Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103394
Name   oriT_pHS19-2-tetX4 in_silico
Organism   Klebsiella sp. strain HS19-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW940619 (12712..13327 [+], 616 nt)
oriT length   616 nt
IRs (inverted repeats)      599..604, 609..614  (ATGCCC..GGGCAT)
 526..532, 538..544  (CCTCCCG..CGGGAGG)
 462..467, 471..476  (GTTCGC..GCGAAC)
 52..58, 62..68  (CATTATC..GATAATG)
 40..45, 54..59  (TGATAA..TTATCA)
Location of nic site      322..323
Conserved sequence flanking the
  nic site    		  TCCTGCATCG
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 616 nt

>oriT_pHS19-2-tetX4
TCTTACTTCTTTGCGTAGCTGTTAAATACAGCGTTGTTTTGATAAAATCATCATTATCATCGATAATGCTTTCTTCAATTTTTTTATCCTTACTCTTTAATAAAGCACTTGCTAATAACTTCATACCTTTTGCAACTGTCAAATTTGGTTCATCAGGGTAAATGCTTTTAAGGCATACTAACAAATAATCATGGTCTTCATCTTCAACTCTAAACTGAATTTTTTTCATCATAACTCCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGCTGAAAAATAACGTCGAATGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   2311 GenBank   WP_025755766
Name   t4cp2_KSF45_RS00005_pHS19-2-tetX4 insolico UniProt ID   _
Length   611 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 611 a.a.        Molecular weight: 69235.06 Da        Isoelectric Point: 8.0208

>WP_025755766.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MSLKLPDKGQWAFIILVMCLIAYYTGSVAIYFFNHKTTLYIWKHYDSLLLWRVIIDSSIKSEVRFTALPS
LLSGALASLAAPAFIIWKLNQKDAPLFGDAKFASDSDLKKSKLLKWEKENDTDILVGRYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKITSKVREQILGNKVYLLDPFNTKTHKCNPLF
YVDLKSESGAKDLLKLVEILFPSFGLTGAEAHFNNLAGQYWTGLAKLLHFFINFAPEWIEELRVKPVFSI
GTVVDLYSNIDREQVLSNRETFEELAQGNETALFHLKDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFL
DEFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLLSAHPCRVIYAVSEEDDAKKIS
EKLGYITARSKGSSKTSGKATSRSNSENEAQRALVLPQELGTLDFSEEMIILKGEHPVKAEKALYYLDNY
FMERLMLVSPKLTALTASINRSNKIFGVKGIKYPSKEKMLSVGELESEVLL

  Protein domains


Predicted by InterproScan.

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

(102-581)

  Protein structure



No available structure.



ID   2312 GenBank   WP_000108725
Name   t4cp2_KSF45_RS00045_pHS19-2-tetX4 insolico UniProt ID   _
Length   919 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 919 a.a.        Molecular weight: 104758.78 Da        Isoelectric Point: 6.1962

>WP_000108725.1 MULTISPECIES: VirB3 family type IV secretion system protein [Enterobacteriaceae]
MSTVFKGLTRPALIRGLGVPLYPFLAMCVLVVLLGVWIDDLMYFLILPGWFAIKRVTKIDERFFDLLYLR
AVVKGHPLANKRFSAVHYAGSQYDEVDISKVDNFMKLKDQASIEALIPYSSHITDDLVVTKNRDLLATWQ
VDGAYFECVDDEDLTLLTDQLNTLIRSFEGRAITFYTHRVRVRKEVKVGFNSKIPFVNRVMNDYYSSLSE
PEYFENRLYLTICYKPFNIEDKVSHFISKNKKENNIFDEPINDMNEICGRLDTYLSRFHAHRLGLVEENG
RVFSDQLSLFQYLLSGKWQKVRVTNSPFYTYLGGKDLFFGNDAGQITASQNARYFRSIEIKDYFQETDAG
IFDALMYLPVEYVFTSSFTSMDKQAAVKALDDQIDKLELTDDAAKSLLADLRVGLDMVSSGYNSFGKCHQ
TLIVFADTPERLVKDTNIVTTTLEDLGLIVTYSTLSLGAAFFSQLPGNYNLRPRLSMLSSLNFAEMESFH
NFFHGKATGNTWGNSLMALRGSGNDVYHLNYHMTTENINFFGKNPTLGHCEILGTSNVGKTVLMMIMSYA
AQQFGTPESFPENRKVRKLTTVFFDKDRAGEVGIRAMGGAYFRVKGGEPTGWNPAALPPTKRNIAFVKDI
IRLICKLNGNTVDDYQHSLISSAVDRLMQREDRSFPISKLIPLIMEPDDTETKRHGLKARLRAWKQGGEY
GWLLDNASDSFDVAHLDVFGIDGTEFLDDKVVAPVASFYLIYRVTMLADGRRLLIYMDEFWQWINNDAFK
DFVYNKLKTGRKLDMVLVPATQSPDELIKSPIAAAVREQCATHIYLANPKAKRNEYVDELQVRDLYFDKI
KAIDPLSRQFLVVKNPQRQGERDDFAAFAKLDLGKAAYYLPILSASAEQLELFDEIWSEGMAPEEWIDTY
LERANRGVK

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(689-817)

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

(272-474)

Type IV secretory pathway, VirB3-like protein (VirB3)

(2-83)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 268..10158

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KSF45_RS00010 (ECPFEKFL_00001) 268..1305 - 1038 WP_000217791 P-type DNA transfer ATPase VirB11 virB11
KSF45_RS00015 (ECPFEKFL_00002) 1323..2537 - 1215 WP_025755765 VirB10/TraB/TrbI family type IV secretion system protein virB10
KSF45_RS00020 (ECPFEKFL_00003) 2534..3463 - 930 WP_025755764 TrbG/VirB9 family P-type conjugative transfer protein virB9
KSF45_RS00025 (ECPFEKFL_00004) 3469..4191 - 723 WP_000394570 type IV secretion system protein virB8
KSF45_RS00030 (ECPFEKFL_00005) 4381..5436 - 1056 WP_000235774 type IV secretion system protein virB6
KSF45_RS00035 (ECPFEKFL_00006) 5448..5708 - 261 WP_001228869 EexN family lipoprotein -
KSF45_RS00040 (ECPFEKFL_00007) 5718..6455 - 738 WP_196611937 type IV secretion system protein -
KSF45_RS00045 (ECPFEKFL_00008) 6457..9216 - 2760 WP_000108725 VirB3 family type IV secretion system protein virb4
KSF45_RS00050 (ECPFEKFL_00009) 9240..9530 - 291 WP_000921916 TrbC/VirB2 family protein virB2
KSF45_RS00055 (ECPFEKFL_00010) 9514..10158 - 645 WP_000953539 lytic transglycosylase domain-containing protein virB1
KSF45_RS00060 (ECPFEKFL_00012) 10383..10874 - 492 WP_000872475 transcription termination/antitermination NusG family protein -
KSF45_RS00065 (ECPFEKFL_00013) 11235..12392 - 1158 WP_000538023 DNA distortion polypeptide 2 -
KSF45_RS00070 (ECPFEKFL_00014) 12395..12940 - 546 WP_038976855 DNA distortion polypeptide 1 -
KSF45_RS00075 (ECPFEKFL_00016) 13267..13539 - 273 WP_000160399 hypothetical protein -
KSF45_RS00080 (ECPFEKFL_00017) 13552..13749 - 198 WP_001675595 hypothetical protein -
KSF45_RS00085 (ECPFEKFL_00018) 13988..14317 - 330 WP_000866648 hypothetical protein -
KSF45_RS00090 (ECPFEKFL_00019) 14410..14625 - 216 WP_001180116 hypothetical protein -
KSF45_RS00095 (ECPFEKFL_00020) 14615..14860 - 246 WP_000356546 hypothetical protein -

Host bacterium

ID   3837 GenBank   NZ_MW940619
Plasmid name   pHS19-2-tetX4 Incompatibility group   IncX1
Plasmid size   57105 bp Coordinate of oriT [Strand]   12712..13327 [+]
Host baterium   Klebsiella sp. strain HS19-2

Cargo genes

Drug resistance gene   aadA2, lnu(F), tet(X4), floR, tet(A), blaSHV-12
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -