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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap tRNA-Asn-2 tRNA-Asn-1 IGR0005 IGR0007 IGR0003 IGR0004 IGR0009 IGR0008 IGR0006 ISPg5, - PG0008 ISPg5, - PG0007 PG0003 PG0005 PG0006 PG0004 clpC, - PG0009 nagA,ybbD, - PG0010 ISPg5, - PG0008 ISPg5, - PG0007 PG0003 PG0005 PG0006 PG0004 clpC, - PG0009 nagA,ybbD, - PG0010 Type: IS element, Name: ISPg5 - 8 ISPg5, - PG0008 ISPg5, - PG0007 PG0003 PG0005 PG0006 PG0004 clpC, - PG0009 nagA,ybbD, - PG0010


LANL Gene ID: PG0007

GenBank Locus Tag: PG0008

DNA Molecule Name:
1  

Genomic Island ID:
1

GenBank ID:
34539888

 Gene Name:
ISPg5  

 Definition:
ISPg5 transposase

 Cellular Location:
Cytoplasm [Evidence]

 Gene Start:
8113

Gene Stop:
7178

Gene Length:
936

Molecular Weight*:
36460

pI*:
10.00

Net Charge*:
14.52

EC:
 

 Functional Class:
Transposon functions  

 Gene Ontology:
Biological process
  GO:0015074    DNA integration

Molecular function
  GO:0003677    DNA binding


 Pathway: pathway table

 Primary Evidence:
Califano,J.V., Kitten,T., Lewis,J.P., Macrina,F.L.,
Fleischmann,R.D., Fraser,C.M., Duncan,M.J. and Dewhirst,F.E.
Characterization of Porphyromonas gingivalis insertion sequence-like element ISPg5. Infect. Immun. 68 (9), 5247-5253 (2000). PubMed: 10948151.

 Comment:
One of eleven ISPg5 elements in the genome (see Paralogs). Califano et al. report considerable strain diversity of these: "When a recombinant plasmid containing much of ISPg5 was used in Southern analysis of several P. gingivalis strains, including clinical isolates, diversity among strains was apparent. This suggests that ISPg5 and other IS elements may contribute to strain diversity and can be used for strain fingerprinting." (Infect. Immun. 68 (9), 5247-5253 (2000)).

Member of the IS3 family of insertion elements. See PG0008 for associated ORF.

TIGR ID: PG0008

 Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
PG0007 is equivalent to the previously reported gb|AAF69128.1| in GenBANK.

Numerous significant hits in gapped BLAST to transposase proteins; e.g. residues 91-213 are 55% similar to transposase homolog (U67062) of Bacteriodes thetaiotaomicrom, residues 64-268 are (33%) similar to InsB (AF153317) of Shigella dysenteriae, residues 64-268 are 33% similar to Hp1 (AF081284) of E.coli.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539888|ref|NP_904367.1|  ISPg5 transposase Orf2 [Porphy...   633   e-180
 gi|34541341|ref|NP_905820.1|  ISPg5, transposase Orf2 [Porph...   621   e-176
 gi|34540248|ref|NP_904727.1|  ISPg5, transposase Orf2 [Porph...   620   e-176
 gi|34540277|ref|NP_904756.1|  ISPg5, transposase Orf2 [Porph...   615   e-174
 gi|34539915|ref|NP_904394.1|  ISPg5 transposase Orf2 [Porphy...   612   e-173
 gi|34541641|ref|NP_906120.1|  ISPg5, transposase Orf2 [Porph...   612   e-173
 gi|34541287|ref|NP_905766.1|  ISPg5, transposase Orf2 [Porph...   610   e-173
 gi|118200270|dbj|BAF37077.1|  transposase Orf2 [Porphyromona...   608   e-172
 gi|34540696|ref|NP_905175.1|  ISPg5, transposase Orf2 [Porph...   606   e-172
 gi|34540399|ref|NP_904878.1|  ISPg5, transposase Orf2 [Porph...   606   e-172


