Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101323
Name   oriT_pRHBSTW-00271_2 in_silico
Organism   Citrobacter sp. RHBSTW-00271
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXQM010000002 (218307..218590 [-], 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_pRHBSTW-00271_2
GTTATTGCCGCTTAATGCCGATAACGATTCGGGCTTTGCTATTTTTTTAAGCGATTAAAATTTCGTTAGCAAGCGCAGGGTTTTTTGATAAAATCCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGCCAATGGATGAATGGTTAGTTTTAAGACTCAAATAGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCATTCAAAAACCAAACTTTAATTTCATGTAGAAGATTAGTACAATTGTATTGACGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1247 GenBank   WP_223231738
Name   mobH_HV142_RS23540_pRHBSTW-00271_2 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: 110048.66 Da        Isoelectric Point: 4.5152

>WP_223231738.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MAELMMKDVSSLSPFAQIIGDQKYTVPDQPNLEVLKFIEYPTRPAGIQTFNEQSILSLYRDKLHSISMML
AISDGDIREDAFTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLLSHSLEVAMISLKNANHSELRPIG
YQDEEVIRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLNETLTWAPSSQSLLDWARENNVVEYEIHWRKR
THNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDGNDFLSKCVRTSDYYSTGTDLNVL
RDPIMGLRSNDAAARAIGTIKHNFTSININNYKSKPMHIIIVNGEVYLNENAFLDFVLSDFAAHKFNFPQ
GDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNGIGKLEFYNLLKLRWIGLIFDSYK
IPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVSDAIEDTPQYGLKLVNGPDADSVN
GKSSENTEAITESVEAAGTDKATDIIDPQVTTPTDTAGTGGVDEKERVEEHEEQSQMRLVEQLHEMLLSA
PLPHNAVINIDSVPYLNLDAAIALIPGIDEAAFCDGPFFQLTYRDGSLDGLWIVRDVNNLRLIQLGDNCA
GIQVSTSEPRTTSTLKSLFDTSMYQPLEIPESPSLNEAVSPPQTPLDLPPARLNTPQAVEANSVAEQINA
HSEPETVTASEYEQYGHLLEETLDSDSEAYSDFIVADNSVVEPPQPEAKNSDVAEFHDETDQVVAPGKLN
DPEDTSEPPAPNTTGKEVILTSPVSSQDPIKSEPAGEKANHLSPALARLFAVNTQAEKKHENPPVTTPVK
EAFNRSNSATVQAPIAVDQPGAEEKETLEDFTLLSGGEVTELEYVEIATMLHHILTKLSGSFKRKRKNRF
MVLTQNTFFLTQSCVEKYGTQLNAPELFNQLPQYQVTSGAIVNTKCFAFNMPTLVAASDRAKVDIELIIN
TLKDVGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(83-278)


  Protein structure



No available structure.




T4CP

ID   855 GenBank   WP_015063005
Name   traD_HV142_RS23545_pRHBSTW-00271_2 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: 2838..12006

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV142_RS22445 (HV142_22440) 1..876 + 876 WP_015063098 RepB family plasmid replication initiator protein -
HV142_RS22450 (HV142_22445) 1958..2143 + 186 WP_032610388 hypothetical protein -
HV142_RS22455 (HV142_22450) 2433..2786 + 354 WP_015063100 hypothetical protein -
HV142_RS22460 (HV142_22455) 2838..3155 + 318 WP_022652151 type IV conjugative transfer system protein TraL traL
HV142_RS22465 (HV142_22460) 3167..3952 + 786 WP_022652152 TraE/TraK family type IV conjugative transfer system protein traE
HV142_RS22470 (HV142_22465) 3955..5193 + 1239 WP_182291211 type-F conjugative transfer system secretin TraK traK
HV142_RS22475 (HV142_22470) 5195..5635 + 441 WP_015063104 plasmid transfer protein HtdO -
HV142_RS22480 (HV142_22475) 5625..6983 + 1359 WP_022652153 IncHI-type conjugal transfer protein TrhB traB
HV142_RS22485 (HV142_22480) 6992..7498 + 507 WP_015063106 hypothetical protein -
HV142_RS22490 (HV142_22485) 7604..8356 + 753 WP_185757620 protein-disulfide isomerase HtdT -
HV142_RS22495 (HV142_22490) 8366..9316 + 951 WP_015063108 TraV family lipoprotein traV
HV142_RS22500 (HV142_22495) 9325..12006 + 2682 WP_015063109 IncHI-type conjugal transfer ATPase TrhC virb4
HV142_RS22505 (HV142_22500) 14303..15556 + 1254 WP_015063110 ParA family protein -
HV142_RS22510 (HV142_22505) 15553..16557 + 1005 WP_040115168 ParB family protein -

Host bacterium

ID   1767 GenBank   NZ_JABXQM010000002
Plasmid name   pRHBSTW-00271_2 Incompatibility group   IncHI1A
Plasmid size   294383 bp Coordinate of oriT [Strand]   218307..218590 [-]
Host baterium   Citrobacter sp. RHBSTW-00271

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsC, arsA, arsD, arsR, terE, terD, terC, terB, terA, terZ, terW
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -