Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106435
Name   oriT_pKO_2 in_silico
Organism   Klebsiella michiganensis strain KO_408
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP091472 (38031..38112 [-], 82 nt)
oriT length   82 nt
IRs (inverted repeats)      27..32, 35..40  (GCCACC..GGTGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 82 nt

>oriT_pKO_2
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4292 GenBank   WP_032440569
Name   Relaxase_L3249_RS30145_pKO_2 insolico UniProt ID   A0A7G3L4G1
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74384.24 Da        Isoelectric Point: 8.3203

>WP_032440569.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDERFQRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVICQHNLMSVETAAMEMNSIAMQNTHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSPRSAEMVKQSVQTSYSDKLHVRDRGA
RAERRQARADARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASDNI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGSFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDDRYYD
DVRHNDDSSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB A0A7G3L4G1


T4CP

ID   4314 GenBank   WP_032440593
Name   trbC_L3249_RS30010_pKO_2 insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 82679.78 Da        Isoelectric Point: 6.3201

>WP_032440593.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPNTVQRATQLLSLAAAVLTETRGRYRVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQADGFSY

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(439-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6989..28922

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L3249_RS29995 (L3249_30025) 2752..3447 - 696 WP_254910806 RepA family replication protein -
L3249_RS30000 (L3249_30030) 3953..4204 - 252 WP_113394424 hypothetical protein -
L3249_RS30005 (L3249_30035) 4216..4749 - 534 WP_032440594 phospholipase D family protein -
L3249_RS30010 (L3249_30040) 4795..6987 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
L3249_RS30015 (L3249_30045) 6989..8080 - 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
L3249_RS30020 (L3249_30050) 8091..9509 - 1419 WP_063666705 hypothetical protein trbA
L3249_RS30025 (L3249_30055) 9611..10234 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
L3249_RS30030 (L3249_30060) 10300..12444 - 2145 WP_238076267 DotA/TraY family protein traY
L3249_RS30035 (L3249_30065) 12486..13067 - 582 WP_050597335 conjugal transfer protein TraX -
L3249_RS30040 (L3249_30070) 13064..14260 - 1197 WP_032440590 conjugal transfer protein TraW traW
L3249_RS30045 (L3249_30075) 14270..17317 - 3048 WP_032440589 conjugal transfer protein traU
L3249_RS30050 (L3249_30080) 17327..17890 - 564 WP_045325070 hypothetical protein traT
L3249_RS30055 (L3249_30085) 17934..18335 - 402 WP_032440588 DUF6750 family protein traR
L3249_RS30060 (L3249_30090) 18391..18924 - 534 WP_032440587 conjugal transfer protein TraQ traQ
L3249_RS30065 (L3249_30095) 18934..19653 - 720 WP_050597333 conjugal transfer protein TraP traP
L3249_RS30070 (L3249_30100) 19660..21000 - 1341 WP_032440586 conjugal transfer protein TraO traO
L3249_RS30075 (L3249_30105) 21004..22107 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
L3249_RS30080 (L3249_30110) 22118..22786 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
L3249_RS30085 (L3249_30115) 22858..23211 - 354 WP_032440584 hypothetical protein traL
L3249_RS30090 (L3249_30120) 23245..26658 - 3414 WP_052145516 LPD7 domain-containing protein -
L3249_RS30095 (L3249_30125) 26676..26942 - 267 WP_032440577 IcmT/TraK family protein traK
L3249_RS30100 (L3249_30130) 26939..28126 - 1188 WP_077255878 plasmid transfer ATPase TraJ -
L3249_RS30105 (L3249_30135) 28104..28922 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
L3249_RS30110 (L3249_30140) 28919..29383 - 465 WP_225546581 DotD/TraH family lipoprotein -
L3249_RS30115 (L3249_30145) 29409..29888 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
L3249_RS30120 (L3249_30150) 30620..30847 - 228 WP_032440573 hypothetical protein -
L3249_RS30125 (L3249_30155) 31457..32299 + 843 WP_032440572 helix-turn-helix domain-containing protein -
L3249_RS30130 (L3249_30160) 32359..33288 + 930 WP_032440581 hypothetical protein -
L3249_RS30135 (L3249_30165) 33281..33775 + 495 WP_032440571 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   6872 GenBank   NZ_CP091472
Plasmid name   pKO_2 Incompatibility group   IncFII
Plasmid size   62120 bp Coordinate of oriT [Strand]   38031..38112 [-]
Host baterium   Klebsiella michiganensis strain KO_408

Cargo genes

Drug resistance gene   qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -