Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107962
Name   oriT_SX41|pA in_silico
Organism   Agrobacterium pusense strain SX41
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP076848 (152838..152879 [+], 42 nt)
oriT length   42 nt
IRs (inverted repeats)      23..28, 33..38  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 42 nt

>oriT_SX41|pA
GGATCCGAAGGGCGCAATTATACGTCGCTGACGCGACGCCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5341 GenBank   WP_037094542
Name   traA_KP800_RS25875_SX41|pA insolico UniProt ID   _
Length   1099 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1099 a.a.        Molecular weight: 121896.99 Da        Isoelectric Point: 9.8484

>WP_037094542.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium pusense]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMDYEREARTIDYTRKQGLLHEEFVIPADAPEWLRTMISDR
SVSGASEAFWNKVEDFEKRSDAQLAKDVTIALPIELTAKQNIALVRDFVAQHITSKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGAKKIAVLGPDGNPVRNDAGKIVYELWAGSIDDFNAFRDGWFACQNRHLALAG
LDLRVDGRSFEKQGIDLEPTIHLGVGTKAVERKSDVASKPIELERLELQGARRSENVRRIDRHPQLVLDL
IMREKSVFDERDVAKILHRYVDDGVLFQSLMVRIILHPETFRLERERIDLATGNREPAKYTTRDMIRLEA
EMANRAVWLSQRSSHGVRDAVLAATFERHERLSDEQKTAIEHVAGPERIAAVIGRAGAGKTTMMKAAREA
WEAAGYRVVGAALAGKAAEGLEREAGIISRTLASWELRWNQGRDQLDNKTVFVLDEAGMVSSRQMALFVE
AVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGKVGKAVDAYR
ANGKVIGSDLKADAVDNLIAAWDRDYDPAKTSLILAHLRRDVRMLNQMARIKLIERGILAEGAMFKTADG
DRNFAVGDQIVFLKNEGSLGVKNGMLAKVIEVGPGRITALIGEGENARQVLVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDGHLTYVAMTRHREDLAVYYGRRSFAKNGGLIPILSRRNTKETTLDYEKGAFY
RQALRFAEARGLHLVSVARTLLRDRLDWLVSQKQKLSDLGARLAAIAGKLGVVRGATQSPTQSSAKEAKP
MVSGVTTFAKSFEDRIAADPGLKKQWEEVSTRFHLVYAQPESAFKAINVDAMLKDEGVAKSTLATIGSNP
EHFGALKGKTGILTSRTDRQERDKAQTNAPALARNLERYLRQRAEAERKFEVEERAIRLKISIDIPALSA
NAKQTLERVRDAIDRNDLPAGLEFALADKMVKAELEGFARAVSERFGERTFLPLAAKEANGQTFNTVTAG
MTPGQKTEVQSAWSLMRTAQQLAAHERTTEALKQADTLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-567)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(855-951)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   5619 GenBank   WP_065653656
Name   traG_KP800_RS25860_SX41|pA insolico UniProt ID   _
Length   658 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 658 a.a.        Molecular weight: 71094.94 Da        Isoelectric Point: 8.6507

>WP_065653656.1 Ti-type conjugative transfer system protein TraG [Agrobacterium pusense]
MNRIMLFIAPVALMIPVTIGMTGIEHWLSGFGKTEAARQALGRTGVALPYLMAALVGVAFLFASAGAIRI
KTAGWGVVAGGVATILIGALRETTRLSGLADQVPPGKSIFAYVDPATLIGAGAAAMATCFALRVALVGNA
AFASAEPKRIRGKRALHGEADWMKLADAEKLFSQTGGIVIGERYRVDRDSIAERSFRADNSETWGSGGKS
PLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLIVLDPSNEVAPMVSAHRTSADRDVFVLDPK
KPETGFNALDWIGQFGGTKEEDIASVASWIMSDSGGTRGVRDDFFRASALQLLTSMIADVCLSGHTEKEN
QTLRQVRANLSEPEPQLRQRLQEIYDNSESDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYPNYAAL
VSGKTFSTGDLAEGNSDVFINIDLKTLETHAGLARVIIGSFLNAIYNRDGSMKGRALFLLDEVARLGYMR
ILETARDAGRKYGITLVMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISRRCGMTTVE
IDQISRSSQARGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMRACVGTN
RFHGLGNTPGPSRIEPARSAASKADPEQ

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(161-632)

  Protein structure



No available structure.



ID   5620 GenBank   WP_037094114
Name   t4cp2_KP800_RS25960_SX41|pA insolico UniProt ID   _
Length   818 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 818 a.a.        Molecular weight: 92013.91 Da        Isoelectric Point: 6.0692

>WP_037094114.1 conjugal transfer protein TrbE [Agrobacterium pusense]
MVALKRFRATGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINTILSRLG
SGWMIQVEAVRIPTFDYPSDDRCHFPDAVTRAIDAERRAHFGREQGHFESKHALVLTYRPLESKKTALSK
YIYSDEESRKKTYADTVLFIFKNAIREIEQYFANTLSIRRMETREVAERRGERLARYDELLQFVRFCITG
ENHPIRLPDAPMYLDWIATAELEHGLTPKVENRFLAVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDALEARQKLERTRKKWQQKVRPFFDQIFQTQSRSVDQDAMTMVAETEDAIAQASSQLVAYGYYTPVIVL
FDQDRDALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTSNLADLVPLNSVWS
GSPVAPCPFYPPNSPPLMQVASGSTPFRLNLHIDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEHAQIFA
FDKGNSLLPLTLGAGGDHYEIGGDAQEEVKALAFCPLSDLASDADRAWATEWIEMLVALQGVNITPDHRN
AISRQIGLMASAAGRSLSDFVSGVQMREIKDALHHYTVDGPMGQHLDAEQDGLSLGALQTFEIEHLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRSKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVSNAIPKREYYVVTPEGRRLFDMALGP
VALSFVGASGKEDLKRIRTLRSEHGRDWPIHWLQMRGVQDAASLLNFE

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(190-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 150214..171464

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KP800_RS25825 (KP800_25825) 146510..146809 + 300 Protein_145 DUF736 domain-containing protein -
KP800_RS25830 (KP800_25830) 146972..147139 + 168 Protein_146 DUF736 domain-containing protein -
KP800_RS25835 (KP800_25835) 147457..147621 + 165 WP_187306697 hypothetical protein -
KP800_RS25840 (KP800_25840) 147954..148445 + 492 WP_037095024 hypothetical protein -
KP800_RS25845 (KP800_25845) 148735..148908 + 174 WP_187306698 hypothetical protein -
KP800_RS25850 (KP800_25850) 148945..149199 - 255 WP_037095025 WGR domain-containing protein -
KP800_RS25855 (KP800_25855) 149401..149844 - 444 WP_187306699 thermonuclease family protein -
KP800_RS25860 (KP800_25860) 150214..152190 - 1977 WP_065653656 Ti-type conjugative transfer system protein TraG virb4
KP800_RS25865 (KP800_25865) 152183..152398 - 216 WP_037094547 type IV conjugative transfer system coupling protein TraD -
KP800_RS25870 (KP800_25870) 152403..152699 - 297 WP_037094546 conjugal transfer protein TraC -
KP800_RS25875 (KP800_25875) 152957..156256 + 3300 WP_037094542 Ti-type conjugative transfer relaxase TraA -
KP800_RS25880 (KP800_25880) 156253..156819 + 567 WP_037094540 conjugative transfer signal peptidase TraF -
KP800_RS25885 (KP800_25885) 156809..157972 + 1164 WP_037094539 conjugal transfer protein TraB -
KP800_RS25890 (KP800_25890) 157989..158603 + 615 WP_037094537 TraH family protein virB1
KP800_RS25895 (KP800_25895) 158621..158998 - 378 WP_037094536 DUF5615 family PIN-like protein -
KP800_RS25900 (KP800_25900) 158995..159627 - 633 WP_037094534 DUF433 domain-containing protein -
KP800_RS25905 (KP800_25905) 159800..160012 - 213 WP_037094533 helix-turn-helix transcriptional regulator -
KP800_RS25910 (KP800_25910) 160210..160527 + 318 WP_037094530 transcriptional repressor TraM -
KP800_RS25915 (KP800_25915) 160520..161233 - 714 WP_037094550 autoinducer binding domain-containing protein -
KP800_RS25920 (KP800_25920) 161624..161845 - 222 WP_143150183 hypothetical protein -
KP800_RS25925 (KP800_25925) 161943..163244 - 1302 WP_065653657 IncP-type conjugal transfer protein TrbI virB10
KP800_RS25930 (KP800_25930) 163257..163694 - 438 WP_037095111 conjugal transfer protein TrbH -
KP800_RS25935 (KP800_25935) 163698..164510 - 813 WP_037095113 P-type conjugative transfer protein TrbG virB9
KP800_RS25940 (KP800_25940) 164528..165190 - 663 WP_065653658 conjugal transfer protein TrbF virB8
KP800_RS25945 (KP800_25945) 165215..166390 - 1176 WP_037094110 P-type conjugative transfer protein TrbL virB6
KP800_RS25950 (KP800_25950) 166384..166584 - 201 WP_037094111 entry exclusion protein TrbK -
KP800_RS25955 (KP800_25955) 166581..167384 - 804 WP_037094113 P-type conjugative transfer protein TrbJ virB5
KP800_RS25960 (KP800_25960) 167356..169812 - 2457 WP_037094114 conjugal transfer protein TrbE virb4
KP800_RS25965 (KP800_25965) 169822..170121 - 300 WP_037094117 conjugal transfer protein TrbD virB3
KP800_RS25970 (KP800_25970) 170114..170497 - 384 WP_037094119 TrbC/VirB2 family protein virB2
KP800_RS25975 (KP800_25975) 170487..171464 - 978 WP_037094120 P-type conjugative transfer ATPase TrbB virB11
KP800_RS25980 (KP800_25980) 171477..172100 - 624 WP_037094122 acyl-homoserine-lactone synthase -

Host bacterium

ID   8397 GenBank   NZ_CP076848
Plasmid name   SX41|pA Incompatibility group   -
Plasmid size   172488 bp Coordinate of oriT [Strand]   152838..152879 [+]
Host baterium   Agrobacterium pusense strain SX41

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -