Basic Search | Intermediate Search | Advanced Search | Gene Image Map |  Sequence Search |  Protein Motif Search |  Repeat Search |  DNA/RNA Motif Search |  Home

Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0046 IGR0045 IGR0044 IGR0042 IGR0041 IGR0043 nadD,yqeJ, - PG0050 ISPg1, - PG0044 PG0047 ISPg4,tnp, - PG0043 pncB, - PG0049 PG0045 PG0048 recJ, - PG0046 nadD,yqeJ, - PG0050 ISPg1, - PG0044 PG0047 ISPg4,tnp, - PG0043 pncB, - PG0049 PG0045 PG0048 recJ, - PG0046 Type: IS element, Name: ISPg1 fragment - 3 Type: IS element, Name: ISPg4 - 7 nadD,yqeJ, - PG0050 ISPg1, - PG0044 PG0047 ISPg4,tnp, - PG0043 pncB, - PG0049 PG0045 PG0048 recJ, - PG0046


LANL Gene ID: PG0046

GenBank Locus Tag: PG0054

DNA Molecule Name:
1  

GenBank ID:
34539926

Gene Name:
recJ  

Definition:
single-strand DNA-specific exonuclease

Cellular Location:
Cytoplasm [Evidence]

Gene Start:
65205

Gene Stop:
66956

Gene Length:
1752

Molecular Weight*:
65314

pI*:
5.90

Net Charge*:
-7.81

EC:
3.1.-.-  

Functional Class:
DNA metabolism; DNA replication, recombination and repair  

Gene Ontology:
Biological process
  GO:0006281    DNA repair
  GO:0006310    DNA recombination

Molecular function
  GO:0003676    nucleic acid binding
  GO:0008409    5'-3' exonuclease activity
  GO:0016787    hydrolase activity
  GO:0030145    manganese ion binding


Pathway: pathway table

Comment:
TIGR ID: PG0054

Proteomic Data: Proteomic Data Search
TIGR Annotationsingle-stranded DNA-specific exonuclease RecJ, GroupF (DNA metabolism)
ORF #PG-PP/PG-PPC1PG-PP/PG-PPC2
Spectral CountPeptide IntensitySpectral CountPeptide Intensity
ProqValProqValProqValProqVal
TIGRPG0054-0.250.16-1.060.0450.280.21-1.060.045
LANLPG00460.840.481.211.03
ConsensusSP1IP1SP2IP2

Human Oral Microbiome Database:
View in HOMD Genome Viewer

 Blast Summary:  PSI-Blast Search
Numerous significant hit in gapped BLAST to single-strand DNA-specific exonuclease protein; e.g. residues 24-575 are 33% similar to (Z99118) single-strand DNA-specific exonuclease of Bacillus subtilis, residues 17-576 are 30% similar to (AE002180) single-stranded-DNA-specific exonuclease RecJ of Chlamydophila pneumoniae, residues 27-573 are 32% similar to(U28375) single-stranded DNA-specific exonuclease of Escherichia coli.

This sequence is similar to BT3939.

 Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539926|ref|NP_904405.1|  single-stranded-DNA-specific e...  1200   0.0  
 gi|150008372|ref|YP_001303115.1|  single-stranded-DNA-specif...   726   0.0  
 gi|154492880|ref|ZP_02032506.1|  hypothetical protein PARMER...   722   0.0  
 gi|53715216|ref|YP_101208.1|  single-stranded-DNA-specific e...   688   0.0  
 gi|60683150|ref|YP_213294.1|  putative single-stranded-DNA-s...   686   0.0  
 gi|156111421|gb|EDO13166.1|  hypothetical protein BACOVA_011...   685   0.0  
 gi|153807332|ref|ZP_01960000.1|  hypothetical protein BACCAC...   682   0.0  
 gi|29349347|ref|NP_812850.1|  single-stranded-DNA-specific e...   681   0.0  
 gi|150004614|ref|YP_001299358.1|  putative single-stranded-D...   676   0.0  
 gi|156859826|gb|EDO53257.1|  hypothetical protein BACUNI_032...   664   0.0


InterPro Summary:  InterProScan

InterPro
IPR001667
Domain
Phosphoesterase, RecJ-like
PF01368 [76-236]T 1.49999648196318E-40 PF01368 DHH DHH
InterPro
IPR003156
Domain
Phosphoesterase, DHHA1
PF02272 [380-444]T 5.79999653854781E-11 PF02272 DHHA1 DHHA1
InterPro
IPR004610
Family
Bacterial RecJ exonuclease
TIGR00644 [27-571]T 0.0 TIGR00644 recJ recJ
noIPR
unintegrated
unintegrated
SSF64182 [57-461]T 3.2E-109 SSF64182 SSF64182 SSF64182


COGS Summary:  COGS Search
BeTs to 12 clades of COG0608
COG name: Single-stranded DNA-specific exonuclease
Functional Class: L
The phylogenetic pattern of COG0608 is AMTk-qvceB-hUJ--olinx
Number of proteins in this genome belonging to this COG is 1
Blocks Summary:  Blocks Search
No significant hit to the Blocks database.

 ProDom Summary:  Protein Domain Search
Residues 231-334 are 38% similar to a (EXONUCLEASE RECJ) protein domain (PD007759 which is seen in RECJ_HAEIN.

Residues 337-515 are 31% similar to a (EXONUCLEASE RECJ PROTEIN) protein domain (PD009926 which is seen in O32044_BACSU.

Residues 66-212 are 42% similar to a (PROTEIN EXONUCLEASE RECJ) protein domain (PD003186 which is seen in O32044_BACSU.


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

Pfam Summary:  Pfam Search
Residues 76 to 236 (E-value = 5.2e-41) place PG0046 in the DHH family which is described as DHH family (PF01368)
Residues 380 to 444 (E-value = 4.7e-14) place PG0046 in the DHHA1 family which is described as DHHA1 domain (PF02272)

 Structural Feature(s):
Feature Type  Start  Stop
transmembrane  
224  
240
coil-coil  
316  
343

Top PDB Hits:
-48% similar to PDB:1IR6 Crystal structure of exonuclease RecJ bound to manganese (E_value = 5.3E_48);

Gene Protein Sequence:
MNYNWNLEPFTAEERSLGTIFCRELRLAPVVGCLLARRGIASVEEAKRFF
RPRLEDLHDPFLMKDMDKAVARLNRAVGRKEKIMIYGDYDVDGTTAVALV
YKYLRATGCSETQLDYYIPDRYDEGYGISYRGIDLAHSLGTKLIIVLDCG
IKAVEKVAYAKSLDIDFIICDHHNPDETLPDAVAVLDAKRADNTYPYEHL
SGCGVGFKFMQAYARSNNLPESKLLPLLDLVAVSIASDIVPIMGENRILA
YYGLRQLNKRPCLGLQAIIDVCGLKKRRIDMNDIVFKIGPRINASGRMMN
GGKAVELLLSQDAVEAQSRTANIDEYNDQRRELDKDVTEQAIDILGELSD
VDKKILVIYRPEWHKGVIGIVASRMTERYSRPTIVMTKSGDFISGSARSV
GGFDVYKAIEHCKDLLVNFGGHPFASGLTIKEENLETFRKMITDYAEEAV
SPELLVPQIDVDAEISIEEVNYKLLDNLKRMGPFGPENSKPVFISRQLYD
AGGSRAVGKASEHLKIDVRVGSGERHPVSGIAFNQAGHCDEIKNGSFRLC
YTIEENEFNGNKSLQLLVRDIKPEEESAINGKTR

Gene Nucleotide Sequence:  Sequence Viewer
ATGAATTACAACTGGAATTTGGAGCCGTTTACCGCAGAGGAACGTTCCCT
CGGGACAATATTCTGTCGGGAGCTAAGGCTCGCGCCCGTAGTGGGGTGCC
TATTGGCACGCAGGGGAATAGCTTCCGTAGAGGAAGCTAAGCGTTTCTTT
CGCCCAAGATTGGAGGATCTCCACGATCCTTTCCTGATGAAGGATATGGA
CAAGGCTGTAGCTCGCCTGAACAGGGCAGTAGGGCGAAAGGAAAAAATCA
TGATTTACGGTGACTATGATGTAGACGGTACCACGGCAGTGGCACTCGTC
TATAAGTATTTGCGCGCCACGGGCTGCTCCGAAACCCAATTGGATTACTA
CATTCCGGATCGGTACGATGAGGGTTATGGTATCTCTTATCGAGGAATTG
ATTTGGCTCACTCTCTCGGAACGAAACTGATAATCGTACTCGACTGTGGT
ATCAAAGCCGTCGAAAAGGTGGCATACGCCAAGTCGCTTGACATTGATTT
TATTATCTGCGACCATCACAATCCGGATGAAACGCTACCTGATGCCGTTG
CGGTGCTGGATGCCAAAAGAGCTGACAATACGTATCCTTACGAACATCTC
TCCGGCTGTGGAGTCGGGTTCAAGTTTATGCAAGCCTATGCTCGGAGCAA
CAATTTGCCCGAATCCAAGCTCCTTCCTTTGCTCGACCTCGTGGCTGTCA
GTATAGCTTCGGATATTGTCCCTATCATGGGAGAGAACCGCATACTCGCC
TATTACGGACTGCGCCAACTTAATAAACGCCCTTGTCTCGGCTTGCAGGC
TATAATAGATGTATGCGGTCTGAAGAAGCGAAGGATAGATATGAACGACA
TCGTCTTCAAGATCGGGCCTCGGATCAATGCTTCAGGTCGTATGATGAAT
GGGGGTAAGGCTGTGGAACTACTACTCTCTCAGGATGCTGTGGAAGCTCA
AAGCCGAACGGCCAATATAGACGAATACAACGACCAACGCCGTGAGCTCG
ACAAGGATGTGACGGAACAGGCCATCGATATTTTGGGCGAGCTATCCGAT
GTGGACAAGAAGATCCTCGTTATCTACCGGCCGGAATGGCACAAGGGCGT
TATCGGCATAGTGGCCAGCAGGATGACCGAACGCTATTCGCGCCCGACGA
TCGTGATGACTAAGAGCGGTGATTTCATTTCAGGCTCGGCTCGATCCGTA
GGAGGGTTCGATGTGTACAAAGCCATCGAACATTGCAAGGACTTGCTGGT
CAATTTCGGAGGGCATCCTTTTGCCTCCGGTCTGACGATCAAAGAAGAGA
ATCTGGAAACCTTCCGAAAGATGATTACGGACTATGCCGAAGAGGCTGTA
TCGCCGGAACTATTGGTGCCACAAATAGATGTAGATGCCGAAATATCCAT
CGAAGAGGTCAATTACAAACTTCTCGACAACCTCAAGCGGATGGGGCCAT
TCGGCCCGGAAAACTCCAAGCCGGTCTTTATATCCCGACAACTGTATGAT
GCCGGTGGTAGCAGGGCTGTAGGAAAAGCTTCCGAACACCTGAAGATAGA
TGTGAGAGTGGGATCGGGCGAACGCCATCCGGTGAGTGGGATTGCGTTTA
ATCAGGCCGGTCATTGCGATGAGATCAAAAACGGCTCATTTCGTCTTTGC
TACACGATAGAAGAGAACGAATTCAACGGCAACAAATCATTGCAACTATT
GGTGCGCGATATTAAGCCCGAAGAAGAATCTGCTATTAACGGAAAAACAA
GA

Los Alamos National Laboratory • Est 1943

Operated by Los Alamos National Security, LLC for the U.S. Department of Energy's National Nuclear Security Administration
Inside | © Copyright 2006 LANS LLC All rights reserved | Disclaimer/Privacy