Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100988
Name   oriT_pNDM-JVAP01 in_silico
Organism   Acinetobacter lactucae strain JVAP01
Sequence Completeness      incomplete
NCBI accession of oriT (coordinates [strand])   NZ_KM923969 (259..296 [+], 38 nt)
oriT length   38 nt
IRs (inverted repeats)      8..17, 21..30  (CATAAGGGAA..TTCCCTTATG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 38 nt

>oriT_pNDM-JVAP01
AGGGATTCATAAGGGAATTATTCCCTTATGTGGGGCTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1058 GenBank   WP_017480453
Name   TraA_pNDM-JVAP01 insolico UniProt ID   _
Length   970 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 970 a.a.        Molecular weight: 110764.85 Da        Isoelectric Point: 8.1822

>WP_017480453.1 MULTISPECIES: AAA family ATPase [Gammaproteobacteria]
MAIYHLSVKTGRQYGSTGTRGANHYAYINRDGKYKRDDLENIKSGNLPSWATDAKHFWKSADKNERINGR
VYTELEISLPRELNKEQREELVEKFVEKTLGENFTYSYAIHSPLASDGQQNPHVHLMFSERKLDGIERDE
VKHFKRYNPVNPEKGGAGKDRYFSSKMFVVDTRLEWANHVNDFCENLGIDARIDHRSFKEQGIELSSQNF
RADYVSSHKYHINENIKQVRHQNGEIIIERPSEAIKALTSNQSVFSVRELERFLMAHTDGEEQYLKAYES
VITCPDMATLYGKDKVVFSSKELVGIEESISTFIYNANEESRIQKPFNLVEKLPLNAVRVAETRTFNSEQ
EKAFYTLTSTDRITLLNGSAGTGKSYVLSAVSEAYKESDYQVYGIALQAITAKAIANDCDIPSSTIASFL
SKYDSGNLEINNKTVLILDEAGMVGSRDMQRLLMLVEKHDAQIKLVGDSYQLSAVSAGHVFANIQENLDK
KNIASLEDIQRQKHAKESDKMIQASKYLSKHEVGKAIDIYKSINMVNEYESHDLALAKTVKSWSEDSSES
KLMLAHSNSDVNELNRMARALLIKQGKLNPESVSVKNYQGDLDISIGEKIVFKQNNSQMKVSNGELAKVI
GFEKDKFNNPKAMMVQMESDSRIVRVDLKEYDQFKHGYANTIHSSQGMTVDSAYIVASENMNANLTYVAL
TRHKQNIQINYSALTFATNEKETVKTPDGKVSYDHNYKPVEREVTAFENFKKVLGRSETKEFSTDFTLVE
SKDNLMKSYLNDHRLHLENKRELFGINSKLYSLTSENKTFTKEEIVSEVRASLKSKALLGDEIVKFNGNM
NIAKGELVKLTNDLEIKTGLFKKVTFEKGTELKVIDAYKVKDKPVMKARIKNEEYEIPFNKLNLEYSDKY
FNEFKDQSKARFDSRHKTEVYTEFREQLLKQKANAPKDNLNAPNQRIKNPNTPNRNTPKY

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(43-208)

AAA domain (AAA_30)

(346-538)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(661-709)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 22716..36011

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A3Q30_RS00100 (JVAP01_p24) 18594..19241 - 648 WP_004993315 recombinase family protein -
A3Q30_RS00105 19393..19617 + 225 WP_015056389 hypothetical protein -
A3Q30_RS18365 (JVAP01_p26) 19801..21513 + 1713 WP_015060705 zeta toxin family protein -
A3Q30_RS00115 (JVAP01_p27) 21510..21896 - 387 WP_227513993 thermonuclease family protein -
A3Q30_RS00120 (JVAP01_p28) 22192..22653 - 462 WP_015060707 hypothetical protein -
A3Q30_RS00125 (JVAP01_p29) 22716..23357 - 642 WP_004999358 type IV secretion system protein virB5
A3Q30_RS00130 (JVAP01_p30) 23354..26065 - 2712 WP_015060708 VirB4 virb4
A3Q30_RS00135 (JVAP01_p31) 26077..26370 - 294 WP_017480461 TrbC/VirB2 family protein virB2
A3Q30_RS00140 (JVAP01_p32) 26381..27091 - 711 WP_017480462 lytic transglycosylase domain-containing protein -
A3Q30_RS00145 (JVAP01_p33) 27136..27336 - 201 WP_004999346 hypothetical protein -
A3Q30_RS00150 (JVAP01_p34) 27355..28872 - 1518 WP_015060710 type IV secretion system DNA-binding domain-containing protein virb4
A3Q30_RS00155 (JVAP01_p35) 28869..30116 - 1248 WP_017480463 lytic transglycosylase domain-containing protein -
A3Q30_RS00160 (JVAP01_p36) 30198..30650 - 453 WP_004999340 hypothetical protein -
A3Q30_RS00165 (JVAP01_p37) 30654..30983 - 330 WP_004999338 hypothetical protein -
A3Q30_RS00170 (JVAP01_p38) 30952..31989 - 1038 WP_015060713 P-type DNA transfer ATPase VirB11 virB11
A3Q30_RS00175 (JVAP01_p39) 32005..33384 - 1380 WP_005000433 TrbI/VirB10 family protein virB10
A3Q30_RS00180 (JVAP01_p40) 33386..34123 - 738 WP_005000435 TrbG/VirB9 family P-type conjugative transfer protein virB9
A3Q30_RS00185 (JVAP01_p41) 34138..34926 - 789 WP_005000436 VirB8/TrbF family protein virB8
A3Q30_RS00190 (JVAP01_p42) 34926..36011 - 1086 WP_005000437 type IV secretion system protein virB6
A3Q30_RS00195 (JVAP01_p43) 36019..36438 - 420 WP_005000439 hypothetical protein -
A3Q30_RS00200 (JVAP01_p44) 36425..36796 - 372 WP_005000442 hypothetical protein -
A3Q30_RS00210 (JVAP01_p46) 38418..38657 + 240 WP_005000443 hypothetical protein -
A3Q30_RS00215 (JVAP01_p47) 38674..39363 + 690 WP_005000446 ParA family partition ATPase -
A3Q30_RS00220 (JVAP01_p48) 39360..39764 + 405 WP_005000449 hypothetical protein -

Host bacterium

ID   1446 GenBank   NZ_KM923969
Plasmid name   pNDM-JVAP01 Incompatibility group   _
Plasmid size   47268 bp Coordinate of oriT [Strand]   259..296 [+]
Host baterium   Acinetobacter lactucae strain JVAP01

Cargo genes

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