Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104570
Name   oriT_STIN_93|unnamed2 in_silico
Organism   Klebsiella pneumoniae strain STIN_93
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP054974 (85453..85502 [+], 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    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_STIN_93|unnamed2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3295 GenBank   WP_239593762
Name   traI_HUZ61_RS26560_STIN_93|unnamed2 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: 190811.83 Da        Isoelectric Point: 6.1049

>WP_239593762.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKTLFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQTLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLASDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHEARRENGETGREEVTL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEQAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VERVKEVIGDVIRGLERDRPGTEKTTLPDDPKFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1158)

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   3235 GenBank   WP_065907746
Name   traD_HUZ61_RS26565_STIN_93|unnamed2 insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 85386.43 Da        Isoelectric Point: 5.1228

>WP_065907746.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARALFTPDAADTDSHAGEQPEPVSQPAPAEVT
VSPALVKAPPTTKSPAAEPSARAAEPPVLRVTTVPLIKPKAAAAAAAAATASSVGTPAAGGTEQELAQQS
AEQGQEMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINRSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 57022..82955

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ61_RS26565 (HUZ61_26550) 57022..59313 - 2292 WP_065907746 type IV conjugative transfer system coupling protein TraD virb4
HUZ61_RS26570 59387..59482 - 96 Protein_55 hypothetical protein -
HUZ61_RS26575 (HUZ61_26555) 59675..60406 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
HUZ61_RS26580 (HUZ61_26560) 60596..61123 - 528 WP_047665858 conjugal transfer protein TraS -
HUZ61_RS26585 (HUZ61_26565) 61129..63978 - 2850 WP_173818511 conjugal transfer mating-pair stabilization protein TraG traG
HUZ61_RS26590 (HUZ61_26570) 63978..65348 - 1371 WP_047665852 conjugal transfer pilus assembly protein TraH traH
HUZ61_RS26595 (HUZ61_26575) 65335..65757 - 423 WP_049010971 hypothetical protein -
HUZ61_RS26600 (HUZ61_26580) 65750..66322 - 573 WP_055323574 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HUZ61_RS26605 (HUZ61_26585) 66294..66533 - 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
HUZ61_RS26610 (HUZ61_26590) 66544..67296 - 753 WP_047665849 type-F conjugative transfer system pilin assembly protein TraF traF
HUZ61_RS26615 (HUZ61_26595) 67317..67643 - 327 WP_012539967 hypothetical protein -
HUZ61_RS26620 (HUZ61_26600) 67654..67881 - 228 WP_047665846 conjugal transfer protein TrbE -
HUZ61_RS26625 (HUZ61_26605) 67871..68152 - 282 WP_047665844 hypothetical protein -
HUZ61_RS26630 (HUZ61_26610) 68185..70140 - 1956 WP_239593757 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HUZ61_RS26635 (HUZ61_26615) 70199..70837 - 639 WP_047667531 type-F conjugative transfer system pilin assembly protein TrbC trbC
HUZ61_RS26640 (HUZ61_26620) 70850..71839 - 990 WP_046622837 conjugal transfer pilus assembly protein TraU traU
HUZ61_RS26645 (HUZ61_26625) 71836..72225 - 390 WP_047667530 hypothetical protein -
HUZ61_RS26650 (HUZ61_26630) 72267..72893 - 627 WP_004152507 type-F conjugative transfer system protein TraW traW
HUZ61_RS26655 (HUZ61_26635) 72893..73282 - 390 WP_046622835 type-F conjugative transfer system protein TrbI -
HUZ61_RS26660 (HUZ61_26640) 73282..75921 - 2640 WP_046622834 type IV secretion system protein TraC virb4
HUZ61_RS26665 (HUZ61_26645) 75993..76391 - 399 WP_004153071 hypothetical protein -
HUZ61_RS26670 (HUZ61_26650) 76399..76791 - 393 WP_077269848 hypothetical protein -
HUZ61_RS26675 (HUZ61_26655) 76834..77238 - 405 WP_065907749 hypothetical protein -
HUZ61_RS26680 (HUZ61_26660) 77305..77616 - 312 WP_047665766 hypothetical protein -
HUZ61_RS26685 (HUZ61_26665) 77617..77835 - 219 WP_014386199 hypothetical protein -
HUZ61_RS26690 (HUZ61_26670) 77859..78149 - 291 WP_065907748 hypothetical protein -
HUZ61_RS26695 78178..78576 - 399 WP_223170083 hypothetical protein -
HUZ61_RS26700 (HUZ61_26680) 78732..79301 - 570 WP_046622829 type IV conjugative transfer system lipoprotein TraV traV
HUZ61_RS26705 (HUZ61_26685) 79324..79920 - 597 WP_047665764 conjugal transfer pilus-stabilizing protein TraP -
HUZ61_RS26710 (HUZ61_26690) 79913..81337 - 1425 WP_046622826 F-type conjugal transfer pilus assembly protein TraB traB
HUZ61_RS26715 (HUZ61_26695) 81337..82077 - 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
HUZ61_RS26720 (HUZ61_26700) 82064..82630 - 567 WP_047665763 type IV conjugative transfer system protein TraE traE
HUZ61_RS26725 (HUZ61_26705) 82650..82955 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HUZ61_RS26730 (HUZ61_26710) 82969..83337 - 369 WP_173818512 type IV conjugative transfer system pilin TraA -
HUZ61_RS26735 (HUZ61_26715) 83391..83762 - 372 WP_071885111 TraY domain-containing protein -
HUZ61_RS26740 (HUZ61_26720) 83846..84541 - 696 WP_072194100 transcriptional regulator TraJ family protein -
HUZ61_RS26745 (HUZ61_26725) 84748..85140 - 393 WP_047665760 conjugal transfer relaxosome DNA-binding protein TraM -
HUZ61_RS26750 (HUZ61_26730) 85647..86054 + 408 WP_223170089 transglycosylase SLT domain-containing protein -
HUZ61_RS26755 (HUZ61_26735) 86092..86622 - 531 WP_065907732 antirestriction protein -

Host bacterium

ID   5009 GenBank   NZ_CP054974
Plasmid name   STIN_93|unnamed2 Incompatibility group   IncFIB
Plasmid size   120564 bp Coordinate of oriT [Strand]   85453..85502 [+]
Host baterium   Klebsiella pneumoniae strain STIN_93

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -