Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103104
Name   oriT_2964TF in_silico
Organism   Klebsiella pneumoniae strain Kp2964
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT935446 (169263..169367 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      56..61, 74..79  (TGGAAT..ATTCCA)
 46..51, 56..61  (ATTCCA..TGGAAT)
 1..6, 8..13  (AATTTG..CAAATT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT_2964TF
AATTTGACAAATTCCAAGGATGGGTTAGCCTAGAGACAGAACTAGATTCCATTAGTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   2051 GenBank   WP_001163195
Name   t4cp2_HTH97_RS00390_2964TF insolico UniProt ID   _
Length   665 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 665 a.a.        Molecular weight: 72936.22 Da        Isoelectric Point: 6.4260

>WP_001163195.1 MULTISPECIES: IncP-type conjugal transfer protein TraG [Pseudomonadota]
MQGTNVLFGQIAVVIGIVIAGVWGATQWTAATLGYQVRLGSPWFDLLGVPVYHPWRLFEWWFFFDAYAPH
VFDTGGAIAGGSGLFALLVAIAMSVWRSRQSRLVTTYGSARWADAVDIRKAGLTLPAGVFLGQHDDQYLR
HEGPEHVLSFAPTRSGKGVGLVVPTLLSWPASAVIHDIKGENWKITAGWRSRFSHCLLFNPTDRQSAAYN
PLLEVRRGAHEVRDVQNIADILVDPEGALEKRNHWEKTSHALLVGAILHVLYAGEDKTLRGVANFLSDPA
CPFELTLHRMMTTKHLGDAPHPVVASAAREVLNKSDNERSGVLSTAMSFLGLYRDPTVAEVTSRCDWRIA
DLISAEHPVSLYLVVPPSDISRTKPLIRLILNQIGRRLTESLDGSDGIARRHKLLLMLDEFPALGRLDFF
ESALAFMAGYGIRSFLIAQSLNQIDKAYGQNHSILDNCHVRVTFATNDERTAKRISETLGTATELRAQRN
YAGHRLAPWLGHLMVSRQETARPLLTPGEVMQLPPEDAVVMVSSVAPIRAKKLRYYVDANFKDRVLPPPV
LAVGRYADAPPARPDDWSGLAIPAVPTAPTSVSADGPGGTDDGGPRRQLELSETVAYEPELDACANDLEL
LDDDDLALPLPGQLDPAMQRTARLASLDPNDGIDL

  Protein domains


Predicted by InterproScan.

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

(128-558)

  Protein structure



No available structure.



ID   2052 GenBank   WP_000933135
Name   trbE_HTH97_RS00415_2964TF insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 89955.24 Da        Isoelectric Point: 5.6520

>WP_000933135.1 MULTISPECIES: conjugal transfer protein TrbE [Pseudomonadota]
MLNLAEYRQRPALLADWLPWAGLVAPGVVLNKDGSFQRTFQFRGPDLDSATQGELIATSARQNNALRRTG
SGWAFYIEAERMRASSYPQSSFPEPLSWLVDEERRAAFEESDGHFESVYHFTLQHLPPQESRARAAGMLY
ENRPTEGVDWRGRLDSFVAETDRVFDLLDGVMPEIAWLDDSQTLTYLHATVSTRRYRVGVPDVPFHIDAL
LADAALVGGLAPMLGDQHLRVVSVRGFPTSTWPGILDDLNRLGFAYRWSTRFLCLDKAEAERELGRLRRQ
WFAKRKNVIALLRETIFQQESPLVDTDASNKAADADAALQELGSDQVAFGYLTATVTVLDADPAVADEKL
RMVERVIQGRGFVTIPETLNAVDAWLSSVPGNAYANVRQPIVSTLNLAHMMPMSAVWAGPEKNEHLDGPP
LIVTRTDGATPFRLVTHIGDVGHTLVAGPTGMGKSVLLAILAMQFRRYFGSRIFAFDMGRSMRATILGLG
GEHYDLGADGGIAFQPLARIAHEGYRTWAAEWVEGRLLHEGVTVGPDEKAAIWSALRSLAGAPVEQRTMT
GLSVLLQSNALRQALAPYVLGGAHGKLLDADHDRLGMADVQGFEMEELMHSPAAVQAVLRYLFARFDERF
DGAPTLLILDEAWLFLDEPSFAARIRQWLKTLRKKNVSVIFATQSLADIKDSTIAPAIIESCASRIFLPN
PQATEPQIRTIYEGFGLNSRQIEIVATAQPKRDYYYQSRLGNRLFDLDLGPVALAFAGASTPQDQRDIDR
VLTQAGAPGFAGAWLRHRGLGWAADLLPSAPAAASFLASQPLEVSP

  Protein domains


Predicted by InterproScan.

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

(181-388)

TraG P-loop domain (P-loop_TraG)

(571-726)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 61292..70912

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH97_RS00370 56521..56700 - 180 Protein_75 integrase core domain-containing protein -
HTH97_RS00375 56802..57332 - 531 WP_000043569 hypothetical protein -
HTH97_RS00380 57614..58519 - 906 WP_023093368 LysR family transcriptional regulator -
HTH97_RS00390 58825..60822 + 1998 WP_001163195 IncP-type conjugal transfer protein TraG -
HTH97_RS00395 60819..61295 + 477 WP_000085131 ribbon-helix-helix protein, CopG family -
HTH97_RS00400 61292..62362 + 1071 WP_023093367 P-type conjugative transfer ATPase TrbB virB11
HTH97_RS00405 62359..62745 + 387 WP_000150010 TrbC/VirB2 family protein virB2
HTH97_RS00410 62742..63011 + 270 WP_003092280 VirB3 family type IV secretion system protein virB3
HTH97_RS00415 63024..65474 + 2451 WP_000933135 conjugal transfer protein TrbE virb4
HTH97_RS00420 65471..66214 + 744 WP_003092277 P-type conjugative transfer protein TrbJ virB5
HTH97_RS00425 66227..66553 + 327 WP_014603538 hypothetical protein -
HTH97_RS00430 66550..67917 + 1368 WP_023093366 P-type conjugative transfer protein TrbL virB6
HTH97_RS00435 67936..68640 + 705 WP_001211312 conjugal transfer protein TrbF virB8
HTH97_RS00440 68637..69629 + 993 WP_000776560 P-type conjugative transfer protein TrbG virB9
HTH97_RS00445 69632..70912 + 1281 WP_003092274 TrbI/VirB10 family protein virB10
HTH97_RS00450 70909..71154 + 246 WP_000108283 DUF2274 domain-containing protein -
HTH97_RS01030 71408..71532 + 125 Protein_91 hypothetical protein -
HTH97_RS00455 71542..72042 + 501 WP_086581467 hypothetical protein -
HTH97_RS00460 72046..73473 + 1428 WP_168993206 DNA cytosine methyltransferase -
HTH97_RS00465 73473..74129 + 657 WP_086581469 hypothetical protein -
HTH97_RS00470 74335..74553 + 219 WP_000362482 hypothetical protein -
HTH97_RS00475 74743..75045 + 303 WP_172688239 hypothetical protein -
HTH97_RS00480 75106..75456 + 351 WP_172688240 hypothetical protein -

Host bacterium

ID   3547 GenBank   NZ_KT935446
Plasmid name   2964TF Incompatibility group   IncA/C2
Plasmid size   170244 bp Coordinate of oriT [Strand]   169263..169367 [+]
Host baterium   Klebsiella pneumoniae strain Kp2964

Cargo genes

Drug resistance gene   catA1, rmtD2, sul1, qacE, ant(3'')-Ia, aac(6')-Ib, blaCTX-M-8
Virulence gene   vipA/tssB, vipB/tssC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -