Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101705
Name   oriT_pRHBSTW-00231_2 in_silico
Organism   Citrobacter freundii strain RHBSTW-00231
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXQP010000002 (43747..43847 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pRHBSTW-00231_2
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1458 GenBank   WP_013263790
Name   mobF_HV136_RS26355_pRHBSTW-00231_2 insolico UniProt ID   E2EAU3
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120137.33 Da        Isoelectric Point: 6.5766

>WP_013263790.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
AlphaFold DB E2EAU3


Auxiliary protein

ID   581 GenBank   WP_000706094
Name   WP_000706094_pRHBSTW-00231_2 insolico UniProt ID   B6UZ32
Length   96 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 96 a.a.        Molecular weight: 10829.54 Da        Isoelectric Point: 8.5040

>WP_000706094.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MKIVADRLSDVNRKLDYLFDRASDADFGPLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIA
EPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B6UZ32


T4CP

ID   1133 GenBank   WP_131445925
Name   t4cp2_HV136_RS26360_pRHBSTW-00231_2 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: 57735.84 Da        Isoelectric Point: 9.6551

>WP_131445925.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVASIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  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: 26755..43180

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV136_RS26240 (HV136_26245) 22611..23123 - 513 WP_088569506 BREX-3 system P-loop-containing protein BrxF -
HV136_RS26245 (HV136_26250) 23271..23846 - 576 Protein_19 IS3-like element ISEcl1 family transposase -
HV136_RS26250 (HV136_26255) 24098..24466 + 369 WP_063942106 hypothetical protein -
HV136_RS26255 (HV136_26260) 24665..25267 - 603 WP_172750031 restriction endonuclease -
HV136_RS26260 (HV136_26265) 25323..25634 - 312 WP_013279382 hypothetical protein -
HV136_RS26265 (HV136_26270) 25670..25984 - 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
HV136_RS26270 (HV136_26275) 25981..26325 - 345 WP_012561155 hypothetical protein -
HV136_RS26275 (HV136_26280) 26341..26691 - 351 WP_071562618 H-NS family nucleoid-associated regulatory protein -
HV136_RS26280 (HV136_26285) 26755..27492 + 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
HV136_RS26285 (HV136_26290) 27501..27782 + 282 WP_016338364 transcriptional repressor KorA -
HV136_RS26290 (HV136_26295) 27792..28085 + 294 WP_001749962 hypothetical protein virB2
HV136_RS26295 (HV136_26300) 28135..28452 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HV136_RS26300 (HV136_26305) 28584..31052 + 2469 WP_223669807 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HV136_RS26305 (HV136_26310) 31070..31783 + 714 WP_001749960 type IV secretion system protein virB5
HV136_RS26310 (HV136_26315) 31791..32018 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HV136_RS26315 (HV136_26320) 32034..33074 + 1041 WP_001749958 type IV secretion system protein virB6
HV136_RS26320 (HV136_26325) 33157..33303 + 147 WP_001257173 conjugal transfer protein TraN -
HV136_RS26325 (HV136_26330) 33293..33991 + 699 WP_131445615 type IV secretion system protein virB8
HV136_RS26330 (HV136_26335) 34002..34886 + 885 WP_064152980 TrbG/VirB9 family P-type conjugative transfer protein virB9
HV136_RS26335 (HV136_26340) 34886..36046 + 1161 WP_012561145 type IV secretion system protein VirB10 virB10
HV136_RS26340 (HV136_26345) 36088..37083 + 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
HV136_RS26345 (HV136_26350) 37083..37616 + 534 WP_000792636 phospholipase D family protein -
HV136_RS26350 (HV136_26355) 37789..38415 - 627 WP_053390020 DUF6710 family protein -
HV136_RS26355 (HV136_26360) 38415..41651 - 3237 WP_013263790 MobF family relaxase -
HV136_RS26360 (HV136_26365) 41651..43180 - 1530 WP_131445925 type IV secretion system DNA-binding domain-containing protein virb4
HV136_RS26365 (HV136_26370) 43182..43472 - 291 WP_000706094 hypothetical protein -
HV136_RS26370 (HV136_26375) 44188..44574 + 387 WP_013279398 plasmid stabilization protein StbA -
HV136_RS26375 (HV136_26380) 44583..45299 + 717 WP_012561139 StbB family protein -
HV136_RS26380 (HV136_26385) 45301..45669 + 369 WP_012561138 plasmid stabilization protein StbC -
HV136_RS26385 (HV136_26390) 45870..46214 + 345 WP_227005110 hypothetical protein -
HV136_RS26390 (HV136_26395) 46676..46855 - 180 WP_012561134 protein CcgAI -

Host bacterium

ID   2149 GenBank   NZ_JABXQP010000002
Plasmid name   pRHBSTW-00231_2 Incompatibility group   IncN
Plasmid size   57082 bp Coordinate of oriT [Strand]   43747..43847 [+]
Host baterium   Citrobacter freundii strain RHBSTW-00231

Cargo genes

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