Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101382
Name   oriT_pKP2000557_4 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain KP2000557
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAENHY010000006 (76035..76116 [-], 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_pKP2000557_4
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1267 GenBank   WP_032440569
Name   traI_JDY82_RS30080_pKP2000557_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   878 GenBank   WP_032440593
Name   trbC_JDY82_RS29940_pKP2000557_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: 44993..66926

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JDY82_RS29925 (JDY82_29925) 40756..41451 - 696 WP_254910806 RepA family replication protein -
JDY82_RS29930 (JDY82_29930) 41957..42208 - 252 WP_113394424 hypothetical protein -
JDY82_RS29935 (JDY82_29935) 42220..42753 - 534 WP_032440594 phospholipase D family protein -
JDY82_RS29940 (JDY82_29940) 42799..44991 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
JDY82_RS29945 (JDY82_29945) 44993..46084 - 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
JDY82_RS29950 (JDY82_29950) 46095..47513 - 1419 WP_063666705 hypothetical protein trbA
JDY82_RS29955 (JDY82_29955) 47615..48238 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
JDY82_RS29960 (JDY82_29960) 48304..50448 - 2145 WP_032440591 DotA/TraY family protein traY
JDY82_RS29965 (JDY82_29965) 50490..51071 - 582 WP_050597335 conjugal transfer protein TraX -
JDY82_RS29970 (JDY82_29970) 51068..52264 - 1197 WP_032440590 conjugal transfer protein TraW traW
JDY82_RS29975 (JDY82_29975) 52274..55321 - 3048 WP_032440589 conjugal transfer protein traU
JDY82_RS29980 (JDY82_29980) 55331..55894 - 564 WP_045325070 hypothetical protein traT
JDY82_RS29985 (JDY82_29985) 55938..56339 - 402 WP_032440588 DUF6750 family protein traR
JDY82_RS29990 (JDY82_29990) 56395..56928 - 534 WP_032440587 conjugal transfer protein TraQ traQ
JDY82_RS29995 (JDY82_29995) 56938..57657 - 720 WP_050597333 conjugal transfer protein TraP traP
JDY82_RS30000 (JDY82_30000) 57664..59004 - 1341 WP_032440586 conjugal transfer protein TraO traO
JDY82_RS30005 (JDY82_30005) 59008..60111 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
JDY82_RS30010 (JDY82_30010) 60122..60790 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
JDY82_RS30015 (JDY82_30015) 60862..61215 - 354 WP_032440584 hypothetical protein traL
JDY82_RS30020 (JDY82_30020) 61249..64662 - 3414 WP_052145516 LPD7 domain-containing protein -
JDY82_RS30025 (JDY82_30025) 64680..64946 - 267 WP_032440577 IcmT/TraK family protein traK
JDY82_RS30030 (JDY82_30030) 64943..66130 - 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
JDY82_RS30035 (JDY82_30035) 66108..66926 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
JDY82_RS30040 (JDY82_30040) 66923..67387 - 465 WP_225546581 DotD/TraH family lipoprotein -
JDY82_RS30045 (JDY82_30045) 67413..67892 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
JDY82_RS30050 (JDY82_30050) 67905..68273 - 369 WP_126523558 hypothetical protein -
JDY82_RS30055 (JDY82_30055) 68624..68851 - 228 WP_032440573 hypothetical protein -
JDY82_RS30060 (JDY82_30060) 69461..70303 + 843 WP_032440572 helix-turn-helix domain-containing protein -
JDY82_RS30065 (JDY82_30065) 70363..71292 + 930 WP_032440581 hypothetical protein -
JDY82_RS30070 (JDY82_30070) 71285..71779 + 495 WP_032440571 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   1826 GenBank   NZ_JAENHY010000006
Plasmid name   pKP2000557_4 Incompatibility group   IncFII
Plasmid size   84379 bp Coordinate of oriT [Strand]   76035..76116 [-]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain KP2000557

Cargo genes

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