Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107039
Name   oriT_p334D3 in_silico
Organism   Enterobacter hormaechei strain 334D3
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP119681 (2157..2255 [+], 99 nt)
oriT length   99 nt
IRs (inverted repeats)      24..30, 35..41  (TAACCGG..CCGGTTA)
Location of nic site      60..61
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 99 nt

>oriT_p334D3
GAATAAGGGACAGTGAAGATAGATAACCGGCTCACCGGTTAGCTAACTTCACACATCCTGCCCGCCTTACGGCGTTAATAACACCAAGGAAAGTCTACA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4648 GenBank   WP_277376365
Name   Relaxase_P3J69_RS00005_p334D3 insolico UniProt ID   _
Length   746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 746 a.a.        Molecular weight: 82022.65 Da        Isoelectric Point: 10.7900

>WP_277376365.1 TraI/MobA(P) family conjugative relaxase [Enterobacter hormaechei]
MIAKHVPMRSLGKSDFAGLANYITDAQSKDHRLGHVQATNCEAGSIQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRISAVHNDTDNLHIHIAINKIHPTRHTMHEPYYPHRA
LAELCTALERDYGLERDNHEPRKRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRDN
GLELRVRANGLVFEAGDGTMVKASTVARDLSKPSLEARLGPFEASPERQAQTAAKRQYRKDPIRLRVNTV
ELYAKYKAEQQTLTTARGQALERARHRKDRLIEAAKRSNRLRRATIKVVGEGRTNKKLLYAQASKALRSE
IQAINKQFQQERTALYAEHSRRTWADWLKKEAQHGSADALAALRAREAAQGLKGNTIRGEGQAKPGHAPA
VDNITKKGTIIFRAGMSAVRDDGDRLQVSREATREGLQEALRLAMQRYGNRITVNGTVEFKAQMIRAAVD
SQLPITFTDPALESRRQALLNKENTHERTERPEHRGRTGRGAGGPGQRPAADQHATGAAAVARAGDGRPA
AGRGDRADAGLHAATVHRKPDVGRLGRKPPPQSQHRLRALSELGVVRIAGGSEVLLPRDVPRHVEQQGTQ
PDHALRRGISRPGTGVGQTPPGVAAADKYIAEREAKRLKGFDIPKHSRYTAGDGALTFQGTRTIEGQALA
LLKRGDEVMVMPIDQATARRLTRIAVGDAVSITAKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(422-508)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)


  Protein structure



No available structure.




T4CP

ID   4749 GenBank   WP_277376357
Name   t4cp2_P3J69_RS00135_p334D3 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: 93996.15 Da        Isoelectric Point: 6.3901

>WP_277376357.1 VirB4 family type IV secretion/conjugal transfer ATPase [Enterobacter hormaechei]
MIEAIAIAIAVLGAVLLLILFARIRAVDAELKLKKHRAKDAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGDDNASSTEEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERGVSSFPDSVSFAIDEERRRLF
EGLGAMFEGYFVLTVTWFPPVLAQRKFVELMFDDDAVAPDHTARTTGLISQFKREITSLESRLSSAVKMT
RLRGQKVVSEEGREVTHDDFLSWLQFCVTGLHHPVMLPSNPMYLDAVIGGQELWGGVVPKIGRKFIQVVA
IEGFPLESTPGVLSALAELPSEYRWSSRFIFMDQHESLKHLDKFRKKWKQKIRGFFDQVFNTNTGSINQD
AAAMVGDAEAAIAEVNSGLVAAGYYTSVVVLMDEDRERLAASALLVEKAVNRLAFAARIETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSSIWTGSATAPCPMYPPLSPALMHCVTVGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMYPLAAGIRAATKGKSGLHFTVAADDDRLAFC
PLQFLETKGDRAWAMEWIDTILALNGVNTTPAQRNEIGNAIMSMHASGARTLSEFSVTIQDEAIREAIKQ
YTVDGSMGHLLDAEEDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALKGQPSVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTSALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPMALAFVGASDKESVATIKSLEAKFGHEWVHEWLAG
RGLNLNDYLEAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(626-754)

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

(218-431)

  Protein structure



No available structure.



