Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119885
Name   oriT_pKAE3SP-1 in_silico
Organism   Klebsiella aerogenes strain KAE3SP
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP082899 (12502..12583 [+], 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_pKAE3SP-1
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12558 GenBank   WP_032440569
Name   traI_K6006_RS24710_pKAE3SP-1 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   14753 GenBank   WP_032440593
Name   trbC_K6006_RS24845_pKAE3SP-1 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: 21692..43625

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K6006_RS24720 (K6006_24685) 16839..17333 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
K6006_RS24725 (K6006_24690) 17326..18255 - 930 WP_032440581 glycosyltransferase family 9 protein -
K6006_RS24730 (K6006_24695) 18315..19157 - 843 WP_032440572 helix-turn-helix domain-containing protein -
K6006_RS24735 (K6006_24700) 19767..19994 + 228 WP_032440573 hypothetical protein -
K6006_RS24740 (K6006_24705) 20726..21205 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
K6006_RS24745 (K6006_24710) 21231..21695 + 465 WP_225546581 DotD/TraH family lipoprotein -
K6006_RS24750 (K6006_24715) 21692..22510 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
K6006_RS24755 (K6006_24720) 22533..23675 + 1143 WP_032440582 plasmid transfer ATPase TraJ virB11
K6006_RS24760 (K6006_24725) 23672..23938 + 267 WP_032440577 IcmT/TraK family protein traK
K6006_RS24765 (K6006_24730) 23956..27369 + 3414 WP_052145516 LPD7 domain-containing protein -
K6006_RS24770 (K6006_24735) 27403..27756 + 354 WP_032440584 hypothetical protein traL
K6006_RS24775 (K6006_24740) 27828..28496 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
K6006_RS24780 (K6006_24745) 28564..29610 + 1047 WP_205245536 DotH/IcmK family type IV secretion protein traN
K6006_RS24785 (K6006_24750) 29614..30954 + 1341 WP_032440586 conjugal transfer protein TraO traO
K6006_RS24790 (K6006_24755) 30961..31680 + 720 WP_050597333 conjugal transfer protein TraP traP
K6006_RS24795 (K6006_24760) 31690..32223 + 534 WP_032440587 conjugal transfer protein TraQ traQ
K6006_RS24800 (K6006_24765) 32279..32680 + 402 WP_032440588 DUF6750 family protein traR
K6006_RS24805 (K6006_24770) 32973..33287 + 315 WP_050597334 hypothetical protein traT
K6006_RS24810 (K6006_24775) 33297..36344 + 3048 WP_032440589 conjugal transfer protein traU
K6006_RS24815 (K6006_24780) 36354..37550 + 1197 WP_032440590 conjugal transfer protein TraW traW
K6006_RS24820 (K6006_24785) 37547..38128 + 582 WP_050597335 conjugal transfer protein TraX -
K6006_RS24825 (K6006_24790) 38170..40314 + 2145 WP_032440591 DotA/TraY family protein traY
K6006_RS24830 (K6006_24795) 40380..41003 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
K6006_RS24835 (K6006_24800) 41105..42523 + 1419 WP_063666705 hypothetical protein trbA
K6006_RS24840 (K6006_24805) 42504..43625 + 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
K6006_RS24845 (K6006_24810) 43627..45819 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
K6006_RS24850 (K6006_24815) 45865..46398 + 534 WP_032440594 phospholipase D family protein -
K6006_RS24855 (K6006_24820) 46410..46661 + 252 WP_113394424 hypothetical protein -
K6006_RS24860 (K6006_24825) 47167..47862 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   20315 GenBank   NZ_CP082899
Plasmid name   pKAE3SP-1 Incompatibility group   IncFII
Plasmid size   81641 bp Coordinate of oriT [Strand]   12502..12583 [+]
Host baterium   Klebsiella aerogenes strain KAE3SP

Cargo genes

Drug resistance gene   sul2, catA2, tet(A), blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -