Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104166
Name   oriT_pKLO00015_7 in_silico
Organism   Klebsiella michiganensis strain KLO00015
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP378642 (51361..51410 [-], 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_pKLO00015_7
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3060 GenBank   WP_075606914
Name   traI_PWC33_RS00535_pKLO00015_7 insolico UniProt ID   A0A6M3HIK1
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190386.65 Da        Isoelectric Point: 5.5084

>WP_075606914.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTNNLI
IARFNHDTSRAQEPQIHTHSVVINATQNGDKWQTLGSDTVGKTGFSENILANRIAFGKIYQSTLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADTRAKELASAPAAPVKTDVPDISDVVTKAIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDTAVVRQSPF
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   1321 GenBank   WP_053390193
Name   WP_053390193_pKLO00015_7 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   2947 GenBank   WP_075606915
Name   traD_PWC33_RS00530_pKLO00015_7 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: 86712.47 Da        Isoelectric Point: 5.0825

>WP_075606915.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLILMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKSRPKIAEGFILRNLDTRTDARLDTLLEAREAESSHARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTPATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVRATPAGG
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: 50794..80078

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PWC33_RS00310 45984..46859 + 876 WP_060415463 DUF4942 domain-containing protein -
PWC33_RS00315 47639..47977 + 339 WP_020804855 hypothetical protein -
PWC33_RS00320 48034..48381 + 348 WP_064182675 hypothetical protein -
PWC33_RS00325 48470..48700 + 231 WP_060415465 hypothetical protein -
PWC33_RS00330 48747..49580 + 834 WP_060415466 N-6 DNA methylase -
PWC33_RS00335 49866..50234 - 369 WP_080848162 hypothetical protein -
PWC33_RS00340 50229..50771 + 543 WP_060415467 antirestriction protein -
PWC33_RS00345 50794..51216 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
PWC33_RS00350 51722..52114 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
PWC33_RS00355 52490..53053 + 564 WP_274066333 hypothetical protein -
PWC33_RS00360 53214..53375 + 162 WP_172686697 TraY domain-containing protein -
PWC33_RS00365 53440..53808 + 369 WP_064386081 type IV conjugative transfer system pilin TraA -
PWC33_RS00370 53822..54127 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
PWC33_RS00375 54143..54709 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
PWC33_RS00380 54696..55430 + 735 WP_064343528 type-F conjugative transfer system secretin TraK traK
PWC33_RS00385 55430..56851 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
PWC33_RS00390 56844..57278 + 435 WP_020322358 conjugal transfer protein TraP -
PWC33_RS00395 57312..57896 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
PWC33_RS00400 57973..58197 + 225 WP_053390288 hypothetical protein -
PWC33_RS00405 58263..58502 + 240 WP_053390287 hypothetical protein -
PWC33_RS00410 58509..58697 + 189 WP_053390286 hypothetical protein -
PWC33_RS00415 58781..59182 + 402 WP_064343532 hypothetical protein -
PWC33_RS00420 59179..59478 + 300 WP_053390308 hypothetical protein -
PWC33_RS00425 59566..59949 + 384 WP_042946290 hypothetical protein -
PWC33_RS00430 60042..62681 + 2640 WP_064343533 type IV secretion system protein TraC virb4
PWC33_RS00435 62681..63073 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
PWC33_RS00440 63070..63696 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
PWC33_RS00445 63740..64699 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
PWC33_RS00450 64712..65359 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
PWC33_RS00455 65356..65739 + 384 WP_053390297 hypothetical protein -
PWC33_RS00460 65736..67691 + 1956 WP_064343537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PWC33_RS00465 67723..67983 + 261 WP_053390216 hypothetical protein -
PWC33_RS00470 67976..68587 + 612 WP_053390217 hypothetical protein -
PWC33_RS00475 68577..68819 + 243 WP_053390218 conjugal transfer protein TrbE -
PWC33_RS00480 68865..69191 + 327 WP_053390219 hypothetical protein -
PWC33_RS00485 69212..69964 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
PWC33_RS00490 69975..70211 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
PWC33_RS00495 70186..70746 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PWC33_RS00500 70733..72103 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
PWC33_RS00505 72103..74982 + 2880 WP_064386194 conjugal transfer mating-pair stabilization protein TraG traG
PWC33_RS00510 75055..75465 - 411 WP_181726263 hypothetical protein -
PWC33_RS00515 75464..75667 + 204 WP_181726262 hypothetical protein -
PWC33_RS00520 76026..76757 + 732 WP_064386198 conjugal transfer complement resistance protein TraT -
PWC33_RS00525 76949..77641 + 693 WP_202395549 hypothetical protein -
PWC33_RS00530 77760..80078 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4605 GenBank   NZ_OP378642
Plasmid name   pKLO00015_7 Incompatibility group   IncFII
Plasmid size   91209 bp Coordinate of oriT [Strand]   51361..51410 [-]
Host baterium   Klebsiella michiganensis strain KLO00015

Cargo genes

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