Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104164
Name   oriT_pKLO00002_4 in_silico
Organism   Klebsiella grimontii strain KLO00002
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP378636 (13046..13127 [-], 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_pKLO00002_4
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3058 GenBank   WP_032440569
Name   Relaxase_PWC34_RS00060_pKLO00002_4 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   2945 GenBank   WP_032440593
Name   trbC_PWC34_RS00365_pKLO00002_4 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: 61393..77615

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PWC34_RS00350 57156..57782 - 627 WP_254913868 RepA family replication protein -
PWC34_RS00355 58357..58608 - 252 WP_113394424 hypothetical protein -
PWC34_RS00360 58620..59153 - 534 WP_032440594 phospholipase D family protein -
PWC34_RS00365 59199..61391 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
PWC34_RS00370 61393..62514 - 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
PWC34_RS00375 62495..63913 - 1419 WP_063666705 hypothetical protein trbA
PWC34_RS00380 64015..64638 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
PWC34_RS00385 64704..66848 - 2145 WP_032440591 DotA/TraY family protein traY
PWC34_RS00390 66890..67471 - 582 WP_196565431 conjugal transfer protein TraX -
PWC34_RS00395 67468..68664 - 1197 WP_032440590 conjugal transfer protein TraW traW
PWC34_RS00400 68674..71721 - 3048 WP_032440589 conjugal transfer protein traU
PWC34_RS00405 71731..72294 - 564 WP_045325070 hypothetical protein traT
PWC34_RS00410 72338..72739 - 402 WP_032440588 DUF6750 family protein traR
PWC34_RS00415 72795..73328 - 534 WP_032440587 conjugal transfer protein TraQ traQ
PWC34_RS00420 73338..74057 - 720 WP_050597333 conjugal transfer protein TraP traP
PWC34_RS00425 74064..75404 - 1341 WP_032440586 conjugal transfer protein TraO traO
PWC34_RS00430 75408..76511 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
PWC34_RS00435 76522..77190 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
PWC34_RS00440 77262..77615 - 354 WP_032440584 hypothetical protein traL
PWC34_RS00445 77649..79235 - 1587 WP_337992980 LPD7 domain-containing protein -

Host bacterium

ID   4603 GenBank   NZ_OP378636
Plasmid name   pKLO00002_4 Incompatibility group   IncFII
Plasmid size   79388 bp Coordinate of oriT [Strand]   13046..13127 [-]
Host baterium   Klebsiella grimontii strain KLO00002

Cargo genes

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