Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101405
Name   oriT_pPVT01_P2 in_silico
Organism   Klebsiella pneumoniae strain PVT01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABSUB010000002 (63505..63586 [+], 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_pPVT01_P2
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1285 GenBank   WP_032440569
Name   traI_HQN42_RS01290_pPVT01_P2 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   898 GenBank   WP_032440593
Name   trbC_HQN42_RS00995_pPVT01_P2 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: 1804..18026

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HQN42_RS00920 (HQN42_00920) 1804..2157 + 354 WP_032440584 hypothetical protein traL
HQN42_RS00925 (HQN42_00925) 2229..2897 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
HQN42_RS00930 (HQN42_00930) 2908..4011 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
HQN42_RS00935 (HQN42_00935) 4015..5355 + 1341 WP_032440586 conjugal transfer protein TraO traO
HQN42_RS00940 (HQN42_00940) 5362..6081 + 720 WP_050597333 conjugal transfer protein TraP traP
HQN42_RS00945 (HQN42_00945) 6091..6624 + 534 WP_032440587 conjugal transfer protein TraQ traQ
HQN42_RS00950 (HQN42_00950) 6680..7081 + 402 WP_032440588 DUF6750 family protein traR
HQN42_RS00955 (HQN42_00955) 7125..7688 + 564 WP_045325070 hypothetical protein traT
HQN42_RS00960 (HQN42_00960) 7698..10745 + 3048 WP_032440589 conjugal transfer protein traU
HQN42_RS00965 (HQN42_00965) 10755..11951 + 1197 WP_032440590 conjugal transfer protein TraW traW
HQN42_RS00970 (HQN42_00970) 11948..12529 + 582 WP_050597335 conjugal transfer protein TraX -
HQN42_RS00975 (HQN42_00975) 12571..14715 + 2145 WP_032440591 DotA/TraY family protein traY
HQN42_RS00980 (HQN42_00980) 14781..15404 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
HQN42_RS00985 (HQN42_00985) 15506..16924 + 1419 WP_063666705 hypothetical protein trbA
HQN42_RS00990 (HQN42_00990) 16935..18026 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
HQN42_RS00995 (HQN42_00995) 18028..20220 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
HQN42_RS01000 (HQN42_01000) 20266..20799 + 534 WP_032440594 phospholipase D family protein -
HQN42_RS01005 (HQN42_01005) 20811..21062 + 252 WP_113394424 hypothetical protein -
HQN42_RS01010 (HQN42_01010) 21568..22263 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   1849 GenBank   NZ_JABSUB010000002
Plasmid name   pPVT01_P2 Incompatibility group   IncFII
Plasmid size   76602 bp Coordinate of oriT [Strand]   63505..63586 [+]
Host baterium   Klebsiella pneumoniae strain PVT01

Cargo genes

Drug resistance gene   blaOXA-1, aac(6')-Ib-cr, blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -