Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120783
Name   oriT_pMB5632_1 in_silico
Organism   Klebsiella aerogenes strain 4417
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP103665 (195502..195756 [+], 255 nt)
oriT length   255 nt
IRs (inverted repeats)      153..158, 160..165  (AAAAGT..ACTTTT)
 122..130, 135..143  (TTAAGGCTT..AAGCCTTAA)
 49..55, 60..66  (GAATTTT..AAAATTC)
Location of nic site      78..79
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 255 nt

>oriT_pMB5632_1
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13109 GenBank   WP_012477394
Name   mobH_M5S98_RS26035_pMB5632_1 insolico UniProt ID   A0A2Z2E7B6
Length   1050 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1050 a.a.        Molecular weight: 118067.47 Da        Isoelectric Point: 4.6347

>WP_012477394.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MMMNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPT
GIQTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGG
LLSHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWT
PSSQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYT
DGNDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGE
VYLNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFR
NGIGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDT
VETAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESE
DESAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGS
LDGMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLE
LPPPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVG
SCATSSSVHNEKLLSEPSELPELNREQNADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAA
ATSVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPAS
PVSGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTL
YLTQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(108-304)


  Protein structure


Source ID Structure
AlphaFold DB A0A2Z2E7B6


T4CP

ID   15386 GenBank   WP_259418641
Name   traD_M5S98_RS26025_pMB5632_1 insolico UniProt ID   _
Length   520 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 520 a.a.        Molecular weight: 57577.08 Da        Isoelectric Point: 6.7710

>WP_259418641.1 conjugative transfer system coupling protein TraD [Klebsiella aerogenes]
MGGSNAIFAVERREPIFVTEDNWFGHTLITGNVGTGKTVLQRLLSISMLHLGHVVVVIDPKNDAEWRESL
MEEAKTLGLPFYKFHPGQPASSVCIDVCNTYTNVSDLTSRLLSLVTVPGEVNPFVQYAKALVSNVISGLS
YIEKKPSIYLIHKNMKSHMSIVNLTVKVMESCYARYYGYDVWTEKVKYVANDTLPVRFKRLAEWFTAHFM
NYEGSEQIDWLDTVSQLIDYSMSDPEHMAKMTAGIMPVFDMLIEKPLNELLSPNPNSVSSREIVTSEGMF
STGGVLYISLDGLSNPDTAAAISQLIMSDLTSCAGSRYNAQDGDMSANSRISIFVDEAHSAINNPMINLL
AQGRAAKIALFICTQTISDFIAAASVETANRITGLCNNYISLRVNDTPTQTLVVENFGKSAISTNMVTYT
TGSETSLPHNNFSGSISERKQTTLEESIPKDLLGQVPMFHIVARLQDGRKVVGQIPIAVAEKQMKPNTTL
SEMLFKKAGKVTLRQNLDIKNLNKFLRKLH

  Protein domains


Predicted by InterproScan.

AAA-like domain (AAA_10)

(25-75)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(232-435)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 99851..109091

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
M5S98_RS25515 (M5S98_25515) 97141..97302 - 162 WP_001371949 hypothetical protein -
M5S98_RS25520 (M5S98_25520) 99851..102532 - 2682 WP_000387412 TraC family protein virb4
M5S98_RS25525 (M5S98_25525) 102541..103491 - 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
M5S98_RS25530 (M5S98_25530) 103501..104253 - 753 WP_182911723 protein-disulfide isomerase HtdT -
M5S98_RS25535 (M5S98_25535) 104372..104854 - 483 WP_000377632 hypothetical protein -
M5S98_RS25540 (M5S98_25540) 104862..106217 - 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
M5S98_RS25545 (M5S98_25545) 106207..106668 - 462 WP_000521242 plasmid transfer protein HtdO -
M5S98_RS25550 (M5S98_25550) 106670..107941 - 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
M5S98_RS25555 (M5S98_25555) 107941..108729 - 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
M5S98_RS25560 (M5S98_25560) 108741..109091 - 351 WP_001447770 type IV conjugative transfer system protein TraL traL
M5S98_RS25565 (M5S98_25565) 109109..109462 - 354 WP_000423602 hypothetical protein -
M5S98_RS25570 (M5S98_25570) 110611..111486 - 876 WP_000594611 RepB family plasmid replication initiator protein -
M5S98_RS25575 (M5S98_25575) 111963..113015 + 1053 WP_001065778 hypothetical protein -
M5S98_RS25580 (M5S98_25580) 113035..113235 + 201 WP_000594930 hypothetical protein -
M5S98_RS25585 (M5S98_25585) 113232..113948 + 717 WP_000838219 zinc finger-like domain-containing protein -

Host bacterium

ID   21212 GenBank   NZ_CP103665
Plasmid name   pMB5632_1 Incompatibility group   IncHI2A
Plasmid size   271931 bp Coordinate of oriT [Strand]   195502..195756 [+]
Host baterium   Klebsiella aerogenes strain 4417

Cargo genes

Drug resistance gene   sul1, qacE, aadA2, mcr-9, blaCTX-M-9, dfrA16, blaSHV-12
Virulence gene   -
Metal resistance gene   terE, terD, terC, terB, terA, terZ, terW, merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -