Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104132
Name   oriT_2022CK-00700|unnamed2 in_silico
Organism   Enterobacter hormaechei strain 2022CK-00700
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117752 (96628..96709 [-], 82 nt)
oriT length   82 nt
IRs (inverted repeats)      27..32, 35..40  (GCCACC..GGTGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 82 nt

>oriT_2022CK-00700|unnamed2
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3037 GenBank   WP_015632446
Name   Relaxase_PTC84_RS25640_2022CK-00700|unnamed2 insolico UniProt ID   R4WBX2
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74631.63 Da        Isoelectric Point: 9.3060

>WP_015632446.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacteriaceae]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDQRFRRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVTCQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNLVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNTMFREKNASWEKLHQVMNDAGLML
EPSGKGLVVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSSRSAEMVKQSVQTPYSDRLHVRDRGA
RAERRQARAEARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIELKAERRKLYDEGRMRPLTYRAWTEQQALHGDQAALSQLRGWAYRQNRKNRTPQASDSI
IFCAPADDTSLIKADGYDARLYRDGAVVYSRHGQDAIIDRGDRVEVINPYDNGDLNTRIAVDMVAWKSGE
RIEFSRDGSFAYAAGDAVAAHNLHHRDSILVPSNREQYDYTREKFNQLKGRYTDREREAVRQQYDNRYYD
DVRHNDDNSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB R4WBX2


T4CP

ID   2927 GenBank   WP_015632442
Name   trbC_PTC84_RS25605_2022CK-00700|unnamed2 insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 82688.74 Da        Isoelectric Point: 5.8919

>WP_015632442.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MQQKQKPVDAARLQRQVHQGMVEEMAYRTGPLLLAIIVIFGAAIVWPVLLWVAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLSRHMDNAAGVFYTGYERMLDGGREIWLRMDDLTRHLI
LLATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFIWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTITDPTETAEFAAKSAGMEYQAIQDSMEYRPGAISGSYADTGRVTVQEKSKLPFDELQTLN
QGEQATIFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLAHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPDAVQRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDEFEKYQHIHQSAVTQQADGFVY

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(442-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 66926..88767

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PTC84_RS25465 (PTC84_25465) 62479..62865 - 387 WP_015632417 acyl-CoA thioesterase -
PTC84_RS25470 (PTC84_25470) 62865..63335 - 471 WP_032441927 hypothetical protein -
PTC84_RS25475 (PTC84_25475) 63317..63895 - 579 WP_015632419 hypothetical protein -
PTC84_RS25480 (PTC84_25480) 64163..64696 + 534 WP_015632420 transcription termination/antitermination NusG family protein -
PTC84_RS25485 (PTC84_25485) 64714..64917 + 204 WP_032495743 hypothetical protein -
PTC84_RS25490 (PTC84_25490) 64951..65262 + 312 WP_015632421 hypothetical protein -
PTC84_RS25495 (PTC84_25495) 65342..65947 + 606 WP_015632422 hypothetical protein -
PTC84_RS25500 (PTC84_25500) 65960..66439 + 480 WP_015632423 lytic transglycosylase domain-containing protein -
PTC84_RS25505 (PTC84_25505) 66462..66929 + 468 WP_015632424 DotD/TraH family lipoprotein -
PTC84_RS25510 (PTC84_25510) 66926..67744 + 819 WP_015632425 type IV secretory system conjugative DNA transfer family protein traI
PTC84_RS25515 (PTC84_25515) 67722..68909 + 1188 WP_032495744 plasmid transfer ATPase TraJ virB11
PTC84_RS25520 (PTC84_25520) 68906..69172 + 267 WP_032441926 IcmT/TraK family protein traK
PTC84_RS25525 (PTC84_25525) 69190..72513 + 3324 WP_032495745 LPD7 domain-containing protein -
PTC84_RS25530 (PTC84_25530) 72547..72900 + 354 WP_015632427 hypothetical protein traL
PTC84_RS25535 (PTC84_25535) 72936..73640 + 705 WP_015632428 DotI/IcmL/TraM family protein traM
PTC84_RS25540 (PTC84_25540) 73651..74754 + 1104 WP_015632429 DotH/IcmK family type IV secretion protein traN
PTC84_RS25545 (PTC84_25545) 74758..76098 + 1341 WP_015632430 conjugal transfer protein TraO traO
PTC84_RS25550 (PTC84_25550) 76104..76823 + 720 WP_015632431 conjugal transfer protein TraP traP
PTC84_RS25555 (PTC84_25555) 76833..77366 + 534 WP_015632432 conjugal transfer protein TraQ traQ
PTC84_RS25560 (PTC84_25560) 77420..77821 + 402 WP_015632433 DUF6750 family protein traR
PTC84_RS25565 (PTC84_25565) 77865..78428 + 564 WP_032495746 hypothetical protein traT
PTC84_RS25570 (PTC84_25570) 78438..81485 + 3048 WP_015632435 conjugal transfer protein traU
PTC84_RS25575 (PTC84_25575) 81496..82692 + 1197 WP_015632436 conjugal transfer protein TraW traW
PTC84_RS25580 (PTC84_25580) 82689..83270 + 582 WP_015632437 conjugal transfer protein TraX -
PTC84_RS25585 (PTC84_25585) 83312..85456 + 2145 WP_015632438 DotA/TraY family protein traY
PTC84_RS25590 (PTC84_25590) 85522..86145 + 624 WP_015632439 plasmid IncI1-type surface exclusion protein ExcA -
PTC84_RS25595 (PTC84_25595) 86247..87665 + 1419 WP_015632440 hypothetical protein trbA
PTC84_RS25600 (PTC84_25600) 87676..88767 + 1092 WP_050484136 thioredoxin fold domain-containing protein trbB
PTC84_RS25605 (PTC84_25605) 88769..90961 + 2193 WP_015632442 F-type conjugative transfer protein TrbC -
PTC84_RS25610 (PTC84_25610) 91007..91312 + 306 WP_015632443 phospholipase D-like domain-containing protein -
PTC84_RS25615 (PTC84_25615) 91335..92924 - 1590 WP_015632444 IS66 family transposase -
PTC84_RS25620 (PTC84_25620) 92954..93303 - 350 Protein_92 IS66 family insertion sequence element accessory protein TnpB -
PTC84_RS25625 (PTC84_25625) 93300..93707 - 408 WP_015632445 transposase -

Host bacterium

ID   4571 GenBank   NZ_CP117752
Plasmid name   2022CK-00700|unnamed2 Incompatibility group   IncFII
Plasmid size   113105 bp Coordinate of oriT [Strand]   96628..96709 [-]
Host baterium   Enterobacter hormaechei strain 2022CK-00700

Cargo genes

Drug resistance gene   blaNDM-1
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -