Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100970
Name   oriT_pM270-accessoryB in_silico
Organism   Sinorhizobium meliloti strain M270
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NZ_CP021816 (36143..36192 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      19..24, 29..34  (CGTCGC..GCGACG)
Location of nic site      8..9
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 50 nt

>oriT_pM270-accessoryB
TCCAAGGGCGCAATTATACGTCGCTGACGCGACGCCCTGCTCAGAGGGCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1040 GenBank   WP_088199054
Name   TraA_pM270-accessoryB insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123564.41 Da        Isoelectric Point: 10.0304

>WP_088199054.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIAHFSASIVSRGGGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFVLPGDAPKWVKALIADR
LVSGAVEAFWNKVEAFEKRADAQLARDLTIALPLELTPEQNIALVRDFAEKHILTKGMVADWVYHDNPGN
PHIHLMTTLRPLTGDGFGSKKVAVIGEDGQPVRTKSGKILYQLWAGSTDDFNALRDGWFERLNHHLALGG
IDLRIDGRSYEKQGIDLEPTIHLGVGAKAIERKAQEQGVRPELERIELNEQRRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPTVFQQVMLRIILNPEVLRLQRDTIEFATGEKVPACYSTRAMIRLEA
TMVRQALWLSNRDGHAVSEAALDATFRRHERLSQEQKAAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWNRARDVLDDKTVFVMDEAGMVASRQMAGFVD
AVVRAGAKIVVVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYD
ANVRITGTRLKAEAVERLIGDWNHDYDQTKTTLILAHLRRDVRMLNVMARKKLVERGIVGEGHVFKTADG
IRQFDAGDQIVFLKNETSLGVKNGMIAHVIEAAPNRIVAVVGEGDQRRQVIVEQRFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDVQLYYGRRSFAFNGGLAKVLSRRNAKETTLDYERGKLH
REALRFAESRGLNIVQVARTLVRDRLDWTLRQKMKLVELGQRLAVFAERLGLHHPLKTQTMKEAAPMVAG
IKTFSGSVADTVEQKLDTDPALRKQWQEVSARFAYVFADPETAFRAMNFDAVLTEKDTARQVVQKLEAEP
ASIGPLRGKTGILASKAERESRRIAEINVPALKRDLEQYLRMREAAIKRLSTDEQVQRQRVSIDIPALSP
AAHVVLERVRDAIDRNDLPAALGYALSNRETKLEIDGFNKAVTERFGERTLLTNAARQPSGTLFDKLSNG
MQPEQKERLKEAWPVMRTAQQIAAHERTTQTLKQAEELRLTQRQSPVMKQ

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-567)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

MobA/MobL family (MobA_MobL)

(17-243)

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

(855-951)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 80316..89986

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CDO26_RS36000 (CDO26_35995) 75316..76635 - 1320 WP_088199079 plasmid replication protein RepC -
CDO26_RS36005 (CDO26_36000) 76873..77883 - 1011 WP_167693614 plasmid partitioning protein RepB -
CDO26_RS36010 (CDO26_36005) 78107..79327 - 1221 WP_088199144 plasmid partitioning protein RepA -
CDO26_RS36015 (CDO26_36010) 79690..80319 + 630 WP_088199081 acyl-homoserine-lactone synthase TraI -
CDO26_RS36020 (CDO26_36015) 80316..81287 + 972 WP_088199082 P-type conjugative transfer ATPase TrbB virB11
CDO26_RS36025 (CDO26_36020) 81277..81684 + 408 WP_088199083 conjugal transfer pilin TrbC virB2
CDO26_RS36030 (CDO26_36025) 81677..81976 + 300 WP_088199084 conjugal transfer protein TrbD virB3
CDO26_RS36035 (CDO26_36030) 81987..84455 + 2469 WP_088199085 conjugal transfer protein TrbE virb4
CDO26_RS36040 (CDO26_36035) 84472..85236 + 765 WP_234896413 P-type conjugative transfer protein TrbJ virB5
CDO26_RS36045 (CDO26_36040) 85233..85451 + 219 WP_088199087 entry exclusion protein TrbK -
CDO26_RS36050 (CDO26_36045) 85445..86641 + 1197 WP_088199088 P-type conjugative transfer protein TrbL virB6
CDO26_RS36055 (CDO26_36050) 86656..87318 + 663 WP_045023364 conjugal transfer protein TrbF virB8
CDO26_RS36060 (CDO26_36055) 87336..88190 + 855 WP_088199145 P-type conjugative transfer protein TrbG virB9
CDO26_RS36065 (CDO26_36060) 88190..88666 + 477 WP_088199089 conjugal transfer protein TrbH -
CDO26_RS36070 (CDO26_36065) 88679..89986 + 1308 WP_088199090 IncP-type conjugal transfer protein TrbI virB10
CDO26_RS39450 89991..90194 + 204 WP_167693615 hypothetical protein -
CDO26_RS36080 (CDO26_36075) 90345..91247 - 903 WP_088199091 LysR family transcriptional regulator -
CDO26_RS36085 (CDO26_36080) 91500..92273 + 774 WP_012654959 nopaline ABC transporter ATP-binding protein NocP -
CDO26_RS36090 (CDO26_36085) 92339..93190 + 852 WP_088199092 nopaline ABC transporter substrate-binding protein NocT -
CDO26_RS36095 (CDO26_36090) 93263..93973 + 711 WP_088199146 nopaline ABC transporter permease NocQ -
CDO26_RS36100 (CDO26_36095) 93975..94700 + 726 WP_088199093 nopaline ABC transporter permease NocM -

Host bacterium

ID   1428 GenBank   NZ_CP021816
Plasmid name   pM270-accessoryB Incompatibility group   _
Plasmid size   203845 bp Coordinate of oriT [Strand]   36143..36192 [-]
Host baterium   Sinorhizobium meliloti strain M270

Cargo genes

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