Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   110063
Name   oriT_kcgeb_e1|unnamed1 in_silico
Organism   Leclercia adecarboxylata strain kcgeb_e1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP098326 (24151..24250 [+], 100 nt)
oriT length   100 nt
IRs (inverted repeats)      79..84, 90..95  (AAAAAA..TTTTTT)
 33..40, 43..50  (AGCGTGAT..ATCACGCT)
 19..25, 37..43  (TAAATCA..TGATTTA)
Location of nic site      61..62
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 100 nt

>oriT_kcgeb_e1|unnamed1
ATTTCTCTTTTTTGGTTTTAAATCATTGGGATAGCGTGATTTATCACGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6643 GenBank   WP_129753792
Name   mobF_NB069_RS22335_kcgeb_e1|unnamed1 insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120075.28 Da        Isoelectric Point: 6.7494

>WP_129753792.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTQMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTHKGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAEMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPHEADIARNTAPDFTSPQVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHASMVDVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDEGIKNGRLKKTSHRVTTVEGIRLERTILTIESRGRGQMPRLLTAEIAGQLLAGKTLKQEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGQKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAKLADRYLALSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGATFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYRVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKSQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSVEKGLTGVTGESMAFNQKPDEHNMTSGSDYQPVNNA
EDAFHLKQNPMDDSVGLRRHEAHHNDAELAHDYAAADDQQWSEQDYADYEHYAEAAEYDFDSSIYEDYAM
PQASQAEQSHAGKGHNHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(16-287)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)


  Protein structure



No available structure.




Auxiliary protein

ID   3585 GenBank   WP_115719256
Name   WP_115719256_kcgeb_e1|unnamed1 insolico UniProt ID   _
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15380.56 Da        Isoelectric Point: 5.9716

>WP_115719256.1 MULTISPECIES: traK protein [Enterobacteriaceae]
MPTITAKVSDELLAYIDRVSGGNRSEYLRRCLEAGPGDRESGLKIVADQLGDVNRKLDYLFDRASDADFG
SLRDELKAITETLSSVKFPPAGQMMLHESLAIETLILLRSIAEPGKNKAAKAELERNGYKIWEPKKER

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   7350 GenBank   WP_115719258
Name   t4cp2_NB069_RS22340_kcgeb_e1|unnamed1 insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57645.84 Da        Isoelectric Point: 9.8124

>WP_115719258.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDERERGLAFLFAITLPPVLVWFLVAKFTYGIDPSTAKYLVPYLVKNTFSLWPLWSALIAGWVIGIAGLV
AFILYDKTRVFKGERFKKIFRGTELVRARTLADKTRQRGVDQLTVANIPIPVEAENLHFSIAGTTGTGKT
TIFNELLFKSIKRGGKNIVLDPNGGFLKNFYRPGDAILNAYDKRTKGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYNTVTMEEVIHWACNVDQKKLKEFLTGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKKSLNPLISCWLDSIFSIVLGMGEKEGR
INVFIDELESLQYLPNLNDALTKGRKSGLCVFAGYQTFSQLVKVYGRDMAQTILANLRSNIVLGGSRLGE
DTLDHMSRSLGEIEGEVERKESDPQKPWIIRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KYIKYQRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6591..23582

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NB069_RS22200 (NB069_22200) 2364..2609 + 246 WP_250589577 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
NB069_RS22205 (NB069_22205) 2606..2980 + 375 WP_250589578 hypothetical protein -
NB069_RS22210 (NB069_22210) 2990..3316 + 327 WP_250589579 endoribonuclease MazF -
NB069_RS22215 (NB069_22215) 3318..3656 + 339 WP_250589580 hypothetical protein -
NB069_RS22220 (NB069_22220) 3748..3999 + 252 WP_250589581 hypothetical protein -
NB069_RS22225 (NB069_22225) 4017..4247 + 231 Protein_7 hypothetical protein -
NB069_RS22230 (NB069_22230) 4527..5099 - 573 WP_250589582 restriction endonuclease -
NB069_RS22235 (NB069_22235) 5149..5460 - 312 WP_113458006 hypothetical protein -
NB069_RS22240 (NB069_22240) 5506..5820 - 315 WP_113458007 TrbM/KikA/MpfK family conjugal transfer protein -
NB069_RS22245 (NB069_22245) 5817..6161 - 345 WP_250589583 hypothetical protein -
NB069_RS22250 (NB069_22250) 6177..6482 - 306 WP_249541702 H-NS family nucleoid-associated regulatory protein -
NB069_RS22255 (NB069_22255) 6591..7325 + 735 WP_033558688 lytic transglycosylase domain-containing protein virB1
NB069_RS22260 (NB069_22260) 7334..7615 + 282 WP_032734186 transcriptional repressor KorA -
NB069_RS22265 (NB069_22265) 7625..7918 + 294 WP_033558690 TrbC/VirB2 family protein virB2
NB069_RS22270 (NB069_22270) 7971..8288 + 318 WP_115719271 VirB3 family type IV secretion system protein virB3
NB069_RS22275 (NB069_22275) 8288..10888 + 2601 WP_129753800 VirB4 family type IV secretion/conjugal transfer ATPase virb4
NB069_RS22280 (NB069_22280) 10906..11619 + 714 WP_250589584 type IV secretion system protein virB5
NB069_RS22285 (NB069_22285) 11627..11854 + 228 WP_250589585 IncN-type entry exclusion lipoprotein EexN -
NB069_RS22290 (NB069_22290) 11870..12919 + 1050 WP_113458009 type IV secretion system protein virB6
NB069_RS22590 13020..13148 + 129 WP_071882546 conjugal transfer protein TraN -
NB069_RS22295 (NB069_22295) 13138..13836 + 699 WP_033558695 type IV secretion system protein virB8
NB069_RS22300 (NB069_22300) 13847..14731 + 885 WP_033558696 TrbG/VirB9 family P-type conjugative transfer protein virB9
NB069_RS22305 (NB069_22305) 14731..15891 + 1161 WP_033558697 type IV secretion system protein VirB10 virB10
NB069_RS22310 (NB069_22310) 15934..16929 + 996 WP_250589586 P-type DNA transfer ATPase VirB11 virB11
NB069_RS22315 (NB069_22315) 16929..17462 + 534 WP_113458011 phospholipase D family protein -
NB069_RS22320 (NB069_22320) 17520..17762 + 243 WP_250589587 hypothetical protein -
NB069_RS22325 (NB069_22325) 17949..18179 - 231 WP_129753790 type II toxin-antitoxin system VapB family antitoxin -
NB069_RS22330 (NB069_22330) 18197..18817 - 621 WP_250589588 DUF6710 family protein -
NB069_RS22335 (NB069_22335) 18817..22053 - 3237 WP_129753792 MobF family relaxase -
NB069_RS22340 (NB069_22340) 22053..23582 - 1530 WP_115719258 type IV secretion system DNA-binding domain-containing protein virb4
NB069_RS22345 (NB069_22345) 23584..24000 - 417 WP_115719256 traK protein -
NB069_RS22350 (NB069_22350) 24525..24959 + 435 WP_129753794 plasmid stabilization protein StbA -
NB069_RS22355 (NB069_22355) 24968..25684 + 717 WP_032734204 StbB family protein -
NB069_RS22360 (NB069_22360) 25686..26054 + 369 WP_113458019 plasmid stabilization protein StbC -
NB069_RS22365 (NB069_22365) 26254..26598 + 345 WP_250589567 hypothetical protein -
NB069_RS22370 (NB069_22370) 26711..27028 - 318 WP_250589568 CcgAII protein -
NB069_RS22375 (NB069_22375) 27083..27262 - 180 WP_115719248 cobalamin biosynthesis protein CbiX -

Host bacterium

ID   10498 GenBank   NZ_CP098326
Plasmid name   kcgeb_e1|unnamed1 Incompatibility group   -
Plasmid size   42288 bp Coordinate of oriT [Strand]   24151..24250 [+]
Host baterium   Leclercia adecarboxylata strain kcgeb_e1

Cargo genes

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