Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105439
Name   oriT_pKmfe267-2 in_silico
Organism   Klebsiella michiganensis strain Kmfe267
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071395 (124831..124877 [+], 47 nt)
oriT length   47 nt
IRs (inverted repeats)      4..11, 14..21  (GCAAAATT..AATTTTGC)
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_pKmfe267-2
TCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3708 GenBank   WP_207172875
Name   traI_J1F62_RS29570_pKmfe267-2 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: 190161.34 Da        Isoelectric Point: 5.6901

>WP_207172875.1 conjugative transfer relaxase/helicase TraI [Klebsiella michiganensis]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSLEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDRRLIDAHNQAVTEAVRQIETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYRELFKPLVE
KLGYETEVVGKHGMWEMKDVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADGRAAALSSAPPAPVKTDGPDITDVVTKAIAGLSDHKVQFTYADLLARTVGQLE
AKPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASEVRQAP
FSDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIIAADNRSRDFLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTY
RWQGGKQATADIISEPDKGARYSRLAEEFAFSVREGQESVAQISGTREQSVLNNVIRDTLKNEGVLGNRE
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLKDREGERLDLKVSAV
DSQWTLFRADKLPVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQSLFVGSTPFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDTARTTEKLARHTAFSVVSE
QLKARSGEADLDAAIAQQKAGLHTPAEQAVHLSIPLLESQNLTFTRPQLLATALEAGGEKVPMTDIDRTI
QEQIKSGQLLNVAISTGHGNDLLISRQTWDAEKSVLTRVLEGKDSVTPLMDRVPASLMTDLTAGQRAATR
MILETTDRFTLVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLGPTHRAVGEMQGAGVEAQTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLTDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVNSALSTLEQVTPEQVPRKDGAWAPESSVVEFTPAQEKAIQ
EALDKGESVAEGQPTTLYGALVKDYSGRTPEAQAQTLIITHLNTDRRALNSLIHEARRENGETGREEVAV
PVLVTSNIRDGELRKLSTWSEHQGAVALLDNTYQRIESVDKENQLISLKDSEGNTRLLSPREASAEGVTL
YRQETITVSQGDRMRFSKSDPERGYVANSVWEVQSVTGDSVTLSDGKATRILNPKADEAQRHIDLAYAIT
AHGAQGASETYAIALEGVAGGRKGMASFESAYVGLSRMKQHVQVYTDSREGWVNAIRSSPSKATAHDILE
PRNDRAVKNAGQLFGRAKPLDEIAAGRAALQQSGLARGSSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRDGRLEAIGGEGRVMGDESARFVALQNSRNGESLLAGNMGEGVRLARDNPDTGVVVRLAGDDR
SWNPGAMTGGRVWADPVPAESLPHAGTDIPLPPEVLAQRAAEEVQRQEVEKQAEQTAREVAGEARKAGDP
GDRVKEVIGDVIRGLERDRPDTEKTALPDDPQTRRQEAAIQQVASEHLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(971-1158)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   3695 GenBank   WP_207172877
Name   traD_J1F62_RS29575_pKmfe267-2 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: 86745.70 Da        Isoelectric Point: 4.8571

>WP_207172877.1 type IV conjugative transfer system coupling protein TraD [Klebsiella michiganensis]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILYWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVLAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDNPKEVARQMKRDGQASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPMDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKVAEGFIQRTFDTRVDARLNALLAAREAEGSLARMLFTPDAPEAEQTDQDSKAGAQHEPVKQPE
PAEGTVSPVPVTALSAAKTPAAEDPVKSPETLRPEVSDTRITTVPLIRTKPASSATGTAAAAAGVTVHTG
GTEQELAQQSADVGQEMMPAGMNEDGEIEDMQAYDAWLADELTQRDMQRREEVNINHSHRRDEQDDIEIG
GNF

  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: 97019..122481

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J1F62_RS29575 (J1F62_29575) 97019..99340 - 2322 WP_207172877 type IV conjugative transfer system coupling protein TraD virb4
J1F62_RS29580 (J1F62_29580) 99535..100266 - 732 WP_207172879 conjugal transfer complement resistance protein TraT -
J1F62_RS29585 (J1F62_29585) 100407..100997 - 591 WP_207172881 hypothetical protein -
J1F62_RS29590 (J1F62_29590) 101013..103835 - 2823 WP_207172883 conjugal transfer mating-pair stabilization protein TraG traG
J1F62_RS29595 (J1F62_29595) 103835..105205 - 1371 WP_207172885 conjugal transfer pilus assembly protein TraH traH
J1F62_RS29600 (J1F62_29600) 105192..105620 - 429 WP_207172887 conjugal transfer protein TrbF -
J1F62_RS29605 (J1F62_29605) 105613..106185 - 573 WP_207172889 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
J1F62_RS29610 (J1F62_29610) 106157..106396 - 240 WP_049071719 type-F conjugative transfer system pilin chaperone TraQ -
J1F62_RS29615 (J1F62_29615) 106407..107159 - 753 WP_207172891 type-F conjugative transfer system pilin assembly protein TraF traF
J1F62_RS29620 (J1F62_29620) 107180..107506 - 327 WP_207172893 hypothetical protein -
J1F62_RS29625 (J1F62_29625) 107519..107767 - 249 WP_207172895 hypothetical protein -
J1F62_RS29630 (J1F62_29630) 107745..108005 - 261 WP_207172897 conjugal transfer protein TrbE -
J1F62_RS29635 (J1F62_29635) 107995..108276 - 282 WP_207172899 hypothetical protein -
J1F62_RS29640 (J1F62_29640) 108365..108838 - 474 WP_207172901 hypothetical protein -
J1F62_RS29645 (J1F62_29645) 108871..110745 - 1875 WP_207172903 type-F conjugative transfer system mating-pair stabilization protein TraN traN
J1F62_RS29650 (J1F62_29650) 110742..111359 - 618 WP_207172904 type-F conjugative transfer system pilin assembly protein TrbC trbC
J1F62_RS29655 (J1F62_29655) 111372..112355 - 984 WP_207172970 conjugal transfer pilus assembly protein TraU traU
J1F62_RS29660 (J1F62_29660) 112374..113000 - 627 WP_207172905 type-F conjugative transfer system protein TraW traW
J1F62_RS29665 (J1F62_29665) 112997..113437 - 441 WP_207172906 type-F conjugative transfer system protein TrbI -
J1F62_RS29670 (J1F62_29670) 113437..116076 - 2640 WP_207172907 type IV secretion system protein TraC virb4
J1F62_RS29675 (J1F62_29675) 116239..116538 - 300 WP_207172908 hypothetical protein -
J1F62_RS29680 (J1F62_29680) 116564..116881 - 318 WP_207172909 hypothetical protein -
J1F62_RS29685 (J1F62_29685) 116911..117315 - 405 WP_207172910 hypothetical protein -
J1F62_RS29690 (J1F62_29690) 117296..117533 - 238 Protein_134 hypothetical protein -
J1F62_RS29695 (J1F62_29695) 117557..117850 - 294 WP_207172911 hypothetical protein -
J1F62_RS29700 (J1F62_29700) 118044..118628 - 585 WP_207172912 type IV conjugative transfer system lipoprotein TraV traV
J1F62_RS29705 (J1F62_29705) 118856..119455 - 600 WP_207172913 conjugal transfer protein TraP -
J1F62_RS29710 (J1F62_29710) 119448..120863 - 1416 WP_207172914 F-type conjugal transfer pilus assembly protein TraB traB
J1F62_RS29715 (J1F62_29715) 120863..121603 - 741 WP_207172915 type-F conjugative transfer system secretin TraK traK
J1F62_RS29720 (J1F62_29720) 121590..122156 - 567 WP_075912683 type IV conjugative transfer system protein TraE traE
J1F62_RS29725 (J1F62_29725) 122176..122481 - 306 WP_020323523 type IV conjugative transfer system protein TraL traL
J1F62_RS29730 (J1F62_29730) 122495..122860 - 366 WP_142480852 type IV conjugative transfer system pilin TraA -
J1F62_RS29735 (J1F62_29735) 122921..123124 - 204 WP_171972759 TraY domain-containing protein -
J1F62_RS29740 (J1F62_29740) 123279..123953 - 675 WP_207172916 conjugal transfer protein TrbJ -
J1F62_RS29745 (J1F62_29745) 124141..124544 - 404 Protein_145 conjugal transfer relaxosome DNA-binding protein TraM -
J1F62_RS29750 (J1F62_29750) 125022..125444 + 423 WP_228293860 transglycosylase SLT domain-containing protein -
J1F62_RS29755 (J1F62_29755) 125467..126009 - 543 WP_075912811 antirestriction protein -
J1F62_RS29760 (J1F62_29760) 126634..127467 - 834 WP_075912809 N-6 DNA methylase -

Host bacterium

ID   5877 GenBank   NZ_CP071395
Plasmid name   pKmfe267-2 Incompatibility group   IncFIB
Plasmid size   170909 bp Coordinate of oriT [Strand]   124831..124877 [+]
Host baterium   Klebsiella michiganensis strain Kmfe267

Cargo genes

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