Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104592
Name   oriT_STLIN_19|unnamed2 in_silico
Organism   Klebsiella pneumoniae strain STLIN_19
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP058754 (57008..57057 [-], 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_19|unnamed2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3304 GenBank   WP_047665818
Name   traI_HZT05_RS27330_STLIN_19|unnamed2 insolico UniProt ID   A0A0S1TL23
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190754.90 Da        Isoelectric Point: 6.3385

>WP_047665818.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDAFVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAMGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   3244 GenBank   WP_013023832
Name   traD_HZT05_RS27325_STLIN_19|unnamed2 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85974.10 Da        Isoelectric Point: 5.1149

>WP_013023832.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDYVEIGGNF

  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: 59516..86822

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HZT05_RS27120 (HZT05_27010) 55888..56418 + 531 WP_240726569 antirestriction protein -
HZT05_RS27125 (HZT05_27015) 56456..56863 - 408 WP_223170089 transglycosylase SLT domain-containing protein -
HZT05_RS27130 (HZT05_27020) 57357..57755 + 399 WP_042938822 conjugal transfer relaxosome DNA-binding protein TraM -
HZT05_RS27135 (HZT05_27025) 57929..58615 + 687 WP_004152494 transcriptional regulator TraJ family protein -
HZT05_RS27140 (HZT05_27030) 58694..59080 + 387 WP_004152495 TraY domain-containing protein -
HZT05_RS27145 (HZT05_27035) 59134..59502 + 369 WP_048295882 type IV conjugative transfer system pilin TraA -
HZT05_RS27150 (HZT05_27040) 59516..59821 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HZT05_RS27155 (HZT05_27045) 59841..60407 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
HZT05_RS27160 (HZT05_27050) 60394..61134 + 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
HZT05_RS27165 (HZT05_27055) 61134..62558 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
HZT05_RS27170 (HZT05_27060) 62551..62964 + 414 Protein_76 conjugal transfer pilus-stabilizing protein TraP -
HZT05_RS27175 (HZT05_27065) 63002..63157 + 156 WP_153587559 hypothetical protein -
HZT05_RS27180 (HZT05_27070) 63178..63747 + 570 WP_240726570 type IV conjugative transfer system lipoprotein TraV traV
HZT05_RS27185 (HZT05_27075) 63879..64289 + 411 WP_240726571 hypothetical protein -
HZT05_RS27190 (HZT05_27080) 64294..64584 + 291 WP_048993668 hypothetical protein -
HZT05_RS27195 (HZT05_27085) 64608..64826 + 219 WP_015344987 hypothetical protein -
HZT05_RS27200 (HZT05_27090) 64827..65138 + 312 WP_015344986 hypothetical protein -
HZT05_RS27205 (HZT05_27095) 65205..65609 + 405 WP_049248024 hypothetical protein -
HZT05_RS27210 (HZT05_27100) 65606..65896 + 291 WP_023340940 hypothetical protein -
HZT05_RS27215 (HZT05_27105) 65904..66302 + 399 WP_240726572 hypothetical protein -
HZT05_RS27220 (HZT05_27110) 66374..69013 + 2640 WP_240726573 type IV secretion system protein TraC virb4
HZT05_RS27225 (HZT05_27115) 69013..69402 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
HZT05_RS27230 (HZT05_27120) 69402..70028 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
HZT05_RS27235 (HZT05_27125) 70048..71031 + 984 WP_117355386 conjugal transfer pilus assembly protein TraU traU
HZT05_RS27240 (HZT05_27130) 71055..71231 + 177 WP_240726574 hypothetical protein -
HZT05_RS27245 (HZT05_27135) 71249..71791 + 543 WP_240726575 hypothetical protein -
HZT05_RS27250 (HZT05_27140) 71796..72413 + 618 WP_227643712 hypothetical protein -
HZT05_RS27255 (HZT05_27145) 72453..73100 + 648 WP_240726576 type-F conjugative transfer system pilin assembly protein TrbC trbC
HZT05_RS27260 (HZT05_27150) 73159..75114 + 1956 WP_240726577 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HZT05_RS27265 (HZT05_27155) 75147..75428 + 282 WP_240726578 hypothetical protein -
HZT05_RS27270 (HZT05_27160) 75418..75645 + 228 WP_012540032 conjugal transfer protein TrbE -
HZT05_RS27275 (HZT05_27165) 75656..75982 + 327 WP_004152676 hypothetical protein -
HZT05_RS27280 (HZT05_27170) 76003..76755 + 753 WP_048337413 type-F conjugative transfer system pilin assembly protein TraF traF
HZT05_RS27285 (HZT05_27175) 77214..77453 + 240 WP_141491125 type-F conjugative transfer system pilin chaperone TraQ -
HZT05_RS27290 (HZT05_27180) 77425..77982 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HZT05_RS27295 (HZT05_27185) 78028..78471 + 444 WP_013023828 F-type conjugal transfer protein TrbF -
HZT05_RS27300 (HZT05_27190) 78449..79828 + 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
HZT05_RS27305 (HZT05_27195) 79828..82672 + 2845 Protein_103 conjugal transfer mating-pair stabilization protein TraG -
HZT05_RS27310 (HZT05_27200) 82685..83233 + 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
HZT05_RS27315 (HZT05_27205) 83417..84148 + 732 WP_004152622 conjugal transfer complement resistance protein TraT -
HZT05_RS27320 84341..84436 + 96 Protein_106 hypothetical protein -
HZT05_RS27325 (HZT05_27210) 84510..86822 + 2313 WP_013023832 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5031 GenBank   NZ_CP058754
Plasmid name   STLIN_19|unnamed2 Incompatibility group   IncFII
Plasmid size   102698 bp Coordinate of oriT [Strand]   57008..57057 [-]
Host baterium   Klebsiella pneumoniae strain STLIN_19

Cargo genes

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