Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103495
Name   oriT_AGR_Diarr|unnamed1 in_silico
Organism   Serratia entomophila strain AGR_Diarr
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MT039160 (22259..22341 [+], 83 nt)
oriT length   83 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 83 nt

>oriT_AGR_Diarr|unnamed1
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2617 GenBank   WP_010895859
Name   Relaxase_MOP32_RS00135_AGR_Diarr|unnamed1 insolico UniProt ID   A7M7H3
Length   651 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 651 a.a.        Molecular weight: 73395.58 Da        Isoelectric Point: 7.4747

>WP_010895859.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Serratia]
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDSPLEPEHPGWRRPRSKDAIFNHLVDYISRNGDADLQQI
MHADPNGHTQVMFDGVMCETNCFNIATASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFA
VNEQGEIVRSKREKNLTPSGAKTLEYYADVESLHTYAVTECGFKIDEAMADPNLAWKDIHCILVNAGLAL
KPKGKGLAIYSIDNPELPPVKASSVHPDLTLNCLEKDLGQFQLLENAGTYTKEHTTTAADAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKNAWKRPKLDAGAVKRRYQNESKRFAWQKARARVAIGDP
LLRKLTYHIIEVERMKAMAALRLTVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPLSTNSIVCAVADDTPAFALEGYATRVTRDGTVQYVRDGRVQLQDKGERIDVGDHRVNEGEHIA
GGMALAENKSGEHLKFEGEAAFVQQACSMVPWFNEGGDAPLPLSDPQQRTMAGYESTYQSASTGEGQRKP
SAVEQPEVEQNKPRSGHRPQQ

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(518-589)

Relaxase/Mobilisation nuclease domain (Relaxase)

(55-320)


  Protein structure


Source ID Structure
AlphaFold DB A7M7H3


T4CP

ID   2421 GenBank   WP_234591458
Name   trbC_MOP32_RS00150_AGR_Diarr|unnamed1 insolico UniProt ID   _
Length   725 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 725 a.a.        Molecular weight: 81497.36 Da        Isoelectric Point: 8.5425

>WP_234591458.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Serratia]
MSRPVEVDPRRVRRPLGYTFINDALLSPMGVQLSLLAGLIAGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELISKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFELARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSALPMRINRFIDVETPTEAELFALNPSLKRKLPPTAQEVDG
ILQRLDLAVDTTASVGIMDPVLKRVAAVALDLDNRADVSYSPAQRGVLLFEAAREALHKNKRKWRQLPTP
PKPIRVSKEVAQSLANAGTNEITFR

  Protein domains



No domain identified.


  Protein structure



No available structure.



ID   2422 GenBank   WP_010895767
Name   t4cp2_MOP32_RS00345_AGR_Diarr|unnamed1 insolico UniProt ID   _
Length   577 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 577 a.a.        Molecular weight: 64155.03 Da        Isoelectric Point: 5.2094

>WP_010895767.1 MULTISPECIES: ATP-binding protein [Serratia]
MPIFNFRDEDALGKVASVDTTNVIVDVENVEQLKRLQVNHLAVLQSSRPGQHLIGLITQVTRKRGIEDIA
NDGISEQTSELNLCKIALIGTMLDRDGERENVFRRTLESVPEIDANCFSLEGQNLTNFMRTLSSVSADGN
ALTLGKYTLDEHAIAYLNGNKFFQRHAFIGGSTGSGKSWTTAKIIEQMAGLSTANAIVFDLHGEYSPLVG
KGIQHFKVAGPADVEAQRTIDNGVLYLPYWLLSYEALVAMFVDRSDQNAPNQAMIMSREINQAKRKYLED
GDHKEILKHFTVDSPVPFDLDVLMGRLNEINVEMVPGASQGKEKQGDFFGKLARMISRLENKISDRRLGF
IFSGGGDVLNFSWLEKFTTAVLGSSEENGNAGIKIINFSEVPSDVLPLIVSLVARVTFSVQQWTPSELRH
PIALLCDEAHLYMPQRNMAESADDISLDIFERIAKEGRKYGVSLIVISQRPSEVNKTMLSQCSNFVSMRL
TNAEDQGVIKRLLPDSLGGFSDILPTLDTGEALVVGDASLLPSRIRIDEPINKPNSGTVNFWDEWQKPVK
DKRLLIAVENWRKQNIQ

  Protein domains


Predicted by InterproScan.

Helicase HerA, central domain (DUF87)

(144-405)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 27934..56225

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MOP32_RS00140 (Diarrp_00048) 24709..25032 - 324 WP_010895860 hypothetical protein -
MOP32_RS00145 (Diarrp_00049) 25042..25578 - 537 WP_234591459 phospholipase D family protein -
MOP32_RS00150 (Diarrp_00050) 25719..27896 - 2178 WP_234591458 F-type conjugative transfer protein TrbC -
MOP32_RS00155 (Diarrp_00051) 27934..28932 - 999 WP_010895863 hypothetical protein trbB
MOP32_RS00160 (Diarrp_00052) 28945..30255 - 1311 WP_010895864 hypothetical protein trbA
MOP32_RS00165 (Diarrp_00054) 30393..30887 - 495 WP_241390339 hypothetical protein -
MOP32_RS00170 (Diarrp_00055) 30971..33265 - 2295 WP_234591456 DotA/TraY family protein traY
MOP32_RS00175 (Diarrp_00056) 33180..33743 - 564 WP_010895867 conjugal transfer protein TraX -
MOP32_RS00180 (Diarrp_00057) 33736..34962 - 1227 WP_010895868 conjugal transfer protein TraW traW
MOP32_RS00185 (Diarrp_00059) 35103..38177 - 3075 WP_010895869 TraU traU
MOP32_RS00190 (Diarrp_00060) 38180..38785 - 606 WP_010895870 TraT traT
MOP32_RS00195 (Diarrp_00061) 38871..39272 - 402 WP_010895871 DUF6750 family protein traR
MOP32_RS00200 (Diarrp_00062) 39288..39818 - 531 WP_010895872 conjugal transfer protein TraQ traQ
MOP32_RS00205 (Diarrp_00063) 39827..40570 - 744 WP_010895873 hypothetical protein traP
MOP32_RS00210 (Diarrp_00064) 40570..41802 - 1233 WP_010895874 conjugal transfer protein TraO traO
MOP32_RS00215 (Diarrp_00065) 41807..42814 - 1008 WP_010895741 DotH/IcmK family type IV secretion protein traN
MOP32_RS00220 (Diarrp_00066) 42817..43491 - 675 WP_010895742 DotI/IcmL/TraM family protein traM
MOP32_RS00225 (Diarrp_00067) 43582..44073 - 492 WP_010895743 hypothetical protein traL
MOP32_RS00230 (Diarrp_00068) 44083..47319 - 3237 WP_010895744 LPD7 domain-containing protein -
MOP32_RS00235 (Diarrp_00070) 47462..47728 - 267 WP_010895745 IcmT/TraK family protein traK
MOP32_RS00240 (Diarrp_00071) 47728..48885 - 1158 WP_010895746 plasmid transfer ATPase TraJ virB11
MOP32_RS00245 (Diarrp_00073) 49075..49863 - 789 WP_010895747 type IV secretory system conjugative DNA transfer family protein traI
MOP32_RS00250 (Diarrp_00074) 49860..50318 - 459 WP_010895748 DotD/TraH family lipoprotein -
MOP32_RS00255 (Diarrp_00075) 50356..51789 - 1434 WP_010895749 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
MOP32_RS00260 (Diarrp_00076) 51786..52448 - 663 WP_169558203 prepilin peptidase -
MOP32_RS00265 (Diarrp_00077) 52454..52939 - 486 WP_010895751 lytic transglycosylase domain-containing protein virB1
MOP32_RS00270 (Diarrp_00078) 52994..53587 - 594 WP_010895752 type 4 pilus major pilin -
MOP32_RS00275 (Diarrp_00079) 53623..54735 - 1113 WP_241389818 type II secretion system F family protein -
MOP32_RS00280 (Diarrp_00080) 54735..56225 - 1491 WP_010895754 ATPase, T2SS/T4P/T4SS family virB11
MOP32_RS00285 (Diarrp_00081) 56231..56815 - 585 WP_010895755 type IV pilus biogenesis protein PilP -
MOP32_RS00290 (Diarrp_00082) 56802..58112 - 1311 WP_010895756 type 4b pilus protein PilO2 -
MOP32_RS00295 (Diarrp_00083) 58116..59750 - 1635 WP_010895757 PilN family type IVB pilus formation outer membrane protein -
MOP32_RS00300 (Diarrp_00084) 59775..60200 - 426 WP_010895758 type IV pilus biogenesis protein PilM -
MOP32_RS00305 (Diarrp_00085) 60200..61213 - 1014 WP_010895759 toxin co-regulated pilus biosynthesis Q family protein -

Host bacterium

ID   3938 GenBank   NZ_MT039160
Plasmid name   AGR_Diarr|unnamed1 Incompatibility group   -
Plasmid size   153315 bp Coordinate of oriT [Strand]   22259..22341 [+]
Host baterium   Serratia entomophila strain AGR_Diarr

Cargo genes

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