InterPro Summary:  InterProScan

InterPro
IPR001584
Domain
Integrase, catalytic core
PF00665 [110-273]T 2.7e-30 PF00665 rve rve
PS50994 [110-276]T 18.117 PS50994 INTEGRASE INTEGRASE
noIPR
unintegrated
unintegrated
G3DSA:3.30.420.10 [113-231]T 2e-05 G3DSA:3.30.420.10 no description no description


COGS Summary:  COGS Search
No hit to the COGs database.
Blocks Summary:  Blocks Search
***** PF01836 (Transposase) with a combined E-value of 6.4e-22.
    PF01836B    103-154
    PF01836C    181-190
    PF01836D    215-222
    PF01836E    253-272


 ProDom Summary:  Protein Domain Search
No significant hit to the ProDom database.

Paralogs:  Local Blast Search
PG0007 is paralogously related to PG1861, PG1491, PG0391, PG0418, PG1436, PG1796, PG0034, PG0533, PG1247 and PG0841, all ORFs associated with ISPg5-related transposases.


Pfam Summary:  Pfam Search
Residues 110 to 273 (E-value = 2.9e-29) place PG0007 in the rve family which is described as Integrase core domain (PF00665)

 Structural Feature(s):
Feature Type  Start  Stop
No predicted structural features.  
  

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

Gene Protein Sequence:
LLGFSRQAFYKRHLNDLARHEEDVLCSSIIQYCWHLRQAEHLPQAGFREL
MVLCQQYFGPKFTLGRDRFCALLRRHGMMLRKRSVRPRTTNSRHRLYKYE
DLLNTEPKFVPQRPGELLVADITYVAYQDGFAYLSLLTDAYSRCIVGYCL
HPTLEVEGCLNALHQAFAFYDQHQIDTTNMIHHSDRGIQYAGKSYTDLLH
GRGWRISMTQTGDPLHNALAERMNNTLKNSWHISSSKQSFDQALLSVDRA
VRMYNEARPHQALRAKTPMQVITPESENPLLARIEHWPEIAPELYRRMNV
RQKANFARVNRN

Gene Nucleotide Sequence:  Sequence Viewer
CTGCTTGGCTTTAGCCGTCAGGCCTTTTATAAACGTCATCTCAACGATTT
AGCTAGGCACGAGGAGGATGTCCTATGCAGTAGTATCATCCAATATTGTT
GGCACTTAAGACAAGCAGAGCACCTACCTCAAGCCGGCTTCCGAGAGCTC
ATGGTGCTTTGTCAGCAATACTTCGGCCCCAAGTTCACGCTTGGGCGCGA
TCGCTTTTGCGCCCTACTCAGACGCCATGGTATGATGCTGCGCAAACGGT
CTGTGCGCCCTCGGACAACCAACTCTCGGCATAGGCTCTACAAGTATGAA
GACCTGCTCAATACAGAGCCTAAGTTTGTGCCTCAAAGACCTGGGGAACT
CCTTGTAGCAGACATCACCTACGTGGCTTACCAAGATGGGTTTGCCTATC
TCTCCCTACTGACCGATGCCTATAGTCGCTGTATCGTAGGGTATTGCTTA
CATCCGACCCTGGAAGTTGAAGGCTGTTTGAATGCTCTGCATCAAGCCTT
TGCTTTCTACGATCAACATCAAATTGATACGACCAATATGATTCATCATA
GCGACCGAGGCATTCAGTATGCCGGTAAGAGTTACACCGATCTGTTGCAT
GGGCGAGGCTGGCGCATCAGTATGACTCAGACGGGAGATCCTCTGCATAA
TGCATTGGCCGAGCGGATGAACAATACGCTCAAGAACTCATGGCACATCT
CCTCTTCGAAACAATCTTTTGATCAAGCACTCCTTTCTGTAGACCGAGCC
GTGCGCATGTACAACGAGGCGCGTCCACATCAAGCTCTAAGGGCGAAAAC
GCCTATGCAAGTCATTACACCGGAGTCTGAAAATCCGTTACTGGCAAGGA
TCGAACATTGGCCGGAGATTGCCCCCGAGCTATACCGAAGAATGAATGTC
AGACAAAAAGCTAACTTTGCTCGTGTCAACCGAAAT

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