Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101739
Name   oriT_pRHBSTW-00465_2 in_silico
Organism   Klebsiella sp. RHBSTW-00465
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXPX010000002 (85061..85109 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pRHBSTW-00465_2
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1471 GenBank   WP_182207703
Name   traI_HV205_RS30160_pRHBSTW-00465_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: 190386.09 Da        Isoelectric Point: 6.3586

>WP_182207703.1 conjugative transfer relaxase/helicase TraI [Klebsiella sp. RHBSTW-00465]
MMSIGAVKSAGSAGNYYTDKDNYYVIGSMEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTVAVKQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQMHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQTAFGKLYREALKPLVE
KLGYETKVVGKHGMWEMKDVPVEAFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADAHAAELARAPAAPVKTDGPDIADVVTRSIAGLSDRKVQFTYADVLARTVGQLE
AKPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDAGVVREKP
FSDAVSVLAQDRPAMGIVAGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGKQATADIISEPDKSARYSRLAQEFAASVREGQESVAQISGTREQNVLNNVIRDTLKNEGALGNRD
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLKDREGERLDLKVSAV
DSQWTLFRTDKLPVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQTLSVGSSPFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGNHIRLYSAQDAARTTEKLARHTAFSVVSE
QLKARSGEADLESAIAQQKAGLHTPAEQAIHLSVPLLESNSLTFTRPQLLATALETGGGKVPMKDIEATI
QAQIKAGSLLNVPVASGYGNDLLISRQTWDAEKSVLTRVLEGKYATTPLMDRVPGSLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFKAVMSAINLLPEETRPRVIGLGPTHRAVGEMQSAGVEAQTTASFLH
DTQLQQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVSRALSTIEQVTPEQVPRKDGAWVPENSVTEFTPAQEKAIQ
DALKEGKEIPPVTPVSLHDAIVKDYIGRTPAAQANTLIITHLNADRRALNGLIHDARVQNGEVSKEEVTL
PVLVTSNIRDGELRKLSTWSEHQGAVALLDNTYQRIESVDKENQLITLKDSEGNTRFLSPREASAEGVTL
YRPEHITVSQGDRMRFSKSDPERGYVANSVWEVKTVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAIT
AHGAQGASEPFAIALEGVEGRRKALVSFESAYVALSRMKQHAQVYTDNREGWTTAVSRSQKKASAHDVLE
PQNARAVKNAGQLYGRAQPLDETAAGRAALQQSGLARGRSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRDGRLEAIGGEGRIMGDETARFVALQNSRNGESLLAGNMGEGVRTARDHPDSGVIVRLAGDDR
PWNPEAITGGRIWADPLPNLPPPDTGADITIPPDVLAQRAAEEAQRREMERQTEQAAREVAGEEKKTGEP
GERIKEVIGDVIHGLERDRPGEEKTRLPDDPQTRRQEAAIQQVASESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

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

(635-714)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1158)


  Protein structure



No available structure.




T4CP

ID   1149 GenBank   WP_182207702
Name   traD_HV205_RS30155_pRHBSTW-00465_2 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 85707.49 Da        Isoelectric Point: 4.8455

>WP_182207702.1 type IV conjugative transfer system coupling protein TraD [Klebsiella sp. RHBSTW-00465]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWALCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDLPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRTLDTRVDARLSALLEAREAEGSLARALFTPDAPEAEQRDADSKTPVGQPVPESAP
VSPVPVKSASTAETPSAQSSDKAPEAPPVKVTTIPLTRPAPAATPAAASVTASSAAATAATTGGTEQELT
QQSAEQGQEVMPAGMNEDGEIEDMQVYDAWLADEQTQRDMQRREEVNINHSHRRDEQDDVEIGGNF

  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: 87477..113082

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV205_RS29980 (HV205_29985) 83454..83735 - 282 WP_182207719 hypothetical protein -
HV205_RS29985 (HV205_29990) 83928..84470 + 543 WP_182207679 antirestriction protein -
HV205_RS29990 (HV205_29995) 84518..84988 - 471 WP_228725767 transglycosylase SLT domain-containing protein -
HV205_RS29995 (HV205_30000) 85420..85806 + 387 WP_064174424 conjugal transfer relaxosome DNA-binding protein TraM -
HV205_RS30000 (HV205_30005) 86040..86744 + 705 WP_074194704 hypothetical protein -
HV205_RS30005 (HV205_30010) 86817..87029 + 213 WP_064174425 TraY domain-containing protein -
HV205_RS30010 (HV205_30015) 87098..87463 + 366 WP_182207680 type IV conjugative transfer system pilin TraA -
HV205_RS30015 (HV205_30020) 87477..87782 + 306 WP_020323523 type IV conjugative transfer system protein TraL traL
HV205_RS30020 (HV205_30025) 87802..88368 + 567 WP_182207681 type IV conjugative transfer system protein TraE traE
HV205_RS30025 (HV205_30030) 88355..89095 + 741 WP_182207682 type-F conjugative transfer system secretin TraK traK
HV205_RS30030 (HV205_30035) 89095..90510 + 1416 WP_182207683 F-type conjugal transfer pilus assembly protein TraB traB
HV205_RS30035 (HV205_30040) 90503..91105 + 603 WP_182207684 conjugal transfer protein TraP -
HV205_RS31995 (HV205_30045) 91173..91310 + 138 Protein_108 conjugal transfer protein TraP -
HV205_RS30045 (HV205_30050) 91333..91899 + 567 WP_182207685 type IV conjugative transfer system lipoprotein TraV traV
HV205_RS31815 92015..92419 + 405 WP_228725769 hypothetical protein -
HV205_RS30055 (HV205_30060) 92448..92741 + 294 WP_182207686 hypothetical protein -
HV205_RS30060 (HV205_30065) 92765..93013 + 249 WP_182207687 hypothetical protein -
HV205_RS30065 (HV205_30070) 93154..93558 + 405 WP_182207688 hypothetical protein -
HV205_RS31820 93555..93731 + 177 WP_228725770 hypothetical protein -
HV205_RS30075 (HV205_30080) 93990..96629 + 2640 WP_182207689 type IV secretion system protein TraC virb4
HV205_RS30080 (HV205_30085) 96662..97063 + 402 WP_182207715 type-F conjugative transfer system protein TrbI -
HV205_RS30085 (HV205_30090) 97060..97686 + 627 WP_182207690 type-F conjugative transfer system protein TraW traW
HV205_RS30090 (HV205_30095) 97706..98689 + 984 WP_182207716 conjugal transfer pilus assembly protein TraU traU
HV205_RS30095 (HV205_30100) 99285..100469 - 1185 WP_182207691 hypothetical protein -
HV205_RS30100 (HV205_30105) 100577..101203 + 627 WP_182207692 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV205_RS30105 (HV205_30110) 101200..103155 + 1956 WP_182207693 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV205_RS30110 (HV205_30115) 103188..103469 + 282 WP_182207694 hypothetical protein -
HV205_RS30115 (HV205_30120) 103459..103686 + 228 WP_182207695 conjugal transfer protein TrbE -
HV205_RS30120 (HV205_30125) 103697..104023 + 327 WP_182207696 hypothetical protein -
HV205_RS30125 (HV205_30130) 104042..104794 + 753 WP_182207697 type-F conjugative transfer system pilin assembly protein TraF traF
HV205_RS30130 (HV205_30135) 104805..105044 + 240 WP_040118489 type-F conjugative transfer system pilin chaperone TraQ -
HV205_RS30135 (HV205_30140) 105016..105591 + 576 WP_182207698 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV205_RS30140 (HV205_30145) 105578..106948 + 1371 WP_182207699 conjugal transfer pilus assembly protein TraH traH
HV205_RS30145 (HV205_30150) 106948..109809 + 2862 WP_182207700 conjugal transfer mating-pair stabilization protein TraG traG
HV205_RS30150 (HV205_30155) 109826..110506 + 681 WP_182207701 hypothetical protein -
HV205_RS30155 (HV205_30160) 110782..113082 + 2301 WP_182207702 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2183 GenBank   NZ_JABXPX010000002
Plasmid name   pRHBSTW-00465_2 Incompatibility group   -
Plasmid size   124225 bp Coordinate of oriT [Strand]   85061..85109 [-]
Host baterium   Klebsiella sp. RHBSTW-00465

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -