Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101759
Name   oriT_pRHBSTW-00092_5 in_silico
Organism   Klebsiella grimontii strain RHBSTW-00092
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXRN010000005 (63062..63111 [-], 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-00092_5
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1482 GenBank   WP_082226159
Name   traI_HV064_RS30105_pRHBSTW-00092_5 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   593 GenBank   WP_053390193
Name   WP_053390193_pRHBSTW-00092_5 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   1157 GenBank   WP_064386203
Name   traD_HV064_RS30100_pRHBSTW-00092_5 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: 86585.38 Da        Isoelectric Point: 5.0283

>WP_064386203.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
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: 65523..91994

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV064_RS29925 (HV064_29920) 61930..62472 + 543 WP_053390246 antirestriction protein -
HV064_RS29930 (HV064_29925) 62495..62917 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
HV064_RS29935 (HV064_29930) 63423..63815 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
HV064_RS29940 (HV064_29935) 64053..64754 + 702 WP_094898581 hypothetical protein -
HV064_RS29945 (HV064_29940) 64915..65076 + 162 WP_172686697 TraY domain-containing protein -
HV064_RS29950 (HV064_29945) 65141..65509 + 369 WP_064386081 type IV conjugative transfer system pilin TraA -
HV064_RS29955 (HV064_29950) 65523..65828 + 306 WP_032744112 type IV conjugative transfer system protein TraL traL
HV064_RS29960 (HV064_29955) 65847..66413 + 567 WP_064386078 type IV conjugative transfer system protein TraE traE
HV064_RS29965 (HV064_29960) 66400..67134 + 735 WP_064386077 type-F conjugative transfer system secretin TraK traK
HV064_RS29970 (HV064_29965) 67134..68558 + 1425 WP_064386076 F-type conjugal transfer pilus assembly protein TraB traB
HV064_RS29975 (HV064_29970) 68621..69190 + 570 WP_074182910 type IV conjugative transfer system lipoprotein TraV traV
HV064_RS29980 (HV064_29975) 69304..69582 + 279 WP_064386123 hypothetical protein -
HV064_RS29985 (HV064_29980) 69589..69831 + 243 WP_064386074 hypothetical protein -
HV064_RS29990 (HV064_29985) 69828..70232 + 405 WP_064386072 hypothetical protein -
HV064_RS29995 (HV064_29990) 70229..70576 + 348 WP_064386070 hypothetical protein -
HV064_RS30000 (HV064_29995) 70573..70971 + 399 WP_224253887 hypothetical protein -
HV064_RS30005 (HV064_30000) 71055..73694 + 2640 WP_132468255 type IV secretion system protein TraC virb4
HV064_RS30010 (HV064_30005) 73694..74083 + 390 WP_132468254 type-F conjugative transfer system protein TrbI -
HV064_RS30015 (HV064_30010) 74080..74709 + 630 WP_132468253 type-F conjugative transfer system protein TraW traW
HV064_RS30020 (HV064_30015) 74732..75709 + 978 WP_157349379 conjugal transfer pilus assembly protein TraU traU
HV064_RS30025 (HV064_30020) 75938..76546 + 609 WP_232556516 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV064_RS30030 (HV064_30025) 76923..78878 + 1956 WP_148853181 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV064_RS30035 (HV064_30030) 78894..79274 + 381 WP_142255964 hypothetical protein -
HV064_RS30040 (HV064_30035) 79264..79491 + 228 WP_148853183 conjugal transfer protein TrbE -
HV064_RS30045 (HV064_30040) 79501..79827 + 327 WP_148853185 hypothetical protein -
HV064_RS30050 (HV064_30045) 79850..80602 + 753 WP_148853187 type-F conjugative transfer system pilin assembly protein TraF traF
HV064_RS30055 (HV064_30050) 81016..81375 - 360 WP_064386183 hypothetical protein -
HV064_RS30060 (HV064_30055) 81464..81700 + 237 WP_064386186 type-F conjugative transfer system pilin chaperone TraQ -
HV064_RS30065 (HV064_30060) 81675..82241 + 567 WP_100663597 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV064_RS30070 (HV064_30065) 82234..82662 + 429 WP_100663598 conjugal transfer protein TrbF -
HV064_RS30075 (HV064_30070) 82649..84019 + 1371 WP_064386191 conjugal transfer pilus assembly protein TraH traH
HV064_RS30080 (HV064_30075) 84019..86898 + 2880 WP_064386194 conjugal transfer mating-pair stabilization protein TraG traG
HV064_RS30085 (HV064_30080) 86915..87583 + 669 WP_128317877 hypothetical protein -
HV064_RS30090 (HV064_30085) 87942..88673 + 732 WP_064386198 conjugal transfer complement resistance protein TraT -
HV064_RS30565 88865..89557 + 693 WP_202395549 hypothetical protein -
HV064_RS30100 (HV064_30095) 89676..91994 + 2319 WP_064386203 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2203 GenBank   NZ_JABXRN010000005
Plasmid name   pRHBSTW-00092_5 Incompatibility group   IncFII
Plasmid size   103125 bp Coordinate of oriT [Strand]   63062..63111 [-]
Host baterium   Klebsiella grimontii strain RHBSTW-00092

Cargo genes

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