oriTDB
The information of the oriT region
oriTDB accession number 100165
Name oriT_pMD136  insolico
Sequence Completeness incomplete
oriT length 63 nt
oriT sequence GTAAATTGATTGATTAAGCTCGTGAAACCCTTAGGGTTTCACGAGCTTAATCAATCAATT TAC
IR (inverted repeat)[1-31] [33-63] nt  (GTAAATTGATTGATTAAGCTCGTGAAACCCT..AGGGTTTCACGAGCTTAATCAATCAATTTAC)
Location of nic site _
Conserved sequence flanking the
  nic site 		_
Note ColE1 superfamily
L:1-31;R:33-63
Visualization of oriT structure
Reference
[1] Giacomini A et al (2000) Nucleotide sequence and analysis of plasmid pMD136 from Pediococcus pentosaceus FBB61 (ATCC43200) involved in pediocin A production. Plasmid. 43(2):111-22. [PMID:10686129]
I. Information of Relaxase
ID 159
Name MobA_pMD136 insolico
GenBank accession number NP_037562
Family MOBP
Length 386 aa
UniProt ID Q9WW30
PDB ID _
Pfam Relaxase [PF03432.13], Evalue: 4.50E-64, Aligned region: 8..248
Note relaxase
Protein sequence [Download] MATTHIKRSDSASRLVNYAEKRAVLKDGLNLDVDYAKSQLKQVREVYGNQGKTQAYASRI
SFSPKELDPTNENDQQKALEIAKEVYQKTYPNQQVALYEHADTNALHVHAVIGAIDLETG
RKMHGNWQEYREKLVHNTDEISQEHGLEVTQVDPNRYEKRTMAEIKMQAKGQPTWKDQIR
QAVDKTMANRLVTDFQTFRDDLKQKTVDVWERGKDLTYQLTGTNYKARGNKLGTAYEKGE
IYHELERRTRNHTKTRNPDTAKPDRTQPNLERNQELSGHANSITEQTTDRIDRTAPTDRA
SQSTGQSGFSNDLEQFRKQQRDQQTTINRDAQRRARTVQRANTQDKSKDNRSLKTDKQRP
KEQQRDVEKSQQQSKSNRSRNDGPSR
Reference
[1] Giacomini A et al (2000) Nucleotide sequence and analysis of plasmid pMD136 from Pediococcus pentosaceus FBB61 (ATCC43200) involved in pediocin A production. Plasmid. 43(2):111-22. [PMID:10686129]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 229 MobB_pMD136 insolico NP_037563 196 aa _
2 230 MobC_pMD136 insolico NP_037561 73 aa _
Information of T4CP
ID 159
Name ORF1_pMD136 insolico
SecReT4 accesion number _
GenBank accession number NP_037556
Family _
Length 607
UniProt ID Q9XDL7
PDB ID _
Pfam AAA_15 [PF13175.5], Evalue: 1.30E-65, Aligned region: 1..373
AAA_21 [PF13304.5], Evalue: 4.10E-08, Aligned region: 155..376
AAA_23 [PF13476.5], Evalue: 8.50E-10, Aligned region: 5..282
DUF2813 [PF11398.7], Evalue: 1.20E-06, Aligned region: 1..70
AAA_29 [PF13555.5], Evalue: 3.30E-07, Aligned region: 3..58
Note shows homology to conjugative coupling proteins
Protein sequence [Download] MHLVSVTIHNFRGYKNTKINIDDQLTTLIGKNDVGKSTIVDALEIFFNNTVVKLDTNDLN
IYATDSKLVSISCEFSDIPESIIIDSNQQTNLKDEYLVNANGNLEIKKVYDCSKKTPKPQ
IFAVVHYPDNPEIADLLYLTHSKLLTALKKLPPAIQETVTSRVANAPIRQAIRSAYNITN
FLTKDIDLQKVDGKTLWDKIETCLPIYALFQSDRPSNDSDAEVQDPMNTAIQESLSNAAQ
QLQVIQQQVIQEVTAVAEMTISKLKEMDPEIAKGLEPQYQESPKWNKLFKFVIADEKGIP
LNKRGSGVRRLVLLNFFRAKVSMTSDKLKTNGLIYAVEEPETAQHPDNQRKIMQALLELG
QRGNCQIIITTHLAETAKMAPKSGVRLITRQDNVTKVSDNDTALKIAAKEVGLIANITDT
NIVLYVEGPSDVLFFNSVSKILNQFDSTKYSDFTKSKNLLIVPMGGGTMKQWVNYKYLET
LQLPSFYLFDKDLDAQHQREVDELKTDPQCLYAFLTDKREIENYIAPAAIERYFSKLLKS
EFSMPELNSESDVTNLLKKAGVNQRQSYLKETLNSKVAAQMTADEFLSNDTTGFMAEFIA
KITKEIS

Reference
[1] Francia MV et al (2004) Nucleotide sequence and analysis of plasmid pMD136 from Pediococcus pentosaceus FBB61 (ATCC43200) involved in pediocin A production. FEMS Microbiol Rev. 28(1):79-100. [PMID:14975531]
Information of plasmid
ID 159
Plasmid name pMD136
GenBank accession number NC_001277.1
Genome size 19515 bp
Coordinate of oriT  [Strand] 3761..3823 [+]
Drug resistance _
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Pediococcus pentosaceus ATCC43200 [1255]
Reference
 N/A

Microbial Bioinformatics Group in MML, SJTU