Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   121985
Name   oriT_pKPYL1 in_silico
Organism   Raoultella ornithinolytica strain Yangling I2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP013339 (77329..77378 [-], 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_pKPYL1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   13860 GenBank   WP_064357876
Name   traI_ATN83_RS26015_pKPYL1 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: 190310.03 Da        Isoelectric Point: 6.1562

>WP_064357876.1 conjugative transfer relaxase/helicase TraI [Raoultella ornithinolytica]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKPVDKAVFTEILKGKLPDGSDLTRM
QDGTNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVTKALQQVETLAATRVMTDGKSETVLTGNL
IVAKFTHDTNRNEEPQLHTHAVVMNATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYREELKPLVE
ILGYKTEVVGKHGMWEMNEVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKAAIDPAEKMVEWMN
TMKETGFDMRSYREDADKRAAELASAPVSPVKTDGPDISDVVTKAIASLSDRKVQFTYADLLARTVSQLE
AKPGVFEQARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASVVRQAP
FSDAVSVLAQDRPAMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGEAVT
GKSALQDGTAFIPGGTLIIDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQVTADIISEPDKGARYSLLAQEFAASVREGQESVAQISGTREQNVLNSVIRNTLKNEGVLGEKE
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLKDKEGERLDMKVSAV
DSQWTLFRADKLPVAEGERLAVLGKIPDTRLKGGESITVLKSGDGQLTVQRPGQKTTQSLSVGSSPFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTMEKLARHTAFSVVSE
QLKARSGETDLDAAIAQQKAGLHTPAEQAIHLSVPLLESDDLTFTRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVSVSSGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTGLTAGQRASTR
MILETPDRFTVVQGYAGVGKTTQFRAVTSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLLRNGQTPDFSNTLFLIDESSMVGLSDKAKALSLIAAGGGRAVSSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVHRALTTIEQVTPEQVLRKEGAWAPGSSVVEFTRAQEKAIQ
EALKKGESVPAGQPATLYEALVKDYAGRTPEAQSQTLVITHLNKDRRALNGLIHDARRENGETGKEEITL
PVLVTSNIRDGELRRLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRREDITVSEGDRMRFSKSDPERGYVANSVWEVKSVSGDSVTLSDGKTSRTLNPKADEAQRHIDLAYAIT
AHGAQGASEPFAIALEGVAEGRKAMASFESAYVGLSRMKQHVQVYTDSREGWIKAINASPSKATAHDILA
PRNDRAVHTAEQLFSRARPMNETAAGRAALQQSGLAKGISPGKFISPGKQYPQPHVALPVYDKNGKEAGI
WLSSLTDSDGRLQVMGGEGRVMGNEDARFVALQGSRNGESLQAGNMGEGVRVARDNPDSGVVVCLAGDDR
PWNPGAITGGRVWADPIRVVSPEAAGTDIPLPPEVLAQRAAEEAQRQNMEKQAEQTAREVAGDGRKAGES
EDRVKEVIGDVIRGLEREKPGEEKMTLPDDPQTRKQEAAVQQVAQESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

(10-284)

(577-629)

(635-714)

(971-1157)

(1433-1552)


  Protein structure



No available structure.




Auxiliary protein


ID   7686 GenBank   WP_064357868
Name   WP_064357868_pKPYL1 insolico UniProt ID   _
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14633.57 Da        Isoelectric Point: 4.5352

>WP_064357868.1 conjugal transfer relaxosome DNA-binding protein TraM [Raoultella ornithinolytica]
MARVQAYASDEVAEKINAIVEKRKAEGAKDKDVSFSSVASMLLELGLRVYEAQMERKESGFNQAEFNKML
LENVIKTQFSISKVLAMESLSPHIQGDERFDFKSMVMNIRDDAKEVVERFFPDTDDEGS

  Protein domains


Predicted by InterproScan.

(1-126)


  Protein structure



No available structure.




T4CP


ID   16228 GenBank   WP_032716692
Name   traD_ATN83_RS26010_pKPYL1 insolico UniProt ID   _
Length   776 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 776 a.a.        Molecular weight: 86758.82 Da        Isoelectric Point: 4.9734

>WP_032716692.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGRSLEYNAEQILADKYTIWCGEQLWTSFVLAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLSLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRSLDTRVDTRLSALLEAREAEGSLARALFTPDAPAPDPAEKDVKVGNTPEQSQPAE
SIESPATVKVPATAKTPAADEIGQSPETPEPAAPVTKVVTVPLIRPRSATATGTAAVATTAASTTSATTV
PAGGTEQELAQQPTEQGQDRLPAGMNDDGVIEDMDAYDAWLAGEQTQRDMQRREEVNINHSHRRDEQDDI
EIGGNF

  Protein domains


Predicted by InterproScan.

(172-560)

(32-128)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 76776..107123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ATN83_RS25805 (ATN83_p10099) 71878..72606 + 729 WP_064357862 plasmid SOS inhibition protein A -
ATN83_RS28970 72603..72762 + 160 Protein_76 theronine dehydrogenase -
ATN83_RS25810 (ATN83_p10100) 73010..73339 + 330 WP_004118963 type II toxin-antitoxin system RelE/ParE family toxin -
ATN83_RS25815 (ATN83_p10101) 73320..73601 + 282 WP_004118961 helix-turn-helix transcriptional regulator -
ATN83_RS25820 (ATN83_p10104) 74420..74695 + 276 WP_032700867 hypothetical protein -
ATN83_RS25825 (ATN83_p10105) 74752..74910 + 159 WP_162180130 hypothetical protein -
ATN83_RS25830 (ATN83_p10106) 74936..75283 + 348 WP_032700835 hypothetical protein -
ATN83_RS25835 (ATN83_p10107) 75377..75523 + 147 WP_064357864 hypothetical protein -
ATN83_RS25840 (ATN83_p10110) 76208..76738 + 531 WP_064357865 antirestriction protein -
ATN83_RS25845 (ATN83_p10111) 76776..77255 - 480 WP_032716648 transglycosylase SLT domain-containing protein virB1
ATN83_RS25850 (ATN83_p10112) 77680..78069 + 390 WP_064357868 conjugal transfer relaxosome DNA-binding protein TraM -
ATN83_RS28040 (ATN83_p10113) 78270..78959 + 690 WP_071887219 hypothetical protein -
ATN83_RS28045 (ATN83_p10114) 79138..79293 + 156 WP_227502495 TraY domain-containing protein -
ATN83_RS25855 (ATN83_p10115) 79366..79734 + 369 WP_032716651 type IV conjugative transfer system pilin TraA -
ATN83_RS25860 (ATN83_p10116) 79748..80053 + 306 WP_020323523 type IV conjugative transfer system protein TraL traL
ATN83_RS25865 (ATN83_p10117) 80073..80639 + 567 WP_032700829 type IV conjugative transfer system protein TraE traE
ATN83_RS25870 (ATN83_p10118) 80626..81360 + 735 WP_032700828 type-F conjugative transfer system secretin TraK traK
ATN83_RS25875 (ATN83_p10119) 81360..82778 + 1419 WP_032716653 F-type conjugal transfer pilus assembly protein TraB traB
ATN83_RS28630 (ATN83_p10120) 82771..83553 + 783 WP_155522187 conjugal transfer protein TraP -
ATN83_RS28050 (ATN83_p10121) 83572..84141 + 570 WP_071887221 type IV conjugative transfer system lipoprotein TraV traV
ATN83_RS28635 (ATN83_p10123) 84503..84787 + 285 WP_128910320 hypothetical protein -
ATN83_RS28975 (ATN83_p10124) 84821..85300 + 480 WP_227502492 hypothetical protein -
ATN83_RS25895 (ATN83_p10126) 85781..86002 + 222 WP_032716655 hypothetical protein -
ATN83_RS25905 (ATN83_p10128) 86115..87235 + 1121 WP_152292706 IS3-like element ISKpn34 family transposase -
ATN83_RS28980 (ATN83_p10129) 87239..87628 + 390 WP_064357870 hypothetical protein -
ATN83_RS25915 (ATN83_p10130) 87641..87961 + 321 WP_227502491 hypothetical protein -
ATN83_RS25920 (ATN83_p10132) 88442..91081 + 2640 WP_064357871 type IV secretion system protein TraC virb4
ATN83_RS25925 (ATN83_p10133) 91081..91473 + 393 WP_032716659 type-F conjugative transfer system protein TrbI -
ATN83_RS25930 (ATN83_p10134) 91470..92099 + 630 WP_032716660 type-F conjugative transfer system protein TraW traW
ATN83_RS25935 (ATN83_p10135) 92140..93099 + 960 WP_032716690 conjugal transfer pilus assembly protein TraU traU
ATN83_RS25940 (ATN83_p10136) 93112..93741 + 630 WP_032700817 type-F conjugative transfer system pilin assembly protein TrbC trbC
ATN83_RS25945 (ATN83_p10137) 93741..95696 + 1956 WP_032716661 type-F conjugative transfer system mating-pair stabilization protein TraN traN
ATN83_RS25950 (ATN83_p10138) 95712..96092 + 381 WP_032700815 hypothetical protein -
ATN83_RS25955 (ATN83_p10139) 96082..96318 + 237 WP_032700814 conjugal transfer protein TrbE -
ATN83_RS25965 (ATN83_p10140) 96544..96870 + 327 WP_032700812 hypothetical protein -
ATN83_RS25970 (ATN83_p10141) 96893..97645 + 753 WP_032724578 type-F conjugative transfer system pilin assembly protein TraF traF
ATN83_RS25975 (ATN83_p10142) 97656..97892 + 237 WP_032700810 type-F conjugative transfer system pilin chaperone TraQ -
ATN83_RS25980 (ATN83_p10143) 97867..98433 + 567 WP_032716665 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
ATN83_RS25985 (ATN83_p10144) 98426..98854 + 429 WP_032716666 conjugal transfer protein TrbF -
ATN83_RS25990 (ATN83_p10145) 98841..100211 + 1371 WP_064357873 conjugal transfer pilus assembly protein TraH traH
ATN83_RS25995 (ATN83_p10146) 100211..103033 + 2823 WP_064357874 conjugal transfer mating-pair stabilization protein TraG traG
ATN83_RS26000 (ATN83_p10147) 103059..103673 + 615 WP_032716668 hypothetical protein -
ATN83_RS26005 (ATN83_p10148) 103868..104599 + 732 WP_032716670 conjugal transfer complement resistance protein TraT -
ATN83_RS26010 (ATN83_p10149) 104793..107123 + 2331 WP_032716692 type IV conjugative transfer system coupling protein TraD virb4


Host bacterium


ID   22412 GenBank   NZ_CP013339
Plasmid name   pKPYL1 Incompatibility group   IncFIB
Plasmid size   152010 bp Coordinate of oriT [Strand]   77329..77378 [-]
Host baterium   Raoultella ornithinolytica strain Yangling I2

Cargo genes


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