Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102745
Name   oriT_p_IncFIB_DHQP1002001 in_silico
Organism   Klebsiella pneumoniae strain DHQP1002001
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP016810 (163357..163406 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_p_IncFIB_DHQP1002001
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2022 GenBank   WP_040224080
Name   traI_A8C02_RS01045_p_IncFIB_DHQP1002001 insolico UniProt ID   A0A7W3BA55
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190352.82 Da        Isoelectric Point: 5.9133

>WP_040224080.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVIGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMNVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)


  Protein structure



No available structure.




T4CP

ID   1671 GenBank   WP_023329042
Name   traD_A8C02_RS01040_p_IncFIB_DHQP1002001 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85943.90 Da        Isoelectric Point: 5.0577

>WP_023329042.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEARESEGSLARTLFMPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 155241..192043

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A8C02_RS00770 (A8C02_00770) 150529..150837 - 309 WP_004152336 hypothetical protein -
A8C02_RS32175 (A8C02_00775) 150883..151089 - 207 WP_004153649 hypothetical protein -
A8C02_RS00780 (A8C02_00780) 151754..151984 + 231 WP_001261276 type II toxin-antitoxin system VapB family antitoxin -
A8C02_RS00785 (A8C02_00785) 151981..152397 + 417 WP_000754566 type II toxin-antitoxin system VapC family toxin -
A8C02_RS32180 (A8C02_00790) 152438..153315 - 878 Protein_162 DUF3644 domain-containing protein -
A8C02_RS00795 (A8C02_00795) 153974..155251 + 1278 WP_016338369 HlyD family secretion protein -
A8C02_RS00800 (A8C02_00800) 155241..157349 + 2109 WP_016338368 peptidase domain-containing ABC transporter virb4
A8C02_RS00805 (A8C02_00805) 157349..157984 + 636 WP_016338367 type II CAAX endopeptidase family protein -
A8C02_RS28105 158092..158436 - 345 WP_058650054 hypothetical protein -
A8C02_RS00820 (A8C02_00820) 159003..159266 + 264 WP_009310051 hypothetical protein -
A8C02_RS00825 (A8C02_00825) 159448..160152 - 705 WP_001067855 IS6-like element IS26 family transposase -
A8C02_RS00830 (A8C02_00830) 160143..160409 + 267 WP_068814606 broad-spectrum mercury transporter MerE -
A8C02_RS00835 (A8C02_00835) 160475..160687 + 213 WP_000993245 DUF3330 domain-containing protein -
A8C02_RS00840 (A8C02_00840) 160818..161378 + 561 WP_003124096 recombinase family protein -
A8C02_RS00845 (A8C02_00845) 161381..162055 + 675 Protein_172 DUF4158 domain-containing protein -
A8C02_RS00850 (A8C02_00850) 162119..162823 + 705 WP_001067855 IS6-like element IS26 family transposase -
A8C02_RS00855 (A8C02_00855) 162874..163284 - 411 Protein_174 transglycosylase SLT domain-containing protein -
A8C02_RS00860 (A8C02_00860) 163675..164091 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
A8C02_RS00865 (A8C02_00865) 164291..165010 + 720 WP_016831034 conjugal transfer protein TrbJ -
A8C02_RS00870 (A8C02_00870) 165143..165349 + 207 WP_171773970 TraY domain-containing protein -
A8C02_RS00875 (A8C02_00875) 165411..165779 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
A8C02_RS00880 (A8C02_00880) 165793..166098 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
A8C02_RS00885 (A8C02_00885) 166118..166684 + 567 WP_016831035 type IV conjugative transfer system protein TraE traE
A8C02_RS00890 (A8C02_00890) 166671..167411 + 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
A8C02_RS00895 (A8C02_00895) 167411..168835 + 1425 WP_068814610 F-type conjugal transfer pilus assembly protein TraB traB
A8C02_RS00905 (A8C02_00905) 168828..169424 + 597 Protein_183 conjugal transfer pilus-stabilizing protein TraP -
A8C02_RS00910 (A8C02_00910) 169447..170031 + 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
A8C02_RS00915 (A8C02_00915) 170163..170573 + 411 WP_016831039 hypothetical protein -
A8C02_RS00920 (A8C02_00920) 170578..170867 + 290 Protein_186 hypothetical protein -
A8C02_RS00925 (A8C02_00925) 170891..171109 + 219 WP_014386199 hypothetical protein -
A8C02_RS00930 (A8C02_00930) 171110..171421 + 312 WP_014386200 hypothetical protein -
A8C02_RS00935 (A8C02_00935) 171488..171892 + 405 WP_016831042 hypothetical protein -
A8C02_RS31705 171935..172324 + 390 WP_023158009 hypothetical protein -
A8C02_RS00945 (A8C02_00945) 172332..172730 + 399 WP_023158008 hypothetical protein -
A8C02_RS00950 (A8C02_00950) 172802..175441 + 2640 WP_023158007 type IV secretion system protein TraC virb4
A8C02_RS00955 (A8C02_00955) 175441..175830 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
A8C02_RS00960 (A8C02_00960) 175830..176465 + 636 WP_023158006 type-F conjugative transfer system protein TraW traW
A8C02_RS00965 (A8C02_00965) 176500..176901 + 402 WP_023158005 hypothetical protein -
A8C02_RS00970 (A8C02_00970) 176898..177887 + 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
A8C02_RS31710 177908..178084 + 177 WP_162866177 hypothetical protein -
A8C02_RS00975 (A8C02_00975) 178163..178810 + 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
A8C02_RS00980 (A8C02_00980) 178869..180824 + 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A8C02_RS00985 (A8C02_00985) 180856..181110 + 255 WP_015065558 conjugal transfer protein TrbE -
A8C02_RS00990 (A8C02_00990) 181088..181336 + 249 WP_004152675 hypothetical protein -
A8C02_RS00995 (A8C02_00995) 181349..181675 + 327 WP_015065534 hypothetical protein -
A8C02_RS01000 (A8C02_01000) 181696..182448 + 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
A8C02_RS01005 (A8C02_01005) 182459..182698 + 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
A8C02_RS01010 (A8C02_01010) 182670..183227 + 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A8C02_RS01015 (A8C02_01015) 183273..183716 + 444 WP_023158001 F-type conjugal transfer protein TrbF -
A8C02_RS01020 (A8C02_01020) 183694..185073 + 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
A8C02_RS01025 (A8C02_01025) 185073..187922 + 2850 WP_023329044 conjugal transfer mating-pair stabilization protein TraG traG
A8C02_RS01030 (A8C02_01030) 187928..188455 + 528 WP_029498351 conjugal transfer protein TraS -
A8C02_RS01035 (A8C02_01035) 188645..189376 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
A8C02_RS01040 (A8C02_01040) 189734..192043 + 2310 WP_023329042 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3188 GenBank   NZ_CP016810
Plasmid name   p_IncFIB_DHQP1002001 Incompatibility group   IncFIB
Plasmid size   307743 bp Coordinate of oriT [Strand]   163357..163406 [-]
Host baterium   Klebsiella pneumoniae strain DHQP1002001

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1, aph(6)-Id, aph(3'')-Ib, sul2, aac(6')-Ib-cr, dfrA14
Virulence gene   -
Metal resistance gene   arsB, arsC, merR2, merT, merP, merF, merA, merD, merE, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9