Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104424
Name   oriT_STLIN_10|unnamed2 in_silico
Organism   Klebsiella pneumoniae strain STLIN_10
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP058745 (55897..55946 [-], 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_STLIN_10|unnamed2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3220 GenBank   WP_240726751
Name   traI_HZS96_RS27290_STLIN_10|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: 190792.82 Da        Isoelectric Point: 6.0523

>WP_240726751.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKTLFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQTLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDMAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVIGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHDARRENGETGREEITL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(635-714)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

AAA domain (AAA_30)

(971-1158)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   3132 GenBank   WP_240726750
Name   traD_HZS96_RS27285_STLIN_10|unnamed2 insolico UniProt ID   _
Length   768 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 768 a.a.        Molecular weight: 85843.94 Da        Isoelectric Point: 5.0194

>WP_240726750.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRSLDARVDARLSALLEAREAEGSLARALFTPDAPEPGHADTDSHAGEQPEPVSQPA
PAEVTVSPAPVKAPPPTKMPEAEPSARAVEAPVLRVTTVPLIKPKAAAAAAAAATASSVGTPAAGGTEQE
LAQQSAEQGQEMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINRSHRHDEQDDVEIGGNF

  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: 58405..85709

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HZS96_RS27085 (HZS96_26970) 54777..55307 + 531 WP_240726569 antirestriction protein -
HZS96_RS27090 (HZS96_26975) 55345..55752 - 408 WP_223170089 transglycosylase SLT domain-containing protein -
HZS96_RS27095 (HZS96_26980) 56246..56644 + 399 WP_042938822 conjugal transfer relaxosome DNA-binding protein TraM -
HZS96_RS27100 (HZS96_26985) 56818..57504 + 687 WP_004152494 transcriptional regulator TraJ family protein -
HZS96_RS27105 (HZS96_26990) 57583..57969 + 387 WP_004152495 TraY domain-containing protein -
HZS96_RS27110 (HZS96_26995) 58023..58391 + 369 WP_042938827 type IV conjugative transfer system pilin TraA -
HZS96_RS27115 (HZS96_27000) 58405..58710 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HZS96_RS27120 (HZS96_27005) 58730..59296 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HZS96_RS27125 (HZS96_27010) 59283..60023 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HZS96_RS27130 (HZS96_27015) 60023..61447 + 1425 WP_016529134 F-type conjugal transfer pilus assembly protein TraB traB
HZS96_RS27135 (HZS96_27020) 61440..61853 + 414 Protein_75 conjugal transfer pilus-stabilizing protein TraP -
HZS96_RS27140 (HZS96_27025) 62066..62635 + 570 WP_240726570 type IV conjugative transfer system lipoprotein TraV traV
HZS96_RS27145 (HZS96_27030) 62767..63177 + 411 WP_065808169 hypothetical protein -
HZS96_RS27150 (HZS96_27035) 63182..63472 + 291 WP_048993668 hypothetical protein -
HZS96_RS27155 (HZS96_27040) 63496..63714 + 219 WP_115655638 hypothetical protein -
HZS96_RS27160 (HZS96_27045) 63715..64032 + 318 WP_016530481 hypothetical protein -
HZS96_RS27165 (HZS96_27050) 64099..64503 + 405 WP_049155527 hypothetical protein -
HZS96_RS27170 (HZS96_27055) 64500..64790 + 291 WP_023340940 hypothetical protein -
HZS96_RS27175 (HZS96_27060) 64798..65196 + 399 WP_162994809 hypothetical protein -
HZS96_RS27180 (HZS96_27065) 65268..67907 + 2640 WP_049155532 type IV secretion system protein TraC virb4
HZS96_RS27185 (HZS96_27070) 67907..68296 + 390 WP_020326931 type-F conjugative transfer system protein TrbI -
HZS96_RS27190 (HZS96_27075) 68296..68922 + 627 WP_004163052 type-F conjugative transfer system protein TraW traW
HZS96_RS27195 (HZS96_27080) 68966..69925 + 960 WP_168712236 conjugal transfer pilus assembly protein TraU traU
HZS96_RS27200 (HZS96_27085) 69949..70125 + 177 WP_240726574 hypothetical protein -
HZS96_RS27205 (HZS96_27090) 70143..70685 + 543 WP_240726575 hypothetical protein -
HZS96_RS27210 (HZS96_27095) 70690..71307 + 618 WP_227643712 hypothetical protein -
HZS96_RS27215 (HZS96_27100) 71347..71994 + 648 WP_109882972 type-F conjugative transfer system pilin assembly protein TrbC trbC
HZS96_RS27220 (HZS96_27105) 72053..74008 + 1956 WP_240726746 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HZS96_RS27225 (HZS96_27110) 74041..74322 + 282 WP_240726578 hypothetical protein -
HZS96_RS27230 (HZS96_27115) 74312..74539 + 228 WP_012540032 conjugal transfer protein TrbE -
HZS96_RS27235 (HZS96_27120) 74550..74876 + 327 WP_042939085 hypothetical protein -
HZS96_RS27240 (HZS96_27125) 74897..75649 + 753 WP_049119076 type-F conjugative transfer system pilin assembly protein TraF traF
HZS96_RS27245 (HZS96_27130) 76108..76347 + 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
HZS96_RS27250 (HZS96_27135) 76319..76876 + 558 WP_240726747 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HZS96_RS27255 (HZS96_27140) 76922..77365 + 444 WP_240726748 F-type conjugal transfer protein TrbF -
HZS96_RS27260 (HZS96_27145) 77343..78722 + 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
HZS96_RS27265 (HZS96_27150) 78722..81565 + 2844 WP_240726749 conjugal transfer mating-pair stabilization protein TraG traG
HZS96_RS27270 (HZS96_27155) 81578..82126 + 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
HZS96_RS27275 (HZS96_27160) 82310..83041 + 732 WP_004152622 conjugal transfer complement resistance protein TraT -
HZS96_RS27280 83234..83329 + 96 Protein_104 hypothetical protein -
HZS96_RS27285 (HZS96_27165) 83403..85709 + 2307 WP_240726750 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4863 GenBank   NZ_CP058745
Plasmid name   STLIN_10|unnamed2 Incompatibility group   IncFIA
Plasmid size   102695 bp Coordinate of oriT [Strand]   55897..55946 [-]
Host baterium   Klebsiella pneumoniae strain STLIN_10

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9