Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   105200
Name   oriT_pRHBSTW-00113_3 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00113
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056856 (75388..75437 [-], 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_pRHBSTW-00113_3
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   3584 GenBank   WP_075606914
Name   traI_HV075_RS26645_pRHBSTW-00113_3 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.

(1432-1552)

(577-628)

(11-283)

(970-1157)

(634-713)


  Protein structure



No available structure.




Auxiliary protein


ID   1600 GenBank   WP_053390193
Name   WP_053390193_pRHBSTW-00113_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.

(1-125)


  Protein structure



No available structure.




T4CP


ID   3545 GenBank   WP_075606915
Name   traD_HV075_RS26640_pRHBSTW-00113_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: 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.

(32-128)

(172-560)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 74821..104099

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV075_RS26435 (HV075_26440) 70011..70886 + 876 WP_060415463 DUF4942 domain-containing protein -
HV075_RS26440 (HV075_26445) 71666..72004 + 339 WP_020804855 hypothetical protein -
HV075_RS26445 (HV075_26450) 72061..72408 + 348 WP_064182675 hypothetical protein -
HV075_RS26450 (HV075_26455) 72497..72727 + 231 WP_060415465 hypothetical protein -
HV075_RS26455 (HV075_26460) 72774..73607 + 834 WP_060415466 N-6 DNA methylase -
HV075_RS26460 (HV075_26465) 73893..74261 - 369 WP_080848162 hypothetical protein -
HV075_RS26465 (HV075_26470) 74256..74798 + 543 WP_060415467 antirestriction protein -
HV075_RS26470 (HV075_26475) 74821..75243 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
HV075_RS26475 (HV075_26480) 75749..76141 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
HV075_RS26480 (HV075_26485) 76379..77080 + 702 WP_094898581 hypothetical protein -
HV075_RS26485 (HV075_26490) 77241..77402 + 162 WP_172686697 TraY domain-containing protein -
HV075_RS26490 (HV075_26495) 77467..77835 + 369 WP_064386081 type IV conjugative transfer system pilin TraA -
HV075_RS26495 (HV075_26500) 77849..78154 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
HV075_RS26500 (HV075_26505) 78170..78736 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
HV075_RS26505 (HV075_26510) 78723..79457 + 735 WP_064343528 type-F conjugative transfer system secretin TraK traK
HV075_RS26510 (HV075_26515) 79457..80878 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
HV075_RS26515 (HV075_26520) 80871..81305 + 435 WP_020322358 conjugal transfer protein TraP -
HV075_RS26520 (HV075_26525) 81339..81923 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
HV075_RS26525 (HV075_26530) 82536..82724 + 189 WP_053390286 hypothetical protein -
HV075_RS27565 82808..83209 + 402 WP_064343532 hypothetical protein -
HV075_RS26535 (HV075_26540) 83206..83505 + 300 WP_053390308 hypothetical protein -
HV075_RS26540 (HV075_26545) 83593..83976 + 384 WP_042946290 hypothetical protein -
HV075_RS26545 (HV075_26550) 84069..86708 + 2640 WP_064343533 type IV secretion system protein TraC virb4
HV075_RS26550 (HV075_26555) 86708..87100 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
HV075_RS26555 (HV075_26560) 87097..87723 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
HV075_RS26560 (HV075_26565) 87767..88726 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
HV075_RS26565 (HV075_26570) 88739..89386 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV075_RS26570 (HV075_26575) 89383..89766 + 384 WP_053390297 hypothetical protein -
HV075_RS26575 (HV075_26580) 89763..91718 + 1956 WP_064343537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV075_RS26580 (HV075_26585) 91750..92010 + 261 WP_053390216 hypothetical protein -
HV075_RS26585 (HV075_26590) 92003..92614 + 612 WP_053390217 hypothetical protein -
HV075_RS26590 (HV075_26595) 92604..92846 + 243 WP_053390218 conjugal transfer protein TrbE -
HV075_RS26595 (HV075_26600) 92892..93218 + 327 WP_053390219 hypothetical protein -
HV075_RS26600 (HV075_26605) 93239..93991 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
HV075_RS26605 (HV075_26610) 94002..94238 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
HV075_RS26610 (HV075_26615) 94213..94773 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV075_RS26615 (HV075_26620) 94760..96130 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
HV075_RS26620 (HV075_26625) 96130..99009 + 2880 WP_064386194 conjugal transfer mating-pair stabilization protein TraG traG
HV075_RS26625 (HV075_26630) 99026..99694 + 669 WP_128317877 hypothetical protein -
HV075_RS26630 (HV075_26635) 100047..100778 + 732 WP_064386198 conjugal transfer complement resistance protein TraT -
HV075_RS27570 100970..101662 + 693 WP_202395549 hypothetical protein -
HV075_RS26640 (HV075_26645) 101781..104099 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4


Host bacterium


ID   5638 GenBank   NZ_CP056856
Plasmid name   pRHBSTW-00113_3 Incompatibility group   IncN
Plasmid size   115230 bp Coordinate of oriT [Strand]   75388..75437 [-]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00113

Cargo genes


Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merR2, merB, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -