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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0014 IGR0013 IGR0017 IGR0015 IGR0016 IGR0018 PG0018 ychM, - PG0019 PG0019.1 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 ntrC, - PG0013 PG0015 PG0018 ychM, - PG0019 PG0019.1 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 ntrC, - PG0013 PG0015 Type: IS element, Name: ISPg4 - 7 PG0018 ychM, - PG0019 PG0019.1 PG0017 ISPg4, - PG0016 atoS,ntrB, - PG0014 ntrC, - PG0013 PG0015


LANL Gene ID: PG0016

GenBank Locus Tag: PG0019

DNA Molecule Name:
1  

Genomic Island ID:
1

GenBank ID:
34539897

 Gene Name:
ISPg4  

 Definition:
ISPg4 transposase

 Cellular Location:
Inner membrane, Cytoplasm [Evidence]

 Gene Start:
22180

Gene Stop:
23334

Gene Length:
1155

Molecular Weight*:
44057

pI*:
10.20

Net Charge*:
16.13

EC:
 

 Functional Class:
Transposon functions  

 Gene Ontology:
Biological process
  GO:0006313    transposition, DNA-mediated

Molecular function
  GO:0003677    DNA binding
  GO:0004803    transposase activity


 Pathway: pathway table

 Primary Evidence:
Sawada,K., Kokeguchi,S., Hongyo,H., Sawada,S., Miyamoto,M.,
Maeda,H., Nishimura,F., Takashiba,S. and Murayama,Y.
Identification by subtractive hybridization of a novel insertion
sequence specific for virulent strains of porphyromonas gingivalis. Infect. Immun. 67 (11), 5621-5625 (1999)


Chen T, Hosogi Y, Nishikawa K, Abbey K, Fleischmann RD, Walling J, Duncan MJ.
Comparative whole-genome analysis of virulent and avirulent strains of Porphyromonas gingivalis.
J Bacteriol. 2004 Aug;186(16):5473-9.
PMID: 15292149

 Secondary Evidence:
Nagai,T., Phan Tran,L.S., Inatsu,Y. and Itoh,Y.
A new IS4 family insertion sequence, IS4Bsu1, responsible for
genetic instability of poly-gamma-glutamic acid production in
bacillus subtilis. J. Bacteriol. 182 (9), 2387-2392 (2000)

 Comment:
Member of the IS5 family of IS elements.

TIGR ID: PG0019. Reported by Chen et al., 2004, to be highly divergent in ATCC 33277.

 Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
PG0016 is equivalent to the previously sequenced AF148127 in GenBANK. Numerous significant hits in gapped BLAST to transposase proteins; e.g.residues 20-337 are 27% similar to the IS4Bsu1 transposase in Bacillus subtilis (AB031551).

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539897|ref|NP_904376.1|  ISPg4 transposase [Porphyromon...   757   0.0  
 gi|34540966|ref|NP_905445.1|  ISPg4, transposase [Porphyromo...   755   0.0  
 gi|34539923|ref|NP_904402.1|  ISPg4, transposase [Porphyromo...   754   0.0  
 gi|34540035|ref|NP_904514.1|  ISPg4, transposase [Porphyromo...   753   0.0  
 gi|5763509|dbj|BAA83477.1|  transposase [Porphyromonas gingi...   748   0.0  
 gi|5763505|dbj|BAA83475.1|  transposase [Porphyromonas gingi...   496   e-138
 gi|150384831|ref|ZP_01923500.1|  transposase, IS4 family pro...   295   4e-78
 gi|150385323|ref|ZP_01923963.1|  transposase, IS4 family pro...   294   7e-78
 gi|5763507|dbj|BAA83476.1|  transposase [Porphyromonas gingi...   243   1e-62
 gi|67941161|ref|ZP_00533393.1|  Transposase, IS4 [Chlorobium...   225   4e-57


InterPro Summary:  InterProScan

InterPro
IPR002559
Domain
Transposase, IS4-like
PF01609 [124-335]T 5.0000090991531485E-40 PF01609 Transposase_11 Transposase_11
InterPro
IPR012337
Domain
Polynucleotidyl transferase, Ribonuclease H fold
SSF53098 [185-350]T 2.3000000000000003E-22 SSF53098 RNaseH_fold RNaseH_fold


COGS Summary:  COGS Search
No hit to the COGs database.
Blocks Summary:  Blocks Search
***** PF01609 (Transposase (IS4 family)) with a combined E-value of 1.4e-08.
    PF01609B    288-309


 ProDom Summary:  Protein Domain Search
Residues 271-336 are 45% similar to a (TRANSPOSASE PUTATIVE PLASMID ELEMENT) protein domain (PD003301 which is seen in Y4ZB_RHISN.


