Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105079
Name   oriT_pKP20194c4-p3 in_silico
Organism   Klebsiella pneumoniae strain KP20194c4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP054747 (3370..3451 [+], 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_pKP20194c4-p3
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3542 GenBank   WP_032440569
Name   Relaxase_HUS04_RS28810_pKP20194c4-p3 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   3509 GenBank   WP_032440593
Name   trbC_HUS04_RS28945_pKP20194c4-p3 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: 12560..34493

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUS04_RS28820 (HUS04_28825) 7707..8201 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
HUS04_RS28825 (HUS04_28830) 8194..9123 - 930 WP_032440581 hypothetical protein -
HUS04_RS28830 (HUS04_28835) 9183..10025 - 843 WP_032440572 helix-turn-helix domain-containing protein -
HUS04_RS28835 (HUS04_28840) 10635..10862 + 228 WP_032440573 hypothetical protein -
HUS04_RS28840 (HUS04_28845) 11594..12073 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
HUS04_RS28845 (HUS04_28850) 12099..12563 + 465 WP_225546581 DotD/TraH family lipoprotein -
HUS04_RS28850 (HUS04_28855) 12560..13378 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
HUS04_RS28855 (HUS04_28860) 13356..14543 + 1188 WP_077255878 plasmid transfer ATPase TraJ -
HUS04_RS28860 (HUS04_28865) 14540..14806 + 267 WP_032440577 IcmT/TraK family protein traK
HUS04_RS28865 (HUS04_28870) 14824..18237 + 3414 WP_052145516 LPD7 domain-containing protein -
HUS04_RS28870 (HUS04_28875) 18271..18624 + 354 WP_032440584 hypothetical protein traL
HUS04_RS28875 (HUS04_28880) 18696..19364 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
HUS04_RS28880 (HUS04_28885) 19375..20478 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
HUS04_RS28885 (HUS04_28890) 20482..21822 + 1341 WP_032440586 conjugal transfer protein TraO traO
HUS04_RS28890 (HUS04_28895) 21829..22548 + 720 WP_050597333 conjugal transfer protein TraP traP
HUS04_RS28895 (HUS04_28900) 22558..23091 + 534 WP_032440587 conjugal transfer protein TraQ traQ
HUS04_RS28900 (HUS04_28905) 23147..23548 + 402 WP_032440588 DUF6750 family protein traR
HUS04_RS28905 (HUS04_28910) 23592..24155 + 564 WP_045325070 hypothetical protein traT
HUS04_RS28910 (HUS04_28915) 24165..27212 + 3048 WP_032440589 conjugal transfer protein traU
HUS04_RS28915 (HUS04_28920) 27222..28418 + 1197 WP_032440590 conjugal transfer protein TraW traW
HUS04_RS28920 (HUS04_28925) 28415..28996 + 582 WP_050597335 conjugal transfer protein TraX -
HUS04_RS28925 (HUS04_28930) 29038..31182 + 2145 WP_143458320 DotA/TraY family protein traY
HUS04_RS28930 (HUS04_28935) 31248..31871 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
HUS04_RS28935 (HUS04_28940) 31973..33391 + 1419 WP_063666705 hypothetical protein trbA
HUS04_RS28940 (HUS04_28945) 33402..34493 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
HUS04_RS28945 (HUS04_28950) 34495..36687 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
HUS04_RS28950 (HUS04_28955) 36733..37266 + 534 WP_032440594 phospholipase D family protein -
HUS04_RS28955 (HUS04_28960) 37278..37529 + 252 WP_113394424 hypothetical protein -
HUS04_RS28960 (HUS04_28965) 38035..38730 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   5517 GenBank   NZ_CP054747
Plasmid name   pKP20194c4-p3 Incompatibility group   IncFII
Plasmid size   87095 bp Coordinate of oriT [Strand]   3370..3451 [+]
Host baterium   Klebsiella pneumoniae strain KP20194c4

Cargo genes

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