Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121018
Name   oriT_pLAU_ENM30_NDM1 in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain ST114
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN792917 (58287..58368 [+], 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_pLAU_ENM30_NDM1
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13264 GenBank   WP_015632446
Name   traI_H5G73_RS00350_pLAU_ENM30_NDM1 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   15546 GenBank   WP_015632442
Name   trbC_H5G73_RS00385_pLAU_ENM30_NDM1 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: 66229..88070

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H5G73_RS00365 (pLAU_ENM30_NDM1_00077) 61289..61696 + 408 WP_015632445 transposase -
H5G73_RS00370 (pLAU_ENM30_NDM1_00078) 61693..62042 + 350 Protein_75 IS66 family insertion sequence element accessory protein TnpB -
H5G73_RS00375 (pLAU_ENM30_NDM1_00079) 62072..63661 + 1590 WP_015632444 IS66 family transposase -
H5G73_RS00380 (pLAU_ENM30_NDM1_00080) 63684..63989 - 306 WP_015632443 phospholipase D-like domain-containing protein -
H5G73_RS00385 (pLAU_ENM30_NDM1_00081) 64035..66227 - 2193 WP_015632442 F-type conjugative transfer protein TrbC -
H5G73_RS00390 (pLAU_ENM30_NDM1_00082) 66229..67383 - 1155 WP_015632441 thioredoxin fold domain-containing protein trbB
H5G73_RS00395 (pLAU_ENM30_NDM1_00083) 67331..68749 - 1419 WP_015632440 hypothetical protein trbA
H5G73_RS00400 (pLAU_ENM30_NDM1_00084) 68851..69474 - 624 WP_015632439 plasmid IncI1-type surface exclusion protein ExcA -
H5G73_RS00405 (pLAU_ENM30_NDM1_00085) 69540..71684 - 2145 WP_015632438 DotA/TraY family protein traY
H5G73_RS00410 (pLAU_ENM30_NDM1_00086) 71726..72307 - 582 WP_015632437 conjugal transfer protein TraX -
H5G73_RS00415 (pLAU_ENM30_NDM1_00087) 72304..73464 - 1161 WP_032495747 conjugal transfer protein TraW traW
H5G73_RS00420 (pLAU_ENM30_NDM1_00088) 73511..76558 - 3048 WP_015632435 conjugal transfer protein traU
H5G73_RS00425 (pLAU_ENM30_NDM1_00089) 76568..77131 - 564 WP_032495746 hypothetical protein traT
H5G73_RS00430 (pLAU_ENM30_NDM1_00090) 77175..77576 - 402 WP_015632433 DUF6750 family protein traR
H5G73_RS00435 (pLAU_ENM30_NDM1_00091) 77630..78163 - 534 WP_015632432 conjugal transfer protein TraQ traQ
H5G73_RS00440 (pLAU_ENM30_NDM1_00092) 78173..78892 - 720 WP_015632431 conjugal transfer protein TraP traP
H5G73_RS00445 (pLAU_ENM30_NDM1_00093) 78898..80238 - 1341 WP_015632430 conjugal transfer protein TraO traO
H5G73_RS00450 (pLAU_ENM30_NDM1_00094) 80242..81345 - 1104 WP_015632429 DotH/IcmK family type IV secretion protein traN
H5G73_RS00455 (pLAU_ENM30_NDM1_00095) 81356..82060 - 705 WP_015632428 DotI/IcmL/TraM family protein traM
H5G73_RS00460 (pLAU_ENM30_NDM1_00096) 82096..82449 - 354 WP_015632427 hypothetical protein traL
H5G73_RS00465 (pLAU_ENM30_NDM1_00097) 82483..85806 - 3324 WP_032495745 LPD7 domain-containing protein -
H5G73_RS00470 (pLAU_ENM30_NDM1_00098) 85824..86090 - 267 WP_032441926 IcmT/TraK family protein traK
H5G73_RS00475 (pLAU_ENM30_NDM1_00099) 86087..87274 - 1188 WP_032495744 plasmid transfer ATPase TraJ virB11
H5G73_RS00480 (pLAU_ENM30_NDM1_00100) 87252..88070 - 819 WP_015632425 type IV secretory system conjugative DNA transfer family protein traI
H5G73_RS00485 (pLAU_ENM30_NDM1_00101) 88067..88534 - 468 WP_015632424 DotD/TraH family lipoprotein -
H5G73_RS00490 (pLAU_ENM30_NDM1_00102) 88557..89036 - 480 WP_015632423 lytic transglycosylase domain-containing protein -
H5G73_RS00495 (pLAU_ENM30_NDM1_00104) 89734..90045 - 312 WP_015632421 hypothetical protein -
H5G73_RS00500 (pLAU_ENM30_NDM1_00105) 90079..90282 - 204 WP_032495743 hypothetical protein -
H5G73_RS00505 (pLAU_ENM30_NDM1_00106) 90300..90833 - 534 WP_015632420 transcription termination/antitermination NusG family protein -
H5G73_RS00510 (pLAU_ENM30_NDM1_00107) 91101..91679 + 579 WP_015632419 hypothetical protein -
H5G73_RS00515 (pLAU_ENM30_NDM1_00108) 91646..92131 + 486 WP_015632418 hypothetical protein -
H5G73_RS00520 (pLAU_ENM30_NDM1_00109) 92131..92517 + 387 WP_015632417 thioesterase family protein -

Host bacterium

ID   21447 GenBank   NZ_MN792917
Plasmid name   pLAU_ENM30_NDM1 Incompatibility group   IncFII
Plasmid size   103063 bp Coordinate of oriT [Strand]   58287..58368 [+]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain ST114

Cargo genes

Drug resistance gene   blaNDM-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -