Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102254
Name   oriT_pIncN in_silico
Organism   Klebsiella pneumoniae strain BP737
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PUIG01000033 (28889..28986 [+], 98 nt)
oriT length   98 nt
IRs (inverted repeats)      32..39, 42..49  (AGCGTGAT..ATCACGCT)
 18..24, 36..42  (TAAATCA..TGATTTA)
Location of nic site      60..61
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 98 nt

>oriT_pIncN
TTTGTTTTTTTTGGTTTTAAATCAGTATGATAGCGTGATTTATCACGCTGCGTTAGGTGTATAGCAGGTTAAGGGCTAGAAAACAGTCAGTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1735 GenBank   WP_105321999
Name   mobF_C5705_RS25555_pIncN 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: 120252.42 Da        Isoelectric Point: 6.6008

>WP_105321999.1 MobF family relaxase [Klebsiella pneumoniae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTHKGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNTAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGSSVMAETLTRKEWIDSLTNSGMRADKARFV
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKQEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHKARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYRVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYDASDDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)

TrwC relaxase (TrwC)

(16-287)


  Protein structure



No available structure.




Auxiliary protein

ID   679 GenBank   WP_105322001
Name   WP_105322001_pIncN 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: 15337.54 Da        Isoelectric Point: 5.9670

>WP_105322001.1 traK protein [Klebsiella pneumoniae]
MPIITAKVSDELLAYIDRVSGGNRSDYLRRCLEAGPGDRESGLKIVADQLSDVNRKLDYLFDRASDADFG
SLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   1319 GenBank   WP_105322000
Name   t4cp2_C5705_RS25560_pIncN 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: 57766.06 Da        Isoelectric Point: 9.8182

>WP_105322000.1 type IV secretion system DNA-binding domain-containing protein [Klebsiella pneumoniae]
MDDRERGLAFIFAITLPPVIVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGIGGLI
AFIIYDKSRVFKGEKFKKIYRGTELVRARTLADKTRERGVQQLTVANIPIPVWAENLHFSIAGTTGTGKT
TIFNELLFKSILRGGKNIVLDPNGGFLRNFYRPGDAILNAYDKRTKGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVEQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKKSLNPLISCWLDSIFSIVLGMGEKEGR
INVFIDELESLQYLPNLNDALTKGRKSGLCVFAGYQTFSQLVKVYGREMAETILANLRSNIVLGGSRLGK
ETLEHMSRSLGEIEGEIERKESDPQKPWIVRNRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
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: 11907..28320

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C5705_RS25420 (C5705_25425) 7045..7614 - 570 WP_001749988 recombinase family protein -
C5705_RS25430 (C5705_25435) 8069..8314 + 246 WP_021536799 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
C5705_RS25435 (C5705_25440) 8326..8583 + 258 WP_016240387 hypothetical protein -
C5705_RS25440 (C5705_25445) 8573..8899 + 327 WP_016240388 endoribonuclease MazF -
C5705_RS25445 (C5705_25450) 8908..9345 + 438 WP_105321985 hypothetical protein -
C5705_RS25450 (C5705_25455) 9371..9607 - 237 WP_042041953 Hha/YmoA family nucleoid-associated regulatory protein -
C5705_RS25455 (C5705_25460) 9773..10426 - 654 WP_242445233 restriction endonuclease -
C5705_RS25460 (C5705_25465) 10476..10787 - 312 WP_105321986 hypothetical protein -
C5705_RS25465 (C5705_25470) 10822..11136 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
C5705_RS25470 (C5705_25475) 11133..11477 - 345 WP_105321987 hypothetical protein -
C5705_RS25475 (C5705_25480) 11493..11864 - 372 WP_347338200 H-NS family nucleoid-associated regulatory protein -
C5705_RS25480 (C5705_25485) 11907..12641 + 735 WP_105321988 lytic transglycosylase domain-containing protein virB1
C5705_RS25485 (C5705_25490) 12650..12931 + 282 WP_105321989 transcriptional repressor KorA -
C5705_RS25490 (C5705_25495) 12941..13234 + 294 WP_105321990 TrbC/VirB2 family protein virB2
C5705_RS25495 (C5705_25500) 13284..13601 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
C5705_RS25500 (C5705_25505) 13601..16201 + 2601 WP_105321991 VirB4 family type IV secretion/conjugal transfer ATPase virb4
C5705_RS25505 (C5705_25510) 16219..16932 + 714 WP_001749960 type IV secretion system protein virB5
C5705_RS25510 (C5705_25515) 16940..17167 + 228 WP_105321992 IncN-type entry exclusion lipoprotein EexN -
C5705_RS25515 (C5705_25520) 17183..18214 + 1032 WP_105321993 type IV secretion system protein virB6
C5705_RS29205 (C5705_25525) 18315..18443 + 129 WP_071882546 conjugal transfer protein TraN -
C5705_RS25525 (C5705_25530) 18433..19131 + 699 WP_105321994 type IV secretion system protein virB8
C5705_RS25530 (C5705_25535) 19142..20026 + 885 WP_172440495 TrbG/VirB9 family P-type conjugative transfer protein virB9
C5705_RS25535 (C5705_25540) 20026..21186 + 1161 WP_105321995 type IV secretion system protein VirB10 virB10
C5705_RS25540 (C5705_25545) 21227..22222 + 996 WP_105321996 ATPase, T2SS/T4P/T4SS family virB11
C5705_RS25545 (C5705_25550) 22222..22755 + 534 WP_105321997 phospholipase D family protein -
C5705_RS29210 (C5705_25555) 22929..23555 - 627 WP_105321998 DUF6710 family protein -
C5705_RS25555 (C5705_25560) 23555..26791 - 3237 WP_105321999 MobF family relaxase -
C5705_RS25560 (C5705_25565) 26791..28320 - 1530 WP_105322000 type IV secretion system DNA-binding domain-containing protein virb4
C5705_RS25565 (C5705_25570) 28322..28738 - 417 WP_105322001 traK protein -
C5705_RS29030 29208..29597 + 390 WP_242445234 plasmid stabilization protein StbA -
C5705_RS25575 (C5705_25580) 29606..30322 + 717 WP_012561139 StbB family protein -
C5705_RS25580 (C5705_25585) 30324..30692 + 369 WP_012561138 plasmid stabilization protein StbC -
C5705_RS25585 (C5705_25590) 30893..31237 + 345 WP_012561137 hypothetical protein -
C5705_RS29035 31611..32249 + 639 WP_242445235 hypothetical protein -
C5705_RS25595 (C5705_25600) 32447..32626 - 180 WP_012561134 protein CcgAI -

Host bacterium

ID   2698 GenBank   NZ_PUIG01000033
Plasmid name   pIncN Incompatibility group   IncN
Plasmid size   32968 bp Coordinate of oriT [Strand]   28889..28986 [+]
Host baterium   Klebsiella pneumoniae strain BP737

Cargo genes

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