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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0073 IGR0074 IGR0072 IGR0071 IGR0067 IGR0069 IGR0068 IGR0070 PG0076 PG0082 PG0081 PG0080 PG0083 PG0074 PG0078 dps, - PG0079 PG0077 PG0076 PG0082 PG0081 PG0080 PG0083 PG0074 PG0078 dps, - PG0079 PG0077 Type: tandem, Name: tan33 - 241 Type: tandem, Name: tan34 - 242 Type: tandem, Name: tan84 - 292 PG0076 PG0082 PG0081 PG0080 PG0083 PG0074 PG0078 dps, - PG0079 PG0077


LANL Gene ID: PG0079

GenBank Locus Tag: PG0090

DNA Molecule Name:
1  

GenBank ID:
34539959

Gene Name:
dps  

Definition:
DNA-binding stress protein (Dps family)

Cellular Location:
Cytoplasm [Evidence]

Gene Start:
105664

Gene Stop:
106140

Gene Length:
477

Molecular Weight*:
17849

pI*:
4.80

Net Charge*:
-7.32

EC:
 

Functional Class:
Cellular processes; Adaptations to atypical conditions  

Gene Ontology:
Biological process
  GO:0006879    iron ion homeostasis
  GO:0006950    response to stress

Molecular function
  GO:0008199    ferric iron binding
  GO:0016491    oxidoreductase activity
  GO:0046914    transition metal ion binding


Pathway: pathway table

Primary Evidence:
Nakayama,K. and Ratnayake,D.B. 1999. Molecular cloning and characterization of Porphyromonas gingivalis Dps-encoding gene. Published Only in DataBase. In press.



Comment:
TIGR ID: PG0090

Proteomic Data: Proteomic Data Search
TIGR AnnotationDps family protein, GroupD (cellular processes)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG00900.581.3e-130.080.21.3800.080.2
LANLPG00791.491.062.611.52
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
PG0079 is identical to the previously sequenced dbj|BAA76886.1| in GenBANK, a predicted Dps gene. Several hits to other Dps family sequences, e.g. residues 9-156 are 47% similar to gb|AAF93316.1| from V. cholerae.

Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539959|ref|NP_904438.1|  Dps family protein [Porphyromo...   291   8e-78
 gi|4589756|dbj|BAA76886.1|  Dps [Porphyromonas gingivalis]        290   1e-77
 gi|156861954|gb|EDO55385.1|  hypothetical protein BACUNI_010...   179   4e-44
 gi|153807851|ref|ZP_01960519.1|  hypothetical protein BACCAC...   176   5e-43
 gi|29350123|ref|NP_813626.1|  non-specific DNA-binding prote...   174   1e-42
 gi|156107957|gb|EDO09702.1|  hypothetical protein BACOVA_055...   174   2e-42
 gi|150007275|ref|YP_001302018.1|  non-specific DNA-binding p...   169   5e-41
 gi|150007273|ref|YP_001302016.1|  non-specific DNA-binding p...   167   2e-40
 gi|154492541|ref|ZP_02032167.1|  hypothetical protein PARMER...   166   5e-40
 gi|53712624|ref|YP_098616.1|  non-specific DNA-binding prote...   151   1e-35


InterPro Summary:  InterProScan

InterPro
IPR002177
Family
DNA-binding protein Dps
PD149803 [31-95]T 0.0 PD149803 DPS DPS
PR01346 [40-56]T 8.2E-17 PR01346 HELNAPAPROT[64-80]T 8.2E-17 PR01346 HELNAPAPROT[135-153]T 8.2E-17 PR01346 HELNAPAPROT HELNAPAPROT
PIRSF005900 [8-158]T 1.7999999999999703E-67 PIRSF005900 Dps Dps
PS00818 [40-56]T 8.0E-5 PS00818 DPS_1 DPS_1
PS00819 [66-80]T 8.0E-5 PS00819 DPS_2 DPS_2
InterPro
IPR008331
Family
Ferritin and Dps
PF00210 [15-156]T 3.0000006799286203E-18 PF00210 Ferritin Ferritin
InterPro
IPR009078
Family
Ferritin/ribonucleotide reductase-like
SSF47240 [1-156]T 1.2E-41 SSF47240 Ferritin/RR_like Ferritin/RR_like
InterPro
IPR012347
Family
Ferritin-related
G3DSA:1.20.1260.10 [2-157]T 1.9999963603453603E-44 G3DSA:1.20.1260.10 Ferritin_rel Ferritin_rel


COGS Summary:  COGS Search
BeTs to 7 clades of COG0783
COG name: Starvation-inducible DNA-binding protein Dps
Functional Class: L
The phylogenetic pattern of COG0783 is -------ceB-huj--ol--x
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
***** IPB002177 (Dps protein family) with a combined E-value of 3.9e-46.
    IPB002177A    22-62
    IPB002177B    63-77
    IPB002177C    132-157


 ProDom Summary:  Protein Domain Search
Residues 22-155 are 44% similar to a (PROTEIN DNA-BINDING DNA HEME) protein domain (PD149803 which is seen in YD49_HAEIN.


Paralogs:  Local Blast Search
No paralogs found in P. gingivalis.

Pfam Summary:  Pfam Search
Residues 15 to 158 (E-value = 1.4e-21) place PG0079 in the Ferritin family which is described as Ferritin-like domain (PF00210)

 Structural Feature(s):
Feature Type  Start  Stop
coil-coil  
52  
79

Top PDB Hits:
-63% similar to PDB:1JI5 Dlp-1 from bacillus anthracis (E_value = 1.4E_24);
-57% similar to PDB:1JIG Dlp-2 from Bacillus anthracis (E_value = 8.8E_22);
-57% similar to PDB:1N1Q Crystal structure of a Dps protein from Bacillus brevis (E_value = 1.5E_21);
-58% similar to PDB:2D5K Crystal structure of Dps from Staphylococcus aureus (E_value = 3.3E_21);
-58% similar to PDB:1JI4 NAP protein from helicobacter pylori (E_value = 9.1E_19);

Gene Protein Sequence:
MKKILEVTGLKEQQVAPVVKGLSGLLADLQVYYSNLRGFHWNIRGAEFFV
LHEQYEKMYDDLAGKIDEVAERILQLGGKPENRFSEYLKVAEVKEEHELV
CAASTLKNVTDTLQIIMAKERAIAEVAGEAGDEVTVDLMIGFLSEQEKLV
WMLSAYAAK

Gene Nucleotide Sequence:  Sequence Viewer
ATGAAAAAGATTCTTGAAGTAACGGGTTTGAAAGAGCAGCAAGTTGCTCC
CGTAGTGAAAGGTTTGTCCGGTTTGTTGGCCGACCTCCAAGTGTATTACT
CCAACCTTCGCGGGTTCCACTGGAATATCCGTGGCGCAGAGTTCTTCGTT
CTGCATGAGCAGTACGAGAAGATGTACGATGACCTCGCAGGGAAAATCGA
CGAGGTAGCTGAGCGTATCCTCCAACTTGGTGGCAAGCCTGAGAACCGCT
TCAGCGAGTACCTGAAAGTAGCAGAAGTGAAGGAAGAGCACGAACTCGTT
TGCGCTGCAAGTACGCTGAAGAATGTGACCGATACGCTGCAGATCATCAT
GGCGAAGGAGCGTGCCATCGCAGAAGTTGCCGGTGAGGCAGGCGATGAGG
TAACGGTGGATTTGATGATCGGTTTCCTCTCCGAGCAAGAGAAGCTCGTT
TGGATGCTGTCTGCCTACGCTGCCAAG

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