Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116769
Name   oriT_pPROV002-IMP in_silico
Organism   Providencia rettgeri strain 2055
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH882484 (11986..12086 [-], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      39..44, 49..54  (CGCACC..GGTGCG)
 13..21, 27..35  (AAGTCATTG..CAATGACTT)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  TGTCTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pPROV002-IMP
TCCTTGGCGTGGAAGTCATTGTAAATCAATGACTTACGCGCACCGAAAGGTGCGTATTGTCTATAGCCCAGATTTAAGGATACCAACCCGGCTTTTAAGGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10697 GenBank   WP_065164176
Name   mobF_HTU13_RS00100_pPROV002-IMP insolico UniProt ID   _
Length   962 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 962 a.a.        Molecular weight: 106978.20 Da        Isoelectric Point: 9.8804

>WP_065164176.1 MULTISPECIES: MobF family relaxase [Pseudomonadota]
MVLTRQDIGRAASYYEDGADDYYAKDGDASEWQGKGAEELGLSGEVDSKRFRELLAGNIGEGHRIMRSAT
RQDSKERIGLDLTFSAPKSVSLQALVAGDAEIIKAHDRAVARTLEQAEARAQARQKIQGKTRIETTGNLV
IGKFRHETSRERDPQLHTHAVILNMTKRSDGQWRALKNDEIVKATRYLGAVYNAELAHELQKLGYQLRYG
KDGNFDLAHIDRQQIEGFSKRTEQIAEWYAARGLDPNSVSLEQKQAAKVLSRAKKTSVDREALRAEWQAT
AKELGIDFSRREWSGREKGGSEKQAHSFMPSDEAAKRAVRYAINHLTERQSVMDERELVDTAMKHAVGAA
RLEDIQKELLRQTETGYLIREAPRYRPGGQTGPTDEPGKTRAEWVAELAAKGMKQGAARERVDNAIKTGG
LVPIEPRYTTQTALEREKRILQIERDGRGAVAPVIAAEAARERLASTNLNQGQREAAELIVSAANRVVGV
QGFAGTGKSHMLDTAKQMIEGEGYHVRALAPYGSQVKALRELNVEANTLASFLRAKDKNIDSRTVLVIDE
AGVVPTRLMEQTLKLAEKAGARVVLMGDTAQTKAIEAGRPFDQLQAAGMQTAHMREIQRQKNPELKIAVE
LAAAGKASSSLERIKDVTEIKNHHERRAAVAEAYIALKPDERDRTLIVSGTNEARREINQIVREGLGTAG
KGIEFDTLVRVDTTQAERRHSKNYQVGHVIQPERDYAKTGLQRGELYRVVETGPGNRLTVIGEHDGQRIQ
FSPMTHTKISVYQPERAELAVGDTIRITRNDKHLDLANGDRMKVVAVEDRKVTVTDGKRNVELPTDKPLH
VDHAYATTVHSSQGLTSDRVLIDAHAESRTTAKDVYYVAISRARFEARVFTNDRGKLPAAIARENIKSAA
HDLARDRGGRSAAAERQREQQREAERNRQTQQPAHDRQKAAREAERGMEAGR

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(9-283)

AAA domain (AAA_30)

(469-653)


  Protein structure



No available structure.




Auxiliary protein

ID   6299 GenBank   WP_012196434
Name   WP_012196434_pPROV002-IMP insolico UniProt ID   A8R762
Length   121 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 121 a.a.        Molecular weight: 13400.32 Da        Isoelectric Point: 4.8464

>WP_012196434.1 MULTISPECIES: hypothetical protein [Pseudomonadota]
MALGDPIQVRLSPEKQALLEDEAARKGKRLATYLRELLESENDLQGELAALRREVVSLHHVIEDLADTGL
RSDQSGPGQNAVQIETLLLLRAIAGPERMKPVKGELKRLGIEVWTPEGKED

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A8R762


T4CP

ID   12497 GenBank   WP_012196433
Name   t4cp2_HTU13_RS00095_pPROV002-IMP insolico UniProt ID   _
Length   507 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 507 a.a.        Molecular weight: 56272.95 Da        Isoelectric Point: 9.8647

>WP_012196433.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Pseudomonadota]
MHPDDQRKVSAGIVIVLPLIFWITAVQKTEVLGSPKLLALWELMKLTPQKPILLLSALGGLAVGVLFVWL
LNSVGQGEFGGAPFKRFLRGTRIVSGGKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSVLL
RELAYTGLLRGDRMVIVDPNGDMLSKFGRDKDIILNPYDQRTKGWSFFNEIRNDYDWQRYALSVVPRGKT
DEAEEWASYGRLLLRETAKKLALIGTPSMRELFHWTTIATFDDLRGFLEGTLAESLFAGSNEASKALTSA
RFVLSDKLPEHVTMPDGDFSIRSWLEDPNGGNLFITWREDMGPALRPLISAWVDVVCTSILSLPEEPKRR
LWLFIDELASLEKLASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVKEAQTLRASFRSLVVLGGSRTDP
KTNEDMSLSLGEHEVERDRYSKNTGKHHSTGRALERVRERVVMPAEIANLPDLTAYVGFAGNRPIAKVPL
EIKQFANRQPAFVEGTI

  Protein domains


Predicted by InterproScan.

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

(110-490)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12548..27185

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU13_RS00055 7628..7951 + 324 WP_012196442 TrfB-related DNA-binding protein -
HTU13_RS00285 8644..8988 + 345 WP_012196440 hypothetical protein -
HTU13_RS00290 9004..9657 + 654 WP_012196439 hypothetical protein -
HTU13_RS00295 9805..10056 + 252 WP_012196438 hypothetical protein -
HTU13_RS00300 10210..10596 - 387 WP_012196437 hypothetical protein -
HTU13_RS00080 10610..11305 - 696 WP_012196436 StbB family protein -
HTU13_RS00085 11302..11727 - 426 WP_012196435 hypothetical protein -
HTU13_RS00305 12181..12546 + 366 WP_012196434 hypothetical protein -
HTU13_RS00095 12548..14071 + 1524 WP_012196433 type IV secretion system DNA-binding domain-containing protein virb4
HTU13_RS00100 14083..16971 + 2889 WP_065164176 MobF family relaxase -
HTU13_RS00105 17054..18130 - 1077 WP_012196431 P-type DNA transfer ATPase VirB11 virB11
HTU13_RS00110 18096..19283 - 1188 WP_012196430 type IV secretion system protein VirB10 virB10
HTU13_RS00115 19283..20083 - 801 WP_012196429 P-type conjugative transfer protein VirB9 virB9
HTU13_RS00120 20094..20789 - 696 WP_012196428 virB8 family protein virB8
HTU13_RS00125 21042..22070 - 1029 WP_012196426 type IV secretion system protein virB6
HTU13_RS00130 22084..22314 - 231 WP_012196425 EexN family lipoprotein -
HTU13_RS00135 22311..23000 - 690 WP_012196424 P-type DNA transfer protein VirB5 virB5
HTU13_RS00140 22997..25468 - 2472 WP_012196423 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTU13_RS00145 25471..25785 - 315 WP_012196422 type IV secretion system protein VirB3 virB3
HTU13_RS00150 25798..26103 - 306 WP_031942907 VirB2 family type IV secretion system major pilin TrwL virB2
HTU13_RS00155 26069..26365 - 297 WP_012196420 KorA family transcriptional regulator -
HTU13_RS00160 26487..27185 - 699 WP_012443549 lytic transglycosylase domain-containing protein virB1
HTU13_RS00310 27187..27768 - 582 WP_012196419 hypothetical protein -
HTU13_RS00170 27917..28204 + 288 WP_012414174 H-NS family nucleoid-associated regulatory protein -
HTU13_RS00175 28501..29001 - 501 WP_000376623 GNAT family N-acetyltransferase -
HTU13_RS00180 29129..29968 - 840 WP_000259031 sulfonamide-resistant dihydropteroate synthase Sul1 -
HTU13_RS00185 29962..30258 - 297 WP_172693598 multidrug efflux SMR transporter -
HTU13_RS00265 30256..30390 + 135 Protein_37 IS30 family transposase -
HTU13_RS00195 30491..31303 + 813 WP_004201164 subclass B1 metallo-beta-lactamase NDM-1 -
HTU13_RS00200 31307..31672 + 366 WP_004201167 bleomycin binding protein Ble-MBL -

Host bacterium

ID   17202 GenBank   NZ_MH882484
Plasmid name   pPROV002-IMP Incompatibility group   IncW
Plasmid size   41936 bp Coordinate of oriT [Strand]   11986..12086 [-]
Host baterium   Providencia rettgeri strain 2055

Cargo genes

Drug resistance gene   sul1, blaNDM-1, qacE, catB3, blaIMP-4
Virulence gene   trwD, trwF, trwG, trwK, trwM
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -