Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116386
Name   oriT_pYZ2-2-tetX4 in_silico
Organism   Klebsiella quasipneumoniae strain YZ2-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP127000 (90232..90313 [-], 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_pYZ2-2-tetX4
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10471 GenBank   WP_032440569
Name   traI_QQE19_RS25865_pYZ2-2-tetX4 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   12221 GenBank   WP_032440593
Name   trbC_QQE19_RS25730_pYZ2-2-tetX4 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: 59190..81123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QQE19_RS25715 (QQE19_25685) 54953..55648 - 696 WP_254910806 RepA family replication protein -
QQE19_RS25720 (QQE19_25690) 56154..56405 - 252 WP_113394424 hypothetical protein -
QQE19_RS25725 (QQE19_25695) 56417..56950 - 534 WP_032440594 phospholipase D family protein -
QQE19_RS25730 (QQE19_25700) 56996..59188 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
QQE19_RS25735 (QQE19_25705) 59190..60311 - 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
QQE19_RS25740 (QQE19_25710) 60292..61710 - 1419 WP_063666705 hypothetical protein trbA
QQE19_RS25745 (QQE19_25715) 61812..62435 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
QQE19_RS25750 (QQE19_25720) 62501..64645 - 2145 WP_032440591 DotA/TraY family protein traY
QQE19_RS25755 (QQE19_25725) 64687..65268 - 582 WP_050597335 conjugal transfer protein TraX -
QQE19_RS25760 (QQE19_25730) 65265..66461 - 1197 WP_032440590 conjugal transfer protein TraW traW
QQE19_RS25765 (QQE19_25735) 66471..69518 - 3048 WP_032440589 conjugal transfer protein traU
QQE19_RS25770 (QQE19_25740) 69528..70091 - 564 WP_045325070 hypothetical protein traT
QQE19_RS25775 (QQE19_25745) 70135..70536 - 402 WP_032440588 DUF6750 family protein traR
QQE19_RS25780 (QQE19_25750) 70592..71125 - 534 WP_032440587 conjugal transfer protein TraQ traQ
QQE19_RS25785 (QQE19_25755) 71135..71854 - 720 WP_050597333 conjugal transfer protein TraP traP
QQE19_RS25790 (QQE19_25760) 71861..73201 - 1341 WP_032440586 conjugal transfer protein TraO traO
QQE19_RS25795 (QQE19_25765) 73205..74308 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
QQE19_RS25800 (QQE19_25770) 74319..74987 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
QQE19_RS25805 (QQE19_25775) 75059..75412 - 354 WP_032440584 hypothetical protein traL
QQE19_RS25810 (QQE19_25780) 75446..78859 - 3414 WP_052145516 LPD7 domain-containing protein -
QQE19_RS25815 (QQE19_25785) 78877..79143 - 267 WP_032440577 IcmT/TraK family protein traK
QQE19_RS25820 (QQE19_25790) 79140..80327 - 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
QQE19_RS25825 (QQE19_25795) 80305..81123 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
QQE19_RS25830 (QQE19_25800) 81120..81584 - 465 WP_225546581 DotD/TraH family lipoprotein -
QQE19_RS25835 (QQE19_25805) 81610..82089 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
QQE19_RS25840 (QQE19_25810) 82821..83048 - 228 WP_032440573 hypothetical protein -
QQE19_RS25845 (QQE19_25815) 83658..84500 + 843 WP_032440572 helix-turn-helix domain-containing protein -
QQE19_RS25850 (QQE19_25820) 84560..85489 + 930 WP_032440581 glycosyltransferase family 9 protein -
QQE19_RS25855 (QQE19_25825) 85482..85976 + 495 WP_032440571 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   16819 GenBank   NZ_CP127000
Plasmid name   pYZ2-2-tetX4 Incompatibility group   IncFII
Plasmid size   90338 bp Coordinate of oriT [Strand]   90232..90313 [-]
Host baterium   Klebsiella quasipneumoniae strain YZ2-2

Cargo genes

Drug resistance gene   tet(X4), aac(3)-IId, qnrS1, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -