Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113928
Name   oriT_pP10159-4 in_silico
Organism   Citrobacter freundii strain P10159
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MF072964 (149886..150169 [-], 284 nt)
oriT length   284 nt
IRs (inverted repeats)      183..188, 190..195  (AAAAGT..ACTTTT)
 45..50, 55..60  (TTTTAA..TTAAAA)
Location of nic site      108..109
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 284 nt

>oriT_pP10159-4
GTTATTGCCGCTTAATGCCGATAACGATTCGGGCTTTGCTATTTTTTTAAGCGATTAAAATTTCGTTAGCAAGCGCAGGGTTTTTTGATAAAATCCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGCCAATGGATGAATGGTTAGTTTTAAGACTCAAATAGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCATTCAAAAACCAAACTTTAATTTCATGTAGAAGATTAGTACAATTGTATTGACGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8942 GenBank   WP_224085306
Name   mobH_HTN77_RS00810_pP10159-4 insolico UniProt ID   _
Length   988 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 988 a.a.        Molecular weight: 110096.75 Da        Isoelectric Point: 4.5476

>WP_224085306.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MAELIMKDVSSLSPFAQIIGDQKYTVPDHPNLEVLKFIEYPTRPAGIQTFNEQSILSLYRDKLHSISMML
AISDGDIREDAFTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLLSHSLEVAMISLKNANHSELRPIG
YQDEEVIRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLNETLTWAPSSQSLLDWARENNVVEYEIHWRKR
IHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDGNDFLSKCVRTSDYYSTGTDLNVL
RDPIMGLRSNDAAARAIGTIKHNFTSININNYKSKPMHIIIVNGEVYLNENAFLDFVLSDFAAHKFNFPQ
GDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNGIGKLEFYNLLKLRWIGLIFDSYK
IPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVSDAIEDTPQYGLKLVNGPDADSVN
GKSSENTEAITESVEAAGTDKATDIIDPQVTTPTDTAGTGGLDEKERVEEHEEQSQMRLVEQLHEMLLSA
PLPHNAVINIDSVPYLNLDAAIALIPGIDEAAFCDGPFFQLTYRDGSLDGMWIVRDVNNLRLIQLGDNCA
GIQVSTSEPRTTSTLKSLFDTSMYQPLDIPESPSLNEAVSPPQTPLDLPPARLNTPQAVEANSVAEQINA
HSEPETVTASEYEQYGHLLEETLDSDSEAYSDFIVADNSVVEPPQPEAKNSDVAEFHDETDQVVAPGKLN
DPEDTREPPAPNTTGKEVILTSPVSSQDPIKSEPAGEKANHLSPALARLFAVNTQAEKKHENPPVTTPVK
EAFNRSNSATVQAPIAVDQPGAEEKETLEDFTLLSGGEVTELEYVEIATMLHHILTKLSGSFKRKRKNRF
MVLTQNTFFLTQSCVEKYGTQLNAPELFNQLPQYQVTSGAIVNTKCFAFNMPTLVAASDRAKGDIELIIN
TLKDVGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(83-278)


  Protein structure



No available structure.




T4CP

ID   10386 GenBank   WP_015063005
Name   traD_HTN77_RS00815_pP10159-4 insolico UniProt ID   _
Length   694 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 694 a.a.        Molecular weight: 77900.52 Da        Isoelectric Point: 8.5005

>WP_015063005.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MAKSKRTNLHAQENFYRPILEYRSASVLLICAIIMLFMGFRSDGLNIAPIILYTAAFMLLVCLYRCKTAY
PYLMAHWRVFQRQIMFISLKSLRSINKSNFFSNERKYRQLVQEYKKSNRQVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFALNPIARHFEAMARSMGGSNAIFAVDKRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDADWRQSLMDEAAELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMAILNLTVKVLECCYARH
YGPDVWMEKVKYSSNDTLQVRFKRLVEWFSAHFLNYEGAEPIDWIDTVGRLVDYSLSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNSLTSREIVTSDGIFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNSDDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANVETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSENSMRPNTTLLEMFLKPAGKVTLRQNVGLDYLNKHLRKLH

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(505-627)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2823..11991

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTN77_RS00005 1..876 + 876 WP_015063098 RepB family plasmid replication initiator protein -
HTN77_RS00010 1943..2128 + 186 WP_032610388 hypothetical protein -
HTN77_RS00015 2418..2771 + 354 WP_015063100 hypothetical protein -
HTN77_RS00020 2823..3140 + 318 WP_022652151 type IV conjugative transfer system protein TraL traL
HTN77_RS00025 3152..3937 + 786 WP_058656549 TraE/TraK family type IV conjugative transfer system protein traE
HTN77_RS00030 3940..5178 + 1239 WP_015063103 type-F conjugative transfer system secretin TraK traK
HTN77_RS00035 5180..5620 + 441 WP_015063104 plasmid transfer protein HtdO -
HTN77_RS00040 5610..6968 + 1359 WP_022652153 IncHI-type conjugal transfer protein TrhB traB
HTN77_RS00045 6977..7483 + 507 WP_015063106 hypothetical protein -
HTN77_RS00050 7589..8341 + 753 WP_185757620 protein-disulfide isomerase HtdT -
HTN77_RS00055 8351..9301 + 951 WP_015063108 TraV family lipoprotein traV
HTN77_RS00060 9310..11991 + 2682 WP_015063109 IncHI-type conjugal transfer ATPase TrhC virb4
HTN77_RS00065 13497..13691 - 195 WP_172691584 hypothetical protein -
HTN77_RS00070 14287..15540 + 1254 WP_100160645 ParA family protein -
HTN77_RS00075 15537..16541 + 1005 WP_040115168 ParB family protein -

Host bacterium

ID   14363 GenBank   NZ_MF072964
Plasmid name   pP10159-4 Incompatibility group   IncHI1A
Plasmid size   228709 bp Coordinate of oriT [Strand]   149886..150169 [-]
Host baterium   Citrobacter freundii strain P10159

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, blaOXA-1, catB3, ARR-3, qacE, sul1, blaCTX-M-3
Virulence gene   -
Metal resistance gene   terE, terD, terC, terB, terA, terZ, terW
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -