Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101527
Name   oriT_pKO2008341_3 in_silico
Organism   Klebsiella michiganensis strain KO2008341
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAZDCS010000009 (75961..76010 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pKO2008341_3
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1359 GenBank   WP_082226159
Name   traI_V1470_RS31065_pKO2008341_3 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190416.67 Da        Isoelectric Point: 5.5084

>WP_082226159.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTNNLI
IARFNHDTSRAQEPQIHTHSVVINATQNGDKWQTLGSDTVGKTGFSENILANRIAFGKIYQSTLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADTRAKELASAPAAPVKTDVPDISDVVTKAIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQTRTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDTAVVRQSPF
SDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIIAADNRSREFLSADARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKMSLKETLSMLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGKQATADIISEPEKGARYSRLAQEFAASVREGQESVAQISGSREQGILNGLIRETLKSEGVLGEKDM
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRQHDRFVIDRVTASSNMLTLRDKEGERLDMKVSAVD
SQWTLFRADKLTVAEGERLAVLGKIPDTRLKGGESVTVLKAEEGQLTVQRPGQKTTQSLSVGSSPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQGTARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIASQKAGLHTPAEQVIHLSIPLLESEELTFTRPQLLATALETGGGKVPMTEIDATIQ
SQIQAGSLLNVPVAPGHGNDLLISRQTWDAEKSILTKVLEGKEAVAPLMDNVPGSLMTDLTSGQRASTRM
ILETTDRFTVVQGYAGVGKTTQFRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVNRALATIEQVTPEQVPRKDGAWVPENSVVEFTPAQEEAIQK
ALNKGESVPAGQPTTLYEALVKDYADRTPEAQSQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKSVSGDSVTLSDGKSTRTLNPKADQAQQHIDLAYAITA
HGAQGASEPFAIALEGVAGGRERMASFESAYVGLSRMKQHVQVYTDNREGWIKAINNSPEKATAHDILEP
RNDRAVKTAGQLFSRARALDEAAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKDAGIW
LSPLTDNDGRLQVIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMERQTEQATREVSGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVVSESLQRDRLQQMERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1552)

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

(577-628)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1157)

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

(634-713)


  Protein structure



No available structure.




Auxiliary protein

ID   482 GenBank   WP_053390193
Name   WP_053390193_pKO2008341_3 insolico UniProt ID   A0A8G2A327
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14883.89 Da        Isoelectric Point: 4.3779

>WP_053390193.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEVADKINAIVEKRRVEGAKDKDISFSSISTMLLELGLRVYEAQMERKESGFNQMAFNKAL
LESVIKTQFTVNKVLGIECLSPHVSGNPRWEWPGLIENIRDDVQEVMLRFFPDEESEDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   988 GenBank   WP_330126934
Name   traD_V1470_RS31060_pKO2008341_3 insolico UniProt ID   _
Length   772 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 772 a.a.        Molecular weight: 86555.35 Da        Isoelectric Point: 5.0283

>WP_330126934.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYAINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDVQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRNLDTRVDARLNALLEAREAEGSLARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTSATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVPATPAGG
TEQALETQPAEQGQDMLPPGVNEYGEIDDMHAWDEWQSGEQTQRDMQRREEVNINHSHRRDEQDDIEIGG
NF

  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: 78422..104899

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
V1470_RS30885 (V1470_30885) 74829..75371 + 543 WP_053390246 antirestriction protein -
V1470_RS30890 (V1470_30890) 75394..75816 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
V1470_RS30895 (V1470_30895) 76322..76714 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
V1470_RS30900 (V1470_30900) 76952..77653 + 702 WP_094898581 hypothetical protein -
V1470_RS30905 (V1470_30905) 77814..77975 + 162 WP_172686697 TraY domain-containing protein -
V1470_RS30910 (V1470_30910) 78040..78408 + 369 WP_064386081 type IV conjugative transfer system pilin TraA -
V1470_RS30915 (V1470_30915) 78422..78727 + 306 WP_032744112 type IV conjugative transfer system protein TraL traL
V1470_RS30920 (V1470_30920) 78746..79312 + 567 WP_064386078 type IV conjugative transfer system protein TraE traE
V1470_RS30925 (V1470_30925) 79299..80033 + 735 WP_064386077 type-F conjugative transfer system secretin TraK traK
V1470_RS30930 (V1470_30930) 80033..81457 + 1425 WP_064386076 F-type conjugal transfer pilus assembly protein TraB traB
V1470_RS30935 (V1470_30935) 81520..82089 + 570 WP_074182910 type IV conjugative transfer system lipoprotein TraV traV
V1470_RS30940 (V1470_30940) 82113..82481 + 369 WP_224253886 hypothetical protein -
V1470_RS30945 (V1470_30945) 82488..82730 + 243 WP_064386074 hypothetical protein -
V1470_RS30950 (V1470_30950) 82727..83131 + 405 WP_064386072 hypothetical protein -
V1470_RS30955 (V1470_30955) 83128..83475 + 348 WP_064386070 hypothetical protein -
V1470_RS30960 (V1470_30960) 83472..83870 + 399 WP_224253887 hypothetical protein -
V1470_RS30965 (V1470_30965) 83954..86593 + 2640 WP_132468255 type IV secretion system protein TraC virb4
V1470_RS30970 (V1470_30970) 86593..86982 + 390 WP_132468254 type-F conjugative transfer system protein TrbI -
V1470_RS30975 (V1470_30975) 86979..87608 + 630 WP_132468253 type-F conjugative transfer system protein TraW traW
V1470_RS30980 (V1470_30980) 87631..88608 + 978 WP_157349379 conjugal transfer pilus assembly protein TraU traU
V1470_RS30985 (V1470_30985) 88837..89445 + 609 WP_232556516 type-F conjugative transfer system pilin assembly protein TrbC trbC
V1470_RS30990 (V1470_30990) 89822..91777 + 1956 WP_148853181 type-F conjugative transfer system mating-pair stabilization protein TraN traN
V1470_RS30995 (V1470_30995) 91793..92173 + 381 WP_142255964 hypothetical protein -
V1470_RS31000 (V1470_31000) 92163..92390 + 228 WP_148853183 conjugal transfer protein TrbE -
V1470_RS31005 (V1470_31005) 92400..92726 + 327 WP_148853185 hypothetical protein -
V1470_RS31010 (V1470_31010) 92749..93501 + 753 WP_148853187 type-F conjugative transfer system pilin assembly protein TraF traF
V1470_RS31015 (V1470_31015) 93915..94274 - 360 WP_064386183 hypothetical protein -
V1470_RS31020 (V1470_31020) 94363..94599 + 237 WP_064386186 type-F conjugative transfer system pilin chaperone TraQ -
V1470_RS31025 (V1470_31025) 94574..95140 + 567 WP_100663597 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
V1470_RS31030 (V1470_31030) 95133..95561 + 429 WP_100663598 conjugal transfer protein TrbF -
V1470_RS31035 (V1470_31035) 95548..96918 + 1371 WP_064386191 conjugal transfer pilus assembly protein TraH traH
V1470_RS31040 (V1470_31040) 96918..99797 + 2880 WP_064386194 conjugal transfer mating-pair stabilization protein TraG traG
V1470_RS31045 (V1470_31045) 99814..100482 + 669 WP_128317877 hypothetical protein -
V1470_RS31050 (V1470_31050) 100847..101578 + 732 WP_064386198 conjugal transfer complement resistance protein TraT -
V1470_RS31055 (V1470_31055) 101770..102462 + 693 WP_202395549 hypothetical protein -
V1470_RS31060 (V1470_31060) 102581..104899 + 2319 WP_330126934 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1971 GenBank   NZ_JAZDCS010000009
Plasmid name   pKO2008341_3 Incompatibility group   IncFII
Plasmid size   116030 bp Coordinate of oriT [Strand]   75961..76010 [-]
Host baterium   Klebsiella michiganensis strain KO2008341

Cargo genes

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