Paralogs:  Local Blast Search
PG0016 is paralogously related to PG1461, PG1114, PG1920, PG0043, PG1447, PG0868, PG0445, PG0205, PG0162, all predicted ISPg4 elements.

Pfam Summary:  Pfam Search
Residues 124 to 335 (E-value = 6.9e-43) place PG0016 in the Transposase_11 family which is described as Transposase DDE domain (PF01609)

 Structural Feature(s):
Feature Type  Start  Stop
uncleavable signal  
1  
51
transmembrane  
283  
300
transmembrane  
321  
337
transmembrane  
324  
341

Top PDB Hits:
No significant hits to the PDB database (E-value < E-10).

Gene Protein Sequence:
MSTNISLFAQVIRLLPRPLIKKLSTEFQVDKHSKHFTGWQHLVSMIFSQF
SSCISLREISNGLRSATGNLNHLGICTAPSKSNLSYQNEHRTSDFFRACY
YALLDYFGQQGMGQGRKFRFKQPVKLLDSTTITLCLALYDWAKYTHTKGA
VKLHTLLDFKTLLPEYVHISDGKGHDGKMANSIPIPAGSIVVADRGYADT
ALLNSWDSTQVSFVVRHPRSLKYEVIQELELPEHGHQQILVDQRVRLTGV
QTQGKYTKPLRHIALYNEQHGDVVELLTNIDTLAASSIALLYRSRWLIEI
FFRNLKQRLSMKAFLGTTRNAVEVQIWTALITMLLMVYLKSIAKYRWCLS
NLVSSLRINTFTKMDLMQWLNEPFTPPPEPENQLF

Gene Nucleotide Sequence:  Sequence Viewer
ATGAGTACAAATATAAGCCTATTCGCCCAAGTTATCCGCCTGTTGCCTCG
TCCGTTGATTAAGAAGCTCTCTACAGAGTTTCAAGTAGACAAACATAGCA
AACACTTCACAGGGTGGCAACACTTAGTGAGCATGATTTTCAGCCAATTC
TCAAGCTGTATCTCCTTACGCGAGATTAGTAATGGCTTACGCTCAGCCAC
AGGTAACCTCAACCACTTAGGCATATGCACAGCACCCTCTAAGTCCAATT
TATCTTATCAGAACGAGCACCGTACCTCAGACTTCTTTCGAGCGTGCTAT
TATGCCTTGCTAGATTATTTCGGACAGCAGGGTATGGGGCAAGGGCGTAA
GTTTCGTTTTAAGCAACCCGTCAAGCTTCTAGACTCTACGACCATTACCC
TTTGCCTTGCCCTATACGATTGGGCTAAATACACACATACGAAGGGAGCT
GTTAAGCTTCATACACTCTTAGACTTCAAGACTCTGTTGCCTGAATATGT
GCATATTAGTGATGGTAAAGGACATGATGGCAAGATGGCCAATTCTATTC
CTATCCCAGCAGGAAGTATCGTCGTGGCTGACCGTGGCTATGCTGATACC
GCCTTGCTCAATAGTTGGGACAGCACCCAAGTGAGTTTTGTAGTACGCCA
CCCAAGGTCCTTAAAATATGAGGTTATTCAAGAGTTGGAACTCCCAGAAC
ATGGGCATCAGCAAATACTAGTAGATCAGAGAGTACGGCTCACAGGCGTT
CAGACGCAAGGCAAGTACACTAAGCCATTGAGGCATATTGCCCTCTACAA
CGAGCAACATGGCGATGTCGTTGAGTTATTGACCAACATAGACACCCTTG
CAGCAAGTAGTATAGCCTTGCTGTATCGTTCAAGATGGCTTATCGAGATT
TTCTTTCGGAATTTGAAGCAACGCCTCAGCATGAAGGCCTTTCTTGGAAC
AACGCGCAATGCCGTAGAGGTGCAAATATGGACGGCTCTTATTACAATGC
TTTTGATGGTCTATCTCAAGAGTATCGCCAAATATCGGTGGTGCTTGTCT
AATCTTGTCTCTTCGCTAAGAATCAACACATTTACCAAGATGGATCTGAT
GCAATGGCTTAATGAGCCGTTTACGCCTCCGCCAGAGCCCGAAAATCAGC
TCTTT

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