ID   4750 GenBank   WP_000694765
Name   t4cp2_P3J69_RS00310_p334D3 insolico UniProt ID   _
Length   637 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 637 a.a.        Molecular weight: 69897.09 Da        Isoelectric Point: 8.2993

>WP_000694765.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Bacteria]
MKIKMNNAVGPQVRTAKPKPSKLLPVLGAASMVGGLQAATQFFAHTFAYHATLGPNVGHVYAPWSILHWT
YKWYSQYPDEIMKAGSMGMLVSTVGLLGVAVAKVVTSNSSKANEYLHGSARWAEKKDIQAAGLLPRERNV
LEIVTGKAAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASTSGGVCWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLDSHWQ
KTAFALLVGVILHALYKAKDDGGTATLPSVDAMLADPNRDIGELWMEMATYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLALYRDPVVARNVSRSDFRIKQLMHEDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMDFEGGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLKSRET
GYGHDESITSNCHVQNAYPPNRVETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTYQEVQRPLLT
PDECLRMPGPKKNAQGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFSARAAIPAPKVSDRLRAVAQAET
EGEGITI

  Protein domains


Predicted by InterproScan.

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

(121-620)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 16973..27662

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P3J69_RS00090 (P3J69_00090) 12060..12488 - 429 WP_277376358 antirestriction protein -
P3J69_RS00095 (P3J69_00095) 12657..12926 + 270 WP_001260984 type II toxin-antitoxin system ParD family antitoxin -
P3J69_RS00100 (P3J69_00100) 12923..13237 + 315 WP_000119407 type II toxin-antitoxin system RelE/ParE family toxin -
P3J69_RS00105 (P3J69_00105) 14579..15799 - 1221 WP_001178704 plasmid replication initiator TrfA -
P3J69_RS00110 (P3J69_00110) 15846..16187 - 342 WP_000019167 single-stranded DNA-binding protein -
P3J69_RS00115 (P3J69_00115) 16301..16663 + 363 WP_000283041 transcriptional regulator -
P3J69_RS00120 (P3J69_00120) 16973..17935 + 963 WP_031942719 P-type conjugative transfer ATPase TrbB virB11
P3J69_RS00125 (P3J69_00125) 17952..18416 + 465 WP_001149042 conjugal transfer system pilin TrbC virB2
P3J69_RS00130 (P3J69_00130) 18420..18731 + 312 WP_001207961 conjugal transfer protein TrbD virB3
P3J69_RS00135 (P3J69_00135) 18728..21286 + 2559 WP_277376357 VirB4 family type IV secretion/conjugal transfer ATPase virb4
P3J69_RS00140 (P3J69_00140) 21283..22065 + 783 WP_031942721 conjugal transfer protein TrbF virB8
P3J69_RS00145 (P3J69_00145) 22083..22982 + 900 WP_000753228 P-type conjugative transfer protein TrbG virB9
P3J69_RS00150 (P3J69_00150) 22985..23476 + 492 WP_001227154 conjugal transfer protein TrbH -
P3J69_RS00155 (P3J69_00155) 23481..24902 + 1422 WP_000138182 TrbI/VirB10 family protein virB10
P3J69_RS00160 (P3J69_00160) 24920..25684 + 765 WP_000802794 P-type conjugative transfer protein TrbJ virB5
P3J69_RS00165 (P3J69_00165) 25694..25921 + 228 WP_000644148 entry exclusion lipoprotein TrbK -
P3J69_RS00170 (P3J69_00170) 25932..27662 + 1731 WP_277376354 P-type conjugative transfer protein TrbL virB6
P3J69_RS00175 (P3J69_00175) 27680..28264 + 585 WP_031942724 TrbM/KikA/MpfK family conjugal transfer protein -
P3J69_RS00180 (P3J69_00180) 28278..28922 + 645 WP_031942725 transglycosylase SLT domain-containing protein -
P3J69_RS00185 (P3J69_00185) 28919..29185 + 267 WP_000222514 hypothetical protein -
P3J69_RS00190 (P3J69_00190) 29262..29897 + 636 WP_280956581 TraX family protein -
P3J69_RS00195 (P3J69_00195) 29913..30344 + 432 WP_031942727 OmpA family protein -
P3J69_RS00200 (P3J69_00200) 30500..31174 + 675 WP_001270224 hypothetical protein -
P3J69_RS00205 (P3J69_00205) 31176..32027 - 852 WP_280956579 recombinase family protein -

Host bacterium

ID   7475 GenBank   NZ_CP119681
Plasmid name   p334D3 Incompatibility group   IncP1
Plasmid size   52007 bp Coordinate of oriT [Strand]   2157..2255 [+]
Host baterium   Enterobacter hormaechei strain 334D3

Cargo genes

Drug resistance gene   blaIMP-13, fosE, sul1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -