Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119251
Name   oriT_pX39-8 in_silico
Organism   Klebsiella variicola strain X39
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023985 (17425..17506 [+], 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_pX39-8
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12177 GenBank   WP_032440569
Name   traI_BC497_RS30900_pX39-8 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   14263 GenBank   WP_032440593
Name   trbC_BC497_RS31040_pX39-8 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: 26615..48546

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BC497_RS30910 (BC497_30860) 21762..22256 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
BC497_RS30915 (BC497_30865) 22249..23178 - 930 WP_032440581 glycosyltransferase family 9 protein -
BC497_RS30920 (BC497_30870) 23238..24080 - 843 WP_032440572 helix-turn-helix domain-containing protein -
BC497_RS30925 (BC497_30875) 24690..24917 + 228 WP_032440573 hypothetical protein -
BC497_RS30930 (BC497_30880) 25649..26128 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
BC497_RS30935 (BC497_30885) 26154..26618 + 465 WP_225546581 DotD/TraH family lipoprotein -
BC497_RS30940 (BC497_30890) 26615..27433 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
BC497_RS30945 (BC497_30895) 27411..28598 + 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
BC497_RS30950 (BC497_30900) 28595..28861 + 267 WP_032440577 IcmT/TraK family protein traK
BC497_RS30955 (BC497_30905) 28879..32292 + 3414 WP_052145516 LPD7 domain-containing protein -
BC497_RS30960 (BC497_30910) 32326..32679 + 354 WP_032440584 hypothetical protein traL
BC497_RS30965 (BC497_30915) 32751..33419 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
BC497_RS30970 (BC497_30920) 33430..34533 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
BC497_RS30975 (BC497_30925) 34537..34944 + 408 WP_117339856 hypothetical protein traO
BC497_RS30980 (BC497_30930) 34905..35876 + 972 Protein_46 conjugal transfer protein TraO -
BC497_RS30985 (BC497_30935) 35883..36602 + 720 WP_050597333 conjugal transfer protein TraP traP
BC497_RS30990 (BC497_30940) 36612..37145 + 534 WP_032440587 conjugal transfer protein TraQ traQ
BC497_RS30995 (BC497_30945) 37201..37602 + 402 WP_032440588 DUF6750 family protein traR
BC497_RS32185 37646..38209 + 564 WP_045325070 hypothetical protein traT
BC497_RS33235 38219..38914 + 696 WP_310742091 hypothetical protein traU
BC497_RS31005 (BC497_30955) 38914..41265 + 2352 WP_323808947 ATP-binding protein traU
BC497_RS31010 (BC497_30960) 41275..42471 + 1197 WP_032440590 conjugal transfer protein TraW traW
BC497_RS31015 (BC497_30965) 42468..43049 + 582 WP_050597335 conjugal transfer protein TraX -
BC497_RS31020 (BC497_30970) 43091..45235 + 2145 WP_032440591 DotA/TraY family protein traY
BC497_RS31025 (BC497_30975) 45301..45924 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
BC497_RS31030 (BC497_30980) 46026..47444 + 1419 WP_063666705 hypothetical protein trbA
BC497_RS31035 (BC497_30985) 47455..48546 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
BC497_RS31040 (BC497_30990) 48548..50740 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
BC497_RS31045 (BC497_30995) 50786..51319 + 534 WP_032440594 phospholipase D family protein -
BC497_RS32190 51331..51582 + 252 WP_113394424 hypothetical protein -
BC497_RS31050 (BC497_31000) 51809..53323 - 1515 Protein_62 Tn3-like element TnAs1 family transposase -

Host bacterium

ID   19681 GenBank   NZ_CP023985
Plasmid name   pX39-8 Incompatibility group   IncFII
Plasmid size   72224 bp Coordinate of oriT [Strand]   17425..17506 [+]
Host baterium   Klebsiella variicola strain X39

Cargo genes

Drug resistance gene   catA2, blaCTX-M-14, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -