHTARTTGLITQFKREITSLDSRLSSAVKLT
RLRGQKVVSEEGREVTHDDFLSWLQFCVTGLHHPVMLPSNPMYLDAVVGGQELWGGVVPKIGRKFIQVVA
IEGFPLESTPGVLSALAELPSEYRWSSRFIFMDQHESLKHLDKFRKKWKQKIRGIFDQVFATNTGSINQD
AAAMVGDAEAAIAEVNSGLVAAGYYTSVVVLMDEDRERLAASALLVEKTVNRLAFAARIETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGSATAPCPMYPPLAPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMYPLAAGIRAATKGKSGLHFTVAADDDRLAFC
PLQFLETKGDRAWAMEWIDTILALNGVNTTPAQRNEIGNAIMSMHASGARTLSEFSVTIQDEAIREAIKQ
YTVDGAMGHLLDAEEDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALKGQPAVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNIYARDEDTSALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPMALAFVGASDKESVAAIKSLEAKFGHEWVHEWLAG
RGLNLNDYLEAA

  Protein domains


Predicted by InterproScan.

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

(218-431)

TraG P-loop domain (P-loop_TraG)

(626-754)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 23499..36226

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KCU58_RS20100 (KCU58_19965) 19095..19769 - 675 WP_058358137 hypothetical protein -
KCU58_RS20105 (KCU58_19970) 19880..21151 - 1272 WP_155615889 hypothetical protein -
KCU58_RS20110 (KCU58_19975) 21171..21491 - 321 WP_196479360 hypothetical protein -
KCU58_RS20115 (KCU58_19980) 21507..22238 - 732 WP_269058090 TraX family protein -
KCU58_RS20120 (KCU58_19985) 22219..22875 - 657 WP_058358140 transglycosylase SLT domain-containing protein -
KCU58_RS20125 (KCU58_19990) 22889..23473 - 585 WP_058358141 TrbM/KikA/MpfK family conjugal transfer protein -
KCU58_RS20130 (KCU58_19995) 23499..25352 - 1854 WP_058358171 P-type conjugative transfer protein TrbL virB6
KCU58_RS20135 (KCU58_20000) 25363..25590 - 228 WP_058358142 entry exclusion lipoprotein TrbK -
KCU58_RS20140 (KCU58_20005) 25605..26369 - 765 WP_058358143 P-type conjugative transfer protein TrbJ virB5
KCU58_RS20145 (KCU58_20010) 26387..27805 - 1419 WP_058358144 TrbI/VirB10 family protein virB10
KCU58_RS20150 (KCU58_20015) 27810..28283 - 474 WP_058358145 conjugal transfer protein TrbH -
KCU58_RS20155 (KCU58_20020) 28286..29185 - 900 WP_058358146 P-type conjugative transfer protein TrbG virB9
KCU58_RS20160 (KCU58_20025) 29203..29985 - 783 WP_058358172 conjugal transfer protein TrbF virB8
KCU58_RS20165 (KCU58_20030) 29988..32546 - 2559 WP_058358147 VirB4 family type IV secretion/conjugal transfer ATPase virb4
KCU58_RS20170 (KCU58_20035) 32543..32854 - 312 WP_058358148 conjugal transfer protein TrbD virB3
KCU58_RS20175 (KCU58_20040) 32858..33289 - 432 WP_058358149 IncP-type conjugal transfer pilin TrbC virB2
KCU58_RS20180 (KCU58_20045) 33306..34268 - 963 WP_058358150 P-type conjugative transfer ATPase TrbB virB11
KCU58_RS20185 (KCU58_20050) 34285..35247 - 963 WP_058358150 P-type conjugative transfer ATPase TrbB virB11
KCU58_RS20190 (KCU58_20055) 35264..36226 - 963 WP_058358150 P-type conjugative transfer ATPase TrbB virB11
KCU58_RS20195 (KCU58_20060) 36412..36771 - 360 WP_058358151 transcriptional regulator -
KCU58_RS20200 (KCU58_20065) 36880..37218 + 339 WP_058358152 single-stranded DNA-binding protein -
KCU58_RS20205 (KCU58_20070) 37266..38489 + 1224 WP_058358153 plasmid replication initiator TrfA -
KCU58_RS20210 (KCU58_20075) 39858..39986 - 129 Protein_40 type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family -
KCU58_RS20215 (KCU58_20080) 40104..40532 + 429 WP_058358154 antirestriction protein -
KCU58_RS20220 (KCU58_20085) 40578..40796 + 219 WP_015913624 hypothetical protein -

Host bacterium

ID   4255 GenBank   NZ_CP074362
Plasmid name   CFBP 2055|unnamed Incompatibility group   IncP1
Plasmid size   46036 bp Coordinate of oriT [Strand]   4055..4131 [-]
Host baterium   Xanthomonas translucens pv. undulosa strain CFBP 2055

Cargo genes

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