oriTDB
The information of the oriT region
oriTDB accession number 100159
Name oriT_pKJK5  insolico
Sequence Completeness intact
oriT length 96 nt
oriT sequence GGGACAGTGAAGATAGATAACCGGCTTGCCGGTTAGCTAACTTCACCCATCCTGCCCGCC TTACGGCGACGTTAACGCCAAGAATGAAATCAGATT
IR (inverted repeat)[7-25] [28-46] nt  (GTGAAGATAGATAACCGGC..GCCGGTTAGCTAACTTCAC)
Location of nic site [54-55] nt
Conserved sequence flanking the
  nic site 		CATCCTG|C
Note _
L:7-25;R:28-46;D:54-55
Visualization of oriT structure
Reference
[1] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355]
[2] Bahl MI et al (2007) The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established alpha, beta and delta sub-groups. Plasmid. 58(1):31-43. [PMID:17306874]
I. Information of Relaxase
ID 153
Name TraI_pKJK5 insolico
GenBank accession number CAK02686
Family MOBP
Length 740 aa
UniProt ID H2EQ20
PDB ID _
Pfam Relaxase [PF03432.13], Evalue: 1.20E-57, Aligned region: 12..252
Note relaxase
Protein sequence [Download] MIAKHVPMRSLGKSDFAGLVQYITDAQSKTERLGLVTLTNCQAGTVQAATDEVLATQHMN
TRATGDKTFHLLVSFRAGEKPDADTLKAIEERICAGLGYGEHQRISAVHHDTDNLHIHIA
INKIHPTRNTMHEPFQSYRTLGELCEVLERDYGLEKDNHTPARSIAEGRAADMERHAGVE
SLVGWIKRECLEEIKAAQSWTELHQALQANGLELRAKGNGFVIEAGDGTQVKASTVAREL
SKPKLEARFGPFEASPERQAQTKAKRQYQKKPVRLRVNTTELYARYKADQQTLAAAQRAA
LDKARQSKTRKVEDAKRSSRLRRAAIKLMGGKAATKKLLYAQASKALRDEIQAINKEHQR
ERQGCYDEHKRRTWADWLKKEALQGNAEALAALRAREAAQGLKGNTVEGQGQAKPGHAPV
VDNITKKGTIIFRAGKTAVRDDGDKLQVSREATREGLQQALRLAMERYGSRITVNGTTEF
KAQIIRAAVDSQLPITFADPALESRRQALLKKENTHDRPQQDRGRTGRGTGRPGSRPAAD
NDAARSSVNADRGGRDPAGRVHATGQHRKPDIGRIGRVPPPQSKNRLRALSKLGVVRIAS
GSEVLLPRDVPGHMEQQGTQPDNALRRGVSRPGGRLEAGPQYKPEQVKAMDKYIAEREGK
RLKGFDIPKHSRYTAGDGALSFAGMRNVEGQTLALVKRGDDVLVMPIDQATANRLKRIAV
GDAVSITPKGSIKTSKGRSR
Reference
[1] Bahl MI et al (2007) The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established alpha, beta and delta sub-groups. Plasmid. 58(1):31-43. [PMID:17306874]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 221 TraH_pKJK5 insolico CAK02687 120 aa involved in conjugative DNA-transfer
2 222 TraJ_pKJK5 insolico CAK02688 124 aa conjugal transfer relaxosome component TraJ; oriT binding protein
3 223 TraK_pKJK5 insolico CAK02689 129 aa _
Information of T4CP
ID 153
Name TraG_pKJK5 insolico
SecReT4 accesion number 111038096
GenBank accession number CAK02685
Family VirD4/TraG
Length 634
UniProt ID H2EQ83
PDB ID _
Pfam T4SS-DNA_transf [PF02534.13], Evalue: 1.10E-161, Aligned region: 121..624
TraG-D_C [PF12696.6], Evalue: 1.80E-31, Aligned region: 444..569
TrwB_AAD_bind [PF10412.8], Evalue: 1.40E-23, Aligned region: 177..584
Note conjugal transfer coupling protein TraG; Provisional
Protein sequence [Download] MKIKMNNAVGPQVRSAKPKAGKLLPTLGVLSLAGGLQAATQYFAHTFDYQASLGGHIGHI
YAPWSILQWASKWYSHYPNEIMSAGSVGMLVSTVGLLGVAIAKVVASNTSKANQFLHGSA
RWAEKKDIQAAGLLPRPRTVLEVVTGKEEPTATGVYVGGWEDKDGSFYYLRHSGPEHVLC
YAPTRSGKGVGLVVPTMLSWPASAVITDLKGELWALTAGWRKKHAKNKVLRFEPASSNGG
ICWNPLDEIRLGTEFEVGDVQNLAQLIVDPDGKGLDSHWQKTAFALLVGVILHALYKAQA
DGTYATLPSVDAMLADPNRDVGELWMEMATYGHVDGQNHHAIGSAARDMMDRPEEEAGSV
LSTAKSYLSLYRDPVVARSVSKSEFRIKDLMHQDDPASLYIVTQPNDKARLRPLVRIMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEILQESLAFVAGYGIKCYLICQ
DINQLKSRETGYGHDETITSNCHVQNAYPPNRVETAEHLSRLTGQTTIVKEQITTSGRRT
AAMLGQVSRTFQEVQRPLLTPDECLRMPGPRKSATGEIEEAGDMVVYVAGYPAIYGKQPL
YFKDPVFQARAAIPAPKVSDKTIHVQDAGQGITI

Reference
[1] Bahl MI et al (2007) The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established alpha, beta and delta sub-groups. Plasmid. 58(1):31-43. [PMID:17306874]
Information of plasmid
ID 153
Plasmid name pKJK5
GenBank accession number AM261282.1
Incompatibility group IncP1
Genome size 54383 bp
Coordinate of oriT  [Strand] 44857..44952 [+]
Drug resistance experimental resistance to spectinomycin, tetracycline and trimethoprim
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Uncultured bacterium [77133]
Reference
[1] Oliveira CS et al (2013) Comparative genomics of IncP-1ε plasmids from water environments reveals diverse and unique accessory genetic elements. Plasmid. 70(3):412-9. [PMID:23831558]
[2] Bahl MI et al (2007) The multiple antibiotic resistance IncP-1 plasmid pKJK5 isolated from a soil environment is phylogenetically divergent from members of the previously established alpha, beta and delta sub-groups. Plasmid. 58(1):31-43. [PMID:17306874]

Microbial Bioinformatics Group in MML, SJTU