Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103919
Name   oriT_pAtCFBP6623a in_silico
Organism   Agrobacterium tumefaciens strain CFBP6623
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP039905 (40280..40308 [+], 29 nt)
oriT length   29 nt
IRs (inverted repeats)      14..19, 24..29  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 29 nt

>oriT_pAtCFBP6623a
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2911 GenBank   WP_062653651
Name   traA_CFBP6623_RS25290_pAtCFBP6623a insolico UniProt ID   _
Length   1538 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1538 a.a.        Molecular weight: 170962.07 Da        Isoelectric Point: 7.5063

>WP_062653651.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium/Agrobacterium group]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGASELVHEELALPDQMPAWLQSAVDG
RSVAKASEALWNAVDTFETRADAQLARELIIALPEELTRAENIALVREFVRDNFISKGMIADWVLHDKDG
NPHIHLMTTLRPLTDEGFGPKKVPVLDADGDPLRVVTPDRPNGKIVYKLWAGDKETMKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVEMYFAPADLARRQEMADRLLAEPELLLKQ
LSNERSTFDERDIAKALHRTVDDPLDFANIRARLMASDDLVLLKPQQVDTETGKATEPAVFTTREILRIE
FDMAQSAQVSSARRGFVVSDRAIAAAIKKVETQDPEKAFRLDPEQVDAVRHVTGDNGIAAVVGLAGAGKS
TLLAAARVAWESNGRRVIGAALAGKAAEGLEDSSGIRSRTLASWEMAWASGRELLGRGDVMVIDEAGMVS
SQQMARVLKIAEEAQAKIVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRDEWARDASRHFARGK
IEESLDAYAQQGRIVETETRADLVERIVADWTAARRELLQKSADGEHPGRLRGDELLVLAHTNVDVQKLN
AFLRKVMMEEGALTGAREFQTARGVREFAAGDRIIFLENARFLEPRARRLGPQYVKNGMLGTVVSTGDKR
GDPLLTIHLDNGRDIVISEASYRNIDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAASEDFEAKPEWGREPRVDHAAGVTGELVETGEAKFRPHDEDADESPYADVKTDDGTVRLWGVSLPKAL
EDARVSDGDTVTLRKGGVERVKVQVPIFDEKTGQKRFEEREVDRNVWTAKQIETAEVRLERIERESHRPD
VFKQLVERLCRSGAKTTTLDFESEEGYRAHARDFARRRGIDTLAEVAAGMEEGASRRLAWILERKEQVAK
LWERASVALGFAIERERRVSYNEAQNETLAADVGARGKYLIPPTTLFVRSVEEDARRAQLASERWKERDV
ILRPVLEKIYRDPDQALVRLDALASDAGIEPRRLAEDLAVTSDRLGRLRGSDLMVDGRAARDERNIAKAA
MAELLPLARAHATEFRRQAERFGIREQQRRAHMSLSIPALSKQAMARLVEIEAVRDRGGDDAYKTAFAFA
VEDRLLVQEVKAVNDALSGRFGWSAFTAKADATAERSMVERMPEDLAPERREKLTRLFAVIRRFAEEQHL
AERQDRSKIVAGASVALDKETAPMLPMFAAVTEFKTPVEEEARGRALAASHYRHHRAALAETATRIWRDP
AGAIGKIEELVMKSFAGERIAAAVSNDPAAYGALRGSDRIMDKLLAVGRERRDALLAVPEAAGRVRSLGA
SYASALEAETRDITEERRRMAVAIPGLSQPAEDALRQLAAEMKKKNAKLAVAVSSLDPRVAQEFTAVSRA
LDERFGRNAILRGEKDVINRVPPAQRRAFEAMHERLKVLQQTVRMQSSQEIIAERQRRVLDRARGVIR

  Protein domains


Predicted by InterproScan.

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

(1308-1398)

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-578)


  Protein structure



No available structure.




T4CP

ID   2756 GenBank   WP_062653644
Name   traG_CFBP6623_RS25275_pAtCFBP6623a insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 70248.03 Da        Isoelectric Point: 9.1224

>WP_062653644.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium/Agrobacterium group]
MALKGKLHPSLLLTLVPVVVTAITVHIAGWRWTGLATGMSGKTAYWFLRAAPLPALLFGPLAGLLTVWAL
PMHRRRPIAMVSLLCFLGVVGFYALREFGRLAPSVERGLVSWDYALSYLDMVAVVGALGGFMAVAASARI
SSVVPEQVKRARRATFGDADWLSMSAAGKLFPPDGEIVVGERYRVDKEIVHELPFDPNDRSTWGQGGKAP
LLTYGQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTAKLGREVMVLDPT
NPIMGFNVLDGIETSKQKEEDIVGVAHMLLSESVRFESSTGSYFQSQAHNLLTGLLAHVMLSPDYTGRRN
LRSLRQIVSEPEPSVLAMLRDIQENSGSTFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GSAFTSSDIVTGTKDVFLNIPASILRSYPGIGRVIIGALINAMIQADGGFKRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDQAAR
ANRFVKAEP

  Protein domains


Predicted by InterproScan.

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

(161-636)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6494..16107

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFBP6623_RS25065 (CFBP6623_25065) 2432..3676 + 1245 WP_062653962 plasmid replication protein RepC -
CFBP6623_RS25070 (CFBP6623_25070) 3908..4537 - 630 WP_080843285 RES family NAD+ phosphorylase -
CFBP6623_RS25075 (CFBP6623_25075) 4534..5319 - 786 WP_062653958 hypothetical protein -
CFBP6623_RS25080 (CFBP6623_25080) 5502..5852 - 351 WP_062653986 MarR family transcriptional regulator -
CFBP6623_RS25085 (CFBP6623_25085) 5951..6490 + 540 WP_062653956 hypothetical protein -
CFBP6623_RS25090 (CFBP6623_25090) 6494..7159 + 666 WP_062653949 lytic transglycosylase domain-containing protein virB1
CFBP6623_RS25095 (CFBP6623_25095) 7156..7455 + 300 WP_062653947 TrbC/VirB2 family protein virB2
CFBP6623_RS25100 (CFBP6623_25100) 7462..7800 + 339 WP_062653945 type IV secretion system protein VirB3 virB3
CFBP6623_RS25105 (CFBP6623_25105) 7793..10159 + 2367 WP_062653942 VirB4 family type IV secretion system protein virb4
CFBP6623_RS25110 (CFBP6623_25110) 10156..10857 + 702 WP_062653941 P-type DNA transfer protein VirB5 virB5
CFBP6623_RS25115 (CFBP6623_25115) 10854..11084 + 231 WP_062653939 EexN family lipoprotein -
CFBP6623_RS25120 (CFBP6623_25120) 11088..12020 + 933 WP_062653937 type IV secretion system protein virB6
CFBP6623_RS25125 (CFBP6623_25125) 12060..12341 + 282 WP_062653935 hypothetical protein -
CFBP6623_RS25130 (CFBP6623_25130) 12343..13014 + 672 WP_062653931 virB8 family protein virB8
CFBP6623_RS25135 (CFBP6623_25135) 13011..13868 + 858 WP_145980565 P-type conjugative transfer protein VirB9 virB9
CFBP6623_RS25140 (CFBP6623_25140) 13877..15052 + 1176 WP_080843287 type IV secretion system protein VirB10 virB10
CFBP6623_RS25145 (CFBP6623_25145) 15061..16107 + 1047 WP_062653600 P-type DNA transfer ATPase VirB11 virB11
CFBP6623_RS25150 (CFBP6623_25150) 16104..16535 - 432 WP_062653602 winged helix-turn-helix domain-containing protein -
CFBP6623_RS25155 (CFBP6623_25155) 17017..19149 + 2133 WP_062653604 ParB/RepB/Spo0J family partition protein -
CFBP6623_RS25160 (CFBP6623_25160) 19220..19876 + 657 WP_062653662 hypothetical protein -
CFBP6623_RS25165 (CFBP6623_25165) 20022..20444 + 423 WP_062653606 antirestriction protein -

Host bacterium

ID   4359 GenBank   NZ_CP039905
Plasmid name   pAtCFBP6623a Incompatibility group   -
Plasmid size   260250 bp Coordinate of oriT [Strand]   40280..40308 [+]
Host baterium   Agrobacterium tumefaciens strain CFBP6623

Cargo genes

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