Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118882
Name   oriT_P1954|p00003 in_silico
Organism   Klebsiella sp. P1954
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP073375 (42747..42828 [+], 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_P1954|p00003
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11971 GenBank   WP_032440569
Name   traI_KB890_RS26920_P1954|p00003 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   14018 GenBank   WP_032440593
Name   trbC_KB890_RS27055_P1954|p00003 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: 51937..73870

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KB890_RS26930 (KB890_26930) 47084..47578 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
KB890_RS26935 (KB890_26935) 47571..48500 - 930 WP_032440581 glycosyltransferase family 9 protein -
KB890_RS26940 (KB890_26940) 48560..49402 - 843 WP_032440572 helix-turn-helix domain-containing protein -
KB890_RS26945 (KB890_26945) 50012..50239 + 228 WP_032440573 hypothetical protein -
KB890_RS26950 (KB890_26950) 50971..51450 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
KB890_RS26955 (KB890_26955) 51476..51940 + 465 WP_225546581 DotD/TraH family lipoprotein -
KB890_RS26960 (KB890_26960) 51937..52755 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
KB890_RS26965 (KB890_26965) 52733..53920 + 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
KB890_RS26970 (KB890_26970) 53917..54183 + 267 WP_032440577 IcmT/TraK family protein traK
KB890_RS26975 (KB890_26975) 54201..57614 + 3414 WP_052145516 LPD7 domain-containing protein -
KB890_RS26980 (KB890_26980) 57648..58001 + 354 WP_032440584 hypothetical protein traL
KB890_RS26985 (KB890_26985) 58073..58741 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
KB890_RS26990 (KB890_26990) 58752..59855 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
KB890_RS26995 (KB890_26995) 59859..61199 + 1341 WP_032440586 conjugal transfer protein TraO traO
KB890_RS27000 (KB890_27000) 61206..61925 + 720 WP_050597333 conjugal transfer protein TraP traP
KB890_RS27005 (KB890_27005) 61935..62468 + 534 WP_032440587 conjugal transfer protein TraQ traQ
KB890_RS27010 (KB890_27010) 62524..62925 + 402 WP_032440588 DUF6750 family protein traR
KB890_RS27015 (KB890_27015) 62969..63532 + 564 WP_045325070 hypothetical protein traT
KB890_RS27020 (KB890_27020) 63542..66589 + 3048 WP_032440589 conjugal transfer protein traU
KB890_RS27025 (KB890_27025) 66599..67795 + 1197 WP_032440590 conjugal transfer protein TraW traW
KB890_RS27030 (KB890_27030) 67792..68373 + 582 WP_050597335 conjugal transfer protein TraX -
KB890_RS27035 (KB890_27035) 68415..70559 + 2145 WP_032440591 DotA/TraY family protein traY
KB890_RS27040 (KB890_27040) 70625..71248 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
KB890_RS27045 (KB890_27045) 71350..72768 + 1419 WP_063666705 hypothetical protein trbA
KB890_RS27050 (KB890_27050) 72716..73870 + 1155 WP_157769471 thioredoxin fold domain-containing protein trbB
KB890_RS27055 (KB890_27055) 73872..76064 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
KB890_RS27060 (KB890_27060) 76110..76643 + 534 WP_032440594 phospholipase D family protein -
KB890_RS27065 (KB890_27065) 76655..76906 + 252 WP_113394424 hypothetical protein -
KB890_RS27070 (KB890_27070) 77412..78107 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   19314 GenBank   NZ_CP073375
Plasmid name   P1954|p00003 Incompatibility group   IncFII
Plasmid size   87045 bp Coordinate of oriT [Strand]   42747..42828 [+]
Host baterium   Klebsiella sp. P1954

Cargo genes

Drug resistance gene   sul2, dfrA14, catA2, tet(A), blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -