Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103517
Name   oriT_pCRKP-27_Res in_silico
Organism   Klebsiella pneumoniae strain CRKP-27
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP102633 (46587..46675 [+], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pCRKP-27_Res
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTTTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2633 GenBank   WP_001405892
Name   nikB_NVS94_RS02260_pCRKP-27_Res insolico UniProt ID   A0A3V4WX06
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103883.32 Da        Isoelectric Point: 7.3373

>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A3V4WX06


Auxiliary protein

ID   1115 GenBank   WP_001283947
Name   WP_001283947_pCRKP-27_Res insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   2442 GenBank   WP_001289276
Name   trbC_NVS94_RS02255_pCRKP-27_Res insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1..41209

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVS94_RS02055 (NVS94_02055) 1..1554 + 1554 WP_001579763 ATPase, T2SS/T4P/T4SS family virB11
NVS94_RS02060 (NVS94_02060) 1567..2664 + 1098 WP_001208805 type II secretion system F family protein -
NVS94_RS02065 (NVS94_02065) 2682..3296 + 615 WP_094819134 type 4 pilus major pilin -
NVS94_RS02070 (NVS94_02070) 3306..3866 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
NVS94_RS02075 (NVS94_02075) 3851..4507 + 657 WP_001193553 prepilin peptidase -
NVS94_RS02080 (NVS94_02080) 4507..5931 + 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NVS94_RS02675 5928..6149 - 222 Protein_6 prepilin -
NVS94_RS02680 8353..8574 + 222 Protein_7 prepilin -
NVS94_RS02085 (NVS94_02085) 8571..8993 - 423 WP_162847923 prepilin, shufflon protein A -
NVS94_RS02090 (NVS94_02090) 8977..10131 + 1155 WP_001139958 site-specific integrase -
NVS94_RS02095 (NVS94_02095) 10282..11106 + 825 WP_001238929 conjugal transfer protein TraE traE
NVS94_RS02100 (NVS94_02100) 11192..12394 + 1203 WP_000976353 conjugal transfer protein TraF -
NVS94_RS02105 (NVS94_02105) 12454..13038 + 585 WP_001579766 histidine phosphatase family protein -
NVS94_RS02110 (NVS94_02110) 13433..13891 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NVS94_RS02115 (NVS94_02115) 13888..14706 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NVS94_RS02120 (NVS94_02120) 14703..15851 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NVS94_RS02125 (NVS94_02125) 15848..16138 + 291 WP_001372180 hypothetical protein traK
NVS94_RS02130 (NVS94_02130) 16153..16704 + 552 WP_000014584 phospholipase D family protein -
NVS94_RS02135 (NVS94_02135) 16794..20561 + 3768 WP_001579768 LPD7 domain-containing protein -
NVS94_RS02140 (NVS94_02140) 20579..20926 + 348 WP_001055900 conjugal transfer protein traL
NVS94_RS02145 (NVS94_02145) 20923..21615 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NVS94_RS02150 (NVS94_02150) 21626..22609 + 984 WP_001579769 IncI1-type conjugal transfer protein TraN traN
NVS94_RS02155 (NVS94_02155) 22612..23901 + 1290 WP_001271997 conjugal transfer protein TraO traO
NVS94_RS02160 (NVS94_02160) 23901..24605 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NVS94_RS02165 (NVS94_02165) 24605..25132 + 528 WP_001055569 conjugal transfer protein TraQ traQ
NVS94_RS02170 (NVS94_02170) 25183..25587 + 405 WP_001579770 DUF6750 family protein traR
NVS94_RS02175 (NVS94_02175) 25651..25839 + 189 WP_001277255 putative conjugal transfer protein TraS -
NVS94_RS02180 (NVS94_02180) 25823..26623 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NVS94_RS02185 (NVS94_02185) 26713..29757 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
NVS94_RS02190 (NVS94_02190) 29757..30371 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
NVS94_RS02195 (NVS94_02195) 30338..31540 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
NVS94_RS02200 (NVS94_02200) 31569..32153 + 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
NVS94_RS02205 (NVS94_02205) 32250..34418 + 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
NVS94_RS02210 (NVS94_02210) 34494..35108 + 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
NVS94_RS02215 (NVS94_02215) 35206..35415 + 210 WP_001140545 hemolysin expression modulator Hha -
NVS94_RS02220 (NVS94_02220) 35624..35800 + 177 WP_001054900 hypothetical protein -
NVS94_RS02225 (NVS94_02225) 36517..36681 - 165 WP_001323923 hypothetical protein -
NVS94_RS02230 (NVS94_02230) 36724..36975 + 252 WP_001291968 hypothetical protein -
NVS94_RS02235 (NVS94_02235) 37047..37199 - 153 WP_001303307 Hok/Gef family protein -
NVS94_RS02240 (NVS94_02240) 37826..38605 + 780 WP_275450201 protein FinQ -
NVS94_RS02245 (NVS94_02245) 38912..40120 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NVS94_RS02250 (NVS94_02250) 40139..41209 + 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
NVS94_RS02255 (NVS94_02255) 41202..43493 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   3960 GenBank   NZ_CP102633
Plasmid name   pCRKP-27_Res Incompatibility group   IncI1
Plasmid size   105599 bp Coordinate of oriT [Strand]   46587..46675 [+]
Host baterium   Klebsiella pneumoniae strain CRKP-27

Cargo genes

Drug resistance gene   blaCTX-M-14b, sul1, qacE
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2