Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105432
Name   oriT_pCTHL.F3a in_silico
Organism   Klebsiella sp. CTHL.F3a
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP082361 (103587..103633 [+], 47 nt)
oriT length   47 nt
IRs (inverted repeats)     _
Location of nic site      30..31
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 47 nt

>oriT_pCTHL.F3a
TCTGCAAAATTTAAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3703 GenBank   WP_223036018
Name   traI_K7H21_RS28430_pCTHL.F3a insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190365.82 Da        Isoelectric Point: 5.9697

>WP_223036018.1 conjugative transfer relaxase/helicase TraI [Klebsiella sp. CTHL.F3a]
MMSIGSVKSAGSAGNYYMDKDNYYVIGSLEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDRRLINAHNQAVTEAVRQIEMLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYRELFKPLVE
KLGYETEVVGKHGMWEMKDVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADGRAAALSSAPPAPVKTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASEVRQAP
FSDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIIAADNRSRDFLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTY
RWQGGKQATADIISEPDKGARYSRLAEEFAVSVREGQESVAQISGTREQSVLNNVIRDTLKNEGVLGNRE
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASCNMLTLKDREGERLDLKVSAV
DSQWTLFRADKLQVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQSLSVGSTPFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDTARTTEKLARHTAFSVVSE
QLKARSGEADLDAAIAQQKAGLHTPAEQAVHLSIPLLESQNLTFTRPQLLATALEAGGEKVPMTDIDRTI
QEQIKSGQLLNVAISTGHGNDLLISRQTWDAEKSVLTRVLEGKDSVTPLMDRVPASLMTDLTGGQRAATR
MILETPDRFTLVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLGPTHRAVGEMQGAGVEAQTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLTDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVNSALSTLEQVTPEQVPRKDGSWVPENSVVEFTPAQEKAIQ
EALDKGESVAEGQPTTLYGALVKDYSGRTPEAQAQTLIITHLNTDRRALNRLIHEARRENGETGREEVTV
PVLVTSNIRDGELRKLSTWSEHQGAVALLDNTYQRIESVDKKNQLISLKDSEGNTRLLSPREASAEGVTL
YRQETITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKATRTLNPKADEAQRHIDLAYAIT
AHGAQGASETYAIALEGVAGGRKGMASFESAYVGLSRMKQHVQVYTDSREGWVNAIRSSPSKATAHDILE
PRNDRAIKNAGQLFGRAKPLDEIAAGRAALQQSGLARGSSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRDGRLEAIGGEGRVMGDVSARFVALQNSRNGESLLAGNMGEGVRLARDNPDTGVVVRLTGDDR
PWNPGAMTGGRVWADPVPAESLSHAGTDIPLPPEVLAQRASEEVQRQEMEKQAEQTAREVAGEARKAGDP
GDRVKEVIGDVIRGLERDRPDTEKTALPDDPQTRRQEAAIQQVASEHLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1158)

TrwC relaxase (TrwC)

(11-284)

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

(635-714)

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

(577-629)


  Protein structure



No available structure.




T4CP

ID   3691 GenBank   WP_223035918
Name   traD_K7H21_RS28435_pCTHL.F3a insolico UniProt ID   _
Length   773 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 773 a.a.        Molecular weight: 86746.84 Da        Isoelectric Point: 4.9781

>WP_223035918.1 type IV conjugative transfer system coupling protein TraD [Klebsiella sp. CTHL.F3a]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVLAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGQASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPMDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRNWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGMLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKVAEGFIQRTFDTRVDARLNALLAAREAEGSLARMLFTPDAPEAEQADKDSKAGAQHEPVKQPE
PAEGTVSPVPVTALSAAKTPAAEDPVKSPETLRPEVSDTRITTAPLIRTKPASSATGTSVAVAGVTAHTG
GTEQELAQQSADVGQEMMPAGMNEDGEIEDMQAYDAWLADELTQRDMQRREEVNINHSHRRDEQDDIEIG
GNF

  Protein domains


Predicted by InterproScan.

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

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 76018..101238

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K7H21_RS28435 (K7H21_28435) 76018..78339 - 2322 WP_223035918 type IV conjugative transfer system coupling protein TraD virb4
K7H21_RS28440 (K7H21_28440) 78585..79121 - 537 WP_142469889 hypothetical protein -
K7H21_RS28445 (K7H21_28445) 79132..81975 - 2844 WP_223035919 conjugal transfer mating-pair stabilization protein TraG traG
K7H21_RS28450 (K7H21_28450) 81975..83345 - 1371 WP_223035920 conjugal transfer pilus assembly protein TraH traH
K7H21_RS28455 (K7H21_28455) 83332..83760 - 429 WP_049071723 conjugal transfer protein TrbF -
K7H21_RS28460 (K7H21_28460) 83753..84325 - 573 WP_142469893 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
K7H21_RS28465 (K7H21_28465) 84297..84536 - 240 WP_223035921 type-F conjugative transfer system pilin chaperone TraQ -
K7H21_RS28470 (K7H21_28470) 84547..85299 - 753 WP_223035922 type-F conjugative transfer system pilin assembly protein TraF traF
K7H21_RS28475 (K7H21_28475) 85320..85646 - 327 WP_223035923 hypothetical protein -
K7H21_RS28480 (K7H21_28480) 85657..85884 - 228 WP_223035924 conjugal transfer protein TrbE -
K7H21_RS28485 (K7H21_28485) 85874..86155 - 282 WP_223035925 hypothetical protein -
K7H21_RS28490 (K7H21_28490) 86188..88062 - 1875 WP_223035926 type-F conjugative transfer system mating-pair stabilization protein TraN traN
K7H21_RS28495 (K7H21_28495) 88059..88685 - 627 WP_223035927 type-F conjugative transfer system pilin assembly protein TrbC trbC
K7H21_RS28500 (K7H21_28500) 88735..89322 - 588 WP_223035928 hypothetical protein -
K7H21_RS28505 (K7H21_28505) 89379..90053 + 675 WP_223035929 hypothetical protein -
K7H21_RS28510 (K7H21_28510) 90073..90615 - 543 WP_223035930 hypothetical protein -
K7H21_RS28515 (K7H21_28515) 90828..91811 - 984 WP_223036028 conjugal transfer pilus assembly protein TraU traU
K7H21_RS28520 (K7H21_28520) 91831..92457 - 627 WP_223035931 type-F conjugative transfer system protein TraW traW
K7H21_RS28525 (K7H21_28525) 92454..92846 - 393 WP_223035932 type-F conjugative transfer system protein TrbI -
K7H21_RS28530 (K7H21_28530) 92846..95485 - 2640 WP_223035933 type IV secretion system protein TraC virb4
K7H21_RS28535 (K7H21_28535) 95566..95976 - 411 WP_223035934 hypothetical protein -
K7H21_RS28540 (K7H21_28540) 95973..96377 - 405 WP_223035935 hypothetical protein -
K7H21_RS28545 (K7H21_28545) 96374..96595 - 222 WP_195729739 hypothetical protein -
K7H21_RS28550 (K7H21_28550) 96619..96912 - 294 WP_223035936 hypothetical protein -
K7H21_RS29165 96982..97386 - 405 WP_228751084 hypothetical protein -
K7H21_RS28560 (K7H21_28560) 97544..98110 - 567 WP_223035937 type IV conjugative transfer system lipoprotein TraV traV
K7H21_RS28565 (K7H21_28565) 98205..99620 - 1416 WP_223035938 F-type conjugal transfer pilus assembly protein TraB traB
K7H21_RS28570 (K7H21_28570) 99620..100360 - 741 WP_223035939 type-F conjugative transfer system secretin TraK traK
K7H21_RS28575 (K7H21_28575) 100347..100913 - 567 WP_075912683 type IV conjugative transfer system protein TraE traE
K7H21_RS28580 (K7H21_28580) 100933..101238 - 306 WP_223035940 type IV conjugative transfer system protein TraL traL
K7H21_RS28585 (K7H21_28585) 101252..101617 - 366 WP_223035941 type IV conjugative transfer system pilin TraA -
K7H21_RS28590 (K7H21_28590) 101678..101881 - 204 WP_171972759 TraY domain-containing protein -
K7H21_RS28595 (K7H21_28595) 102035..102709 - 675 WP_142469911 conjugal transfer protein TrbJ -
K7H21_RS28600 (K7H21_28600) 102897..103300 - 404 Protein_117 conjugal transfer relaxosome DNA-binding protein TraM -
K7H21_RS28605 (K7H21_28605) 103778..104200 + 423 WP_228751102 transglycosylase SLT domain-containing protein -
K7H21_RS28610 (K7H21_28610) 104224..104754 - 531 WP_223035943 antirestriction protein -
K7H21_RS28615 (K7H21_28615) 105403..106236 - 834 WP_223035944 N-6 DNA methylase -

Host bacterium

ID   5870 GenBank   NZ_CP082361
Plasmid name   pCTHL.F3a Incompatibility group   IncFIB
Plasmid size   150808 bp Coordinate of oriT [Strand]   103587..103633 [+]
Host baterium   Klebsiella sp. CTHL.F3a

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7